RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9269
(148 letters)
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 76.4 bits (188), Expect = 3e-17
Identities = 22/129 (17%), Positives = 40/129 (31%), Gaps = 27/129 (20%)
Query: 1 ERYEKLVEGR-EPVESSL--HRHLVEHLNSEIVLKTISDVSVAVEWLRSTFFFVRVLSNP 57
++ + G E + S L HL H S I + ++ TFFF + +
Sbjct: 392 IAVKRYIFGEPERITSKLGVETHLRFHSLSIICDGYAKTLEELEDFFADTFFFKQNEISL 451
Query: 58 GHYGFPAGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMNDGFDILPTVTGSIMAKFC 117
+ R + L + ++ PT GS++++
Sbjct: 452 SYE----------------------LERVVRQLENWGMVVEAAHLA--PTKLGSLVSRLY 487
Query: 118 IGFNTMVAF 126
I T F
Sbjct: 488 IDPLTGFIF 496
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 75.3 bits (185), Expect = 6e-17
Identities = 27/151 (17%), Positives = 45/151 (29%), Gaps = 24/151 (15%)
Query: 1 ERYEKLVEGR-EPVESSL--HRHLVEHLNSEIVLKTISDVSVAVEWLRSTFFFVRVLSNP 57
E + G+ E + S L +L + + I S V ++++ +TF+ +
Sbjct: 391 EVMNHYIFGKPEKLFSQLSNESNLRSQVLALIATFGYSTVEEILKFISNTFYAYQ---RK 447
Query: 58 GHYGFPAGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMNDGFDILPTVTGSIMAKFC 117
Y L L I ++ I P G AK
Sbjct: 448 DTYSL-----------------EEKIRNILYFLLENEFIEISLEDKIRPLSLGIRTAKLY 490
Query: 118 IGFNTMVAF-TGWEKAQKDLALLTTLPLATS 147
I T F E+ KD + L +
Sbjct: 491 IDPYTAKMFKDKMEEVVKDPNPIGIFHLISL 521
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 60.9 bits (148), Expect = 7e-12
Identities = 15/126 (11%), Positives = 30/126 (23%), Gaps = 28/126 (22%)
Query: 3 YEKLVEGREPVESSLH--RHLVEHLNSEIVLKTISDVSVAVEWLRSTFFFVRVLSNPGHY 60
+ ++ EP+ES L R L + + + + +++
Sbjct: 416 KKYVLSDVEPIESKLGSERAFYTFLLGILSAEGNLSEKQLENFAYESLLAKQLVDV---- 471
Query: 61 GFPAGLSSEELQSRLQGKNSGLCMRELNGLSRYNLITMNDGFDILPTVTGSIMAKFCIGF 120
R + L ++ I T G +A I
Sbjct: 472 ---------------------YFDRAIRWLLEHSFIKEEGN-TFALTNFGKRVADLYINP 509
Query: 121 NTMVAF 126
T
Sbjct: 510 FTADII 515
>2q0z_X Protein Pro2281; SEC63, SEC, NESG, HR1979, structural genomics,
translocase, northeast structural genomics consortium,
PSI-2; 2.00A {Homo sapiens} SCOP: a.289.1.1 b.1.18.22
Length = 339
Score = 36.4 bits (83), Expect = 0.002
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 4/38 (10%)
Query: 89 GLSRYNLITMNDGFDILPTVTGSIMAKFCIGFNTMVAF 126
G ++ + D+ P G I A + I + T+ F
Sbjct: 2 GHHHHH----HSHMDVAPLNLGMIAAYYYINYTTIELF 35
>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 = 31.9 bits (72), Expect = 0.060
Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 25/97 (25%)
Query: 1 ERYEKLVEGREPVESS---LHRHLVEHLNSEIVLKTISDVSVAVEWLR------STFFFV 51
+ Y LV + ++ S L + L++E V ++ +EWL + +
Sbjct: 178 QTYHVLVG--DLIKFSAETLSELIRTTLDAEKVFTQGLNI---LEWLENPSNTPDKDYLL 232
Query: 52 RV-LSNP-------GHYGFPA---GLSSEELQSRLQG 77
+ +S P HY A G + EL+S L+G
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Score = 29.6 bits (66), Expect = 0.42
Identities = 18/91 (19%), Positives = 28/91 (30%), Gaps = 28/91 (30%)
Query: 40 AVEWL-----RSTFFFVRVLSNP---------GHYGFPA------GLSSEELQSRLQGKN 79
A+ L R + P G P+ L+ E++Q + N
Sbjct: 299 AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE-GVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 80 SGLCMRELNGLSRYNLITMNDGFDILPTVTG 110
S L + +S N G L V+G
Sbjct: 358 SHLPAGKQVEISLVN------GAKNL-VVSG 381
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA
helicase, rnpase, RNA unwindase, molecular model mRNA
splicing; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A*
3hib_A
Length = 328
Score = 31.4 bits (70), Expect = 0.074
