RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8114
(111 letters)
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 0.14
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 9/34 (26%)
Query: 49 TIYELSNAMESYIDDNGSMDQFVNP--EINQLME 80
+ +L +++ Y DD+ P I ME
Sbjct: 21 ALKKLQASLKLYADDSA-------PALAIKATME 47
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken
structural genomics/proteomics initiative, RSGI; NMR
{Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A
Length = 110
Score = 27.7 bits (62), Expect = 0.49
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 78 LMENGVKRQDMDHVFLRYGKITS 100
L VK+ D++ +F +YG++
Sbjct: 35 LNTALVKKSDVETIFSKYGRVAG 57
>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 = 27.3 bits (60), Expect = 1.0
Identities = 22/111 (19%), Positives = 35/111 (31%), Gaps = 42/111 (37%)
Query: 6 PLVLFLMVTLFMKKSLAMPPLQCTPGFVDQ--IPFKIRKICVALS---------TIYELS 54
P L+ + K + G +DQ IPF RK+ + + L
Sbjct: 383 PQSLYGLNLTLRK-------AKAPSG-LDQSRIPFSERKLKFSNRFLPVASPFHSHL-LV 433
Query: 55 NAMESYIDDNGSMDQFVNPEINQLMENGV--KRQDMD-HVFLRYGKITSDG 102
A + D L++N V +D+ V+ T DG
Sbjct: 434 PASDLINKD--------------LVKNNVSFNAKDIQIPVYD-----TFDG 465
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 26.4 bits (59), Expect = 1.1
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 81 NGVKRQDMDHVFLRYGKITS 100
V ++D+ +F YG I
Sbjct: 21 KNVSKEDLFRIFSPYGHIMQ 40
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription
termination, RNA processi recognition, RRM; HET: CAF;
1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A
Length = 97
Score = 26.5 bits (59), Expect = 1.2
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 78 LMENGVKRQDMDHVFLRYGKITS 100
L V ++D+ +F YG I
Sbjct: 30 LPLKNVSKEDLFRIFSPYGHIMQ 52
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 26.4 bits (58), Expect = 1.5
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 81 NGVKRQDMDHVFLRYGKITS 100
NGV R + V + G + +
Sbjct: 37 NGVSRNQLLPVLEKCGLVDA 56
>2kep_A General secretion pathway protein G; methylation, transport,
transport protein; NMR {Pseudomonas aeruginosa}
Length = 110
Score = 26.1 bits (57), Expect = 1.7
Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 11/71 (15%)
Query: 42 KICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQDMDHVFLRY------ 95
K+ VA I ++ A++ Y DN + P Q +E VK+ + +
Sbjct: 8 KVTVAKGDIKAIAAALDMYKLDNFAY-----PSTQQGLEALVKKPTGNPQPKNWNKDGYL 62
Query: 96 GKITSDGWVSP 106
K+ D W +P
Sbjct: 63 KKLPVDPWGNP 73
>1t92_A General secretion pathway protein G; domain-swapping, zinc,
pseudopilin, protein transport; 1.60A {Klebsiella
pneumoniae} SCOP: d.24.1.3
Length = 116
Score = 25.8 bits (56), Expect = 2.2
Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 11/73 (15%)
Query: 42 KICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQDMDHVFLRYG----- 96
+S + L A++ Y DN P Q ++ V + Y
Sbjct: 8 DRQKVVSDLVALEGALDMYKLDNSRY-----PTTEQGLQALVSAPSAEPHARNYPEGGYI 62
Query: 97 -KITSDGWVSPVH 108
++ D W S
Sbjct: 63 RRLPQDPWGSDYQ 75
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA
binding domain, RNA recognition motif, SP factor, snRNP,
spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP:
d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Length = 292
Score = 26.1 bits (58), Expect = 2.3
Identities = 8/49 (16%), Positives = 17/49 (34%)
Query: 52 ELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQDMDHVFLRYGKITS 100
++SN +E + + + I L + + F +G I
Sbjct: 192 KVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEK 240
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein
biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus}
PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*
Length = 878
Score = 24.9 bits (55), Expect = 7.7
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 45 VALSTIYELSNAMESYIDDNGS 66
A++ + E NA+ Y D
Sbjct: 743 TAIAALMEFLNALYEYRKDRPV 764
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP
replication, DNA-binding, hydrolase, nucleotide-B SOS
response; HET: DNA; 1.80A {Escherichia coli} PDB:
2is6_A* 2is2_A* 2is1_A* 2is4_A*
Length = 647
Score = 24.7 bits (55), Expect = 8.4
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 69 QFVNPEINQLMENGVKRQDM 88
+FV I +NG +
Sbjct: 331 RFVVNRIKTWQDNGGALAEC 350
>2fok_A R.FOKI, FOKI restriction endonuclease; nucleic acid recognition,
DNA-binding protein, type IIS restriction endonuclease;
2.30A {Planomicrobium okeanokoites} SCOP: a.4.5.12
a.4.5.12 a.4.5.12 c.52.1.12 PDB: 1fok_A*
Length = 579
Score = 24.7 bits (53), Expect = 9.8
Identities = 9/32 (28%), Positives = 18/32 (56%), Gaps = 4/32 (12%)
Query: 46 ALSTIYELS----NAMESYIDDNGSMDQFVNP 73
A S Y L + M+ Y+++N + ++ +NP
Sbjct: 470 AYSGGYNLPIGQADEMQRYVEENQTRNKHINP 501
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
0.325 0.139 0.430
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,742,283
Number of extensions: 89133
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 289
Number of HSP's successfully gapped: 22
Length of query: 111
Length of database: 6,701,793
Length adjustment: 75
Effective length of query: 36
Effective length of database: 4,607,718
Effective search space: 165877848
Effective search space used: 165877848
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)