RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11637
(67 letters)
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 92.8 bits (231), Expect = 2e-25
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 2 TIDLKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCN 61
T LR YQEK+L + + R G IVLP G+GK+ V + A + L++
Sbjct: 85 TPYFDAEISLRDYQEKALERWLVDKR---GCIVLPTGSGKTHVAMAAINELSTPTLIVVP 141
Query: 62 SGV 64
+
Sbjct: 142 TLA 144
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 93.7 bits (233), Expect = 8e-25
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 2 TIDLKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCN 61
T LR YQEK+L + + R G IVLP G+GK+ V + A + L++
Sbjct: 85 TPYFDAEISLRDYQEKALERWLVDKR---GCIVLPTGSGKTHVAMAAINELSTPTLIVVP 141
Query: 62 S 62
+
Sbjct: 142 T 142
>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 = 43.3 bits (101), Expect = 8e-07
Identities = 12/64 (18%), Positives = 21/64 (32%), Gaps = 6/64 (9%)
Query: 5 LKPSAVLRPYQEKSLRKMFGNGRARSGVIV--LPCGAGKSLVGVTACCTVRKRALVLCNS 62
V R LR+ R V++ + G+GK+ V + C +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL-GSGKTWVALDVC---LSYKVQCKMD 181
Query: 63 GVVF 66
+F
Sbjct: 182 FKIF 185
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 37.1 bits (86), Expect = 8e-05
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 12/61 (19%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAC---------CTVRKRALVLCN 61
LRPYQ + + ++ +I LP G+GK+ V V + + +VL N
Sbjct: 34 LRPYQMEVAQPAL---EGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVN 90
Query: 62 S 62
Sbjct: 91 K 91
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication,
DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 35.2 bits (80), Expect = 5e-04
Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 9/63 (14%)
Query: 5 LKPSAV-LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAC----CTVRKRALVL 59
L+ + R YQE ++ + + +IVLP G GK+L+ + + L+L
Sbjct: 3 LRRDLIQPRIYQEV----IYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLML 58
Query: 60 CNS 62
+
Sbjct: 59 APT 61
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily
2 RNA helicase, ATP and dsRNA binding antiviral
signalling pathway; 3.00A {Anas platyrhynchos} PDB:
4a36_A*
Length = 556
Score = 33.0 bits (74), Expect = 0.003
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVVFC 67
R YQ + + ++ +I P G+GK+ V + C + + VVF
Sbjct: 8 ARSYQIELAQPAI---NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 61
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase;
HET: ANP; 2.14A {Mus musculus}
Length = 555
Score = 32.6 bits (73), Expect = 0.005
Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 3/56 (5%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVVF 66
R YQ + + ++ +I P G GK+ V + C K+ VVF
Sbjct: 5 PRNYQLELALPAK---KGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVF 57
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 32.3 bits (72), Expect = 0.006
Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 3/63 (4%)
Query: 5 LKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGV 64
L R YQ + + ++ +I P G GK+ V + C K+ V
Sbjct: 8 LYSPFKPRNYQLELALPAM---KGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKV 64
Query: 65 VFC 67
VF
Sbjct: 65 VFF 67
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 30.7 bits (68), Expect = 0.018
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVVFC 67
R YQ + + ++ +I P G+GK+ V + C + + VVF
Sbjct: 249 ARSYQIELAQPAI---NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 302
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 30.8 bits (69), Expect = 0.020
Identities = 11/58 (18%), Positives = 18/58 (31%), Gaps = 12/58 (20%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPC---GAGKSLVGVTACCTVR-----KRALVLC 60
L P+Q + R VL G GK++ +R L++
Sbjct: 154 LIPHQLNIAHDVGRRHAPR----VLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIV 207
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 29.3 bits (66), Expect = 0.054
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 11 LRPYQE---KSLRKMFGNGRARSGVIVLPCGAGK 41
R YQ+ + G+ R +I + G GK
Sbjct: 179 PRYYQQIAINRAVQSVLQGKKR-SLITMATGTGK 211
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 29.5 bits (65), Expect = 0.058
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVVFC 67
R YQ + + ++ +I P G+GK+ V + C + + VVF
Sbjct: 249 ARSYQIELAQPAI---NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 302
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 27.4 bits (61), Expect = 0.27
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVG 45
L P Q ++++K G ++ P G+GK+L+
