RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14566
(532 letters)
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 156 bits (396), Expect = 2e-41
Identities = 47/115 (40%), Positives = 62/115 (53%), Gaps = 30/115 (26%)
Query: 224 CLDEYEFDKMDPHDQVAIHEAMEQQTISIAKRPELALMLADNGVCCIDEFDNLSVTSSKA 283
+DE DKM D+VAIHEAMEQQT+SIAK A
Sbjct: 396 VIDE--IDKMRDEDRVAIHEAMEQQTVSIAK----------------------------A 425
Query: 284 GVRATLNARASILAAANPIGGQYDRTKSLQHNVSLSAPIMSRFDLFFVLIDECNE 338
G+ A LNARA+++AA NP G+Y + + N++L I+SRFDL F+L D+ E
Sbjct: 426 GIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGE 480
Score = 105 bits (263), Expect = 4e-24
Identities = 41/136 (30%), Positives = 63/136 (46%), Gaps = 15/136 (11%)
Query: 383 YDRTKSLQHNVSLSAPIMSRFDLFFVLIDECNEILDYGLHKSEVVAWYLEQIGDQIENEE 442
Y + + N++L I+SRFDL F+L D+ E D L + + + I +
Sbjct: 448 YISERPVSDNINLPPTILSRFDLIFILKDQPGEQ-DRELANYILDVHSGKSTKNII--DI 504
Query: 443 ELLE------RKTVVEKVIERLIYHGAAKLLVDMYTQLRQRDGNSSSKATWRITTRQLES 496
+ L RK V K+ A L+ D + ++R++ + IT RQLE+
Sbjct: 505 DTLRKYIAYARKYVTPKITS-----EAKNLITDFFVEMRKKSSETPDSPI-LITPRQLEA 558
Query: 497 LIRLSEAMAKMECLDE 512
LIR+SEA AKM E
Sbjct: 559 LIRISEAYAKMALKAE 574
Score = 101 bits (255), Expect = 4e-23
Identities = 37/76 (48%), Positives = 44/76 (57%), Gaps = 18/76 (23%)
Query: 1 MLADNGVCCIDEFDKMDPHDQVAIHEAMEQQTISIAKGDMNVEGVRGLKSLGVRDLNYRL 60
+LAD G+ IDE DKM D+VAIHEAMEQQT+SIAK G+ V LN R
Sbjct: 388 VLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKA-----GI-------VAKLNAR- 434
Query: 61 AFLACSV-APTNPRFG 75
+V A NP+FG
Sbjct: 435 ----AAVIAAGNPKFG 446
Score = 62.7 bits (153), Expect = 2e-10
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 179 AKLLVDMYTQLRQRDGNSSSKATWRITTRQLESLIRLSEAMAKMECLDE 227
L+ D + ++R++ + IT RQLE+LIR+SEA AKM E
Sbjct: 527 KNLITDFFVEMRKKSSETPDSPI-LITPRQLEALIRISEAYAKMALKAE 574
Score = 56.9 bits (138), Expect = 8e-09
Identities = 13/52 (25%), Positives = 29/52 (55%)
Query: 79 LHTEEMSAELMKKHMTESEWNKIYEMSRDRNLYQNLTSSLFPSIHGNEQIKK 130
E L + ++E + KI ++++D + + SS+ PSI+G+ ++K+
Sbjct: 254 SSIEVSQKVLDEVIISEEDEKKIKDLAKDPWIRDRIISSIAPSIYGHWELKE 305
Score = 49.2 bits (118), Expect = 2e-06
Identities = 15/83 (18%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 101 IYEMSRDRNLYQNLTSSLFPSIHGNEQIKKDRNLYQ-NLTSSLFPSIHGNEQIKKDRNLY 159
I ++ +D + + + + + + L + ++ I + + KD +
Sbjct: 230 ILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQKVLDEVIISEEDEKKI---KDLAKDPWIR 286
Query: 160 QNLTSSLFPSIHGNEQIKKAKLL 182
+ SS+ PSI+G+ ++K+A L
Sbjct: 287 DRIISSIAPSIYGHWELKEALAL 309
