Score E
Sequences producing significant alignments: (bits) Value
pir||T41258 probable snRNP splicing factor - fission yeast ... 88 1e-16
gb|AAD24820.1|AC007196_6 (AC007196) putative snRNP splicing... 85 1e-15
gb|AAF53562.1| (AE003652) CG13277 gene product [Drosophila ... 84 2e-15
ref|NP_057283.1| U6 snRNA-associated Sm-like protein LSm7 >... 83 4e-15
pir||T27926 hypothetical protein ZK593.7 - Caenorhabditis e... 83 4e-15
ref|NP_014252.1| Sm-like protein; Lsm7p >gi|1730785|sp|P539... 66 5e-10
ref|NP_011170.1| snRNP G protein (the homologue of the huma... 55 1e-06
gb|AAF00664.1|AC008153_16 (AC008153) putative small nuclear... 55 1e-06
gb|AAF48634.1| (AE003503) CG9742 gene product [Drosophila m... 55 1e-06
ref|NP_003087.1| small nuclear ribonucleoprotein polypeptid... 53 3e-06
sp|O82221|RUXG_ARATH PROBABLE SMALL NUCLEAR RIBONUCLEOPROTE... 53 3e-06
sp|O74966|RUXG_SCHPO PROBABLE SMALL NUCLEAR RIBONUCLEOPROTE... 51 2e-05
gb|AAF36015.1| (AC024201) contains similarity to Pfam famil... 51 2e-05
pir||S22826 small nuclear ribonucleoprotein E homolog - alf... 49 6e-05
gb|AAC25622.1| (AC005258) R30783_1 [Homo sapiens] 48 1e-04
sp|P24715|RUXG_MEDSA PROBABLE SMALL NUCLEAR RIBONUCLEOPROTE... 47 3e-04
gb|AAG00460.1|AF280392_1 (AF280392) Sm-G [Trypanosoma brucei] 43 0.003
sp|O29386|RUXX_ARCFU PUTATIVE SNRNP SM-LIKE PROTEIN >gi|745... 42 0.008
ref|NP_057284.1| U6 snRNA-associated Sm-like protein LSm8 >... 41 0.013
pir||G72749 probable small nuclear ribonucleoprotein APES02... 38 0.11
pir||T40786 probable SNRNP SM-like protein - fission yeast ... 38 0.11
emb|CAB42366.2| (AL049769) U6 snRNA-associated Sm-like prot... 38 0.11
pir||T41178 splicing factor - fission yeast (Schizosaccharo... 38 0.11
gb|AAF23841.1|AC007234_13 (AC007234) F1E22.8 [Arabidopsis t... 38 0.20
gb|AAD05369.1| (U58510) small nucleolar ribonucleoprotein E... 37 0.26
gb|AAF47567.1| (AE003472) CG2021 gene product [Drosophila m... 37 0.34
ref|NP_013543.1| Putative snRNP protein containing Sm-like ... 36 0.58
dbj|BAB09440.1| (AB012242) U6 snRNA-associated Sm-like prot... 36 0.58
gb|AAF58204.1| (AE003813) CG10197 gene product [Drosophila ... 35 1.3
sp|P56721|COLL_DROME TRANSCRIPTION FACTOR COLLIER 35 1.3
pir||T21508 hypothetical protein F28F8.3 - Caenorhabditis e... 35 1.3
ref|NP_040282.1| ORF E4 >gi|137717|sp|P22157|VE4_HPV57 PROB... 35 1.3
ref|NP_036454.1| U6 snRNA-associated Sm-like protein >gi|52... 35 1.3
pir||B71926 cag island protein - Helicobacter pylori (strai... 34 1.7
ref|NP_011073.1| Sm-like protein; Lsm5p >gi|731523|sp|P4008... 34 1.7
gb|AAF50703.1| (AE003564) CG6610 gene product [Drosophila m... 34 2.2
gb|AAF80208.1|AF282853_10 (AF282853) CagI [Helicobacter pyl... 34 2.9
pir||D64587 cag pathogenicity island protein cag19 - Helico... 34 2.9
pir||T22035 hypothetical protein F40F8.9 - Caenorhabditis e... 33 3.8
sp|O74016|RUXX_PYRHO PUTATIVE SNRNP SM-LIKE PROTEIN >gi|745... 33 3.8
gb|AAA69721.2| (M38636) polymerase [Hepatitis B virus] 33 5.0
sp|P31870|DPOL_HPBVM P PROTEIN [INCLUDES: DNA-DIRECTED DNA ... 33 5.0
emb|CAA32405.1| (X14193) DNA polymerase [Hepatitis B virus] 33 5.0
emb|CAA53343.1| (X75658) polymerase [Hepatitis B virus] 33 5.0
pir||B75106 probable snrnp PAB8160 - Pyrococcus abyssi (str... 33 5.0
ref|NP_012089.1| Yhr217cp >gi|731584|sp|P38898|YH17_YEAST H... 32 6.6
dbj|BAA83027.1| (AB028998) KIAA1075 protein [Homo sapiens] 32 8.6
sp|O59734|RUXF_SCHPO PROBABLE SMALL NUCLEAR RIBONUCLEOPROTE... 32 8.6
pir||A72588 hypothetical protein APE1174 - Aeropyrum pernix... 32 8.6
emb|CAB70815.1| (AL137564) hypothetical protein [Homo sapiens] 32 8.6
gb|AAD11755.1| (AF068756) DNA polymerase [Hepatitis B virus] 32 8.6
gb|AAF07620.1|AE001580_5 (AE001580) conserved hypothetical ... 32 8.6
ref|NP_009527.1| snRNA-associated protein of the Sm class; ... 32 8.6