Sbjct: 31 LNPPQTEAVKKGLLEGN--RLLLTSPTGSGKTLIA 63
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.1 bits (60), Expect = 0.36
Identities = 8/50 (16%), Positives = 14/50 (28%), Gaps = 14/50 (28%)
Query: 16 EKSLRKMFGNGRARS-------------GVIVLPCGA-GKSLVGVTACCT 51
+ F + ++ V +L + G V AC T
Sbjct: 1059 RGMFKDRFKDEPVQNDILQESFINTMSAWVNMLLISSSGPIKTPVGACAT 1108
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 26.2 bits (58), Expect = 0.75
Identities = 6/16 (37%), Positives = 8/16 (50%), Gaps = 2/16 (12%)
Query: 32 VIVL--PCGAGKSLVG 45
+I+L P KS V
Sbjct: 3 LIILEGPDCCFKSTVA 18
>4ubp_C Protein (urease (chain C)); bacillus pasteurii, nickel,
acetohydroxamic acid, metalloenzyme, hydrolase; HET:
KCX; 1.55A {Sporosarcina pasteurii} SCOP: b.92.1.1
c.1.9.2 PDB: 1s3t_C* 2ubp_C* 3ubp_C* 1ubp_C* 1ie7_C*
Length = 570
Score = 26.2 bits (57), Expect = 0.88
Identities = 12/67 (17%), Positives = 21/67 (31%), Gaps = 14/67 (20%)
Query: 7 PSAVLRPYQEKSLRKMFGN-GRARSGVIVL-------------PCGAGKSLVGVTACCTV 52
PSA + Q R+M+G G + G + + V C +
Sbjct: 464 PSASIPTPQPVMGRRMYGTVGDLIHDTNITFMSKSSIQQGVPAKLGLKRRIGTVKNCRNI 523
Query: 53 RKRALVL 59
K+ +
Sbjct: 524 GKKDMKW 530
>3olh_A MST, 3-mercaptopyruvate sulfurtransferase; structural genomics,
structural genomics consortium, SGC, RH fold; 2.50A
{Homo sapiens}
Length = 302
Score = 25.7 bits (57), Expect = 1.2
Identities = 16/55 (29%), Positives = 22/55 (40%), Gaps = 17/55 (30%)
Query: 7 PSAVLRPYQE--------KS---LRKMF-GNGRARSGVIVLPCGAGKSLVGVTAC 49
P V P+ + KS +R +F S +V CG+G VTAC
Sbjct: 219 PGTVNIPFTDFLSQEGLEKSPEEIRHLFQEKKVDLSKPLVATCGSG-----VTAC 268
>1okg_A Possible 3-mercaptopyruvate sulfurtransferase; rhodanese, prolyl
isomerase, catalytic triad, serine protease, leishmania
pyruvate; HET: CSR; 2.10A {Leishmania major} SCOP:
c.46.1.2 c.46.1.2 d.26.1.3
Length = 373
Score = 25.4 bits (56), Expect = 1.3
Identities = 15/72 (20%), Positives = 18/72 (25%), Gaps = 29/72 (40%)
Query: 2 TIDLK----PSAVLRPYQE-----------KS---LRKMFGNGRARSGVIVLP------C 37
D A PY +S +R +G C
Sbjct: 194 AADKMPGHIEGARNLPYTSHLVTRGDGKVLRSEEEIRHNIMTVVQGAGDAADLSSFVFSC 253
Query: 38 GAGKSLVGVTAC 49
G S GVTAC
Sbjct: 254 G---S--GVTAC 260
>2shp_A SHP-2, SYP, SHPTP-2; tyrosine phosphatase, insulin signaling, SH2
protein; HET: CAT; 2.00A {Homo sapiens} SCOP: c.45.1.2
d.93.1.1 d.93.1.1
Length = 525
Score = 24.8 bits (54), Expect = 2.4
Identities = 5/30 (16%), Positives = 13/30 (43%)
Query: 20 RKMFGNGRARSGVIVLPCGAGKSLVGVTAC 49
+ +G+++ +++ C K VG
Sbjct: 157 KGESNDGKSKVTHVMIRCQELKYDVGGGER 186
>4feh_A Oxidoreductase DPRE1; alpha+beta,
decaprenylphosphoryl-beta-D-RIBO; HET: FAD; 2.04A
{Mycobacterium tuberculosis} PDB: 4fdo_A* 4fdn_A*
4fdp_A* 4ff6_A*
Length = 481
Score = 24.7 bits (53), Expect = 2.6
Identities = 6/44 (13%), Positives = 14/44 (31%)
Query: 6 KPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAC 49
+ + P E ++ + + G + G G+S
Sbjct: 43 VANVLRTPDAEMIVKAVARVAESGGGRGAIARGLGRSYGDNAQN 86
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 24.4 bits (54), Expect = 3.0
Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 12/52 (23%)
Query: 1 MTIDLKPSAVL---------RPYQEKSLRKMFGNGRARSGVIVLPCGAGKSL 43
+ ++ VL RP QE+ + + ++V+P G GKSL
Sbjct: 7 LNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDC---LVVMPTGGGKSL 55
>3la4_A Urease; JACK bean, hydrolase, ME binding, nickel; HET: CME KCX;
2.05A {Canavalia ensiformis}
Length = 840
Score = 24.5 bits (53), Expect = 3.1
Identities = 12/67 (17%), Positives = 24/67 (35%), Gaps = 14/67 (20%)
Query: 7 PSAVLRPYQEKSLRKMFGN-GRARS-------------GVIVLPCGAGKSLVGVTACCTV 52
P+A + + +R M+G G+A + + G K + V+ +
Sbjct: 734 PNASIPTPEPVKMRPMYGTLGKAGGALSIAFVSKAALDQRVNVLYGLNKRVEAVSNVRKL 793
Query: 53 RKRALVL 59
K + L
Sbjct: 794 TKLDMKL 800
>2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase, nucleotide-binding; 3.20A {Archaeoglobus
fulgidus}
Length = 171
Score = 23.4 bits (51), Expect = 7.5
Identities = 4/34 (11%), Positives = 10/34 (29%), Gaps = 3/34 (8%)
Query: 17 KSLRKMFGNGRARSGVIVLPCGAGKS---LVGVT 47
++L+K+ + V L +
Sbjct: 85 QALQKLAERLAEKGAVGCLMAKGEGKVFVVTFSG 118
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
0.327 0.140 0.433
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,018,585
Number of extensions: 49295
Number of successful extensions: 154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 151
Number of HSP's successfully gapped: 23
Length of query: 67
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 29
Effective length of database: 5,640,795
Effective search space: 163583055
Effective search space used: 163583055
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)