RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17313
(197 letters)
>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop,
OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}
Length = 396
Score = 317 bits (815), Expect = e-109
Identities = 129/188 (68%), Positives = 148/188 (78%), Gaps = 2/188 (1%)
Query: 9 IEHLNKLNLLTAKTQIYLVNLSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQ 68
IE LNK LT+K +YLVNLS KDYI+KKNKWL KIKEWVD DPGA +IPFSG E +
Sbjct: 211 IEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALVIPFSGALELK 270
Query: 69 LVDMPDDERQRYLDEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQA 128
L ++ +ERQ+YL+ S L KII G+ +LQL+YFFTAG DEV+AWTI+KGTKAPQA
Sbjct: 271 LQELSAEERQKYLEANMTQSALPKIIKAGFAALQLEYFFTAGPDEVRAWTIRKGTKAPQA 330
Query: 129 AGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFNAG 188
AG+IHTDFEKGFIMAEVM ++DFKE GSE A +AAGKYRQQGR Y VEDGDIIFFKFN
Sbjct: 331 AGKIHTDFEKGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNTP 390
Query: 189 AGLNPKKK 196
PKKK
Sbjct: 391 QQ--PKKK 396
>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics,
GTP1OBG, PSI, protein structure initiative; 2.80A
{Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2
Length = 392
Score = 305 bits (785), Expect = e-105
Identities = 92/178 (51%), Positives = 127/178 (71%)
Query: 9 IEHLNKLNLLTAKTQIYLVNLSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQ 68
+E +N L LLTAK IYLVN+S +D++++KNK+LPKIK+W+D N PG T+IP S FE +
Sbjct: 213 VEIINSLYLLTAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSPGDTLIPMSVAFEER 272
Query: 69 LVDMPDDERQRYLDEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQA 128
L + ++E + S+L KII GY +L L +FT G+DEV++WTI+KGTKAPQA
Sbjct: 273 LTNFTEEEAIEECKKLNTKSMLPKIIVTGYNALNLINYFTCGEDEVRSWTIRKGTKAPQA 332
Query: 129 AGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFN 186
AG IHTDFEK F++ E+MH+ D ++ +E ACRAAGKY +G+ Y +E GDI +K
Sbjct: 333 AGVIHTDFEKAFVVGEIMHYQDLFDYKTENACRAAGKYLTKGKEYVMESGDIAHWKAG 390
>1jal_A YCHF protein; nucleotide-binding fold, structural genomics,
structure 2 function project, S2F, unknown function;
2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2
Length = 363
Score = 220 bits (564), Expect = 8e-72
Identities = 67/178 (37%), Positives = 108/178 (60%), Gaps = 5/178 (2%)
Query: 10 EHLNKLNLLTAKTQIYLVNLSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQL 69
+ + N LT K +Y+ N++ + + N +L +++E A GA ++P E ++
Sbjct: 189 QAIKSYNFLTLKPTMYIANVNEDGF--ENNPYLDRVREI--AAKEGAVVVPVCAAIESEI 244
Query: 70 VDMPDDERQRYLDEQKAT-SVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQA 128
++ D+E+ +L + L+++I GY L LQ +FTAG EV+AWT+ G AP+A
Sbjct: 245 AELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRAWTVSVGATAPKA 304
Query: 129 AGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFN 186
A IHTDFEKGFI AEV+ ++DF + E + AGK+R +G+ Y V+DGD++ F+FN
Sbjct: 305 AAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMHFRFN 362
>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio
project on protein structural and functional analyses;
HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A
Length = 368
Score = 217 bits (555), Expect = 2e-70