>pir||T41258 probable snRNP splicing factor - fission yeast (Schizosaccharomyces
pombe)
emb|CAA20851.1| (AL031545) putative snRNP splicing factor; with Sm domain
[Schizosaccharomyces pombe]
Length = 113
Score = 87.8 bits (214), Expect = 1e-16
Identities = 45/91 (49%), Positives = 57/91 (62%), Gaps = 3/91 (3%)
Frame = +2
Query: 350 PKKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNESTXX 529
P+KE+ILDL +Y D++I F GGR++ G LKG+D LMNLVLDDV E +R+ E + T
Sbjct: 20 PRKESILDLSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGA 79
Query: 530 ---XXXXXXXXXXXXXXXPVDGSEEIANPFVQPE 622
P+DGSEEI NPFVQ E
Sbjct: 80 IRKLGLVVVRGTTLVLIAPMDGSEEIPNPFVQAE 113
>gb|AAD24820.1|AC007196_6 (AC007196) putative snRNP splicing factor [Arabidopsis thaliana]
Length = 99
Score = 85.0 bits (207), Expect = 1e-15
Identities = 44/90 (48%), Positives = 55/90 (60%), Gaps = 4/90 (4%)
Frame = +2
Query: 353 KKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEG----NES 520
+KE +LDL K++DK + VK GGR+V GTLKGYD L+NLVLD+ E VRD + +
Sbjct: 4 RKETVLDLAKFVDKGVQVKLTGGRQVTGTLKGYDQLLNLVLDEAVEFVRDHDDPLKTTDQ 63
Query: 521 TXXXXXXXXXXXXXXXXXPVDGSEEIANPFVQPE 622
T P DG+EEIANPFV E
Sbjct: 64 TRRLGLIVCRGTAVMLVSPTDGTEEIANPFVTAE 97
>gb|AAF53562.1| (AE003652) CG13277 gene product [Drosophila melanogaster]
Length = 110
Score = 83.9 bits (204), Expect = 2e-15
Identities = 45/87 (51%), Positives = 54/87 (61%), Gaps = 5/87 (5%)
Frame = +2
Query: 353 KKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDE-----GNE 517
+KE+ILDL KY++KQI VKF GGRE G LKGYDAL+NLVLD+ E +RD + E
Sbjct: 17 RKESILDLSKYLEKQIRVKFAGGREASGILKGYDALLNLVLDNTVEYLRDSDEPYKLTEE 76
Query: 518 STXXXXXXXXXXXXXXXXXPVDGSEEIANPFV 613
T P DG E IANPF+
Sbjct: 77 QTRSLGLVVCRGTALVLICPQDGVESIANPFI 108
>ref|NP_057283.1| U6 snRNA-associated Sm-like protein LSm7
gb|AAD56231.1|AF182293_1 (AF182293) U6 snRNA-associated Sm-like protein LSm7 [Homo sapiens]
Length = 103
Score = 83.1 bits (202), Expect = 4e-15
Identities = 45/91 (49%), Positives = 53/91 (57%), Gaps = 4/91 (4%)
Frame = +2
Query: 353 KKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEG----NES 520
KKE+ILDL KY+DK I VKF GGRE G LKG+D L+NLVLD E +RD + E
Sbjct: 8 KKESILDLSKYIDKTIRVKFQGGREASGILKGFDPLLNLVLDGTIEYMRDPDDQYKLTED 67
Query: 521 TXXXXXXXXXXXXXXXXXPVDGSEEIANPFVQPED 625
T P DG E I NPF+Q +D
Sbjct: 68 TRQLGLVVCRGTSVVLICPQDGMEAIPNPFIQQQD 102
>pir||T27926 hypothetical protein ZK593.7 - Caenorhabditis elegans
emb|CAA93428.1| (Z69385) Similarity to Yeast JTA107 protein (PIR Acc. No.
S55137)~cDNA EST yk290e3.3 comes from this gene~cDNA EST
yk290e3.5 comes from this gene [Caenorhabditis elegans]
Length = 104
Score = 83.1 bits (202), Expect = 4e-15
Identities = 39/92 (42%), Positives = 56/92 (60%), Gaps = 4/92 (4%)
Frame = +2
Query: 353 KKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEG----NES 520
KKE+++DL +++DK+I VKF GGRE G L+G+D L+N+VLDD E +RD + +
Sbjct: 9 KKESVVDLTRFLDKEIRVKFQGGREASGVLRGFDQLLNMVLDDCREYLRDPQNPSVVGDE 68
Query: 521 TXXXXXXXXXXXXXXXXXPVDGSEEIANPFVQPEDD 628
T P DG E+IANPF E++
Sbjct: 69 TRQLGLIVARGTAITVVSPADGLEQIANPFATQEEE 104
>ref|NP_014252.1| Sm-like protein; Lsm7p
sp|P53905|YNO7_YEAST HYPOTHETICAL 12.1 KD PROTEIN IN RPC8-MFA2 INTERGENIC REGION
pir||S55137 hypothetical protein YNL147w - yeast (Saccharomyces cerevisiae)
emb|CAA86879.1| (Z46843) putative member of the Sm protein family [Saccharomyces
cerevisiae]
emb|CAA96030.1| (Z71423) ORF YNL147w [Saccharomyces cerevisiae]
Length = 107
Score = 66.0 bits (158), Expect = 5e-10
Identities = 35/55 (63%), Positives = 39/55 (70%), Gaps = 2/55 (3%)
Frame = +2
Query: 350 PKKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVR--DDEGN 514
PK+E ILDL KY D +I VK GG+ V G LKGYD LMNLVLDD E + DDE N
Sbjct: 14 PKREAILDLAKYKDSKIRVKLMGGKLVIGVLKGYDQLMNLVLDDTVEYMSNPDDENN 70
>ref|NP_011170.1| snRNP G protein (the homologue of the human Sm-G); Smx2p
