RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13859
(108 letters)
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A
{Saccharomyces cerevisiae}
Length = 1010
Score = 95.2 bits (236), Expect = 2e-24
Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 13/101 (12%)
Query: 4 EVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWA--------MQK----EGIIVRCIQQ 51
++ I K +E + ++ L++VVYEW + EG ++R ++
Sbjct: 909 KIAKIMKDSKIEVV-EKDYVESFRHELMEVVYEWCRGATFTQICKMTDVYEGSLIRMFKR 967
Query: 52 LSELLRSIKDGAKIFGERDLPLKMDQAIQVIKRDIVFAPSL 92
L EL++ + D A G L KM+ +++I RDIV A SL
Sbjct: 968 LEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIVSAGSL 1008
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix,
antiparallel-coiled-COI domain, ATP-binding, helicase,
hydrolase; 3.39A {Saccharomyces cerevisiae}
Length = 1108
Score = 94.9 bits (235), Expect = 3e-24
Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 13/101 (12%)
Query: 4 EVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWA--------MQK----EGIIVRCIQQ 51
++ I K +E + ++ L++VVYEW + EG ++R ++
Sbjct: 1007 KIAKIMKDSKIEVV-EKDYVESFRHELMEVVYEWCRGATFTQICKMTDVYEGSLIRMFKR 1065
Query: 52 LSELLRSIKDGAKIFGERDLPLKMDQAIQVIKRDIVFAPSL 92
L EL++ + D A G L KM+ +++I RDIV A SL
Sbjct: 1066 LEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIVSAGSL 1106
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 91.8 bits (227), Expect = 3e-23
Identities = 36/102 (35%), Positives = 52/102 (50%), Gaps = 13/102 (12%)
Query: 4 EVESIEKKHGVERDKSSEE-ADNLNFGLVQVVYEWA--------MQK----EGIIVRCIQ 50
++ + H + + E D F ++ VVYEWA M+ EG +VR I
Sbjct: 894 KMLCVFNTHQIPLTQDEAEFLDRKRFAMMNVVYEWARGLSFKEIMEMSPEAEGTVVRVIT 953
Query: 51 QLSELLRSIKDGAKIFGERDLPLKMDQAIQVIKRDIVFAPSL 92
L E+ R +K + I G L +KM +A ++IKRDIVFA SL
Sbjct: 954 WLDEICREVKTASIIIGNSTLHMKMSRAQELIKRDIVFAASL 995
>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 = 30.0 bits (67), Expect = 0.11
Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 28/85 (32%)
Query: 5 VESIEKKHG--VERDKSSEEADNLNFGLVQVVYEWAMQKEGII---VRCIQQLSELLRSI 59
VE + K+ G VE N N Q V +R + ++ +L I
Sbjct: 1830 VERVGKRTGWLVE-------IVNYNVENQQYV----------AAGDLRALDTVTNVLNFI 1872
Query: 60 KDGAKIFGERDL-PLKMDQAIQVIK 83
K KI D+ L+ +++ ++
Sbjct: 1873 KLQ-KI----DIIELQKSLSLEEVE 1892
Score = 28.5 bits (63), Expect = 0.44
Identities = 16/69 (23%), Positives = 27/69 (39%), Gaps = 26/69 (37%)
Query: 53 SELLRSIKDG-AK---IFG----------E-RDL-----PL------KMDQAIQVIKRDI 86
S L R++ +G A+ IFG E RDL L + + + R
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 87 VFAPSLWTK 95
+ A ++T+
Sbjct: 203 LDAEKVFTQ 211
Score = 27.3 bits (60), Expect = 0.97
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 42 EGIIVRCIQQLSELLRSIKDGAKIFGE 68
+I + LSEL+R+ D K+F +
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQ 211
>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 = 28.0 bits (61), Expect = 0.51
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 13/36 (36%)
Query: 50 QQLSELLRSIK----DGAKIFGERDLP-LKMDQAIQ 80
Q L +L S+K D A P L + ++
Sbjct: 20 QALKKLQASLKLYADDSA--------PALAIKATME 47
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 26.7 bits (58), Expect = 1.6
Identities = 19/100 (19%), Positives = 34/100 (34%), Gaps = 19/100 (19%)
Query: 4 EVESI-EKKHGVER---------DKSSEEADNLNFGLVQVVYEWAM--------QKEGII 45
E++ I K V K E ++++ Y++ M Q +
Sbjct: 50 EIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 46 VRCIQQLSELLRSIKDGAKIFGER-DLPLKMDQAIQVIKR 84
I+Q L + AK R LK+ QA+ ++
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP 149
