RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2073
(126 letters)
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 139 bits (353), Expect = 7e-40
Identities = 51/95 (53%), Positives = 68/95 (71%), Gaps = 1/95 (1%)
Query: 28 LLQVAHLEKDGR-YLTIKDNQVVQLHPSTCLDHKPEWVVYNEFVLTTKNYIRTVTDVKPE 86
+QVA + Y+T+KDNQ V +HPST L H EWV+YNEFVLT+KNYIRTVT V+PE
Sbjct: 657 FMQVAKKRSGAKGYITVKDNQDVLIHPSTVLGHDAEWVIYNEFVLTSKNYIRTVTSVRPE 716
Query: 87 WLIKLAPQYYELQNFPQCEAKRQLEILQAKMETRQ 121
WLI++AP YY+L NF + + K LE ++ K++
Sbjct: 717 WLIEIAPAYYDLSNFQKGDVKLSLERIKEKVDRLN 751
>3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding, hydrolase,
mRNA processing, splicing, nucleotide-binding, nucleus,
phosphoprotein, SPLI; 2.10A {Homo sapiens}
Length = 270
Score = 128 bits (324), Expect = 4e-38
Identities = 33/85 (38%), Positives = 49/85 (57%), Gaps = 2/85 (2%)
Query: 30 QVAHLEKDGRYLTIKDNQVVQLHPSTCL-DHKPEWVVYNEFVLTTKNYIRTVTDVKPEWL 88
A + Y T+ D QVV +HPS+ L + +PEWVVY+E VLTTK Y+R VT + P WL
Sbjct: 180 NAAKKDPQEGYRTLIDQQVVYIHPSSALFNRQPEWVVYHELVLTTKEYMREVTTIDPRWL 239
Query: 89 IKLAPQYYELQNF-PQCEAKRQLEI 112
++ AP ++++ Q +
Sbjct: 240 VEFAPAFFKVLEVDLQGDHGLSAWS 264
>4djd_D C/Fe-SP, corrinoid/iron-sulfur protein small subunit; TIM barrel,
rossmann fold, B12-dependent methyltransferase; HET:
B12; 2.38A {Moorella thermoacetica} PDB: 4dje_D* 4djf_D*
Length = 323
Score = 28.1 bits (62), Expect = 0.87
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 80 VTDVKPEWLIKLAPQYYELQNFPQCEAKRQLEILQAKM 117
V D+ P+W L + ++ N P A++ + A +
Sbjct: 60 VQDIVPDWPDVLKDPFTDVINEPGRWAQKCVAEYGADL 97
>2q2g_A HSP40 protein, heat shock 40 kDa protein, putative (fragment);
malaria, structural genomics, structural genomics
consortium, SGC; 1.90A {Cryptosporidium parvum iowa II}
Length = 180
Score = 27.6 bits (62), Expect = 0.93
Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 6/32 (18%)
Query: 23 TLSESLL----QVAHLEKDGRYLTIKDNQVVQ 50
L +L V L D R L I ++V
Sbjct: 102 PLVRALTGFTCPVTTL--DNRNLQIPIKEIVN 131
>1x5d_A Protein disulfide-isomerase A6; PDIA6, ERP5, TXNDC7, thioredoxin
like domain, redox, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 133
Score = 27.0 bits (60), Expect = 1.3
Identities = 7/40 (17%), Positives = 16/40 (40%), Gaps = 11/40 (27%)
Query: 70 VLTTKNYIRTVTDVKPEWLIK-----------LAPQYYEL 98
LT ++ + V D + W+++ L P++
Sbjct: 11 ELTDDSFDKNVLDSEDVWMVEFYAPWCGHCKNLEPEWAAA 50
>3agx_A DNAJ homolog subfamily B member 1; chaperone; 1.85A {Homo sapiens}
PDB: 3agy_A 3agz_A 2qld_A
Length = 181
Score = 27.2 bits (61), Expect = 1.4
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 9/39 (23%)
Query: 19 LFYS---TLSESLL----QVAHLEKDGRYLTIKDNQVVQ 50
+ Y +L E+L V L DGR + + V++
Sbjct: 95 VIYPARISLREALCGCTVNVPTL--DGRTIPVVFKDVIR 131
>1c3g_A Heat shock protein 40; beta sheets, short helices, chaperone; 2.70A
{Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 PDB:
2b26_A
Length = 170
Score = 26.8 bits (60), Expect = 1.8
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 6/32 (18%)
Query: 23 TLSESLL----QVAHLEKDGRYLTIKDNQVVQ 50
+ ESLL + + DGR L + Q VQ
Sbjct: 96 SFKESLLGFSKTIQTI--DGRTLPLSRVQPVQ 125
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 26.6 bits (58), Expect = 2.0
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 22/65 (33%)
Query: 35 EKDGRYLTIKDNQVVQLH-PSTCLDHKPEWVVYNE-----------FVLTTKNYIRTVTD 82
++ GR N + L P C + P+ +V VL+ K + D
Sbjct: 9 KRAGRR---GPNLNIVLTCPE-CKVYPPK-IVERFSEGDVVCALCGLVLSDK-----LVD 58
Query: 83 VKPEW 87
+ EW
Sbjct: 59 TRSEW 63
>2dml_A Protein disulfide-isomerase A6; thioredoxin domain-containing
