RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8245
(629 letters)
>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 = 50.4 bits (120), Expect = 2e-06
Identities = 91/595 (15%), Positives = 168/595 (28%), Gaps = 209/595 (35%)
Query: 3 STQANLV-EWIAFSDFRL----ISQFTDVCKTFVQKFTCGRVETDKSTKFSQGKTLECLQ 57
+T A LV +++ + + + QF V + +F + +G + L
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFE---------NCYLEGNDIHALA 105
Query: 58 MHIDKLDG---DCRHQVLR--LSELQSDDIKLDRV----LYVACANDRYRLCSDVP-QGS 107
+ + + ++++ ++ D+ L+ A +L + QG+
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGN 165
Query: 108 GQIY-KCLMD--HTGDKLMSD---KCREQLLRRQMLIASDYQVSKRLARACKEDI----- 156
Y + L D T L+ D E L LI + K + +I
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKFSAETLSE---LIRTTLDAEKVFTQGL--NILEWLE 220
Query: 157 ---RTHKCRRLVSDDREIRLAQI---LVCLENAVH--NGSKVSGECQAEMTSHRKMLLTD 208
T L+S I L+ + H +K+ G E+ S+ K
Sbjct: 221 NPSNTPDKDYLLS-------IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG- 272
Query: 209 YRLSPEIVTRCSEDIVTYCRGLEAGGKTIHCLMEHARRNRKKERISPPCLRAVESLIKTA 268
S+ +VT AV I
Sbjct: 273 ----------HSQGLVT----------------------------------AV--AIAET 286
Query: 269 DAGEDWR--VDPVLKE------ACQ---PVVDIACRGIRGGDARVMSCLMDNLDNDV--- 314
D+ E + V + C P + S L D+L+N+
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP-----------PSILEDSLENNEGVP 335
Query: 315 --MTAPCESALIQIQYFIARD---FELDPRLYRACYDEATRLCHAKKEWFKVKDLEPNNG 369
M + Q+Q ++ + ++ + NG
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV----------------------NG 373
Query: 370 P--LVL---PCLYRYLYHSETKW-KLGRSCGDEVRRV-MRQRAE--SVRLLPEVEQACVD 420
LV+ P + LY K G + R+ +R S R LP
Sbjct: 374 AKNLVVSGPP---QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP-------- 422
Query: 421 DLGMYCPERTGPGQEMDCLQERLPELKPDCAALVESLIKTADAGEDWRVDPVLKEACQPV 480
+ P + L + D S +D ++ PV
Sbjct: 423 ---VASPFHS------HLLVPASDLINKDLVKNNVSF-----NAKDIQI---------PV 459
Query: 481 VDIACRGIRGGDARVMS-CLMDNLDNDVMTAPC--ESAL-IQIQYFIARDFELDP 531
D G D RV+S + + + + ++ P E+ + + + DF P
Sbjct: 460 YDTFD----GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL--DF--GP 506
Score = 40.0 bits (93), Expect = 0.002
Identities = 52/344 (15%), Positives = 87/344 (25%), Gaps = 136/344 (39%)
Query: 200 SHRK-MLLTDYRLSP---EIVTRCSE-----------DIVTYCRGLEAGGKTIHCLMEHA 244
S + M + Y+ S ++ R DIV TIH E
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVIN----NPVNLTIHFGGEKG 1681
Query: 245 RRNRKKERISPPCLRAVESLIKTADAGEDWRVDPVLKEACQPVVDIACRGIRGGDARVMS 304
+R R+ ++I + + + KE + R +G
Sbjct: 1682 KRIREN----------YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG------- 1724
Query: 305 CLMDNLDNDVMTAPCESALIQIQYFIARDFELDPRLYRACYDEATRLCHAKKEWFKVKDL 364
L+ T P AL ++ D K L
Sbjct: 1725 -LLSATQF---TQP---ALTLMEKAAFEDL---------------------KSKG----L 1752
Query: 365 EPNN----GPLVLPCLYRYLYHSETKWKLG-----RSCG------DEVRRVMRQRAESVR 409
P + G HS LG S V V R +++
Sbjct: 1753 IPADATFAG------------HS-----LGEYAALASLADVMSIESLVEVV-FYRGMTMQ 1794
Query: 410 LLPEVEQACVDDLGMY--CPERTGPGQEMDCLQERLPELKPDCAALVESLIKTADAGEDW 467
+ ++ + GM P R + LQ +VE + G
Sbjct: 1795 VAVPRDELGRSNYGMIAINPGRVAASFSQEALQY-----------VVERV--GKRTGW-- 1839