sp|P40204|RUXG_YEAST SMALL NUCLEAR RIBONUCLEOPROTEIN G (SNRNP-G) (SM PROTEIN G)
pir||S48322 SNP2 protein - yeast (Saccharomyces cerevisiae)
gb|AAB63977.1| (L31794) small nuclear ribonucleoprotein E [Saccharomyces
cerevisiae]
emb|CAA86353.1| (Z46255) orf, len: , CAI: 0.10, 43.8% identity with RUX9_MEDSA
P24715 SNRNP-E RELATED PROTEIN C29 [Saccharomyces
cerevisiae]
Length = 77
Score = 55.0 bits (130), Expect = 1e-06
Identities = 24/48 (50%), Positives = 33/48 (68%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGN 514
+L KYMDK+I + NG R+V G L+GYD +N+VLDD E+ +D N
Sbjct: 6 ELKKYMDKKILLNINGSRKVAGILRGYDIFLNVVLDDAMEINGEDPAN 53
>gb|AAF00664.1|AC008153_16 (AC008153) putative small nuclear ribonucleoprotein polypeptide G;
65009-64161 [Arabidopsis thaliana]
Length = 79
Score = 54.7 bits (129), Expect = 1e-06
Identities = 25/46 (54%), Positives = 33/46 (71%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDE 508
DL KYMDK++ +K N R V GTL+G+D MNLV+D+ EV DD+
Sbjct: 9 DLKKYMDKKLQIKLNANRMVVGTLRGFDQFMNLVVDNTVEVNGDDK 54
>gb|AAF48634.1| (AE003503) CG9742 gene product [Drosophila melanogaster]
Length = 76
Score = 54.7 bits (129), Expect = 1e-06
Identities = 24/48 (50%), Positives = 34/48 (70%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGN 514
++ KYMDK++ +K NGGR V G L+G+D MN+VLDD E +D+ N
Sbjct: 8 EVKKYMDKRMMLKLNGGRAVTGILRGFDPFMNVVLDDTVEECKDNTKN 55
>ref|NP_003087.1| small nuclear ribonucleoprotein polypeptide G
sp|Q15357|RUXG_HUMAN SMALL NUCLEAR RIBONUCLEOPROTEIN G (SNRNP-G) (SM PROTEIN G)
pir||S55054 Sm protein G - human
emb|CAA59689.1| (X85373) Sm protein G [Homo sapiens]
Length = 76
Score = 53.5 bits (126), Expect = 3e-06
Identities = 22/48 (45%), Positives = 35/48 (72%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGN 514
+L K+MDK++++K NGGR V+G L+G+D MNLV+D+ E+ + N
Sbjct: 8 ELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATSGQQN 55
>sp|O82221|RUXG_ARATH PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G (SNRNP-G) (SM PROTEIN G)
gb|AAC63663.1| (AC005170) putative small nuclear ribonucleoprotein G [Arabidopsis
thaliana]
Length = 80
Score = 53.5 bits (126), Expect = 3e-06
Identities = 26/51 (50%), Positives = 34/51 (65%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNEST 523
DL KYMDK++ +K N R V GTL+G+D MNLV+D+ EV GN+ T
Sbjct: 9 DLKKYMDKKLQIKLNANRMVTGTLRGFDQFMNLVVDNTVEV----NGNDKT 55
>sp|O74966|RUXG_SCHPO PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G (SNRNP-G) (SM PROTEIN G)
pir||T40477 small nuclear ribonucleoprotein - fission yeast
(Schizosaccharomyces pombe)
emb|CAA19285.1| (AL023706) small nuclear ribonucleoprotein [Schizosaccharomyces
pombe]
Length = 77
Score = 51.2 bits (120), Expect = 2e-05
Identities = 23/46 (50%), Positives = 32/46 (69%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDE 508
DL KY+D+Q+ V+ NG R+V G L+GYD +N+VL+D E D E
Sbjct: 8 DLKKYLDRQVFVQLNGSRKVYGVLRGYDIFLNIVLEDSIEEKVDGE 53
>gb|AAF36015.1| (AC024201) contains similarity to Pfam family PF01423 (Sm protein),
score=90.5, E=3.4e-23, N=1 [Caenorhabditis elegans]
Length = 77
Score = 51.2 bits (120), Expect = 2e-05
Identities = 21/44 (47%), Positives = 31/44 (69%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRD 502
+L KYMDK++ +K NG R V G L+G+D MN+V+D+ E +D
Sbjct: 8 ELKKYMDKEMDLKLNGNRRVSGILRGFDPFMNMVIDEAVEYQKD 51
>pir||S22826 small nuclear ribonucleoprotein E homolog - alfalfa
Length = 81
Score = 49.2 bits (115), Expect = 6e-05
Identities = 24/49 (48%), Positives = 31/49 (62%)
Frame = +2
Query: 371 DLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNE 517
DL KYMDKQ+ + R + GTL+G+D MNLV+D+ EV GNE
Sbjct: 9 DLKKYMDKQLQINLKANRMIVGTLRGFDQFMNLVVDNTVEV----NGNE 53
>gb|AAC25622.1| (AC005258) R30783_1 [Homo sapiens]
Length = 145
Score = 48.0 bits (112), Expect = 1e-04
