RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy709
(508 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 = 39.3 bits (91), Expect = 0.003
Identities = 48/290 (16%), Positives = 89/290 (30%), Gaps = 98/290 (33%)
Query: 114 GFSFLSSWAWRVACAPDIFIWN-----LFF-------ISINLFQLIYVLYQSRPVKFDPD 161
GFS L DI I N + F I N +I+ +K +
Sbjct: 1658 GFSIL-----------DIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI 1706
Query: 162 FEEVYTNLFEPFKVSRLQF---KKLVNDQVIKTQTLQPGEAYAVQNITRTDRLALLLTGK 218
F+E+ + + F K L++ TQ QP AL L K
Sbjct: 1707 FKEINEHS------TSYTFRSEKGLLS----ATQFTQP---------------ALTLMEK 1741
Query: 219 AYVA--------QDKQYL--HPIATGEF--L----DSPEFESRANSENKFKVSIIAHTTC 262
A H + GE+ L D ES
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSL--GEYAALASLADVMSIES----------------LV 1783
Query: 263 RIMYWQRSTLEYLFVKETYLANVMTVLVAKDITTKLYAMNNKVGRRTGLISSEIMTEKGS 322
+++ R + V L ++A + + + + + + + G
Sbjct: 1784 EVVF-YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY---VVERVGKRTGW 1839
Query: 323 HLDI---RLP---CVTS-AIKSKERRTSMLKAVK-KNIAMEKVINS-SPE 363
++I + V + +++ + T++L +K + I + ++ S S E
Sbjct: 1840 LVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLE 1889
Score = 34.3 bits (78), Expect = 0.11
Identities = 70/440 (15%), Positives = 111/440 (25%), Gaps = 159/440 (36%)
Query: 144 FQLIYVLYQSRPVKFDPDFEEVYTNLFEPFKVSRLQFKKLVNDQVIKTQTLQPGEAYAVQ 203
F L YV P K F++V F+ L+ ND I L A +
Sbjct: 64 F-LGYVSSLVEPSK-VGQFDQVLNLCLTEFENCYLEG----ND--I--HAL----AAKLL 109
Query: 204 NITRTDRLALLLTGKAYVAQDKQYLHPIATGEFLDSPEFESRANSENKFKVSIIAHTTCR 263
T + K Y+ P +S F + N ++A
Sbjct: 110 QENDTTLVKTKELIKNYITARIMAKRPFDKKS--NSALFRA-VGEGN---AQLVA----- 158
Query: 264 IMYWQRSTLEYLFVKE------TYLANVMTVLVAKDITTKLYAMNNKVGRRTGLISSEIM 317
I Q +T +Y +E TY V ++ K L LI + +
Sbjct: 159 IFGGQGNTDDYF--EELRDLYQTYHVLVGDLI--KFSAETLS----------ELIRTTLD 204
Query: 318 TEK--GSHLDIR---------------------LP-------------CVTSAIKSKERR 341
EK L+I P E R
Sbjct: 205 AEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELR 264
Query: 342 TSM--LKAVKKNIAMEKVINSSPESGLFGWCHNWKEFQHWLFNTAHLFFFISYALPTNRY 399
+ + + + I + W+ F + + FFI
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDS---------WESFFVSVRKAITVLFFI--------- 306
Query: 400 GLICMHTFLIVGKCQAGTWPGALSCAY-----IPCPMYYVFYSFSSGFSFLSSWAWRVAC 454
G+ C + P L + +P PM + S + +
Sbjct: 307 GVRCYEAY-----PNTSLPPSILEDSLENNEGVPSPMLSI-----SNLT-------QEQV 349
Query: 455 APDIFIWNLFF-----ISINLF----QLIYV------LY----------------QSRPV 483
+ N + I+L L+ V LY QSR +
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGAKNLV-VSGPPQSLYGLNLTLRKAKAPSGLDQSR-I 407
Query: 484 KFD---PDFEEVYTNLFEPF 500
F F + + PF
Sbjct: 408 PFSERKLKFSNRFLPVASPF 427
Score = 33.9 bits (77), Expect = 0.15
Identities = 63/408 (15%), Positives = 105/408 (25%), Gaps = 170/408 (41%)
Query: 151 YQSRPVKF-DPDFE---EVYTNLFEPFKVSRLQFKKLVNDQVIKTQTLQPGEAYAVQN-- 204
Y +RP+ E V T F F S+LQ +Q K +P E +A +
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASF--FIASQLQ------EQFNKILP-EPTEGFAADDEP 54
Query: 205 ITRTDRLALLLTGKAYVAQDKQYLHPIATGEFLDS--PEFESRANSENKFKVSIIAHTTC 262
T + + L YV+ + + L+ EFE+
Sbjct: 55 TTPAELVGKFL---GYVSSLVEPSKVGQFDQVLNLCLTEFEN------------------ 93
Query: 263 RIMYWQRSTLEYLFVKETYLANVMTVLVAKDITTKLYAMNNKVGRRTGLISSEIMTEKGS 322
YL DI
Sbjct: 94 -----------------CYLEG-------NDI---------------------------- 101
Query: 323 H-LDIRLPCVTSAIKSKERRTSMLKA-VKKNIAMEKVINSSPESGL-------------- 366
H L +L + + ++K + I ++ + S L