Score = 24.8 bits (53), Expect = 9.2
Identities = 15/103 (14%), Positives = 35/103 (33%), Gaps = 20/103 (19%)
Query: 3 IEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWAMQKEGIIVRCIQQLSELLRSIKDG 62
I+ E + + E+ D L + QV ++ + + + +L + L ++
Sbjct: 98 IKTEQRQPS--MMTRMYIEQRDRL-YNDNQVFAKYNVSRL----QPYLKLRQALLELRPA 150
Query: 63 AKI-------FGERDLPLKM--DQAIQVIKRDIVFAPSLWTKL 96
+ G+ + L + +Q +F W L
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF----WLNL 189
>3fkd_A L-threonine-O-3-phosphate decarboxylase; structural genomic, ,
structural genomics, PSI-2, protein structure
initiative; 2.50A {Porphyromonas gingivalis}
Length = 350
Score = 26.3 bits (59), Expect = 2.3
Identities = 3/28 (10%), Positives = 15/28 (53%), Gaps = 7/28 (25%)
Query: 27 NFGLVQV-------VYEWAMQKEGIIVR 47
F L+++ + ++ +++ +++R
Sbjct: 278 TFFLLRLKKGTAAELKKYMLEEYNMLIR 305
>2x0d_A WSAF; GT4 family, transferase; HET: MSE; 2.28A {Geobacillus
stearothermophilus} PDB: 2x0f_A* 2x0e_A*
Length = 413
Score = 25.9 bits (56), Expect = 3.7
Identities = 17/82 (20%), Positives = 27/82 (32%), Gaps = 15/82 (18%)
Query: 28 FGLVQVVYEWA--MQKEG----IIVRCIQQLSELLRSIKDGAKIFGERDLPLKMD----- 76
FG + + + II+ + L+S K + E D +
Sbjct: 62 FGGISTALKLFEQFDNKKFKKRIILTDATPNPKDLQSFKSFKYVMPEEDKDFALQIVPFN 121
Query: 77 ----QAIQVIKRDIVFAPSLWT 94
+ I V K DI A + WT
Sbjct: 122 DRYNRTIPVAKHDIFIATAWWT 143
>1fg7_A Histidinol phosphate aminotransferase; HISC, histidine
biosynthesis, pyridoxal PH montreal-kingston bacterial
structural genomics initiative; HET: PMP; 1.50A
{Escherichia coli} SCOP: c.67.1.1 PDB: 1fg3_A* 1gew_A*
1gex_A* 1gey_A* 1iji_A*
Length = 356
Score = 25.6 bits (57), Expect = 3.8
Identities = 7/26 (26%), Positives = 15/26 (57%), Gaps = 6/26 (23%)
Query: 27 NFGLVQV-----VYEWAMQKEGIIVR 47
N+ L + V++ ++ +GII+R
Sbjct: 298 NYILARFKASSAVFK-SLWDQGIILR 322
>3p1t_A Putative histidinol-phosphate aminotransferase; PLP-dependent
transferase-like, structural genomics, joint C
structural genomics, JCSG; HET: TLA; 2.60A {Burkholderia
pseudomallei}
Length = 337
Score = 25.6 bits (57), Expect = 3.9
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 8/38 (21%)
Query: 27 NFGLVQV-----VYEWAMQKEGIIVRCIQQ--LSELLR 57
NF LV+ +++ GI V+ Q L +R
Sbjct: 278 NFVLVENAAGERTLR-FLRERGIQVKDAGQFGLHHHIR 314
>3euc_A Histidinol-phosphate aminotransferase 2; YP_297314.1, structur
genomics, joint center for structural genomics, JCSG;
HET: MSE; 2.05A {Ralstonia eutropha JMP134}
Length = 367
Score = 24.8 bits (55), Expect = 5.9
Identities = 6/35 (17%), Positives = 17/35 (48%), Gaps = 6/35 (17%)
Query: 27 NFGLVQV-----VYEWAMQKEGIIVRCIQQLSELL 56
NF L +V ++ + ++++ + ++ LL
Sbjct: 307 NFLLARVPDAAQTFD-RLLARKVLIKNVSKMHPLL 340
>3get_A Histidinol-phosphate aminotransferase; NP_281508.1, structural
genomics, joint center for structural genomics; HET: LLP
MSE; 2.01A {Campylobacter jejuni subsp}
Length = 365
Score = 24.8 bits (55), Expect = 7.8
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 17/49 (34%)
Query: 15 ERDKSSEEADNL---------NFGLVQV-------VYEWAMQKEGIIVR 47
+ + E A NF + E + K+GII+R
Sbjct: 286 QMELYKEFAKKHNIKIIDSYTNFITYFFDEKNSTDLSE-KLLKKGIIIR 333
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
0.319 0.137 0.398
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,654,043
Number of extensions: 86517
Number of successful extensions: 195
Number of sequences better than 10.0: 1
Number of HSP's gapped: 192
Number of HSP's successfully gapped: 19
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
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 (24.0 bits)