Identities = 28/69 (40%), Positives = 34/69 (48%), Gaps = 4/69 (5%)
Frame = +2
Query: 419 GREVKGTLKGYDALMNLVLDDVHEVVRDDEG----NESTXXXXXXXXXXXXXXXXXPVDG 586
GR G LKG+D L+NLVLD E +RD + E T P DG
Sbjct: 72 GRPRSGILKGFDPLLNLVLDGTIEYMRDPDDQYKLTEDTRQLGLVVCRGTSVVLICPQDG 131
Query: 587 SEEIANPFVQPED 625
E I NPF+Q +D
Sbjct: 132 MEAIPNPFIQQQD 144
>sp|P24715|RUXG_MEDSA PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G (SNRNP-G) (SM PROTEIN G)
emb|CAA44975.1| (X63376) snRNP-related protein [Medicago sativa]
Length = 81
Score = 46.9 bits (109), Expect = 3e-04
Identities = 23/48 (47%), Positives = 30/48 (61%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNE 517
L KYMDKQ+ + R + GTL+G+D MNLV+D+ EV GNE
Sbjct: 10 LKKYMDKQLQINLKANRMIVGTLRGFDQFMNLVVDNTVEV----NGNE 53
>gb|AAG00460.1|AF280392_1 (AF280392) Sm-G [Trypanosoma brucei]
Length = 82
Score = 43.4 bits (100), Expect = 0.003
Identities = 18/44 (40%), Positives = 28/44 (62%)
Frame = +2
Query: 350 PKKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDD 481
P K+ I +L +M+K++ VK GR + G L+G D M++VL D
Sbjct: 2 PAKKRIANLNHFMEKRVKVKLTSGRSISGELRGVDEFMSIVLYD 45
>sp|O29386|RUXX_ARCFU PUTATIVE SNRNP SM-LIKE PROTEIN
pir||C69359 snRNP homolog - Archaeoglobus fulgidus
gb|AAB90374.1| (AE001044) snRNP, putative [Archaeoglobus fulgidus]
Length = 77
Score = 42.2 bits (97), Expect = 0.008
Identities = 19/40 (47%), Positives = 25/40 (62%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEV 493
L + + + V+ GGRE +GTL GYD MNLVL D E+
Sbjct: 9 LNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEI 48
>ref|NP_057284.1| U6 snRNA-associated Sm-like protein LSm8
gb|AAD15542.1| (AC006389) similar to Schizosaccharomyces pombe splicing factor;
similar to PID:3395591 [Homo sapiens]
gb|AAD56232.1|AF182294_1 (AF182294) U6 snRNA-associated Sm-like protein LSm8 [Homo sapiens]
Length = 96
Score = 41.4 bits (95), Expect = 0.013
Identities = 18/41 (43%), Positives = 28/41 (67%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVV 496
L Y+++ + V + GR + GTLKG+D +NL+LD+ HE V
Sbjct: 5 LENYINRTVAVITSDGRMIVGTLKGFDQTINLILDESHERV 45
>pir||G72749 probable small nuclear ribonucleoprotein APES022 - Aeropyrum pernix
(strain K1)
dbj|BAA79491.1| (AP000059) 77aa long hypothetical small nuclear ribonucleoprotein
[Aeropyrum pernix]
Length = 77
Score = 38.3 bits (87), Expect = 0.11
Identities = 15/37 (40%), Positives = 22/37 (58%)
Frame = +2
Query: 383 YMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEV 493
Y+D + VK G +KG LK YD +N++L D E+
Sbjct: 16 YVDTPVLVKLKSGLRIKGVLKTYDQHLNIILGDAEEI 52
>pir||T40786 probable SNRNP SM-like protein - fission yeast (Schizosaccharomyces
pombe)
Length = 83
Score = 38.3 bits (87), Expect = 0.11
Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Frame = +2
Query: 386 MDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVR--DDE 508
+D+ + VK G RE+ G L YD +N+VL D E+V DDE
Sbjct: 18 LDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDE 60
>emb|CAB42366.2| (AL049769) U6 snRNA-associated Sm-like protein [Schizosaccharomyces
pombe]
Length = 93
Score = 38.3 bits (87), Expect = 0.11
Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Frame = +2
Query: 386 MDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVR--DDE 508
+D+ + VK G RE+ G L YD +N+VL D E+V DDE
Sbjct: 18 LDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDE 60
>pir||T41178 splicing factor - fission yeast (Schizosaccharomyces pombe)
emb|CAA20133.1| (AL031179) splicing factor [Schizosaccharomyces pombe]
Length = 94
Score = 38.3 bits (87), Expect = 0.11
Identities = 19/51 (37%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Frame = +2
Query: 368 LDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHE-VVRDDEGNES 520
+ L +M++++ V N GR V G+LKG+D NL+L D E ++ D+ E+
Sbjct: 1 MSLADFMEQRVQVITNDGRVVLGSLKGFDHTTNLILSDSFERIISMDQDMET 52