Query: 468 RVDPVLKEACQPVVDIA---CRG---IRGGDARVMSCLMDNLDN 505
+V+I + GD R + + + L+
Sbjct: 1840 ------------LVEIVNYNVENQQYVAAGDLRALDTVTNVLNF 1871
>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 = 46.4 bits (109), Expect = 3e-05
Identities = 76/436 (17%), Positives = 124/436 (28%), Gaps = 139/436 (31%)
Query: 17 FRLISQFTDVCKTFVQKFTCGRVETDKSTKFSQGKTLECLQ------MHI---DKLDGDC 67
RL + VQKF + + S KT E Q M+I D+L D
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT-EQRQPSMMTRMYIEQRDRLYNDN 123
Query: 68 R----HQVLR---LSELQSDDIKLDRVLYV----------------ACANDRYRLCSDVP 104
+ + V R +L+ ++L V C + + + D
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD-- 181
Query: 105 QGSGQIY-----KCLMDHTGDKLMSDKCREQLLRRQMLIASDYQVSKRLARACKEDIRTH 159
+I+ C ++ + ++ E L + I ++ + R + +R H
Sbjct: 182 ---FKIFWLNLKNC---NSPETVL-----EMLQKLLYQIDPNW--TSRSDHSSNIKLRIH 228
Query: 160 ----KCRRLVSDDREIRLAQILVCLENAVHNGSKV---SGECQAEMTSHRKMLLTDYRLS 212
+ RRL+ L+ L N V N + C K+LLT
Sbjct: 229 SIQAELRRLLKSKP---YENCLLVLLN-VQNAKAWNAFNLSC--------KILLT----- 271
Query: 213 PEIVTRCSE--DIVTYCRGLEAGGKTIHCLMEHARRNRKKERISPPCLRAVESLIKTADA 270
TR + D ++ T H ++H + L+K D
Sbjct: 272 ----TRFKQVTDFLS-------AATTTHISLDHHSMTLTPDE-------VKSLLLKYLDC 313
Query: 271 GEDWRVD-PVLKEACQ--PVVDIACRGIRGGDARVMSCLMDNLDNDVMTAPCESALIQIQ 327
D P +E P I R DN + C+ I+
Sbjct: 314 RPQ---DLP--REVLTTNP---RRLSII-AESIRDGLATWDNWKH----VNCDKLTTIIE 360
Query: 328 YFIARDFELDPRLYRACYDE-----------ATRLCHAKKEWFKVKDLEP-------NNG 369
+ L+P YR +D L WF V + +
Sbjct: 361 SSLN---VLEPAEYRKMFDRLSVFPPSAHIPTILLS---LIWFDVIKSDVMVVVNKLHKY 414
Query: 370 PLVL--PCLYRYLYHS 383
LV P S
Sbjct: 415 SLVEKQPKESTISIPS 430
Score = 45.2 bits (106), Expect = 6e-05
Identities = 33/258 (12%), Positives = 67/258 (25%), Gaps = 73/258 (28%)
Query: 11 WIAFSDFRLISQFTDVCKT-----------FVQKFTCGRVETDKSTK-FSQGKTLE---- 54
W AF + CK F+ T + D + + +
Sbjct: 259 WNAF-NLS--------CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 55 CLQMHIDKLDGDCRHQVLRLS--------ELQSDDI-KLDRVLYVACAN----------- 94
L L +VL + E D + D +V C
Sbjct: 310 YLDCRPQDL----PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 95 -------DRYRLCS------DVPQGSGQIYKCLMDHTGDKLMSDKCREQLL---RRQMLI 138
+ S +P + + + ++ +K + L + +
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Query: 139 ASDYQVSKRLARACKEDIRTHKCRRLVSDDREIRLAQ----ILVCLENAVHN--GSKVSG 192
S + L + + H R +V + I L+ ++ G +
Sbjct: 426 ISIPSIYLELKVKLENEYALH--RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 193 ECQAEMTSHRKMLLTDYR 210
E + +M+ D+R
Sbjct: 484 IEHPERMTLFRMVFLDFR 501
Score = 38.7 bits (89), Expect = 0.006
Identities = 80/523 (15%), Positives = 147/523 (28%), Gaps = 167/523 (31%)
Query: 111 YKCLMDHTGDKLMSD-KCR--EQLLRRQMLIASDYQVSKRLARACKEDIRTHKCRRLVSD 167
YK ++ D + + C+ + + + I S ++ + I ++S
Sbjct: 18 YKDILSVFEDAFVDNFDCKDVQDMPKS---ILSKEEI---------DHI-------IMSK 58
Query: 168 DREIRLAQILVCLENAVHNGSKVSGECQAEMTSHRKMLLTDYR-LSPEIVTRC---SEDI 223
D ++ L + + E ++L +Y+ L I T S
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKFVE---------EVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 224 VTYCRGLEAGGKTIHCLMEHARRNRKKERISPPCLRAVESLIKTADAGEDWRVDPV--LK 281