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 143 bits (361), Expect = 3e-37
Identities = 35/249 (14%), Positives = 72/249 (28%), Gaps = 81/249 (32%)
Query: 150 EQIKK--DRNLYQNLTSSLFPSIHGNEQIKKAKLLVDMYTQLRQRD----------GNSS 197
E+ ++ D++ ++ P + G E++ K L + + S
Sbjct: 194 EEFRELADKDPLTTFARAIAP-LPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVVCS 252
Query: 198 S---KATWRI------TTRQLESLIRLSEAMAK-----ME------------CLDEYEFD 231
+ + L L+ + + + +D +
Sbjct: 253 EILHHVLDHLAPRGVYVDLRRTELTDLTAVLKEDRGWALRAGAAVLADGGILAVDH--LE 310
Query: 232 KMDPHDQVAIHEAMEQQTISIAKRPELALMLADNGVCCIDEFDNLSVTSSKAGVRATLNA 291
+ A+ EAM++ T+++ LNA
Sbjct: 311 GAPEPHRWALMEAMDKGTVTVDG--------------------------------IALNA 338
Query: 292 RASILAAANPIGGQYDRTKSLQHNVSLSAPIMSRFDLFFVLIDECNEILDYGECNP---- 347
R ++LAA NP G+ + + L +S FDL L + +
Sbjct: 339 RCAVLAAINP--GEQWPSDPPIARIDLDQDFLSHFDLIAFLGVDPRPGEPEEQDTEVPSY 396
Query: 348 --MEKYLTY 354
+ +YL Y
Sbjct: 397 TLLRRYLLY 405
Score = 113 bits (284), Expect = 5e-27
Identities = 31/141 (21%), Positives = 53/141 (37%), Gaps = 20/141 (14%)
Query: 377 ALNVSEYDRTKSLQHNVSLSAPIMSRFDLFFVLIDECNEILDYGLHKSEVVAWYLEQIGD 436
A+N E + + L +S FDL L + E+
Sbjct: 345 AINPGEQWPSDPPIARIDLDQDFLSHFDLIAFLGVDPRPGEP-------------EEQDT 391
Query: 437 QIENEEELLERKTVVEKVIERL---IYHGAAKLLVDMYTQLRQ--RDGNSSSKATWRITT 491
++ + L R+ ++ + E + A K L Y R+ + T +T
Sbjct: 392 EVPSYTLL--RRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLPVTR 449
Query: 492 RQLESLIRLSEAMAKMECLDE 512
RQLES+ RL++A A+M D+
Sbjct: 450 RQLESVERLAKAHARMRLSDD 470
Score = 93.4 bits (232), Expect = 2e-20
Identities = 11/41 (26%), Positives = 23/41 (56%)
Query: 1 MLADNGVCCIDEFDKMDPHDQVAIHEAMEQQTISIAKGDMN 41
+LAD G+ +D + + A+ EAM++ T+++ +N
Sbjct: 297 VLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALN 337
Score = 67.6 bits (165), Expect = 3e-12
Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 7/81 (8%)
Query: 179 AKLLVDMYTQLRQ--RDGNSSSKATWRITTRQLESLIRLSEAMAKMECLDEYEFDKMDPH 236
K L Y R+ + T +T RQLES+ RL++A A+M D+ E +
Sbjct: 420 RKRLEHWYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSDDVEPE----D 475
Query: 237 DQVAIHEAMEQQTISIAKRPE 257
+A E ++ + + P
Sbjct: 476 VDIAA-ELVDWYLETAMQIPG 495
Score = 42.1 bits (99), Expect = 4e-04
Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 2/80 (2%)
Query: 51 LGVRDLNYRLAFLACSVAPTNPRFGGGELHTEEMSAELMKKHMTESEWNKIYEMSRDRNL 110
+ VR +RL R + + + H +E + E++ D++
Sbjct: 146 VAVRLHGHRLGPGLRVEILGIVRSATLDALEVHKKDPIPEVHPDPAELEEFRELA-DKDP 204
Query: 111 YQNLTSSLFPSIHGNEQIKK 130
++ P + G E++ K