>gb|AAF23841.1|AC007234_13 (AC007234) F1E22.8 [Arabidopsis thaliana]
Length = 583
Score = 37.5 bits (85), Expect = 0.20
Identities = 17/35 (48%), Positives = 23/35 (65%)
Frame = +2
Query: 392 KQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVV 496
K I+V N GR + G LKG+D N++LD+ HE V
Sbjct: 498 KIISVITNDGRNIVGVLKGFDQATNIILDESHERV 532
>gb|AAD05369.1| (U58510) small nucleolar ribonucleoprotein E homolog
[Chlorarachnion CCMP621]
Length = 71
Score = 37.1 bits (84), Expect = 0.26
Identities = 16/41 (39%), Positives = 28/41 (68%)
Frame = +2
Query: 356 KENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLD 478
K NI DL +M+++I ++ +KGTL+G+D +N+VL+
Sbjct: 4 KINIPDLKLFMEEEIQIQLKNKLCLKGTLRGFDQFLNIVLE 44
>gb|AAF47567.1| (AE003472) CG2021 gene product [Drosophila melanogaster]
Length = 95
Score = 36.7 bits (83), Expect = 0.34
Identities = 15/41 (36%), Positives = 26/41 (62%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVV 496
L Y++ +++ GR GTLKG+D +N+++D+ HE V
Sbjct: 4 LESYINHTVSIITADGRNFIGTLKGFDQTINIIIDECHERV 44
>ref|NP_013543.1| Putative snRNP protein containing Sm-like domain; coprecipitates
with U4, U5 and U6 snRNAs; Lsm3p
pir||S78568 snRNP protein SMX4 - yeast (Saccharomyces cerevisiae)
Length = 89
Score = 36.0 bits (81), Expect = 0.58
Identities = 18/46 (39%), Positives = 29/46 (62%), Gaps = 1/46 (2%)
Frame = +2
Query: 359 ENILDLGKY-MDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVV 496
E LDL K +D+++ +K G R + GTL+ +D+ N+VL D E +
Sbjct: 2 ETPLDLLKLNLDERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETI 48
>dbj|BAB09440.1| (AB012242) U6 snRNA-associated Sm-like protein-like [Arabidopsis
thaliana]
Length = 88
Score = 36.0 bits (81), Expect = 0.58
Identities = 18/50 (36%), Positives = 28/50 (56%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNEST 523
+ + + +I V G +E+ G LKG+D +N+VL+DV E EG T
Sbjct: 14 IDRCIGSKIWVIMKGDKELVGILKGFDVYVNMVLEDVTEYEITAEGRRVT 63
>gb|AAF58204.1| (AE003813) CG10197 gene product [Drosophila melanogaster]
Length = 575
Score = 34.8 bits (78), Expect = 1.3
Identities = 17/55 (30%), Positives = 25/55 (44%)
Frame = +1
Query: 55 AYGLHPRLAKLSLAPKPTRTYYPTESLNLHTLWPRSMLQAHHQYPAHPHLPYPTP 219
A G P +L+ P + T + + W ++ +Q HH AHPH YP P
Sbjct: 504 ANGYAPAPNMGTLSSSPGSVFNSTSMSAVSSTWHQAFVQHHHAATAHPHHHYPHP 558
>sp|P56721|COLL_DROME TRANSCRIPTION FACTOR COLLIER
Length = 575
Score = 34.8 bits (78), Expect = 1.3
Identities = 17/55 (30%), Positives = 25/55 (44%)
Frame = +1
Query: 55 AYGLHPRLAKLSLAPKPTRTYYPTESLNLHTLWPRSMLQAHHQYPAHPHLPYPTP 219
A G P +L+ P + T + + W ++ +Q HH AHPH YP P
Sbjct: 504 ANGYAPAPNMGTLSSSPGSVFNSTSMSAVSSTWHQAFVQHHHAATAHPHHHYPHP 558
>pir||T21508 hypothetical protein F28F8.3 - Caenorhabditis elegans
emb|CAB03013.1| (Z81071) predicted using Genefinder~Similarity to Human small
nuclear ribonucleoprotein E (SW:P08578)~cDNA EST
yk375g7.3 comes from this gene~cDNA EST yk375g7.5 comes
from this gene~cDNA EST yk435f5.3 comes from this
gene~cDNA EST yk435f5.5 comes from >
Length = 91
Score = 34.8 bits (78), Expect = 1.3
Identities = 17/50 (34%), Positives = 27/50 (54%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNEST 523
+ K + +I V +E+ GTL G+D +N+VL+DV E +G T
Sbjct: 18 IDKCIGSKIWVIMKNDKEIVGTLTGFDDYVNMVLEDVVEYENTADGKRMT 67
>ref|NP_040282.1| ORF E4
sp|P22157|VE4_HPV57 PROBABLE E4 PROTEIN
pir||S15625 E4 protein - human papillomavirus type 57
emb|CAA39434.1| (X55965) ORF E4 [Human papillomavirus type 57]
Length = 124
Score = 34.8 bits (78), Expect = 1.3
Identities = 20/58 (34%), Positives = 26/58 (44%)
Frame = +1
Query: 64 LHPRLAKLSLAPKPTRTYYPTESLNLHTLWPRSMLQAHHQYPAHPHLPYPTPRPTIRH 237
+HP L + P T T+YP L L P+S Q Q + PH P R +RH
Sbjct: 18 IHPHLCLVPRPPPRTTTHYPL----LDLLRPQSQPQPQPQQQSRPHSRTPPRRHRVRH 71
>ref|NP_036454.1| U6 snRNA-associated Sm-like protein
emb|CAB45868.1| (AJ238097) Lsm5 protein [Homo sapiens]
