RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11025
(535 letters)
>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein
structure initiative, PSI, center for eukaryotic
structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}
Length = 307
Score = 81.9 bits (202), Expect = 3e-17
Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 10/172 (5%)
Query: 300 EAASTVLEKGAKSLEELK-PDAALTLYSRAADVAHGEDNYKQAAEYISR---------NR 349
E A + A++ + A + +A + +A +YI +
Sbjct: 53 EQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTP 112
Query: 350 EAASTVLEKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFD 409
+ A+ L++ K +E L A+ LY +AA V E+ +QAAE I +A+R+ VR ++FD
Sbjct: 113 DTAAMALDRAGKLMEPLDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFD 172
Query: 410 KAADLIRQEIGYHQESEHLLAIGRLAVALVLVQLARGDTVAAEKAFKEWGNC 461
+AA +++E ++E E+ + +A VLVQL R D VAA+K +E +
Sbjct: 173 EAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSI 224
Score = 56.4 bits (136), Expect = 7e-09
Identities = 42/217 (19%), Positives = 82/217 (37%), Gaps = 18/217 (8%)
Query: 311 KSLEELKPD--AALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEELKS 368
S + KPD +A + Y++AA +QA + + A++ +S
Sbjct: 23 TSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDA-----------YLQEAEAHANNRS 71
Query: 369 DA-ALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFDKAADLIRQEIGYHQESEH 427
A + +A + +A +YI +A+ M V D AA + + + +
Sbjct: 72 LFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEPLDL 131
Query: 428 LLAIGRLAVALVLVQLARGDTVAAEKAFKEWGNCCEAPERCESGSSSFSFSLGKAGYHQE 487
A+ A + + A + + ++ + ++S ++E
Sbjct: 132 SKAVHLYQQAAAVFE-NEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSM---YKE 187
Query: 488 SEHLLAIGRLAVALVLVQLARGDTVAAEKAFKEWGNC 524
E+ + +A VLVQL R D VAA+K +E +
Sbjct: 188 MENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSI 224
>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 = 57.6 bits (138), Expect = 8e-09
Identities = 65/495 (13%), Positives = 132/495 (26%), Gaps = 148/495 (29%)
Query: 43 QKIAEIIERDFFPDLEKLHAQNDFLDAM-----------ELNDVQKLREL---------- 81
+ I + E F + + Q D ++ + V L
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQ-DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 82 -------------YA------KYSNSTP---------YVDRCESSPATFET-----PEHF 108
Y K P DR + F + +
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY 137
Query: 109 TSLEEA-GSADHEASVRSQGSCSSKKSTSGKYQSL-NEFLSTHTSEDNQSFEDIIEHAKK 166
L +A +V G SGK + + ++ + F+ I
Sbjct: 138 LKLRQALLELRPAKNVLIDG-----VLGSGK-TWVALDVCLSYKVQCKMDFK-IF----- 185
Query: 167 KHRIKYPWLYCGEDEAPENTSRFLEL------PSMQEQIDQAKD--------KDRDRRIQ 212
WL +PE L+ P+ + D + + + RR+
Sbjct: 186 -------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 213 TWKFVNKNSAM-----YTPDGVE----------LTKDEQI-----EMARNRMSINHSGTR 252
K +N + T+ +Q+ +S++H
Sbjct: 239 KSK-PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH---- 293
Query: 253 LHVNPFDEQQSKEAL--------HDLAKTQAIS------SLSGKIGVDGKEITLNSTPRN 298
H + K L DL + + ++ S+ + DG N N