Sbjct: 205 LTTFARAIAP-LPGAEEVGK 223
>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 = 66.8 bits (162), Expect = 1e-11
Identities = 80/528 (15%), Positives = 147/528 (27%), Gaps = 144/528 (27%)
Query: 10 IDEFDKMDPHDQVAIHEAMEQQTISIAKGDMNVEGVRGLKSLGVRDLNYRLAFLACSVAP 69
+D FD D D M + +S ++ + K RL + S
Sbjct: 30 VDNFDCKDVQD-------MPKSILS----KEEIDHIIMSKDAVSG--TLRLFWTLLS-KQ 75
Query: 70 TN--PRFGGGELHT------EEMSAELMKKHMTESEWNKIYEMSRDRNLYQNLTSSLFPS 121
+F L + E + M ++Y RDR LY + + +F
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMT----RMYIEQRDR-LYND--NQVFAK 128
Query: 122 IHGN--EQIKKDRNLYQNLTSSLFPSIHGNEQIKKDRNLYQNLTSSLFPSIHGNEQIKKA 179
+ + + K R L + I G K + + A
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK---------TWV------------A 167
Query: 180 KLLVDMYTQLRQRDGNSSSKATWRITTRQLES----LIRLSEAMAKMECLDEYEFDKMDP 235
+ Y + D W + + S L L + + +++ D
Sbjct: 168 LDVCLSYKVQCKMDFK----IFW-LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 236 HDQVAIHEAMEQQTISIAKRP-ELALMLADNGVC---CIDEFDN----LSVTSSKAGVRA 287
++ IH + + +P E L++ N V + F+ L +T+ V
Sbjct: 223 -IKLRIHSIQAELRRLLKSKPYENCLLVLLN-VQNAKAWNAFNLSCKIL-LTTRFKQVTD 279
Query: 288 TLNARASILAAANPIGGQYDRTKSLQHNVSLSAPI--MSRFDLFFVLIDECNEILDYGEC 345
L+A + + + + SL DL E+L
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVK----SLLLKYLDCRPQDL-------PREVLT---T 325
Query: 346 NPM------EKYLTYKCNSQ-WKSRILNLDESHRSMELALNVSEYDRTKSLQHNVSLSAP 398
NP E WK +N D+ +E +LNV E + +
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKH--VNCDKLTTIIESSLNVLEPAEYRKM--------- 374
Query: 399 IMSRFDLFFVLIDECN------EILDYGLHKSEVVAWYLEQIGDQIENEEELLERKTVVE 452
FD V + ++ W+ + I + L + ++VE
Sbjct: 375 ----FDRLSVFPPSAHIPTILLSLI-----------WF-DVIKSDVMVVVNKLHKYSLVE 418
Query: 453 KVIERLIY--HGAA--------------KLLVDMYTQLRQRDGNSSSK 484
K + + +VD Y + D +
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Score = 42.1 bits (98), Expect = 4e-04
Identities = 46/279 (16%), Positives = 87/279 (31%), Gaps = 70/279 (25%)
Query: 309 TKSLQHNVSLSAPIMSRFDLFFVLIDECNEIL----------DYG--------ECN---- 346
+ + H + + LF+ L+ + E++ +Y E
Sbjct: 48 KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM 107
Query: 347 PMEKYLTYKCNSQWK----------SR---ILNLDESHRSMELALNVSEYDRT---KS-L 389
Y+ + + + SR L L ++ + A NV K+ +
Sbjct: 108 MTRMYIEQR-DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV 166
Query: 390 QHNVSLSAPIMSRFD--LFFVLIDECN---EILDYGLHKSEVVAWYLEQIGDQIENEEEL 444
+V LS + + D +F++ + CN +L+ + D N +
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226
Query: 445 LERKTVVEKVIERLIYHGAAK--LLVDMYTQLRQRDGNSSSKATWR---------ITTRQ 493
