RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy836
(122 letters)
>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic
sequnece for R-proteins, ribonucleoprotein, ribosoma
protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A
{Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z*
3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z*
3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z*
3i56_Z* 3cpw_Y* 4adx_Z
Length = 116
Score = 113 bits (285), Expect = 4e-34
Identities = 29/115 (25%), Positives = 46/115 (40%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
A ++ K G +G++G RYG R+ V ++E + + C CG+
Sbjct: 26 ASKSGKTGSSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGE----------------- 68
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
D + R GIW C C GG++ T +VR +IR +E
Sbjct: 69 --------DRVDRQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRSIRAALSEDE 115
>3iz5_m 60S ribosomal protein L43 (L37AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_m 1ysh_D 2zkr_z
Length = 92
Score = 109 bits (274), Expect = 1e-32
Identities = 59/115 (51%), Positives = 70/115 (60%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
KRTKK GI GKYGTRYGASLRK +KKME++QH+KY C FCGK
Sbjct: 2 TKRTKKAGIVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGK----------------- 44
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
++KR VGIW CK C ++ AGGA+ NT +A +VRS IRRLRE E
Sbjct: 45 --------FAVKRKAVGIWGCKDCGKVKAGGAYTMNTASAVTVRSTIRRLREQTE 91
>4a17_Y RPL37A, 60S ribosomal protein L32; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_Y 4a1c_Y 4a1e_Y
Length = 103
Score = 109 bits (274), Expect = 1e-32
Identities = 58/115 (50%), Positives = 72/115 (62%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRT+KVGIT KYGTRYGASLRK+VKK EITQHAKY C FCGK
Sbjct: 2 AKRTQKVGITRKYGTRYGASLRKVVKKFEITQHAKYGCPFCGK----------------- 44
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
++KR+ VGIW CK CK+I+AGGAW T A + ++ + RL+++ E
Sbjct: 45 --------VAVKRAAVGIWKCKPCKKIIAGGAWELTTPPAVTAKTTMNRLKKLQE 91
>3izc_m 60S ribosomal protein RPL43 (L37AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_m
3o58_g 3o5h_g 3u5e_p 3u5i_p 1s1i_9
Length = 92
Score = 108 bits (272), Expect = 2e-32
Identities = 61/115 (53%), Positives = 73/115 (63%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRTKKVGITGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK
Sbjct: 2 AKRTKKVGITGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGK----------------- 44
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
++KR GIW+C CK+ VAGGA+ +T AA +VRS IRRLRE+ E
Sbjct: 45 --------KTVKRGAAGIWTCSCCKKTVAGGAYTVSTAAAATVRSTIRRLREMVE 91
>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z*
1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z*
1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z*
1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...
Length = 83
Score = 102 bits (255), Expect = 5e-30
Identities = 26/106 (24%), Positives = 41/106 (38%), Gaps = 25/106 (23%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAWD 75
+G++G RYG R+ V ++E + + C CG+ D
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGE-------------------------D 36
Query: 76 SMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
+ R GIW C C GG++ T +VR +IR +E
Sbjct: 37 RVDRQGTGIWQCSYCDYKFTGGSYKPETPGGKTVRRSIRAALSEDE 82
>1ffk_W Ribosomal protein L37AE; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
g.41.8.1 PDB: 1jj2_Y 1k73_1* 1k8a_1* 1k9m_1* 1kc8_1*
1kd1_1* 1kqs_Y* 1m1k_1* 1m90_1* 1n8r_1* 1nji_1* 1q7y_1*
1q81_1* 1q82_1* 1q86_1* 1qvf_Y 1qvg_Y 1w2b_Y 3cxc_Y*
Length = 73
Score = 90.6 bits (225), Expect = 2e-25
Identities = 29/97 (29%), Positives = 39/97 (40%), Gaps = 25/97 (25%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAWD 75
TG++G RYG +R V+ +EI KY C CG
