RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4670
(643 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 = 63.1 bits (153), Expect = 2e-10
Identities = 85/523 (16%), Positives = 157/523 (30%), Gaps = 189/523 (36%)
Query: 200 YMVQSGLEDRFHIQSDVPRVSQYRLAS--------HLSMAFLLYSGLLWTALDHLLPSSK 251
+ + S L+++F +P ++ A+ L FL Y + L+ SK
Sbjct: 27 FFIASQLQEQF--NKILPEPTE-GFAADDEPTTPAELVGKFLGY-------VSSLVEPSK 76
Query: 252 QLADN---RAGLVRFKRLAYMSKGLIFVTALSGLTRWSSQVATTLSENVAKPNILEKPTR 308
+ L F+ Y+ I +A L + +++
Sbjct: 77 VGQFDQVLNLCLTEFEN-CYLEGNDIHA------------LAAKLLQENDTT-LVKTKEL 122
Query: 309 ITGYWLLGCSGMVFGAVVLGG--VTRLTESGL---------SMVTWKLF---GEKLPRNS 354
I Y A ++ + + S L +V +F G N+
Sbjct: 123 IKNY---------ITARIMAKRPFDKKSNSALFRAVGEGNAQLVA--IFGGQG-----NT 166
Query: 355 AEWIEEF-NLYKEYPEF----------KLQNI-------------GL--MGWYMVQSGLE 388
++ EE +LY+ Y L + GL + W LE
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW------LE 220
Query: 389 DRFHTQSDVPRVSQYRLASH-LSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLL-RFKR 446
+ S+ P + L S +S + G+ L H + ++K L L K
Sbjct: 221 NP----SNTP--DKDYLLSIPISCPLI---GV--IQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 447 LAYMSKGLI--FVTALSG------ENMLRGLMGWYMVQSGLE--DRFHTQSDVPRVSQYR 496
S+GL+ A + ++ + + + G+ + + S P + +
Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAIT--VLFFIGVRCYEAYPNTSLPPSILEDS 327
Query: 497 L------ASHLSMAFLLYSGL----LWTALDHL---LPSSKQL-------ADNR--AG-- 532
L S M L S L + ++ LP+ KQ+ A N +G
Sbjct: 328 LENNEGVPSP--M--LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP 383
Query: 533 --LLRFK---------------RLAYMSKGLIFVTALSGAFVAGLDAGLVYNSFPLMAD- 574
L R+ + + L F F L ++S L+
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR----F---LPVASPFHS-HLLVPA 435
Query: 575 -RLIPTDILALEPPLRNFTENPTTVQFDHRVLGISVFSLLTAQ 616
LI D++ V F+ + + I V+
Sbjct: 436 SDLINKDLVKNN------------VSFNAKDIQIPVYDTFDGS 466
Score = 49.7 bits (118), Expect = 3e-06
Identities = 105/624 (16%), Positives = 179/624 (28%), Gaps = 255/624 (40%)
Query: 49 VATTLSENVAKPNILDKPTRITGYWLLGCSGMVFGAVVLGG--VTRLTESGL-------- 98
+A L + ++ I Y A ++ + + S L
Sbjct: 104 LAAKLLQENDTT-LVKTKELIKNY---------ITARIMAKRPFDKKSNSALFRAVGEGN 153
Query: 99 -SMVTWKLF---GEKLPRNSAEWIEEF-NLYKEYPEFKLKNKDITLEEFKRIWWMEYLHR 153
+V +F G N+ ++ EE +LY+ Y + + +
Sbjct: 154 AQLVA--IFGGQG-----NTDDYFEELRDLYQTYHVL--------VGDL--------IKF 190
Query: 154 MWGRCIGAAFFIPASIFWYKGYFNSAMKKRVGVFGLLIACQGLMGWYMVQSGLEDRFHIQ 213
+ + N ++ W LE+
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLN------------------ILEW------LENP---- 222
Query: 214 SDVPRVSQYRLASH-LSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLVRFKRLAYMSKG 272
S+ P + L S +S + G++ QLA Y+
Sbjct: 223 SNTP--DKDYLLSIPISCPLI---GVI------------QLA------------HYV--- 250
Query: 273 LIFVTA-LSGLTRWSSQVATTLSENVAKPNILEKPTRITGYWLLGCSGMVFGAVVLGGVT 331
VTA L G T P L + G S + AV +
Sbjct: 251 ---VTAKLLGFT----------------PGELRSYLK----GATGHSQGLVTAVAIAETD 287
Query: 332 ---RLTESGLSMVTWKLF--G----EKLPRNSAEWIEEFNLYKEYPEFKLQNIGLMGWYM 382
S +T LF G E P S ++ ++ E N G+ M
Sbjct: 288 SWESFFVSVRKAITV-LFFIGVRCYEAYPNTSL----PPSILEDSLE---NNEGVPS-PM 338
Query: 383 VQ-SGLEDRFHTQSDVPRVSQYRLASHLSMAFLLYSGLLWTALDHLLPSSKQLADNRAGL 441
+ S L + Q V + + + LP+ KQ+
Sbjct: 339 LSISNL-TQEQVQDYVNKTNSH------------------------LPAGKQV------- 366
Query: 442 LRFKRLAYMSKGLI-----FVTALSGENM-LRGLMGW---YMVQSGLEDRFHTQSDVPRV 492