+ ++ + RL+ + LLV L N + W +TTR
Sbjct: 227 IH---SIQAELRRLLKSKPYENCLLV-----LL----NVQNAKAWNAFNLSCKILLTTRF 274
Query: 494 LESLIRLSEAMAKMECLDELGKCCETNTSNVEQLLRKKV 532
+ LS A LD V+ LL K +
Sbjct: 275 KQVTDFLSAATTTHISLDHHSM--TLTPDEVKSLLLKYL 311
Score = 41.8 bits (97), Expect = 5e-04
Identities = 54/340 (15%), Positives = 97/340 (28%), Gaps = 112/340 (32%)
Query: 48 LKSLGVRDLNYRLAFLACSVAPTNPRFGGGELHTEEMSAELMK---------KHMTESEW 98
LK L R L + P + AE ++ KH+ +
Sbjct: 308 LKYLDCRP--QDLPREVLTTNP---------RRLS-IIAESIRDGLATWDNWKHVNCDKL 355
Query: 99 NKIYEMSRD-------RNLYQNLTSSLFPSIHGNEQIKKDR--NLYQNLTSSLFPSI--- 146
I E S + R ++ L S+FP + I ++ ++ S +
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRL--SVFPP---SAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 147 -HGNEQIKKDRNLYQNLTSSLFPSIHGNEQIKKA------KLLVDMYTQLRQRDGNSSSK 199
H ++K T S+ PSI+ ++K + +VD Y + D +
Sbjct: 411 LHKYSLVEKQPK---ESTISI-PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 200 ATWRITTRQLESLIRLSEAMAKMECLDEYEFDKMDPHDQVAIHEAMEQQTISIAKRPELA 259
LD+Y + H + H + + +
Sbjct: 467 -----------------------PYLDQYFYS----H--IGHHLKNIEHPERMTLFRMV- 496
Query: 260 LMLADNGVCCIDEFDNLSVTSSKAGVRAT---LNARASILAAAN----------PIGGQY 306
F + K +R NA SIL +Y
Sbjct: 497 -------------FLDFRFLEQK--IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541
Query: 307 DR-TKSLQHNVSLSAP--IMSRF-DLF-FVLIDECNEILD 341
+R ++ + I S++ DL L+ E I +
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581
Score = 40.6 bits (94), Expect = 0.001
Identities = 25/153 (16%), Positives = 53/153 (34%), Gaps = 23/153 (15%)
Query: 371 HRSMELALNVSEYDRTKSLQHNVSLSAPIMSRFDLFFVLID---------ECNEILDYG- 420
H M+ +Y L + FD V D E + I+
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFED---AFVDNFDCKDVQ-DMPKSILSKEEIDHIIMSKD 59
Query: 421 -LHKSEVVAWYLEQIGDQIENE--EELLER--KTVVEKVIERLIYHGAAKLLVDMYTQLR 475
+ + + W L +++ + EE+L K ++ + ++ MY + R
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR---QPSMMTRMYIEQR 116
Query: 476 QRDGNSSSKATWRITTRQLESLIRLSEAMAKME 508
R N + +R L+ ++L +A+ ++
Sbjct: 117 DRLYNDNQVFAKYNVSR-LQPYLKLRQALLELR 148
Score = 31.4 bits (70), Expect = 0.95
Identities = 27/172 (15%), Positives = 52/172 (30%), Gaps = 71/172 (41%)
Query: 327 DLFFVLID------ECNEILDYGECNPMEKYLTYKCNSQWKSRILNLDESHRSMELALNV 380
D+ V D +C ++ D + L+
Sbjct: 20 DILSVFEDAFVDNFDCKDVQDM-------------------------------PKSILSK 48
Query: 381 SEYDRTKSLQHNVSLSAPIMSRFDLFFVLIDECNEIL----------DYGLHKSEVVAWY 430
E D H + + LF+ L+ + E++ +Y +
