RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16263
(112 letters)
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 295
Score = 79.0 bits (194), Expect = 3e-19
Identities = 28/45 (62%), Positives = 36/45 (80%)
Query: 1 MSGGLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDG 45
MSG LD+L +KE+DV K L A TH+G N D+QMEQY+YKR++DG
Sbjct: 1 MSGALDVLQMKEEDVLKFLAAGTHLGGTNLDFQMEQYIYKRKSDG 45
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 75.2 bits (184), Expect = 9e-18
Identities = 22/45 (48%), Positives = 29/45 (64%)
Query: 1 MSGGLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDG 45
LS +E D+ ML A H+G++N D+QME+YVYKRR DG
Sbjct: 5 GGAAARALSQREQDIQMMLAADVHLGTKNCDFQMERYVYKRRTDG 49
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal
protein, acetylation, cytoplasm, phosphorylation,
polymorphism; 2.15A {Homo sapiens}
Length = 253
Score = 71.2 bits (174), Expect = 2e-16
Identities = 27/45 (60%), Positives = 35/45 (77%)
Query: 1 MSGGLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDG 45
SG LD+L +KE+DV K L A TH+G N D+QMEQY+YKR++DG
Sbjct: 34 SSGALDVLQMKEEDVLKFLAAGTHLGGTNLDFQMEQYIYKRKSDG 78
>3u5c_A 40S ribosomal protein S0-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_A 3o30_A 3o2z_A 3u5g_A 3jyv_B* 1s1h_B
Length = 252
Score = 64.2 bits (156), Expect = 7e-14
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 6 DILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDG 45
L +D +L A TH+G+ N E YV+ R DG
Sbjct: 5 ATFDLTPEDAQLLLAANTHLGARNVQVHQEPYVFNARPDG 44
>2xzm_B RPS0E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_B
Length = 241
Score = 61.4 bits (149), Expect = 7e-13
Identities = 10/38 (26%), Positives = 22/38 (57%)
Query: 8 LSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDG 45
K+DD+ ++L + H + N + QM++Y+ + +G
Sbjct: 3 TQRKQDDIKRLLASNCHQATINLNNQMKRYISHKGVNG 40
>1vi6_A 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A
{Archaeoglobus fulgidus} SCOP: c.23.15.1 PDB: 1vi5_A
Length = 208
Score = 54.7 bits (132), Expect = 2e-10
Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 1 MSGGLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDG 45
+ + L L A HIG++ M+++++K R DG
Sbjct: 3 LEKEYEYL----VPPDDYLAAGVHIGTQIKTGDMKKFIFKVRQDG 43
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 33.5 bits (76), Expect = 0.010
Identities = 20/119 (16%), Positives = 39/119 (32%), Gaps = 27/119 (22%)
Query: 4 GLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQY---VYKRRNDGEIFVLVICYRVSLIL 60
G IL + ++ + H G E E Y +++ DG++ I ++
Sbjct: 1658 GFSILDIVINNPVNL---TIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHS 1714
Query: 61 CNNIWQHMAELLDG-----------SK---QVWWFHGQVLEVLTMF--HNS---WSALV 100
+ ++ LL K + G ++ F H S ++AL
Sbjct: 1715 TSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKG-LIPADATFAGH-SLGEYAALA 1771
Score = 26.6 bits (58), Expect = 2.2
Identities = 24/121 (19%), Positives = 41/121 (33%), Gaps = 36/121 (29%)
Query: 1 MSGGLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVY-----KRRNDGEIFVLVIC-- 53
M L I +L ++ V Q ++ NS + V +N LV+
Sbjct: 338 M---LSISNLTQEQV------QDYVNKTNSHLPAGKQVEISLVNGAKN------LVVSGP 382
Query: 54 ----YRVSLIL-----CNNIWQHMAELLDGSKQVWWFHGQVLEVLTMFHNSW--SALVQI 102
Y ++L L + + Q S++ F + L V + FH+ A I
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPF---SERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Query: 103 L 103
Sbjct: 440 N 440
>1pe9_A Pectate lyase A; parallel beta helix; 1.60A {Erwinia chrysanthemi}
SCOP: b.80.1.1 PDB: 1ooc_A 1jta_A 1jrg_A
Length = 361
Score = 28.2 bits (62), Expect = 0.61
Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 1/83 (1%)
Query: 23 THIGSENSDYQMEQYVYKRRNDGEIFVLVICYRVSLILCNNIWQHMAELLDGSKQVWWFH 82
+ + Y + ++DG + + V+ I + I QH +L G
Sbjct: 163 SDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVT-ISNSLIDQHDKTMLIGHSDSNGSQ 221
Query: 83 GQVLEVLTMFHNSWSALVQILPH 105
+ +T+F+N ++ + + P
Sbjct: 222 DKGKLHVTLFNNVFNRVTERAPR 244
>3mt1_A Putative carboxynorspermidine decarboxylase prote; PSI2, MCSG,