+S L+ V +SG L GL SGL+ QS +P
Sbjct: 367 -------EIS--LVNGAKNLV--VSGPPQSLYGLNLTLRKAKAPSGLD-----QSRIPF- 409
Query: 493 SQYRLASHLSMAFL-----LYSGLLWTALDHLLPSSKQLADNRAGLLRFKRLAYMSKGL- 546
S+ +L S FL +S LL A D + D L +++ +K +
Sbjct: 410 SERKLK--FSNRFLPVASPFHSHLLVPASDLI------NKD-----LVKNNVSFNAKDIQ 456
Query: 547 --IFVTALSGAFVAGLDAGLVYNSFPLMADRLIPTDILALEPPLRNFTENPTTVQFD--H 602
++ T G+ + L + +R++ + P+ + TT QF H
Sbjct: 457 IPVYDTF-DGSDLRVLSGSIS--------ERIVD---CIIRLPV-KW---ETTTQFKATH 500
Query: 603 RVL-----GISVFSLLTAQYWMGR 621
+L G S +LT + G
Sbjct: 501 -ILDFGPGGASGLGVLTHRNKDGT 523
>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 = 40.2 bits (93), Expect = 0.002
Identities = 92/625 (14%), Positives = 166/625 (26%), Gaps = 214/625 (34%)
Query: 61 NILDKPTRITG----YWLLGCSGMVFGAVVLGGVTR-----LTES------GLSMVTWKL 105
+I+ ++G +W L + V R L SM+T ++
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMT-RM 111
Query: 106 FGEKLPR--NSAEWIEEFNLYKEYPEFKLKNKDITLEEFKRIWWMEYLHRMWGRCIG--- 160
+ E+ R N + ++N+ + P KL+ L E + + + + G G
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA---LLELRPAKNV-LIDGVLG--SGKTW 165
Query: 161 -AA---------FFIPASIFWYK-GYFNSAMKKRVGVFGLLIACQGLMGWYMVQSGLEDR 209
A + IFW NS +L Q L Y + R
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSPE-------TVLEMLQKL--LYQIDPNWTSR 216
Query: 210 FHIQSDVPRVS---QYRLASHLSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLVRFKRL 266
S++ Q L L + + LL L ++ + + + A + K
Sbjct: 217 SDHSSNIKLRIHSIQAEL-RRLLKSKPYENCLL--VLLNV--QNAKAWN--AFNLSCK-- 267
Query: 267 AYMSKGLIFVTALSGLTRWSSQVATTLSENVAKPNILEKPTRITGYWLLGCSGMVFGAVV 326
I +T TR QV LS L+
Sbjct: 268 -------ILLT-----TR-FKQVTDFLSAATTTHISLDH--------------------H 294
Query: 327 LGGVT-RLTESGLSMVTWKLFGEKLPRNSAEWIEEFNLYKEYPEFKLQNIGLMGWYMVQS 385
+T +S L + LPR P +L I
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRP-QDLPREVL---------TTNP-RRLSIIAES------- 336
Query: 386 GLEDRFHTQSDVPRVSQYRLASHLSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLLRFK 445
+ D T + V+ +L + + + L+ L P A+ R F
Sbjct: 337 -IRDGLATWDNWKHVNCDKLTTIIESS-----------LNVLEP-----AEYRK---MFD 376
Query: 446 RLAYMSKGLIFVTALSGENMLRGLMGWYMVQSGLEDRFHTQSDVPRVSQYRLASHLSMAF 505
RL+ +F H+
Sbjct: 377 RLS------VF-----------------------------PPSA----------HIPTIL 391
Query: 506 LLYSGLLWTALDHLLPSS--KQLADNRAGLL--RFKRLAYMSKGLIFVTALSGAFVAGLD 561
L L+W + +L + L+ + K + + L
Sbjct: 392 L---SLIWFDVIKSDVMVVVNKLH--KYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446
Query: 562 AGLV--YNSFPLMADRLIPTDILALEPPLRNFTENPTTVQFDHRVLG--------ISVFS 611
+V YN + D++ P L + + H +G +
Sbjct: 447 RSIVDHYN----IPKTFDSDDLIP--PYLDQYF-------YSH--IGHHLKNIEHPERMT 491
Query: 612 LLTAQY----WMGRKLKLPGRANLA 632
L + ++ +K++ A A
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNA 516
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.3 bits (70), Expect = 0.56
Identities = 15/69 (21%), Positives = 24/69 (34%), Gaps = 16/69 (23%)
Query: 92 RLTESGLSMVTWK-LFGEKLPRNSA-------EWIEEF-----NLYKEYPEFKLKNKDIT 138
RLT+ S+ W+ ++L A EW E+ + E KNK
Sbjct: 79 RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
Query: 139 L---EEFKR 144
+ F +
Sbjct: 139 RIADKAFYQ 147
Score = 29.4 bits (65), Expect = 2.6
Identities = 10/73 (13%), Positives = 23/73 (31%), Gaps = 22/73 (30%)
Query: 111 PRNSAEWIEEFNLYKEYPEFKLKNKDITLEEFKRIWWMEYLHRMWGRCIGAAFFIPASIF 170
P + +W EE +L+ D + ++ W + A +
Sbjct: 84 PESIRKWREEQRK-------RLQELDAASKVMEQEWREK-----------AKKDLEE--- 122