Sbjct: 49 EEID------HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK--------FL 94
Query: 431 LEQIGDQIENEEELLERKTVVEKVIERLIYHGA---AKLLV---DMYTQLRQ 476
+ I + E + + + +E+ +RL Y+ AK V Y +LRQ
Sbjct: 95 MSPI--KTEQRQPSMMTRMYIEQR-DRL-YNDNQVFAKYNVSRLQPYLKLRQ 142
>2klq_A CBD, P105MCM, DNA replication licensing factor MCM6; PRE-RC, CDT1,
CBD structure, ATP-BIND cycle, DNA-binding,
nucleotide-binding, nucleus; HET: DNA; NMR {Homo
sapiens}
Length = 114
Score = 56.4 bits (136), Expect = 3e-10
Identities = 20/42 (47%), Positives = 33/42 (78%)
Query: 420 GLHKSEVVAWYLEQIGDQIENEEELLERKTVVEKVIERLIYH 461
L +SE+V WYL++I +I++EEEL+ +K ++EKVI RL ++
Sbjct: 35 ALKRSELVNWYLKEIESEIDSEEELINKKRIIEKVIHRLTHY 76
>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A
{Methanothermobacterthermautotrophicus} SCOP: b.40.4.11
Length = 279
Score = 35.4 bits (82), Expect = 0.034
Identities = 10/35 (28%), Positives = 21/35 (60%)
Query: 80 HTEEMSAELMKKHMTESEWNKIYEMSRDRNLYQNL 114
+TE + E + ++E + KI E++ D N+Y+ +
Sbjct: 243 YTEFLEQEFEELQISEEDEEKIKELAGDPNIYEKI 277
>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 = 35.4 bits (81), Expect = 0.056
Identities = 27/164 (16%), Positives = 57/164 (34%), Gaps = 60/164 (36%)
Query: 1 MLADNGV------CCIDEFDKMDPHDQVAIHEAMEQQTISIAKGDMN--VEG-VRGLKSL 51
ML+ + + +++ + P + + IS+ G N V G + L L
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGK-QVE-------ISLVNGAKNLVVSGPPQSLYGL 389
Query: 52 GV--------------------RDLNYRLAFLACSVAPTNPRFGGGELHTEEM--SAELM 89
+ R L + FL + +P F H+ + +++L+
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA-SP----F-----HSHLLVPASDLI 439
Query: 90 KKHMTES--EWN----KI--Y--EMSRD-RNLYQNLTSSLFPSI 122
K + ++ +N +I Y D R L +++ + I
Sbjct: 440 NKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI 483
Score = 32.7 bits (74), Expect = 0.35
Identities = 40/264 (15%), Positives = 86/264 (32%), Gaps = 79/264 (29%)
Query: 251 SIAKRPELALMLADNGVCCIDEFDNLSVTSSKAGVRATLNAR-ASILAAANPIGGQYDRT 309
+ + RP L L+ + E L V ++ + + L + IL D
Sbjct: 3 AYSTRP---LTLSHGSL----EHV-LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEP 54
Query: 310 KSLQHNVSLSAPIMSRFDLFFV--LIDECNEILDYGECNPMEKYLTYKCNSQWKSRILNL 367
+ L +F L +V L++ +++ + + + LT +++ L
Sbjct: 55 TT---PAELVG----KF-LGYVSSLVEP-SKVGQFDQV--LNLCLTE-----FENCYLEG 98
Query: 368 DESHRSMELALNVSE-------------Y-------DRTKSLQHNVSL-------SAPIM 400
++ H ++ L Y R + N +L +A ++
Sbjct: 99 NDIH-ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV 157
Query: 401 SRF------DLFFVLIDECNEILDYGLHKSEVVAWYLEQIGDQIENEEELLERKTVVEKV 454
+ F D +F +E + L+++ Y +GD I+ E L