Sbjct: 294 -HSMTLTPDEVKSLLLKYLDCRPQDLPR-EVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 299 REAASTVLEKGAKSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISR-----NREAAS 353
+ +T++E SL L+P ++ ++ + +S +
Sbjct: 352 CDKLTTIIE---SSLNVLEPAEYRKMFD---RLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 354 TVLEKGAKS--LEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFDKA 411
V+ K K +E+ ++ +++ S ++ +N I + D
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 412 ADLIR----QEIGYH 422
+ IG+H
Sbjct: 466 PPYLDQYFYSHIGHH 480
Score = 46.0 bits (108), Expect = 3e-05
Identities = 44/287 (15%), Positives = 85/287 (29%), Gaps = 62/287 (21%)
Query: 146 LSTHTSEDNQSFEDIIEHAKKKHRIKYPWLYCGEDEAPENTSRFLELPSMQEQIDQAKDK 205
+ T E ++DI+ + + C + + L + I
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAF-VDN--FDC--KDVQDMPKSILSKEEIDHIIMSKDAV 61
Query: 206 DRDRRIQTWKFVNKNSAMYTPDGVELTKDEQIEMARNRMSINHSGTRLHVNPFDEQQSKE 265
R+ W ++K M VE + + + + + EQ+ +
Sbjct: 62 SGTLRL-FWTLLSKQEEMVQ-KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR- 118
Query: 266 ALHDLAKTQAISSLSGKIGVDGKEITLNSTPRN--REAASTVLEKGAKSLEELKPDAALT 323
L++ D + N R L + L EL+P +
Sbjct: 119 -LYN----------------DNQVFA----KYNVSRLQPYLKLRQA---LLELRPAKNVL 154
Query: 324 LY--------SRAADVAHGEDNYKQAAE------YIS-RNREAASTVLEKGAKSLEELKS 368
+ A DV +YK + +++ +N + TVLE L++L
Sbjct: 155 IDGVLGSGKTWVALDVC---LSYKVQCKMDFKIFWLNLKNCNSPETVLEM----LQKLLY 207
Query: 369 DAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFDKAADLI 415
SR + N K I R ++ K ++ L+
Sbjct: 208 QIDPNWTSR----SDHSSNIKLRIHSIQAELRRLLKSKPYENC--LL 248
Score = 44.5 bits (104), Expect = 8e-05
Identities = 74/576 (12%), Positives = 150/576 (26%), Gaps = 170/576 (29%)
Query: 25 ASIR-QNAAPS-----YVSPRDAEQKIAEIIERDFFPDLEKLH-----------AQNDFL 67
+ I+ + PS Y+ RD ++ + L+ A+N +
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 68 DAME------L-NDVQKLRELYAKYSNSTPYVD--RCESSPATFETPEHFTSLEEAGSAD 118
D + + DV ++ K +++ C S E + D
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ-----ID 210
Query: 119 HEASVRSQGSCSSKKSTSGKYQSLNEFLSTH----------------------------- 149
+ RS S + K L L +
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL 270
Query: 150 TSEDNQSFEDIIEHAKKKHRIKYPWLYCGEDEAPENTSRFL-----ELPSMQEQID---- 200
T+ Q + + + + + DE ++L +LP +
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL 330
Query: 201 ---QAKDKDRDRRIQTWKFVNKNSAMYTPDGVELTKDEQIEMARNRMSINHSGTRLHVNP 257
+D WK VN + IE S+N + P
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCD-----------KLTTIIE-----SSLN------VLEP 368
Query: 258 FDEQQSKEALHDLAKTQAISSLSGKIGVDGKEITL-----NSTPRNREAASTVLEKGAKS 312
+ ++ + L ++ S I I L + + L K S
Sbjct: 369 AEYRKMFDRL-------SVFPPSAHI----PTILLSLIWFDVIKSDVMVVVNKLHK--YS 415
Query: 313 LEELKP-DAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEELKSDAA 371
L E +P ++ +++ S ++ +N L + ++
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYA---------------LHR--SIVDHYNIPKT 458
Query: 372 LTLYSRAADVAHGEDNYKQAAEYIS---RAARMCVRVKEFDKA-ADL--IRQEIGYHQES 425
D Y +I + R+ F D + Q+I
Sbjct: 459 FDSDDLIPPY---LDQY--FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI----RH 509