gb|AAD56229.1|AF182291_1 (AF182291) U6 snRNA-associated Sm-like protein LSm5 [Homo sapiens]
Length = 91
Score = 34.8 bits (78), Expect = 1.3
Identities = 17/48 (35%), Positives = 26/48 (53%)
Frame = +2
Query: 380 KYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNEST 523
K + +I + +E+ GTL G+D +N+VL+DV E EG T
Sbjct: 20 KCIGSRIHIVMKSDKEIVGTLLGFDDFVNMVLEDVTEFEITPEGRRIT 67
>pir||B71926 cag island protein - Helicobacter pylori (strain J99)
gb|AAD06061.1| (AE001482) cag island protein [Helicobacter pylori J99]
Length = 381
Score = 34.4 bits (77), Expect = 1.7
Identities = 30/114 (26%), Positives = 54/114 (47%), Gaps = 18/114 (15%)
Frame = -2
Query: 706 ALNQALDSLLRIVMIFISSPLVFVSSVILGLNKRVGNFFTAVDGADKNKEGAS------- 548
A+ ++ LR + +S+ L + VI G+N G FF D EG S
Sbjct: 62 AIQAQIEGELRTQLATMSAMLKGANGVINGVNSMTGGFFAGSDILLGVMEGYSSALSALG 121
Query: 547 -----------YNHKTEGSSRLVAFVVSNNLMHIIQNQVHQSVIALQRALDLTATVKLDG 401
N +TE + +A +N ++ + NQ + + AL+ + + + T+K
Sbjct: 122 GNVKMIVEKQKINTQTEIQNMQIALQKNNEIIKLKMNQQNALLEALKNSFEPSVTLKTQM 181
Query: 400 DLLVHVLAQVKD 365
++L L D
Sbjct: 182 EMLSQALGSSSD 193
>ref|NP_011073.1| Sm-like protein; Lsm5p
sp|P40089|YEX6_YEAST HYPOTHETICAL 10.4 KD PROTEIN IN FTR1-SPT15 INTERGENIC REGION
pir||S50649 hypothetical protein YER146w - yeast (Saccharomyces cerevisiae)
gb|AAB64673.1| (U18917) Yer146wp [Saccharomyces cerevisiae]
Length = 93
Score = 34.4 bits (77), Expect = 1.7
Identities = 14/45 (31%), Positives = 28/45 (62%)
Frame = +2
Query: 374 LGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDE 508
+ K +++++ + RE +GTL G+D +N++L+D E + D E
Sbjct: 12 IDKTINQKVLIVLQSNREFEGTLVGFDDFVNVILEDAVEWLIDPE 56
>gb|AAF50703.1| (AE003564) CG6610 gene product [Drosophila melanogaster]
Length = 91
Score = 34.0 bits (76), Expect = 2.2
Identities = 16/48 (33%), Positives = 26/48 (53%)
Frame = +2
Query: 380 KYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDEGNEST 523
K + +I + +E+ GTL G+D +N++LDDV E +G T
Sbjct: 21 KCIGSRIHIIMKNDKEMVGTLLGFDDFVNMLLDDVTEYENTPDGRRIT 68
>gb|AAF80208.1|AF282853_10 (AF282853) CagI [Helicobacter pylori]
Length = 381
Score = 33.6 bits (75), Expect = 2.9
Identities = 30/114 (26%), Positives = 54/114 (47%), Gaps = 18/114 (15%)
Frame = -2
Query: 706 ALNQALDSLLRIVMIFISSPLVFVSSVILGLNKRVGNFFTAVDGADKNKEGAS------- 548
A+ ++ LR + +S+ L + VI G+N G FF D EG S
Sbjct: 62 AIQAQIEGELRTQLATMSAMLKGANGVINGVNGMTGGFFAGSDILLGVMEGYSSALSALG 121
Query: 547 -----------YNHKTEGSSRLVAFVVSNNLMHIIQNQVHQSVIALQRALDLTATVKLDG 401
N +TE + +A +N ++ + NQ + + AL+ + + + T+K
Sbjct: 122 GNVKMIVEKQKINTQTEIQNMQIALQKNNEMIKLKMNQQNALLEALKNSFEPSVTLKTQM 181
Query: 400 DLLVHVLAQVKD 365
++L L D
Sbjct: 182 EMLSQALGSSSD 193
>pir||D64587 cag pathogenicity island protein cag19 - Helicobacter pylori
(strain 26695)
gb|AAD07606.1| (AE000568) cag pathogenicity island protein (cag19) [Helicobacter
pylori 26695]
Length = 381
Score = 33.6 bits (75), Expect = 2.9
Identities = 30/114 (26%), Positives = 54/114 (47%), Gaps = 18/114 (15%)
Frame = -2
Query: 706 ALNQALDSLLRIVMIFISSPLVFVSSVILGLNKRVGNFFTAVDGADKNKEGAS------- 548
A+ ++ LR + +S+ L + VI G+N G FF D EG S
Sbjct: 62 AIQAQIEGELRTQLATMSAMLKGANGVINGVNGMTGGFFAGSDILLGVMEGYSSALSALG 121
Query: 547 -----------YNHKTEGSSRLVAFVVSNNLMHIIQNQVHQSVIALQRALDLTATVKLDG 401
N +TE + +A +N ++ + NQ + + AL+ + + + T+K
Sbjct: 122 GNVKMIVEKQKINTQTEIQNMQIALQKNNEIIKLKMNQQNALLEALKNSFEPSVTLKTQM 181
Query: 400 DLLVHVLAQVKD 365
++L L D
Sbjct: 182 EMLSQALGSSSD 193
>pir||T22035 hypothetical protein F40F8.9 - Caenorhabditis elegans
emb|CAA93263.1| (Z69302) predicted using Genefinder~Similarity to Yeast
hypothetical protein J0714 (PIR Acc. No. S55137)
[Caenorhabditis elegans]
Length = 125
Score = 33.2 bits (74), Expect = 3.8
Identities = 16/47 (34%), Positives = 26/47 (55%)
Frame = +2
Query: 350 PKKENILDLGKYMDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHE 490