Y + + R + + V R+ P L+
Sbjct: 110 RMY-------------IEQRDRLYNDNQVFAK---YNV------------SRLQPYLKLR 141
Query: 282 EA---CQPVVDIACRGIRG-GDARVMSCL----------MDNLDNDV--MT-APCESA-- 322
+A +P ++ G+ G G + + +D + + C S
Sbjct: 142 QALLELRPAKNVLIDGVLGSGK----TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 323 -LIQIQYFIARDFELDPRLY-RACYDEATRL-CHAKKEWFK--VKDLEPNNGPLVLPCLY 377
L +Q + + +DP R+ + +L H+ + + +K N LVL
Sbjct: 198 VLEMLQKLLYQ---IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---- 250
Query: 378 RYLYHSETKWK-LGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMYCPERTGPGQEM 436
+ +++ W SC + ++ R + V D L
Sbjct: 251 LNVQNAKA-WNAFNLSC----KILLTTRFKQV----------TDFLS-------AATTTH 288
Query: 437 DCLQERLPELKPDCAALVESLIKTADAGEDWRVD-PVLKEACQ--PVVDIACRGIRGGDA 493
L L PD + L+K D D P +E P I
Sbjct: 289 ISLDHHSMTLTPD--EVKSLLLKYLDCRPQ---DLP--REVLTTNP---RRLSII-AESI 337
Query: 494 RVMSCLMDNLDNDVMTAPCESALIQIQYFIARDFELDPRLYRACYDE-----------AT 542
R DN + C+ I+ + L+P YR +D
Sbjct: 338 RDGLATWDNWKH----VNCDKLTTIIESSLN---VLEPAEYRKMFDRLSVFPPSAHIPTI 390
Query: 543 RLCHAKKEWFKVKDLEP-------NNGPLVL--PCLYRYLYHS 576
L WF V + + LV P S
Sbjct: 391 LLS---LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
Score = 31.0 bits (69), Expect = 1.5
Identities = 37/246 (15%), Positives = 64/246 (26%), Gaps = 82/246 (33%)
Query: 410 LLPEVEQACVDDLGMY-CPERTGP---GQEMD-CLQERLPE---------LKPDCAALVE 455
+L E A VD+ + +E+D + + L +V+
Sbjct: 21 ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 456 SLIKTADAGE-DWRVDPVLKEACQPVVD----IACRGIRGGDARVMSCLMDNLDNDVMTA 510
++ + + P+ E QP + I R D L ND
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR--------------DRLYNDNQVF 126
Query: 511 PCESALIQIQYFIARDFELDPRLYRACYDEATRLCHAK-----------KEW-------- 551
+Y ++R + Y L AK K W
Sbjct: 127 A--------KYNVSR-----LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 552 FKVKDLEPNNGPLVLPCLYRYLYHSETKW-KLGRSCGDEERLPELKPDCAALVGNFTSAQ 610
+KV+ ++ W L E L L+ + N+TS
Sbjct: 174 YKVQCKMDFK-----------IF-----WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 611 VQDVRL 616
+
Sbjct: 218 DHSSNI 223
>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 = 35.2 bits (81), Expect = 0.069
Identities = 37/183 (20%), Positives = 49/183 (26%), Gaps = 64/183 (34%)
Query: 139 ASDYQVSKRLARACKEDIRTHKCRRLVSDDREIRLAQILVCLENAVHNGSKVSGECQAEM 198
A Y +S + ++ D LV + A SG
Sbjct: 996 AKTYGISDDIIS------------QV---DPITLFV--LVSVVEAFIA----SG------ 1028
Query: 199 TSHRKMLLTDYRLSPEIVTRCSEDIVTYCRGLEAGG-KTIHCLMEHARRNRKKERISPPC 257
+TD E+ V C G GG + + K E +
Sbjct: 1029 -------ITD---PYEMYKYVHVSEVGNCSGSGMGGVSALR---GMFKDRFKDEPVQNDI 1075
Query: 258 LRAVESLIKTADAGEDWRVD------------PVLKEAC---QPVVDIACRGIRGGDARV 302
L ES I T A V+ PV AC VDI I G AR+
Sbjct: 1076 L--QESFINTMSAW----VNMLLISSSGPIKTPV--GACATSVESVDIGVETILSGKARI 1127
Query: 303 MSC 305
Sbjct: 1128 CIV 1130
Score = 32.5 bits (74), Expect = 0.54
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 481 VDIACRGIRGGDARVMSC 498
VDI I G AR+
Sbjct: 1113 VDIGVETILSGKARICIV 1130
>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 = 32.2 bits (72), Expect = 0.20
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 428 ERTGPGQEMDCLQERLPELKPDCA-AL-VESLIK 459