Query: 426 EHLLAIGRLAVALVLVQLARGDTVAAEKAFKEW-GNCCEAPERCESGSSSFSFSLGKAGY 484
+ ++ L QL K +K + + ER + F + +
Sbjct: 510 DSTAWNASGSILNTLQQL---------KFYKPYICDNDPKYERLVNAILDFLPKIEENLI 560
Query: 485 HQESEHLLAIGRLAVALVLVQLA---RGDTVAAEKA 517
S++ L+++A + + E
Sbjct: 561 C--SKY----------TDLLRIALMAEDEAIFEEAH 584
Score = 29.4 bits (65), Expect = 4.0
Identities = 26/248 (10%), Positives = 67/248 (27%), Gaps = 70/248 (28%)
Query: 5 YSRLA---RDLPLPSATCATPRPASIRQNAAPSYVSPRDAEQKIAE--IIERDFFPDLEK 59
+ RL+ +P+ S+ K+ + ++E+
Sbjct: 375 FDRLSVFPPSAHIPTILL------SLIWFDVIKSD-VMVVVNKLHKYSLVEKQPKESTIS 427
Query: 60 LHAQNDFLDAMELNDVQKLRELYAKYSNSTPYVDRCESSPATFETPE-----------HF 108
+ + L N+ R + Y+ + P H
Sbjct: 428 IPSIYLELKVKLENEYALHRSIVDHYNIPKTF------DSDDLIPPYLDQYFYSHIGHHL 481
Query: 109 TSLEEAGSADH-----------EASVRSQGS-CSSKKSTSGKYQSLNEFLSTHTSEDNQS 156
++E E +R + ++ S Q L + + +++
Sbjct: 482 KNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP-YICDNDPK 540
Query: 157 FEDIIEHAKKKHRIKYPWLYCGEDEAPENTSRFLELPSMQEQIDQAKDKDRDRRIQTWKF 216
+E ++ F LP ++E + +K D ++
Sbjct: 541 YERLVNAILD----------------------F--LPKIEENLICSKYTD---LLRI-AL 572
Query: 217 VNKNSAMY 224
+ ++ A++
Sbjct: 573 MAEDEAIF 580
>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like
repeat, protein transport; 2.90A {Saccharomyces
cerevisiae} SCOP: a.118.8.1
Length = 292
Score = 54.2 bits (130), Expect = 3e-08
Identities = 28/171 (16%), Positives = 51/171 (29%), Gaps = 15/171 (8%)
Query: 302 ASTVLEKGAKSLEELK-PDAALTLYSRAADVAHGEDNYKQAAEYISR---------NREA 351
A K A ++ D A Y A N A + +
Sbjct: 56 AGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRR 115
Query: 352 ASTVLEKGAKSLEELKSDA--ALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFD 409
+ + + LE D A+ Y A + + + + + + A + ++
Sbjct: 116 GANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI 175
Query: 410 KAADLIRQEIGY--HQESEHLLAIGRLAVALVLVQLARGDTVAAEKAFKEW 458
+A+D+ + I L QLA D VAA + +E
Sbjct: 176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKK-GLCQLAATDAVAAARTLQEG 225
Score = 46.2 bits (109), Expect = 1e-05
Identities = 37/208 (17%), Positives = 64/208 (30%), Gaps = 17/208 (8%)
Query: 317 KPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEELKS-DAALTLY 375
K + A L +AA + A + K A ++ + D A Y
Sbjct: 32 KFEEAADLCVQAATIYRLRKELNLAGDS-----------FLKAADYQKKAGNEDEAGNTY 80
Query: 376 SRAADVAHGEDNYKQAAEYISRAARMCVRVKEFDKAADLIRQ--EIGYHQESEHLLAIGR 433
A N A + + A ++ +F + A+ + EI + ++ AI
Sbjct: 81 VEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDC 140
Query: 434 LAVALVLVQLARGDTVAAEKAFKEWGNCCEAPERCESGSSSFSFSLGKAGYHQESEHLLA 493
+A + K F + + + S +S L K+
Sbjct: 141 YELAGEWYA-QDQSVALSNKCFIKCADLKALDGQYIEASDIYS-KLIKSSMGNRLSQWSL 198
Query: 494 IGRLAVALVLVQLARGDTVAAEKAFKEW 521
L QLA D VAA + +E
Sbjct: 199 KDYFLKK-GLCQLAATDAVAAARTLQEG 225
>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 = 51.2 bits (122), Expect = 7e-07
Identities = 78/520 (15%), Positives = 147/520 (28%), Gaps = 182/520 (35%)
Query: 8 LARDLPLPSATCATPRPASIRQNAAPSYVSPRD-AEQKIAEIIERDFFPDLE----KLHA 62
LA L + T I+ +Y++ R A++ + F + +L A