protein 7, endoplasmic reticulum, redox-active center,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 130
Score = 25.8 bits (57), Expect = 2.8
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 11/40 (27%)
Query: 70 VLTTKNYIRTVTDVKPEWLIK-----------LAPQYYEL 98
LT N+ R V WL++ L P++ +
Sbjct: 21 ELTPSNFNREVIQSDGLWLVEFYAPWCGHCQRLTPEWKKA 60
>3q6o_A Sulfhydryl oxidase 1; protein disulfide isomerase, thioredoxin,
thioredoxin fold, oxidoreductase, reductive
methylation; HET: MLY; 2.05A {Homo sapiens}
Length = 244
Score = 26.1 bits (57), Expect = 3.5
Identities = 6/40 (15%), Positives = 11/40 (27%), Gaps = 11/40 (27%)
Query: 70 VLTTKNYIRTVTDVKPEWLIK-----------LAPQYYEL 98
+L V + W ++ AP + L
Sbjct: 16 LLQADTVRGAVLGSRSAWAVEFFASWCGHCIAFAPTWXAL 55
>2nyg_A YOKD protein; PFAM02522, NYSGXRC, aminoglycoside 3-N-
acetyltransferase, PSI-2, structural genomics, protein
structure initiative; HET: COA; 2.60A {Bacillus
subtilis} SCOP: c.140.1.2
Length = 273
Score = 25.9 bits (56), Expect = 4.0
Identities = 12/72 (16%), Positives = 21/72 (29%), Gaps = 5/72 (6%)
Query: 7 PFGFIYNKNYSILFYSTLSESLLQVAHLEKDGRYLTIKDNQVVQLHPSTCLDHKPEWVVY 66
P G +Y + +L +S E Y I + ++ K W Y
Sbjct: 160 PLGKLYIRESYVLLLGADFDSSTCFHLAEYRIPYQKIINRGAP-----IIVEGKRVWKEY 214
Query: 67 NEFVLTTKNYIR 78
E + +
Sbjct: 215 KELEFREELFQE 226
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, PR structure
initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus
brevis} PDB: 3n3d_A
Length = 334
Score = 25.7 bits (57), Expect = 5.0
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 97 ELQNFPQCEAKRQLEILQAKMETRQY 122
+Q P A++ LE L + R +
Sbjct: 309 LIQQLPVGSAQQSLEQLTRLLLRRDH 334
>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel,
rossmann-fold, kinase fold; 1.95A {Saccharomyces
cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB:
1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*
Length = 511
Score = 25.4 bits (54), Expect = 7.6
Identities = 9/83 (10%), Positives = 22/83 (26%), Gaps = 4/83 (4%)
Query: 1 MPYQEIPFGFIYNKNYSILFYSTLSESLLQVAHLEKDGRYLTIKDNQVVQLHPSTCLDHK 60
P + I N + LS +L L+ G + + +
Sbjct: 388 NPPRPKQGFSIVLGNSLTVSREQLSIAL-LSTFLQFGGGRYYKIFEHNNKTELLSLI--- 443
Query: 61 PEWVVYNEFVLTTKNYIRTVTDV 83
+++ ++ + V
Sbjct: 444 QDFIGSGSGLIIPDQWEDDKDSV 466
>3o0q_A Ribonucleoside-diphosphate reductase; alpha/beta barrel,
adenosylcobalamin dependent, ribonucle reductase; HET:
TTP GDP ADN; 1.80A {Thermotoga maritima} PDB: 1xjf_A*
1xjg_A* 1xje_A* 1xjk_A* 1xjm_A* 1xjn_A* 3o0n_A* 3o0o_A*
1xjj_A*
Length = 644
Score = 25.0 bits (55), Expect = 9.4
Identities = 3/19 (15%), Positives = 6/19 (31%)
Query: 74 KNYIRTVTDVKPEWLIKLA 92
K D+ P + +
Sbjct: 566 KKVFVVALDIDPMDHLLMQ 584
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 25.0 bits (55), Expect = 9.6
Identities = 9/42 (21%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 86 EWLIKLAPQYYE-----LQNFPQCEAKRQLEILQAKMETRQY 122
++ ++A + L+ P+ +A+ LE+L + R+Y
Sbjct: 301 DYAAEIAKDMIKKANEALRILPKSKARMDLELLAKFIVEREY 342
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
0.321 0.137 0.416
Gapped
Lambda K H
0.267 0.0542 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,872,730
Number of extensions: 93380
Number of successful extensions: 251
Number of sequences better than 10.0: 1
Number of HSP's gapped: 250
Number of HSP's successfully gapped: 24
Length of query: 126
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 44
Effective length of database: 4,412,271
Effective search space: 194139924
Effective search space used: 194139924
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 (21.8 bits)
S2: 51 (23.9 bits)