P + L + +DK++ V GR++ G L+ D NL+L+DV E
Sbjct: 6 PYLPGAISLFEQLDKKLLVVLRDGRKLIGFLRSIDQFANLILEDVVE 52
>sp|O74016|RUXX_PYRHO PUTATIVE SNRNP SM-LIKE PROTEIN
pir||D71028 probable small nucleoprotein - Pyrococcus horikoshii
dbj|BAA30628.1| (AP000006) 75aa long hypothetical small nucleoprotein [Pyrococcus
horikoshii]
Length = 75
Score = 33.2 bits (74), Expect = 3.8
Identities = 18/41 (43%), Positives = 25/41 (60%)
Frame = +2
Query: 386 MDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDE 508
+DK + V G E +G L GYD +N+VL D E+V+D E
Sbjct: 13 LDKDVLVILKKGFEFRGRLIGYDIHLNVVLADA-EMVQDGE 52
>gb|AAA69721.2| (M38636) polymerase [Hepatitis B virus]
Length = 842
Score = 32.8 bits (73), Expect = 5.0
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Frame = +1
Query: 16 LTQDQSLHLELIPAYGLHPRLAKLSLAPKPTRTYYPTESLN--------LHTLWPRSML 168
LT ++ L+LI +P+L K K + YYP ++N LHTLW +L
Sbjct: 99 LTVNEKRRLKLIMPARFYPKLTKYLPLDKGIKPYYPEHAVNHYFKTRHYLHTLWKAGIL 157
>sp|P31870|DPOL_HPBVM P PROTEIN [INCLUDES: DNA-DIRECTED DNA POLYMERASE ; RNA-DIRECTED DNA
POLYMERASE ; RIBONUCLEASE H ]
pir||JDVLVS DNA-directed DNA polymerase (EC 2.7.7.7) - hepatitis B virus
(subtype adr, mutant)
Length = 842
Score = 32.8 bits (73), Expect = 5.0
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Frame = +1
Query: 16 LTQDQSLHLELIPAYGLHPRLAKLSLAPKPTRTYYPTESLN--------LHTLWPRSML 168
LT ++ L+LI +P+L K K + YYP ++N LHTLW +L
Sbjct: 99 LTVNEKRRLKLIMPARFYPKLTKYLPLDKGIKPYYPEHAVNHYFKTRHYLHTLWKAGIL 157
>emb|CAA32405.1| (X14193) DNA polymerase [Hepatitis B virus]
Length = 303
Score = 32.8 bits (73), Expect = 5.0
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Frame = +1
Query: 16 LTQDQSLHLELIPAYGLHPRLAKLSLAPKPTRTYYPTESLN--------LHTLWPRSML 168
LT ++ L+LI +P+L K K + YYP ++N LHTLW +L
Sbjct: 99 LTVNEKRRLKLIMPARFYPKLTKYLPLDKGIKPYYPEHAVNHYFKTRHYLHTLWKAGIL 157
>emb|CAA53343.1| (X75658) polymerase [Hepatitis B virus]
Length = 843
Score = 32.8 bits (73), Expect = 5.0
Identities = 20/56 (35%), Positives = 30/56 (52%), Gaps = 8/56 (14%)
Frame = +1
Query: 1 EFGTRLTQDQSLHLELIPAYGLHPRLAKLSLAPKPTRTYYPTESLN--------LHTLWP 156
+F LT+++ L+LI P+L K K + YYP ++N LHTLW
Sbjct: 94 QFVGPLTKNELRRLKLIMPARFFPKLTKYFPLEKDIKPYYPEHAVNHYFQTRHYLHTLWK 153
Query: 157 RSML 168
+L
Sbjct: 154 AGIL 157
>pir||B75106 probable snrnp PAB8160 - Pyrococcus abyssi (strain Orsay)
emb|CAB49563.1| (AJ248285) snRNP, putative [Pyrococcus abyssi]
Length = 75
Score = 32.8 bits (73), Expect = 5.0
Identities = 17/41 (41%), Positives = 25/41 (60%)
Frame = +2
Query: 386 MDKQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVVRDDE 508
+DK + V G E +G L GYD +N+VL D E+++D E
Sbjct: 13 LDKDVLVILKKGFEFRGRLIGYDIHLNVVLADA-EMIQDGE 52
>ref|NP_012089.1| Yhr217cp
sp|P38898|YH17_YEAST HYPOTHETICAL 17.1 KD PROTEIN IN PUR5 3'REGION
pir||S48998 hypothetical protein YHR217c - yeast (Saccharomyces cerevisiae)
gb|AAB69740.1| (U00029) Yhr217cp [Saccharomyces cerevisiae]
Length = 153
Score = 32.5 bits (72), Expect = 6.6
Identities = 16/47 (34%), Positives = 20/47 (42%)
Frame = +1
Query: 85 LSLAPKPTRTYYPTESLNLHTLWPRSMLQAHHQYPAHPHLPYPTPRP 225
+SL P T + + +HT P H HPH P PTP P
Sbjct: 1 MSLRPCLTPSSMQYSDIYIHTPHPHPHPHPHTPTHTHPHTPTPTPHP 47
>dbj|BAA83027.1| (AB028998) KIAA1075 protein [Homo sapiens]
Length = 1400
Score = 32.1 bits (71), Expect = 8.6
Identities = 17/49 (34%), Positives = 21/49 (42%)
Frame = +1
Query: 91 LAPKPTRTYYPTESLNLHTLWPRSMLQAHHQYPAHPHLPYPTPRPTIRH 237
LAP P +P S + WP+ H A P P PT P +RH
Sbjct: 960 LAPSPVSPTFPPSS---PSDWPQERSPGGHSDGASPRSPVPTTLPGLRH 1005
>sp|O59734|RUXF_SCHPO PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN F (SNRNP-F) (SM PROTEIN F)
pir||T40388 small nuclear ribonucleoprotein F - fission yeast
(Schizosaccharomyces pombe)
pir||T40498 small nuclear ribonucleoprotein f - fission yeast