Sbjct: 104 LAAKLLQENDTTLVKTKELIK-----NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 63 Q-------NDFLDAMELNDVQKLRELYAKY-SNSTPYVDRC-----ESSPATFETPEHFT 109
+D+ + EL R+LY Y + E T + + FT
Sbjct: 159 IFGGQGNTDDYFE--EL------RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 110 S-------LEEAGSA-DHEASVRSQGS---------------CSSKKSTSGKYQSLNEFL 146
LE + D + + S T G+ +S +
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 147 STH-----------TSEDNQSFEDIIEHAKKKHRIKYPWL-YCG---EDEAPENTSRFLE 191
+ H ++ +SF + A L + G + P NTS L
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRKAIT-------VLFFIGVRCYEAYP-NTS--LP 320
Query: 192 LPSMQEQIDQAKDKDRDRRIQTWKFVNKNSAMYTPDGVELTKDEQIEMARNRMSINHSGT 251
+++ ++ + S M + EQ++ +N + +
Sbjct: 321 PSILEDSLENNE--------------GVPSPML---SISNLTQEQVQDY-----VNKTNS 358
Query: 252 RLHVNPFDEQQSKEALHDLAKTQAISSLSGKIGVDGKEITLNSTPRNREAASTVLEKG-A 310
L P +Q + I+L + +N V+ G
Sbjct: 359 HL---PAGKQ--------------VE------------ISLVNGAKNL-----VV-SGPP 383
Query: 311 KSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISR-----NR--------------EA 351
+SL L L R A G D + + R NR A
Sbjct: 384 QSLY------GLNLTLRKAKAPSGLDQSR--IPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 352 ASTVLEKGAKSLEELK-SDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVK-EFD 409
+ + + K+ D + +Y D G D + R +R+ +++
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVY----DTFDGSDLRVLSGSISERIVDCIIRLPVKWE 491
Query: 410 KAADLIRQEIGYHQESEHLLAIGRLAVALV--LV-QLARG 446
++ H+L G + + L + G
Sbjct: 492 TTTQF---------KATHILDFGPGGASGLGVLTHRNKDG 522
Score = 49.3 bits (117), Expect = 3e-06
Identities = 43/227 (18%), Positives = 74/227 (32%), Gaps = 60/227 (26%)
Query: 307 EKG-AKSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEE 365
E+G L + AA +++RA D H +D Y + I N T+ G K +
Sbjct: 1628 EQGMGMDLYK-TSKAAQDVWNRA-D-NHFKDTYGFSILDIVINNPVNLTIHFGGEKG-KR 1683
Query: 366 LKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFDKAADLIRQEIGYHQES 425
++ +NY A + + K F + + ++
Sbjct: 1684 IR------------------ENY-SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG 1724
Query: 426 EHLLAIGRLA-VALVLVQLARGDTVAAEKAFKEWGNCCEAPERCESGSSSFSF---SLGK 481
LL+ + AL L++ AA + K G P +F SLG
Sbjct: 1725 --LLSATQFTQPALTLME------KAAFEDLKSKGL---IPADA-------TFAGHSLG- 1765
Query: 482 AGYHQESEH--LLAIGR---LAVALVLVQLARGDTVAAEKAFKEWGN 523
E+ L ++ + + +V RG T+ E G
Sbjct: 1766 -------EYAALASLADVMSIESLVEVVFY-RGMTMQVAVPRDELGR 1804
Score = 34.3 bits (78), Expect = 0.12
Identities = 40/235 (17%), Positives = 69/235 (29%), Gaps = 73/235 (31%)
Query: 76 QKLRELYAKYSNSTPYVDRCESSPA-----------TFETPE------HFTS--LEEAGS 116
+++RE Y+ T + ++ TF + + FT L
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK 1741
Query: 117 ADHEASVRSQGSCSSKKSTSGKYQSLNEF--LSTHTSEDNQSFEDIIEHAKKKHRIKYPW 174
A E ++S+G + + +G SL E+ L++ D S E ++E R
Sbjct: 1742 AAFED-LKSKGLIPADATFAG--HSLGEYAALASLA--DVMSIESLVEVVFY--RGMTMQ 1794
Query: 175 LYCGEDE-APENTSRFLELPS-MQEQIDQAKDKDRDRRI--QTWKF---VNKNSAMYTPD 227
+ DE N P + Q + R+ +T VN N
Sbjct: 1795 VAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE----- 1849