E+ Q + LQ L D A AL +++ ++
Sbjct: 18 EK----QALKKLQASLKLYADDSAPALAIKATME 47
Score = 29.9 bits (66), Expect = 1.5
Identities = 9/37 (24%), Positives = 12/37 (32%), Gaps = 11/37 (29%)
Query: 577 ETKWKLGRSCGDEERLPELKPDCA-ALVGNFTSAQVQ 612
K KL + L D A AL A ++
Sbjct: 21 ALK-KL------QASLKLYADDSAPALAIK---ATME 47
>2ddh_A Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundle,
oxidoreductase; HET: FAD HXD; 2.07A {Rattus norvegicus}
SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 1is2_A*
Length = 661
Score = 30.2 bits (68), Expect = 2.7
Identities = 26/178 (14%), Positives = 52/178 (29%), Gaps = 29/178 (16%)
Query: 460 TADAGEDWRVDPVLKEACQPVVDIACRGIRGGDARVMSCLMDNLD-----NDVMTAPCES 514
D L EA + A R + + + + N +
Sbjct: 470 VWPTMVDINSLEGLTEAYK---LRAARLVEIAAKNLQTHVSHRKSKEVAWNLTSVDLVRA 526
Query: 515 ALIQIQYFIARDFELDPRLYRACYDEATR-----LCHAKKEWFKVKDLEPNNGPLVLPCL 569
+ Y + + F D+A + LC + + + G
Sbjct: 527 SEAHCHYVVVKVFS---DKLPKIQDKAVQAVLRNLCLL----YSLYGISQKGG-----DF 574
Query: 570 YRYLYHSETKWKLGRSCGDEERLPELKPDCAALVGNFTSAQVQDVRLNPLIMKYCGHV 627
+ + + E L ++P+ ALV F +D+ L ++ +Y G+V
Sbjct: 575 LEGSIITGAQLSQVNARI-LELLTLIRPNAVALVDAF---DFKDMTLGSVLGRYDGNV 628
>2e9x_B DNA replication complex GINS protein PSF2; eukaryotic DNA
replication; HET: DNA; 2.30A {Homo sapiens} SCOP:
a.278.1.2 d.344.1.2 PDB: 2eho_C* 2q9q_A*
Length = 185
Score = 28.4 bits (63), Expect = 6.2
Identities = 12/69 (17%), Positives = 26/69 (37%), Gaps = 4/69 (5%)
Query: 142 YQVSKRLARACKEDIRT-HKCRRLVSDDREIRLAQI---LVCLENAVHNGSKVSGECQAE 197
+++K L ++I + R LV D + R+A++ +K+ E
Sbjct: 93 MELTKLLLNHASDNIPKADEIRTLVKDMWDTRIAKLRVSADSFVRQQEAHAKLDNLTLME 152
Query: 198 MTSHRKMLL 206
+ + L
Sbjct: 153 INTSGTFLT 161
>2vfx_A Mitotic spindle assembly checkpoint protein MAD2A; CDC2, nucleus,
mitosis, anaphase, cell cycle, CE division, spindle
checkpoint; HET: PE4 PE3; 1.95A {Homo sapiens} PDB:
2qyf_A 2v64_A 1s2h_A 1go4_A 3gmh_A 1klq_A 2v64_D 1duj_A
Length = 206
Score = 27.7 bits (61), Expect = 8.2
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 395 DEVRRVMRQRAESVRLLPEVEQACVDDLGMYCPERTGPGQE 435
DE+R V+RQ +V LP +E +C DL +Y + ++
Sbjct: 127 DEIRSVIRQITATVTFLPLLEVSCSFDLLIYTDKDLVVPEK 167
>4aez_B MAD2, mitotic spindle checkpoint component MAD2; cell cycle,
KEN-BOX, D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}
Length = 203
Score = 27.8 bits (61), Expect = 9.6
Identities = 8/41 (19%), Positives = 22/41 (53%)
Query: 395 DEVRRVMRQRAESVRLLPEVEQACVDDLGMYCPERTGPGQE 435
E++ ++ Q +V LP++E+ C ++ +Y + + +
Sbjct: 126 KEIQALIAQITATVTFLPQLEEQCTFNVLVYADKDSEVPTD 166
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
0.323 0.138 0.432
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,825,755
Number of extensions: 599565
Number of successful extensions: 1015
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1011
Number of HSP's successfully gapped: 23
Length of query: 629
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 530
Effective length of database: 3,937,614
Effective search space: 2086935420
Effective search space used: 2086935420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 60 (27.4 bits)