Sbjct: 2 TGRFGPRYGLKIRVRVRDVEIKHKKKYKCPVCGF-------------------------P 36
Query: 76 SMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSA 112
+KR+ IW C C +AGGA+ T A +V A
Sbjct: 37 KLKRASTSIWVCGHCGYKIAGGAYTPETVAGKAVMKA 73
>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus}
Length = 72
Score = 86.0 bits (213), Expect = 1e-23
Identities = 39/59 (66%), Positives = 48/59 (81%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAW 74
TGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK ++KR GIW+C CK+ VAGGA+
Sbjct: 1 TGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAGIWTCSCCKKTVAGGAY 59
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 29.6 bits (66), Expect = 0.23
Identities = 6/33 (18%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 26 SLRKMVKKMEITQHAKYTCSFCGK-DSMKRSCV 57
S V ++ KY G ++ K
Sbjct: 325 SFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKF 357
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 28.7 bits (64), Expect = 0.46
Identities = 6/33 (18%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 26 SLRKMVKKMEITQHAKYTCSFCGK-DSMKRSCV 57
S V ++ KY G ++ K
Sbjct: 156 SFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKF 188
>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6
Length = 82
Score = 27.3 bits (60), Expect = 0.56
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 24 GASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGI-WSCKRC 65
G+S ++M + QH + C CG + + G+ W C+ C
Sbjct: 4 GSSGQQMQAESGFVQHVGFKCDNCGIEPI----QGVRWHCQDC 42
>2d8q_A BLU protein, zinc finger MYND domain containing protein 10;
zmynd10, ZF-MYND, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.85.1.1 PDB: 2dan_A
Length = 70
Score = 24.6 bits (53), Expect = 4.1
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 7/35 (20%)
Query: 34 MEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRI 68
+E + C++C ++ KR C RC+
Sbjct: 8 LEAVAPERPRCAYCSAEASKR-------CSRCQNE 35
>1ovx_A ATP-dependent CLP protease ATP-binding subunit CL; treble CLEF
zinc finger, homodimer, metal binding protein; NMR
{Escherichia coli} SCOP: g.39.1.11
Length = 67
Score = 24.5 bits (53), Expect = 5.0
Identities = 8/26 (30%), Positives = 9/26 (34%)
Query: 24 GASLRKMVKKMEITQHAKYTCSFCGK 49
G K + CSFCGK
Sbjct: 1 GHHHHHHTDKRKDGSGKLLYCSFCGK 26
>1sbz_A Probable aromatic acid decarboxylase; FMN binding, PAD1, UBIX,
montreal-kingston bacterial structu genomics
initiative, BSGI; HET: FMN; 2.00A {Escherichia coli}
SCOP: c.34.1.1
Length = 197
Score = 25.2 bits (55), Expect = 6.1
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 7/41 (17%)
Query: 13 VGITGKYGTRYGASLRKMVKKME-------ITQHAKYTCSF 46
VG+TG G G +L + +++M +++ AK T
Sbjct: 5 VGMTGATGAPLGVALLQALREMPNVETHLVMSKWAKTTIEL 45
>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle
structural genomics center for infectious electron
transport, iron; NMR {Mycobacterium tuberculosis}
Length = 81
Score = 23.9 bits (52), Expect = 8.8
Identities = 4/34 (11%), Positives = 10/34 (29%)
Query: 15 ITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCG 48
+ + G + + + + C CG
Sbjct: 1 MAHHHHHHMGTLEAQTQGPGSMNDYKLFRCIQCG 34
>2q17_A Formylglycine generating enzyme; FGE, sulfatase, unknown function;
2.10A {Streptomyces coelicolor}
Length = 346
Score = 25.0 bits (54), Expect = 9.3
Identities = 6/24 (25%), Positives = 13/24 (54%)
Query: 91 KRIVAGGAWVYNTTAATSVRSAIR 114
R++ GG+++ + + R A R
Sbjct: 294 ARVLRGGSYLCHDSYCNRYRVAAR 317
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.324 0.132 0.430
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,897,365
Number of extensions: 100567
Number of successful extensions: 578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 567
Number of HSP's successfully gapped: 58
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)