Query: 228 GVELTKDEQIEMARNRMSINHSGTRLHVNPFDEQQSKEALHDLA------KTQAI 276
++Q +G AL + K Q I
Sbjct: 1850 ------NQQY-------VA--AGD------------LRALDTVTNVLNFIKLQKI 1877
Score = 32.3 bits (73), Expect = 0.50
Identities = 14/67 (20%), Positives = 24/67 (35%), Gaps = 19/67 (28%)
Query: 4 EYSRL---ARDLPLPSA-----------TCATPRPASIRQNAA-----PSYVSPRDAEQK 44
EY+ L A + + S A PR R N P V+ +++
Sbjct: 1766 EYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEA 1825
Query: 45 IAEIIER 51
+ ++ER
Sbjct: 1826 LQYVVER 1832
>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein
superhelix, transc activator; 1.45A {Escherichia coli}
SCOP: a.118.8.2
Length = 373
Score = 40.0 bits (93), Expect = 0.002
Identities = 29/222 (13%), Positives = 61/222 (27%), Gaps = 30/222 (13%)
Query: 324 LYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEEL-----KSDAALTLYSRA 378
+ + + ++A + I+ + E + +L + D A
Sbjct: 102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSG 161
Query: 379 ADVAHGEDNYKQAAEYISRAARMCVRVKEFDKAADLIRQ-EIGYHQESEHLLAIGRLAVA 437
+V +Q + + + D A + + E H I
Sbjct: 162 IEVLSSYQPQQQLQCLAM-LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV 220
Query: 438 LVLVQLARGDTVAAEKAFKEWGNCCEAPERCESGSSSFS-FSLGKA----GYHQESEHLL 492
V+ GD AA W PE + ++ +A G + +E +L
Sbjct: 221 RVIYWQMTGDKAAAA----NWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVL 276
Query: 493 A--------------IGRLAVALVLVQLARGDTVAAEKAFKE 520
+ R + L + G A++ +
Sbjct: 277 EELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLD 318
Score = 35.3 bits (81), Expect = 0.043
Identities = 33/236 (13%), Positives = 56/236 (23%), Gaps = 54/236 (22%)
Query: 317 KPDAALTLYSRAADVAHGEDNYKQAA-------EYISRNREAASTVLEKGAKSLEELKSD 369
PD A L A + Y + + S L + + +
Sbjct: 29 NPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV 88
Query: 370 AALTLYSRA--ADVAHGEDNYKQAAEYISRAARMCVRVK--------------------- 406
L+S +++ + + A E +A ++
Sbjct: 89 WHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAW 148
Query: 407 -EFDKAADLIRQEIGYHQESEHLLAIGRLAVALVLVQLARGDTVAAEKAFKEWGNCCEAP 465
D+A R I + + LA+ L+ LARGD A
Sbjct: 149 ARLDEAEASARSGIEVLSSYQPQQQLQCLAM-LIQCSLARGDLDNARSQLNR-------- 199
Query: 466 ERCESGSSSFSFSLGKAGYHQESEHLLAIGRLAVALVLVQLARGDTVAAEKAFKEW 521
+ H I V+ GD AA +
Sbjct: 200 --------------LENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT 241
>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 = 35.3 bits (80), Expect = 0.015
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 19/41 (46%)
Query: 71 ELNDVQKLR---ELYAKYSNSTPYVDRCESSP-----ATFE 103
E ++KL+ +LYA +S+P AT E
Sbjct: 18 EKQALKKLQASLKLYA------D-----DSAPALAIKATME 47
Score = 33.8 bits (76), Expect = 0.060
Identities = 10/26 (38%), Positives = 17/26 (65%), Gaps = 6/26 (23%)
Query: 357 EKGAKSLEELKSDAALTLYSRAADVA 382
EK ++L++L++ +L LY A D A
Sbjct: 18 EK--QALKKLQA--SLKLY--ADDSA 37
Score = 28.0 bits (61), Expect = 5.1
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 5/28 (17%)
Query: 307 EKGA-KSLE---EL-KPDAALTLYSRAA 329
EK A K L+ +L D+A L +A
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKAT 45