Identities = 69/180 (38%), Positives = 106/180 (58%), Gaps = 4/180 (2%)
Query: 10 EHLNKLNLLTAKTQIYLVNLSAKDYI-KKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQ 68
L + LLTAK IY+ N++ +D + N + ++ A + GA ++ S E +
Sbjct: 191 RFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRK--ALEEGAEVVVVSARLEAE 248
Query: 69 LVDMPDDERQRYLDEQKAT-SVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQ 127
L ++ +E + L S L ++ GY++L L FFTAG+ EV+AWT+++GTKAP+
Sbjct: 249 LAELSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWTVRRGTKAPR 308
Query: 128 AAGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFNA 187
AAG IH+D E+GFI AEV+ +D E G A + G R +G+ Y V+DGD+I+ FNA
Sbjct: 309 AAGEIHSDMERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDGDVIYVLFNA 368
>1wxq_A GTP-binding protein; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 2.60A
{Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2
Length = 397
Score = 120 bits (303), Expect = 7e-33
Identities = 33/213 (15%), Positives = 59/213 (27%), Gaps = 61/213 (28%)
Query: 9 IEHLNKLNLLTAKTQIYLVNLSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQ 68
+ K + N + ++ + ++ + G +IP S E
Sbjct: 203 LLAFASEIRRVNKPMVIAANKADAA----SDEQIKRLVR--EEEKRGYIVIPTSAAAELT 256
Query: 69 LVDMPDDERQRY----------------------------LDEQKATSVLDKIITQGYKS 100
L Y LD +T V + I +
Sbjct: 257 LRKAAKAGFIEYIPGASEFKVLRDMSEKQKRALMVIKEKVLDRFGSTGVQEVINRVVFDL 316
Query: 101 LQLQYFFTA----------GQDEVKAWTIQKGTKAPQAAGRIHTDFEKGFIMAEVMHFDD 150
L+L + G + ++KG+ A ++HTD KGF+ A
Sbjct: 317 LKLIPVYPVHDENKLTDQFGNVLPHVFLMKKGSTPRDLAFKVHTDLGKGFLYAI------ 370
Query: 151 FKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFF 183
A R+ G Y ++ DI+
Sbjct: 371 -----------NARTKRRVGEDYELQFNDIVKI 392
>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 = 38.5 bits (89), Expect = 0.001
Identities = 27/189 (14%), Positives = 59/189 (31%), Gaps = 67/189 (35%)
Query: 14 KLNLLTAKTQ--IYLVNLSAKDYIKKKNKWLPKIKEWVDANDP------G--------AT 57
L+ T TQ + L+ +A + +K K + A+ G A
Sbjct: 1725 LLSA-TQFTQPALTLMEKAAFEDLKSKGL--------IPADATFAGHSLGEYAALASLAD 1775
Query: 58 IIPFS---------GVFEHQLVDMPDDE--RQRY-------------LDEQKATSVLDKI 93
++ G+ V P DE R Y ++ V++++
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAV--PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
Query: 94 ITQGYKSLQL--------QYFFTAGQDEVKAWTIQKGTKAPQAAGRIHTDFEKGFIMAEV 145
+ +++ QY AG +++A + T D + + +
Sbjct: 1834 GKRTGWLVEIVNYNVENQQYV-AAG--DLRA--LDTVTNVLNFIKLQKIDIIE---LQKS 1885
Query: 146 MHFDDFKEH 154
+ ++ + H
Sbjct: 1886 LSLEEVEGH 1894
Score = 33.5 bits (76), Expect = 0.049
Identities = 38/205 (18%), Positives = 60/205 (29%), Gaps = 77/205 (37%)
Query: 31 AKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQLVDMPDDERQRY--------LD 82
A ++ K + I + V N P I F G ++ R+ Y +D
Sbjct: 1649 ADNHFKDTYGF--SILDIVINN-PVNLTIHFGGEKGKRI-------RENYSAMIFETIVD 1698
Query: 83 EQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQAAGRIHT----DFE- 137
+ T + K I + S Y F + + + A T+ Q A + FE
Sbjct: 1699 GKLKTEKIFKEINEHSTS----YTFRSEKGLLSA------TQFTQPA--LTLMEKAAFED 1746
Query: 138 ---KGFI-------------------MAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTV 175