Query: 171 WYKGYFNSAMKKR 183
W + + ++K
Sbjct: 123 WNQRQ-SEQVEKN 134
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A
{Barmah forest virus}
Length = 253
Score = 31.5 bits (71), Expect = 0.78
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 84 AVVLGGVTRLTESGLSMVTW--KLFGEKLPRNSAEW 117
A+VLGG + LS+VTW + P S EW
Sbjct: 218 AIVLGGANEGARTALSVVTWNKDMVTRITPEESVEW 253
Score = 31.5 bits (71), Expect = 0.78
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 324 AVVLGGVTRLTESGLSMVTW--KLFGEKLPRNSAEW 357
A+VLGG + LS+VTW + P S EW
Sbjct: 218 AIVLGGANEGARTALSVVTWNKDMVTRITPEESVEW 253
>1vcp_A Semliki forest virus capsid protein; virus coat protein,
polyprotein, transmembrane, glycoprotein, nucleocapsid
protein, viral protein; 3.00A {Semliki forest virus}
SCOP: b.47.1.3 PDB: 1dyl_A 1vcq_A
Length = 149
Score = 29.3 bits (65), Expect = 2.3
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 84 AVVLGGVTRLTESGLSMVTW--KLFGEKLPRNSAEW 117
A+VLGG + + LS+VTW + P S EW
Sbjct: 114 AIVLGGANEGSRTALSVVTWNKDMVTRVTPEGSEEW 149
Score = 29.3 bits (65), Expect = 2.3
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 324 AVVLGGVTRLTESGLSMVTW--KLFGEKLPRNSAEW 357
A+VLGG + + LS+VTW + P S EW
Sbjct: 114 AIVLGGANEGSRTALSVVTWNKDMVTRVTPEGSEEW 149
>1pci_A Procaricain; zymogen, hydrolase, thiol protease; 3.20A {Carica
papaya} SCOP: d.3.1.1
Length = 322
Score = 29.1 bits (66), Expect = 4.5
Identities = 18/84 (21%), Positives = 34/84 (40%), Gaps = 17/84 (20%)
Query: 107 GEKLPR-----NSAEWIEEFNLYKEYPEFKLK-NK--DITLEEFKRIWWMEYLHRMWGRC 158
EKL R ++ +I+E N K+ + L N+ D++ +EF + + +
Sbjct: 37 DEKLYRFEIFKDNLNYIDETN--KKNNSYWLGLNEFADLSNDEFNEKYVGSLIDATIEQS 94
Query: 159 IGAAFF------IPASIFW-YKGY 175
F +P ++ W KG
Sbjct: 95 YDEEFINEDIVNLPENVDWRKKGA 118
>1svp_A Sindbis virus capsid protein; chymotrypsin-like serine, mutant,
coat protein, viral protein; 2.00A {Sindbis virus} SCOP:
b.47.1.3 PDB: 1kxb_A 1kxa_A 2snw_A 1kxc_A 1kxd_A 1kxe_A
2snv_A 1z8y_Q 1wyk_A
Length = 161
Score = 28.2 bits (62), Expect = 5.5
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 84 AVVLGGVTRLTESGLSMVTWKLFG---EKLPRNSAEW 117
A+VLGG T + LS+VTW G + P + EW
Sbjct: 123 AIVLGGADEGTRTALSVVTWNSKGKTIKTTPEGTEEW 159
Score = 28.2 bits (62), Expect = 5.5
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 324 AVVLGGVTRLTESGLSMVTWKLFG---EKLPRNSAEW 357
A+VLGG T + LS+VTW G + P + EW
Sbjct: 123 AIVLGGADEGTRTALSVVTWNSKGKTIKTTPEGTEEW 159
>3kom_A Transketolase; rossmann fold, csgid, transferase, structural
genomics, center for structural genomics of infectious
DISE; HET: MSE; 1.60A {Francisella tularensis subsp}
Length = 663
Score = 28.2 bits (64), Expect = 9.2
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 9/32 (28%)
Query: 115 AEWIEEFNLYKEYPEFKLKNKDITLEEFKRIW 146
A W + NL+K+ P+ +EF+R+
Sbjct: 307 ANWQGQRNLFKDSPK---------FDEFERVL 329
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
0.324 0.137 0.427
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: 9,820,746
Number of extensions: 587860
Number of successful extensions: 1326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1319
Number of HSP's successfully gapped: 18
Length of query: 643
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 543
Effective length of database: 3,909,693
Effective search space: 2122963299
Effective search space used: 2122963299
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 60 (27.4 bits)