>2wb7_A PT26-6P; extra chromosomal elements, unknown function; 2.60A
{Thermococcus SP}
Length = 526
Score = 32.9 bits (74), Expect = 0.30
Identities = 16/123 (13%), Positives = 40/123 (32%), Gaps = 6/123 (4%)
Query: 282 KIGVDGKEITLNSTPRNREAASTVLEKGAKSLEELKPDAALTLYSRAADVAHGEDNYKQA 341
I V T+ + +K + + +L + + +
Sbjct: 380 MISVLSNTYTVMKDQDVKNLIDLYKKKDREKINATTKAMINSLQEKIDEA----EQLLAK 435
Query: 342 AEYISRNR--EAASTVLEKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAA 399
A+ ++ E A +++ ++ +L+ A Y + + ++ A +Y AA
Sbjct: 436 AKGMNNENAIEYAQGAIDEYKAAINDLQKAAQQDDYQMFLNYLNAAKKHEMAGDYYVNAA 495
Query: 400 RMC 402
R
Sbjct: 496 RKA 498
>2h9z_A Hypothetical protein HP0495; feredoxin-like
(beta-alpha-beta-BETA-alpha-beta), structural genomics,
unknown function; NMR {Helicobacter pylori} SCOP:
d.58.54.2 PDB: 2joq_A
Length = 86
Score = 28.6 bits (64), Expect = 1.0
Identities = 8/39 (20%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 131 SKKSTSGKYQSLNEFLSTHTSED-NQSFEDIIEHAKKKH 168
S + K+ S N + + N+ F+ I + K
Sbjct: 46 KNTSKNAKFYSFNVSMEVSNESERNEIFQKISQLDKVVQ 84
>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide
repeat, response regulator helix-turn-HELX binding,
3-helix bundle; 2.30A {Bacillus subtilis}
Length = 383
Score = 29.8 bits (67), Expect = 2.2
Identities = 19/138 (13%), Positives = 45/138 (32%), Gaps = 3/138 (2%)
Query: 297 RNREAASTVLEKGAKSLEELKPDAALTLYSRAADVAH--GEDNYKQAAEYISRNREAAST 354
+ A + + + L++++ D L LY + H + + + + S
Sbjct: 26 FSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSD 85
Query: 355 VLEKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVK-EFDKAAD 413
+L + K L + Y A ++ +A + VK +KA
Sbjct: 86 LLLEIDKKQARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEF 145
Query: 414 LIRQEIGYHQESEHLLAI 431
+ Y+ + ++
Sbjct: 146 FFKMSESYYYMKQTYFSM 163
>3o6p_A Peptide ABC transporter, peptide-binding protein; structural
genomics, PSI-2, protein structure initiative; 1.65A
{Enterococcus faecalis}
Length = 229
Score = 29.1 bits (66), Expect = 2.9
Identities = 21/99 (21%), Positives = 39/99 (39%), Gaps = 15/99 (15%)
Query: 298 NREA-ASTVLEKGAKSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVL 356
+R+A ++L G+ L A D + G+D K+A I + + A
Sbjct: 34 DRKALVESILGDGSI------EPNGLVPADMAKDPSGGKDFAKEAGSQIEYDTKKAKEYW 87
Query: 357 EKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYI 395
EK K E S + + ++ D+ K+ E++
Sbjct: 88 EKAKK--ELGISTLTMDI------LSSDADSSKKTVEFV 118
>3fyq_A CG6831-PA (talin); 5-helix bundle, cell adhesion; 1.95A {Drosophila
melanogaster}
Length = 199
Score = 29.0 bits (64), Expect = 3.0
Identities = 19/100 (19%), Positives = 41/100 (41%), Gaps = 2/100 (2%)
Query: 303 STVLEKGAKSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTV--LEKGA 360
+ +++GA SL +PD+ + + + DVA + + S ++ L++ A
Sbjct: 89 AEAVKRGACSLGSTQPDSQVMVINAVKDVASALGDLINCTKLASGKSINDPSMQDLKESA 148
Query: 361 KSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAAR 400
+ + S T+ + + G + E IS+ R
Sbjct: 149 RVMVLNVSSLLKTVKAVEDEHTRGTRAMEATVEAISQEIR 188
>1ugp_B NitrIle hydratase beta subunit; complex, N-butyric acid, non-corrin