structural genomics; 2.50A {Sinorhizobium meliloti}
Length = 365
Score = 25.6 bits (57), Expect = 4.5
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 4 GLDILSLKEDDVTKMLGAQTHIGSENSDYQ 33
G + E + ++ G H EN D+
Sbjct: 142 GEWDVPKVERVMDRINGFMIHNNCENKDFG 171
>3d23_B 3C-like proteinase; main protease, ATP-binding, endonuclease,
exonuclease, helic hydrolase, membrane, metal-binding,
nuclease; HET: 3IH; 2.50A {Human coronavirus}
Length = 302
Score = 24.9 bits (54), Expect = 6.3
Identities = 8/38 (21%), Positives = 15/38 (39%)
Query: 17 KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
+M G Q + + +Y + GE F ++ Y
Sbjct: 83 QMQGCQLVLTVSLQNPYTPKYTFGNVKPGETFTVLAAY 120
>2cf5_A Atccad5, CAD, cinnamyl alcohol dehydrogenase; lignin biosynthesis,
metal-binding, NADP, oxidoreductase, zinc; 2.0A
{Arabidopsis thaliana} PDB: 2cf6_A*
Length = 357
Score = 24.9 bits (55), Expect = 7.9
Identities = 5/27 (18%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 11 KEDDVTKMLGAQTHIGSENSDYQMEQY 37
K ++ + LGA ++ + +M +
Sbjct: 216 KREEALQDLGADDYVIGSDQA-KMSEL 241
>1yqd_A Sinapyl alcohol dehydrogenase; lignin, monolignol, oxidoreductase,
zinc-dependent, plant DE biosynthesis, substrate
inhibition; HET: NAP; 1.65A {Populus tremuloides} PDB:
1yqx_A*
Length = 366
Score = 24.8 bits (55), Expect = 8.2
Identities = 7/27 (25%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 11 KEDDVTKMLGAQTHIGSENSDYQMEQY 37
K+++ K GA + + S + + QM+
Sbjct: 223 KKEEALKNFGADSFLVSRDQE-QMQAA 248
>1lvo_A Replicase, hydrolase domain; 3C like, corona, proteinase,
chymotrypsin, cysteine histidine DYAD, beta barrel;
1.96A {Transmissible gastroenteritis virus} SCOP:
b.47.1.4 PDB: 1p9u_A 2amp_A*
Length = 302
Score = 24.5 bits (53), Expect = 8.3
Identities = 7/38 (18%), Positives = 15/38 (39%)
Query: 17 KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
+ G + + ++ +K GE F ++ CY
Sbjct: 80 RYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACY 117
>2h2z_A PP1AB, ORF1AB, replicase polyprotein 1AB; main protease, authentic
N and C termini, viral protein; 1.60A {Sars coronavirus}
PDB: 1uk2_A 1uk3_A 1uk4_A 1z1i_A 2a5a_A 1uj1_A* 2bx3_A
2bx4_A 2c3s_A 2a5i_A 2gt7_A* 2gx4_A* 2gz7_A* 2gz8_A*
2gz9_A 2duc_A 2hob_A* 2v6n_A* 2z3c_A* 2z3d_A* ...
Length = 306
Score = 24.6 bits (53), Expect = 8.8
Identities = 8/38 (21%), Positives = 17/38 (44%)
Query: 17 KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
M + + S+ + +Y + R G+ F ++ CY
Sbjct: 81 SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACY 118
>2q6f_A Fragment, infectious bronchitis virus (IBV) main protease;
coronavirus, 3C-like proteinase, michael acceptor
inhibitor, hydrolase; HET: 3IH; 2.00A {Infectious
bronchitis virus} PDB: 2q6d_A*
Length = 309
Score = 24.6 bits (53), Expect = 8.8
Identities = 7/38 (18%), Positives = 19/38 (50%)
Query: 17 KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
++ GA + + ++ + +Y + + N G+ F + Y
Sbjct: 81 RLKGAVLILQTAVANAETPKYKFVKANCGDSFTIACSY 118
>2zu2_A 3C-like proteinase; protease-inhibitor complex, hydrolase,
metal-binding, protea protease, hydrolase-hydrolase
inhibitor complex; 1.80A {Human coronavirus} PDB: 1p9s_A
Length = 302
Score = 24.5 bits (53), Expect = 9.4
Identities = 8/38 (21%), Positives = 16/38 (42%)
Query: 17 KMLGAQTHIGSENSDYQMEQYVYKRRNDGEIFVLVICY 54
M G I ++ ++ ++ GE F ++ CY
Sbjct: 80 TMHGVTLKIKVSQTNMHTPRHSFRTLKSGEGFNILACY 117
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
0.322 0.135 0.421
Gapped
Lambda K H
0.267 0.0653 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,687,198
Number of extensions: 85507
Number of successful extensions: 139
Number of sequences better than 10.0: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 30
Length of query: 112
Length of database: 6,701,793
Length adjustment: 76
Effective length of query: 36
Effective length of database: 4,579,797
Effective search space: 164872692
Effective search space used: 164872692
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.6 bits)