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 98 MNDGFDILPTVTGSIMAKFCIGFNTMVAFT 127
M I G I + + + F T+ +F
Sbjct: 3 MEATEIISTLSNGLIASHYGVSFFTIQSFV 32
>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 = 31.0 bits (69), Expect = 0.13
Identities = 28/127 (22%), Positives = 44/127 (34%), Gaps = 26/127 (20%)
Query: 14 ESSLHRHLVEHLNSEIVLKTISDVSVAVEWLRSTFFF--VRVLSNPGHYG----FPAG-L 66
E +LHR +V+H N + KT + +L F+ L N H F L
Sbjct: 442 EYALHRSIVDHYN---IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 67 SSEELQSRLQGKNSGLCMRE-----LNGLSRY-NLITMNDG---------FDILPTV-TG 110
L+ +++ ++ L L Y I ND D LP +
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Query: 111 SIMAKFC 117
I +K+
Sbjct: 559 LICSKYT 565
>3qi7_A Putative transcriptional regulator; periplasmic binding
protein-like, structural genomics, joint for structural
genomics, JCSG; HET: MSE; 1.86A {Clostridium difficile}
Length = 371
Score = 27.8 bits (61), Expect = 1.4
Identities = 10/52 (19%), Positives = 14/52 (26%), Gaps = 5/52 (9%)
Query: 30 VLKTISDVSVAVEWLRSTFFFVRVLSNPG-----HYGFPAGLSSEELQSRLQ 76
L DV++ V G HY L + RL+
Sbjct: 127 QLSQFVDVNLGVSAEERGKVLAERSKEMGAKAFIHYASTDDLKDVNIAKRLE 178
>3dwd_A ADP-ribosylation factor GTPase-activating protein; GAP, structural
genomics consorti ER-golgi transport, golgi apparatus,
GTPase activation; 2.40A {Homo sapiens}
Length = 147
Score = 26.4 bits (58), Expect = 3.0
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 1 ERYEKLVEGREPVESS 16
++ L EGRE S
Sbjct: 132 DKVVALAEGREWSLES 147
>1p99_A Hypothetical protein PG110; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.70A {Staphylococcus aureus subsp}
SCOP: c.94.1.1
Length = 295
Score = 25.8 bits (57), Expect = 6.1
Identities = 8/24 (33%), Positives = 10/24 (41%)
Query: 85 RELNGLSRYNLITMNDGFDILPTV 108
R L L LI + F + TV
Sbjct: 151 RALKLLEAAGLIKLKKDFGLAGTV 174
>1e2t_A NAT, N-hydroxyarylamine O-acetyltransferase; acetyl COA dependent;
2.8A {Salmonella typhimurium} SCOP: d.3.1.5
Length = 284
Score = 25.4 bits (55), Expect = 7.7
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 4/50 (8%)
Query: 59 HYGFPAGLSSEELQSRL-QGKNSGLCMRELNGLSRYNLITMNDGFDILPT 107
L L+ +L + G C ELNGL L + GF++
Sbjct: 47 LLPREIQLDETALEEKLLYARRGGYCF-ELNGLFERALRDI--GFNVRSL 93
>3k2d_A ABC-type metal ION transport system, periplasmic; alpha/beta
domain, immune system; 2.60A {Vibrio vulnificus}
Length = 237
Score = 25.3 bits (56), Expect = 9.6
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 85 RELNGLSRYNLITMNDGFDILPTV 108
R L L + LI + +L TV
Sbjct: 119 RSLLLLEQQGLIKLRPEVGLLATV 142
>3d9w_A Putative acetyltransferase; arylamine N-acetyltransferase, NAT,
X-RAY diffraction, acyltransferase; 2.70A {Nocardia
farcinica}
Length = 293
Score = 25.4 bits (55), Expect = 9.8
Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 4/47 (8%)
Query: 59 HYGFPAGLSSEELQSRL-QGKNSGLCMRELNGLSRYNLITMNDGFDI 104
G P L LQ +L + G C E GL L + GF +
Sbjct: 57 VLGRPVRLDLATLQDKLVHSRRGGYCY-ENAGLFAAALERL--GFGV 100
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
0.320 0.135 0.396
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,222,491
Number of extensions: 124004
Number of successful extensions: 233
Number of sequences better than 10.0: 1
Number of HSP's gapped: 230
Number of HSP's successfully gapped: 19
Length of query: 148
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 63
Effective length of database: 4,328,508
Effective search space: 272696004
Effective search space used: 272696004
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: 53 (24.7 bits)