KG I +A+VM + YR G V
Sbjct: 1747 LKSKGLIPADATFAGHSLGEYAALASLADVMSIES--------LVEVV-FYR--GMTMQV 1795
Query: 176 -----EDGDIIFFKFNAGAGLNPKK 195
E G + +NP +
Sbjct: 1796 AVPRDELGRSNY----GMIAINPGR 1816
>2pnw_A AGR_C_15P, membrane-bound lytic murein transglycosylase; structural
genomics, PSI-2, protein structure initiative; 1.90A
{Agrobacterium tumefaciens str} SCOP: b.52.1.4
Length = 380
Score = 34.4 bits (78), Expect = 0.018
Identities = 21/157 (13%), Positives = 37/157 (23%), Gaps = 30/157 (19%)
Query: 29 LSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQLVDMPDDERQRYLDEQKATS 88
L + + K + I++W+ + + + + + E
Sbjct: 221 LLDRGELDPKTISMQTIRQWLADHPDEVDGV------------LWHNRSYIFFREADVAG 268
Query: 89 VLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGT----KAPQAAGRIHTDFEKGFIMAE 144
+ I + L D G AP ++A
Sbjct: 269 LDMGPI--AAAKVPLVAGRALAVDR---LIHTFGLPFFIHAPTLTHLDDGKPFARLMLAL 323
Query: 145 --------VMHFDDFKEHGSEAACRAAGKYRQQGRAY 173
D F G EA AG R + Y
Sbjct: 324 DTGSAIVGPARGDIFTGSGFEAG-ELAGTVRNEADFY 359
>2ae0_X Membrane-bound lytic murein transglycosylase A; double-PSI
beta-barrel, small mixed parallel/antiparallel SI
stranded beta barrel; 2.00A {Escherichia coli} SCOP:
b.52.1.4 PDB: 2pjj_A 2pic_A 2pi8_A* 2gae_A
Length = 345
Score = 32.4 bits (73), Expect = 0.073
Identities = 27/161 (16%), Positives = 51/161 (31%), Gaps = 40/161 (24%)
Query: 29 LSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQLVDMPDDERQRYLDEQKATS 88
L + +KK++ + I+ W + + + E + L++ +
Sbjct: 195 LIDRGEVKKEDMSMQAIRHWGETH--------------------SEAEVRELLEQNPSFV 234
Query: 89 VLDKIITQ---GYKSLQLQYFFTAGQDEVKAWTIQKGTKA------PQAAGRIHTDFEKG 139
G ++ L + D I GT G+ + +E
Sbjct: 235 FFKPQSFAPVKGASAVPLVGRASVASDRS---IIPPGTTLLAEVPLLDNNGKFNGQYELR 291
Query: 140 FIMAE-------VMHFDDFKEHGSEAACRAAGKYRQQGRAY 173
++A HFD ++ G EA AG Y GR +
Sbjct: 292 LMVALDVGGAIKGQHFDIYQGIGPEAG-HRAGWYNHYGRVW 331
>2g5d_A GNA33; hydrolase, beta barrel; 1.95A {Neisseria gonorrhoeae fa
1090} SCOP: b.52.1.4 PDB: 2g6g_A
Length = 422
Score = 31.4 bits (70), Expect = 0.19
Identities = 25/154 (16%), Positives = 43/154 (27%), Gaps = 28/154 (18%)
Query: 29 LSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQLVDMPDDERQRYLDEQKATS 88
++ K Y+K + IK ++ N + + + + E +
Sbjct: 275 MADKGYLKLGQTSMQGIKAYMRQNPQRLAEV------------LGQNPSYIFFRELAGS- 321
Query: 89 VLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKA-PQAAGRIHTDFEKGFIMAE--- 144
G L + D I G A + IMA+
Sbjct: 322 --GGDGPVGALGTPLMGEYAGAIDRH---YITLGAPLFVATAHPVTRKALNRLIMAQDTG 376
Query: 145 -----VMHFDDFKEHGSEAACRAAGKYRQQGRAY 173
+ D F +G EA AGK + G +
Sbjct: 377 SAIKGAVRVDYFWGYGDEAG-ELAGKQKTTGYVW 409
>3czb_A Putative transglycosylase; structural genomics, unknown function,
PSI-2, protein struct initiative; 2.50A {Caulobacter
crescentus}
Length = 351
Score = 30.9 bits (69), Expect = 0.21
Identities = 19/163 (11%), Positives = 34/163 (20%), Gaps = 43/163 (26%)
Query: 29 LSAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQLVDMPDDERQRYLDEQKATS 88
+ K + N I+ W+ + +
Sbjct: 200 MRDKGLLPDNNTSADAIRTWLAEH---------------------RGPEADAIMRLNPRY 238
Query: 89 VLDKIITQ------GYKSLQLQYFFTAGQDEVKAWTIQKGT----KAPQAAGRIHTDFEK 138