cobalt, hydration, lyase; HET: BUA; 1.63A
{Pseudonocardia thermophila} SCOP: b.34.4.4 PDB: 1ire_B
1ugq_B 1ugr_B 1ugs_B
Length = 226
Score = 28.8 bits (64), Expect = 4.0
Identities = 11/73 (15%), Positives = 21/73 (28%), Gaps = 1/73 (1%)
Query: 326 SRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEELKSDAALTLYSRAADVAHGE 385
R Y ++ Y R + G LEEL+
Sbjct: 51 FRFGIEQMNPAEYLESPYYWHWIRTYIHHGVRTGKIDLEELERRTQYYR-ENPDAPLPEH 109
Query: 386 DNYKQAAEYISRA 398
+ + E++++A
Sbjct: 110 EQKPELIEFVNQA 122
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 93
Score = 26.4 bits (59), Expect = 6.7
Identities = 9/27 (33%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 274 QAISSLSGKIGVDGKEITLN-STPRNR 299
+AI +LSGK+ + GK + ++ S +
Sbjct: 59 RAIETLSGKVELHGKIMEVDYSVSKKL 85
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 7.6
Identities = 7/64 (10%), Positives = 19/64 (29%), Gaps = 13/64 (20%)
Query: 307 EKGAKSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAKSLEEL 366
+E + A L E+ ++ +E + +N+ ++
Sbjct: 103 AASKVMEQEWREKAKKDL----------EEWNQRQSEQVEKNKINN---RIADKAFYQQP 149
Query: 367 KSDA 370
+D
Sbjct: 150 DADI 153
>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein
structure initiative, no structural genomics consortium,
NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}
Length = 203
Score = 27.6 bits (62), Expect = 8.4
Identities = 20/153 (13%), Positives = 50/153 (32%), Gaps = 14/153 (9%)
Query: 317 KPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKG--AKSLEEL-------- 366
A+ + V D + +A ++ A + ++L ++
Sbjct: 22 PATASGARFM-LGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG 80
Query: 367 KSDAALTLYSRAADVA--HGEDNYKQAAEYISRAARMCVRVKEFDKAADLIRQEIGYHQE 424
DAA + ++ ED +A A + + + A + + Y Q+
Sbjct: 81 NWDAARRCFLEERELLASLPEDPLAASANAYEVA-TVALHFGDLAGARQEYEKSLVYAQQ 139
Query: 425 SEHLLAIGRLAVALVLVQLARGDTVAAEKAFKE 457
++ +AI L + + + A++ +
Sbjct: 140 ADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLR 172
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 27.4 bits (60), Expect = 9.5
Identities = 19/112 (16%), Positives = 33/112 (29%), Gaps = 33/112 (29%)
Query: 152 EDNQSFEDIIEHAKKKHRI--KYPWLYCGE-DEAPENTSRFL------------ELPSMQ 196
++N D RI E + + +FL ELP +
Sbjct: 129 KENSVDSDDKAKVPPLIRIVSGL------ELSDTKQKGKKFLVIAYEPFENIAIELPPNE 182
Query: 197 EQIDQAKDKDR-----DRRIQTWKFVNKNSAMYTPDGVEL----TKDEQIEM 239
+ D D D + F + S +Y V+ + EQ ++
Sbjct: 183 ILFSENNDMDNNNDGVDELNKKCTFWDAISKLYY---VQFFFKQAEQEQADV 231
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
0.312 0.127 0.357
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,029,768
Number of extensions: 492421
Number of successful extensions: 1155
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1125
Number of HSP's successfully gapped: 48
Length of query: 535
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 437
Effective length of database: 3,965,535
Effective search space: 1732938795
Effective search space used: 1732938795
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 60 (26.9 bits)