Sbjct: 158 AIFGGQGNTDDYF---EELRD-----LYQT-----YHVLVGDLIKFSAETLSELIRTTLD 204
Query: 455 IERLIYHGAAKLLVDMYTQLRQRD 478
E++ G +++ L
Sbjct: 205 AEKVFTQG-----LNILEWLENPS 223
>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 = 30.7 bits (68), Expect = 0.69
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 15/40 (37%)
Query: 207 RQLESLIRLSEAMAKMECLDEYEFDKMDPHDQVAIHEAME 246
++L++ ++L Y D P +AI ME
Sbjct: 23 KKLQASLKL------------YADDSA-P--ALAIKATME 47
Score = 28.8 bits (63), Expect = 2.9
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 4/24 (16%)
Query: 382 EYDRTKSLQHNVSL----SAPIMS 401
E K LQ ++ L SAP ++
Sbjct: 18 EKQALKKLQASLKLYADDSAPALA 41
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 31.3 bits (71), Expect = 0.83
Identities = 17/90 (18%), Positives = 28/90 (31%), Gaps = 27/90 (30%)
Query: 260 LMLADNGVCCIDEFDNLS---------------VTSSKAGVRATLNARASILAAANPIGG 304
L A+ G IDE + L + G+ AR ++ + NP G
Sbjct: 140 LARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEG 199
Query: 305 QYDRTKSLQHNVSLSAPIMSRFDLFFVLID 334
L ++ RF L ++
Sbjct: 200 D------------LRPQLLDRFGLSVEVLS 217
>3io5_A Recombination and repair protein; storage dimer, inactive
conformation, RECA like core domain, binding, DNA
damage, DNA recombination; 2.40A {Enterobacteria phage
T4}
Length = 333
Score = 30.9 bits (70), Expect = 1.1
Identities = 21/85 (24%), Positives = 30/85 (35%), Gaps = 9/85 (10%)
Query: 410 IDECNEILDYGLHKSEVV----AWYL-----EQIGDQIENEEELLERKTVVEKVIERLIY 460
ID + +LD L VV WY E+ G+ I E+ + T L
Sbjct: 241 IDPYSGLLDMALELGFVVKPKNGWYAREFLDEETGEMIREEKSWRAKDTNCTTFWGPLFK 300
Query: 461 HGAAKLLVDMYTQLRQRDGNSSSKA 485
H + + QL D N +A
Sbjct: 301 HQPFRDAIKRAYQLGAIDSNEIVEA 325
>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 = 29.8 bits (67), Expect = 2.6
Identities = 25/134 (18%), Positives = 41/134 (30%), Gaps = 28/134 (20%)
Query: 211 SLIRLSEAMAKMECLDEYEFDKMDPHDQVAIHEAMEQQTIS-IAKRPELA--LMLADNGV 267
S IRL E E F+ +P + I E + ++ + E A
Sbjct: 902 SGIRLIE--------PEL-FNGYNPEKKEMIQEVIVEEDLEPFEASKETAEQFKHQHGDK 952
Query: 268 CCIDEFDNLS--VTSSKAGVRATLNARASILAAANPIGGQ----YDRTKSLQHNVSLSAP 321
I E G + +A + GQ ++ +S
Sbjct: 953 VDIFEIPETGEYSVKLLKGATLYI-PKALRFDRL--VAGQIPTGWNAKTYG-----ISDD 1004
Query: 322 IMSRFDLF--FVLI 333
I+S+ D FVL+
Sbjct: 1005 IISQVDPITLFVLV 1018
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.9
Identities = 12/64 (18%), Positives = 23/64 (35%), Gaps = 6/64 (9%)
Query: 432 EQIGDQIENEEELLERKTVVEKVIERLIYHGAAKLLVDMYTQLRQRDGNSSSKATWRITT 491
E I E + + L+ KV+E+ A K L + +++ +I
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWN---QRQS---EQVEKNKINN 138