(Schizosaccharomyces pombe)
emb|CAA19017.1| (AL023534) small nuclear ribonucleoprotein F [Schizosaccharomyces
pombe]
emb|CAA20721.1| (AL031534) small nuclear ribonucleoprotein with Sm domain
[Schizosaccharomyces pombe]
Length = 78
Score = 32.1 bits (71), Expect = 8.6
Identities = 15/35 (42%), Positives = 22/35 (62%)
Frame = +2
Query: 392 KQITVKFNGGREVKGTLKGYDALMNLVLDDVHEVV 496
K + V+ G+E KGTL+ D+ MNL L + E+V
Sbjct: 18 KPVLVRLKWGQEYKGTLQSVDSYMNLQLLNAEELV 52
>pir||A72588 hypothetical protein APE1174 - Aeropyrum pernix (strain K1)
dbj|BAA80159.1| (AP000061) 106aa long hypothetical protein [Aeropyrum pernix]
Length = 106
Score = 32.1 bits (71), Expect = 8.6
Identities = 21/56 (37%), Positives = 28/56 (49%), Gaps = 7/56 (12%)
Frame = +1
Query: 64 LHPRLAKLSLAPKPTRTYYPTESLNLHT----LWPRSMLQAHHQYPAHPHLP---YPTPR 222
L PR+ L ++ +PT Y P SLN HT L P ++ P H P TP
Sbjct: 22 LEPRVGVLLVSRRPTGAYNPENSLNPHTPGGGLGPNTLHNTPQHTPRLKHAPAQQQHTPP 81
Query: 223 PTI 231
P +
Sbjct: 82 PQL 84
>emb|CAB70815.1| (AL137564) hypothetical protein [Homo sapiens]
Length = 649
Score = 32.1 bits (71), Expect = 8.6
Identities = 17/49 (34%), Positives = 21/49 (42%)
Frame = +1
Query: 91 LAPKPTRTYYPTESLNLHTLWPRSMLQAHHQYPAHPHLPYPTPRPTIRH 237
LAP P +P S + WP+ H A P P PT P +RH
Sbjct: 211 LAPSPVSPTFPPSS---PSDWPQERSPGGHSDGASPRSPVPTTLPGLRH 256
>gb|AAD11755.1| (AF068756) DNA polymerase [Hepatitis B virus]
Length = 843
Score = 32.1 bits (71), Expect = 8.6
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 8/51 (15%)
Frame = +1
Query: 16 LTQDQSLHLELIPAYGLHPRLAKLSLAPKPTRTYYPTESLN--------LHTLWPRSML 168
LT ++ L+LI +P L K K + YYP ++N LHTLW +L
Sbjct: 99 LTVNEKRRLKLIMPARFYPNLTKYLPLDKGIKPYYPEHTVNHYFQTRHYLHTLWKAGIL 157
>gb|AAF07620.1|AE001580_5 (AE001580) conserved hypothetical protein [Borrelia burgdorferi]
Length = 192
Score = 32.1 bits (71), Expect = 8.6
Identities = 22/69 (31%), Positives = 34/69 (48%)
Frame = -2
Query: 706 ALNQALDSLLRIVMIFISSPLVFVSSVILGLNKRVGNFFTAVDGADKNKEGASYNHKTEG 527
+LN +DS+ + + ISS + SV L K + N T +D +K S N K
Sbjct: 107 SLNTKIDSVEKNLQKDISSLNTKIDSVEKSLQKDISNLNTKIDSVEK-----SLNQKLSM 161
Query: 526 SSRLVAFVV 500
+RLV F++
Sbjct: 162 GNRLVHFMI 170
>ref|NP_009527.1| snRNA-associated protein of the Sm class; Lsm2p
sp|P38203|SNP3_YEAST SMALL NUCLEAR RIBONUCLEOPROTEIN D HOMOLOG SNP3
pir||S45760 probable snRNP-related protein YBL026w - yeast (Saccharomyces
cerevisiae)
emb|CAA84845.1| (Z35787) ORF YBL026w [Saccharomyces cerevisiae]
emb|CAA54505.1| (X77291) encodes a 95 aa peptide that shows homology with the yeast
and human Sm-D1core polypeptide of small nuclear
ribonucleoprotein patricles (snRNP). It might be a
possible candidate for a yeast Sm-E homolog
[Saccharomyces cerevisiae]
Length = 95
Score = 32.1 bits (71), Expect = 8.6
Identities = 12/33 (36%), Positives = 22/33 (66%)
Frame = +2
Query: 386 MDKQITVKFNGGREVKGTLKGYDALMNLVLDDV 484
+D+++ V+ E+KGTL+ D +NL LD++
Sbjct: 11 VDQEVVVELKNDIEIKGTLQSVDQFLNLKLDNI 43
Database: nr
Posted date: Sep 29, 2000 9:53 PM
Number of letters in database: 177,575,912
Number of sequences in database: 565,281
Lambda K H
0.318 0.135 0.00
Gapped
Lambda K H
0.270 0.0470 4.94e-324
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 246361027
Number of Sequences: 565281
Number of extensions: 4553647
Number of successful extensions: 12487
Number of sequences better than 10.0: 106
Number of HSP's better than 10.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 12434
Number of HSP's gapped (non-prelim): 61
length of query: 292
length of database: 177,575,912
effective HSP length: 54
effective length of query: 238
effective length of database: 147,050,738
effective search space: 34998075644
effective search space used: 34998075644
frameshift window, decay const: 50, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 71 (32.1 bits)