V + + G + L D G A +
Sbjct: 239 VFFRTVPDDGKEPAGAAGVALPPGRAIAVD---PGYHAYGGFYWLDAAAPKLVGAFPVYR 295
Query: 139 GFIMAE--------VMHFDDFKEHGSEAACRAAGKYRQQGRAY 173
+ A + D + G+ A AG+ R R Y
Sbjct: 296 RAVTALDTGGAIKGEVRADLYMGSGAVAG-VEAGRVRHTLRLY 337
>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 = 30.2 bits (67), Expect = 0.54
Identities = 17/112 (15%), Positives = 37/112 (33%), Gaps = 20/112 (17%)
Query: 1 MICEHHLRIEHLNKLNL--LTAKTQIYLVNLSAKDYIKKKNKW----LPKIKEWVDANDP 54
I + ++ +N LT + L L +Y +K P A+
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY--RKMFDRLSVFPP-----SAH-- 386
Query: 55 GATIIPFSGVFEHQLVDMPDDERQRYLDEQKATSVLDKIITQGYKSLQLQYF 106
IP + + D+ + +++ S+++K + S+ Y
Sbjct: 387 ----IP-TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Score = 26.4 bits (57), Expect = 9.0
Identities = 14/99 (14%), Positives = 35/99 (35%), Gaps = 31/99 (31%)
Query: 6 HLRIEHLNKLNLLTAKTQIYLVNLSAKDYIKKKNKWLPKIKEWVDANDP------GATII 59
H+ ++H + L + +L K Y+ + + LP+ E + N P +I
Sbjct: 288 HISLDHHSM-TLTPDEV----KSLLLK-YLDCRPQDLPR--EVLTTN-PRRLSIIAESIR 338
Query: 60 PFSGVFEH----------QLVDM------PDDERQRYLD 82
+++ +++ P + R+ +
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
>1ztm_A Fusion glycoprotein; fusion protein, 6-helix bundle,trimer,
post-fusion, viral PR; HET: NAG; 3.05A {Human
parainfluenza virus 3}
Length = 490
Score = 29.3 bits (65), Expect = 0.89
Identities = 9/39 (23%), Positives = 19/39 (48%)
Query: 30 SAKDYIKKKNKWLPKIKEWVDANDPGATIIPFSGVFEHQ 68
+K++I++ N+ L I W ++ G ++P H
Sbjct: 451 ESKEWIRRSNQKLDSIGNWHQSSTTGGPLVPRGSHHHHH 489
>2eki_A DRG 1, developmentally-regulated GTP-binding protein 1; protein
NEDD3, neural precursor cell expressed developmentally
DOWN-regulated protein 3; NMR {Homo sapiens}
Length = 93
Score = 27.1 bits (60), Expect = 1.3
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 16/56 (28%)
Query: 128 AAGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQ--GRAYTVEDGDII 181
+IH + K F A V G K+ Q G+ +T+ED D+I
Sbjct: 41 FCMKIHKNLIKEFKYALVW--------GLSV------KHNPQKVGKDHTLEDEDVI 82
>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 73
Score = 26.6 bits (58), Expect = 1.6
Identities = 9/43 (20%), Positives = 17/43 (39%)
Query: 138 KGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDI 180
+ +I V+ + H S A C G+ +G ++ I
Sbjct: 12 EKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSI 54
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 25.9 bits (58), Expect = 9.4
Identities = 9/30 (30%), Positives = 11/30 (36%)
Query: 33 DYIKKKNKWLPKIKEWVDANDPGATIIPFS 62
D I LP I E + I+P S
Sbjct: 133 DKIGPAKNVLPLIDEIHKKHPELTEIVPIS 162
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 0.136 0.407
Gapped
Lambda K H
0.267 0.0466 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,187,279
Number of extensions: 186689
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 589
Number of HSP's successfully gapped: 23
Length of query: 197
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 108
Effective length of database: 4,216,824
Effective search space: 455416992
Effective search space used: 455416992
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: 55 (25.6 bits)