Query: 492 RQLE 495
R +
Sbjct: 139 RIAD 142
>1xb4_A VPS25, hypothetical 23.6 kDa protein in YUH1-URA8 intergenic
region; winged helix, unknown function; 3.10A
{Saccharomyces cerevisiae} SCOP: a.4.5.54 a.4.5.54 PDB:
1w7p_B 1u5t_C
Length = 202
Score = 28.5 bits (63), Expect = 3.9
Identities = 9/79 (11%), Positives = 23/79 (29%), Gaps = 8/79 (10%)
Query: 358 SQWKSRILNLDESHRSMELALNVSEYDRTKSLQHNVSLSAPIMSRFDLFF-------VLI 410
S W I ++ + ++++ + + + + +LF V
Sbjct: 28 STWIDIISQYCKTKKIWYMSVDGTVINDNELDSGSTDNDDSKKISKNLFNNEDIQRSVSQ 87
Query: 411 DECNEILDYGLHKSEVVAW 429
+EI + K
Sbjct: 88 VFIDEIWSQ-MTKEGKCLP 105
>1wth_A Protein GP5, tail-associated lysozyme; triple-stranded beta-helix,
OB fold, pseudohexamer, T4 tail HUB, GP5-GP27; 2.80A
{Enterobacteria phage T4} PDB: 2z6b_A 1k28_A 1pdl_A
Length = 584
Score = 28.2 bits (61), Expect = 8.7
Identities = 13/79 (16%), Positives = 25/79 (31%), Gaps = 2/79 (2%)
Query: 99 NKIYEMSRDRNLYQNLTSSLFPSIHGNEQIKKDRNLYQNLTSSLFPSIHGNEQIKKDRNL 158
N + D N ++ G+E N + S + G+E + N
Sbjct: 437 NLYDITNADGNFLVAGDKKT--NVGGSEIYYNMDNRLHQIDGSNTIFVRGDETKTVEGNG 494
Query: 159 YQNLTSSLFPSIHGNEQIK 177
+ ++ + GN I
Sbjct: 495 TILVKGNVTIIVEGNADIT 513
Score = 28.2 bits (61), Expect = 9.5
Identities = 11/69 (15%), Positives = 25/69 (36%)
Query: 109 NLYQNLTSSLFPSIHGNEQIKKDRNLYQNLTSSLFPSIHGNEQIKKDRNLYQNLTSSLFP 168
N + S + G+E + N + ++ + GN I + + +
Sbjct: 469 NRLHQIDGSNTIFVRGDETKTVEGNGTILVKGNVTIIVEGNADITVKGDATTLVEGNQTN 528
Query: 169 SIHGNEQIK 177
+++GN K
Sbjct: 529 TVNGNLSWK 537
>3hhp_A Malate dehydrogenase; MDH, citric acid cycle, TCA cycle, NAD,
oxidoreductase, tricarboxylic acid cycle; 1.45A
{Escherichia coli k-12} PDB: 2pwz_A 2cmd_A* 1emd_A*
1ib6_A* 1ie3_A* 4e0b_A*
Length = 312
Score = 27.6 bits (62), Expect = 9.5
Identities = 9/37 (24%), Positives = 14/37 (37%)
Query: 2 LADNGVCCIDEFDKMDPHDQVAIHEAMEQQTISIAKG 38
L NGV + +Q A+ ++ IA G
Sbjct: 270 LGKNGVEERKSIGTLSAFEQNALEGMLDTLKKDIALG 306
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
0.317 0.131 0.376
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: 7,888,265
Number of extensions: 468944
Number of successful extensions: 1014
Number of sequences better than 10.0: 1
Number of HSP's gapped: 993
Number of HSP's successfully gapped: 38
Length of query: 532
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 434
Effective length of database: 3,965,535
Effective search space: 1721042190
Effective search space used: 1721042190
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.4 bits)