Sbjct: 102 HALAAKLL--QENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI 159
Query: 367 FG-------WCHNWKEFQHWLFNT--AHLFFFISYALPT--------NRYGLICMHTFLI 409
FG + ++E + L+ T + I ++ T + I
Sbjct: 160 FGGQGNTDDY---FEELRD-LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215
Query: 410 VGKCQAGTW-------PGA--LSCAYIPCPM--------YYVFYSFSSGFS---FLSSWA 449
+ W P L I CP+ Y V GF+ S
Sbjct: 216 LE------WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAK-LLGFTPGELRSYLK 268
Query: 450 WRVACAPDI----FI-----WNLFFISIN-----LFQLIYVLYQSRPV 483
+ + I W FF+S+ LF + Y++ P
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPN 316
Score = 33.1 bits (75), Expect = 0.25
Identities = 48/336 (14%), Positives = 90/336 (26%), Gaps = 138/336 (41%)
Query: 46 WKEFQHWLFNTAHLFFFISYALPTNRYGLICMHTFLIVGKCQAGTWPGALSCAY-----I 100
W+ F + + FFI G+ C + P L + +
Sbjct: 289 WESFFVSVRKAITVLFFI---------GVRCYEAY-----PNTSLPPSILEDSLENNEGV 334
Query: 101 PCPMYYVFYSFSSGFSFLSSWAWRVACAPDIFIWNLFF-----ISINLF----QLIYV-- 149
P PM + S + + + N + I+L L+ V
Sbjct: 335 PSPMLSI-----SNLT-------QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV-VSG 381
Query: 150 ----LY----------------QSRPVKFD---PDFEEVYTNLFEPFKVSRLQFKKLVND 186
LY QSR + F F + + PF
Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQSR-IPFSERKLKFSNRFLPVASPF------------- 427
Query: 187 QVIKTQTLQPGEAYAVQNITRTDRLALLLTGKAYVAQDKQYLH-PI---ATGEFLDSPEF 242
+ L P +++ + + V+ + + + P+ G L
Sbjct: 428 ---HSHLLVPASDLINKDLVKNN-----------VSFNAKDIQIPVYDTFDGSDL----- 468
Query: 243 ESRANSENKFKVSIIAHTTCRIM-----YWQRSTLEYLFVKETYL-------ANVMTVLV 290
R S + I+ + W+ +T K T++ A+ + VL
Sbjct: 469 --RVLSGS------ISERIVDCIIRLPVKWETTT----QFKATHILDFGPGGASGLGVLT 516
Query: 291 AKDITTKLYAMNNKVGRRTGLISSEIMTEKGSHLDI 326
+ NK G +I + + + D
Sbjct: 517 HR----------NKDGTGVRVIVAGTL-DINPDDDY 541
>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 = 37.5 bits (86), Expect = 0.010
Identities = 41/296 (13%), Positives = 90/296 (30%), Gaps = 73/296 (24%)
Query: 132 FIWNLFFISINLFQLIYVLYQSRPVKFDPDFEEVYTNLFEPFKVSRLQ-FKKLVNDQVIK 190
F+ + ++ +Y + D + + +F + VSRLQ + KL
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIE---QRDRLYNDN--QVFAKYNVSRLQPYLKLRQ----A 143
Query: 191 TQTLQPGEAYAVQ------------NITRTDRLALLLTGKAY------VAQDKQYLHPIA 232
L+P + + ++ + ++ + K + + L +
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 233 TGEFLDSPEFESRANSENKFKVSIIAHTTCRIMYWQRSTLEYLFVKETYLANVMTVLVAK 292
+ P + SR++ + K+ I + ++ L L + Y N + VL
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRI---------HSIQAELRRLLKSKPY-ENCLLVL--L 251
Query: 293 DITTK--LYAMNNKVGRRTGLISSEIMTEKGSHLDIRLPCVTSAIKSKERRTSMLKAVKK 350
++ A N + L++ T D T+ I ++ K
Sbjct: 252 NVQNAKAWNAFNLSC--KI-LLT----TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 351 NIAMEKVINSSPES-------------GLFG---------WCHNWKEFQHWLFNTA 384
++ + K ++ P+ + W NWK T
Sbjct: 305 SL-LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW-DNWKHVNCDKLTTI 358
Score = 28.7 bits (63), Expect = 6.0
Identities = 39/265 (14%), Positives = 63/265 (23%), Gaps = 111/265 (41%)
Query: 15 FRHSFWKALFIFGP--IFIPFSSFEGLFGW--------------CHN-------WKEFQH 51
+R F + L +F P IP + W H KE
Sbjct: 371 YRKMFDR-LSVF-PPSAHIPTILLSLI--WFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 52 WLFNTAHLFFFISYALPTNRYGLICMHTFLIVGKCQAGTWPGALSCAYIPCP---MYYVF 108
+ + N Y L H ++ P + P Y F
Sbjct: 427 SI----PSIYLELKVKLENEYAL---HRSIV----DHYNIPKTFDSDDLIPPYLDQY--F 473
Query: 109 YSFSSGFSFLSSWAWRVACAPDIFIWNLFFISINLFQLIYVLYQSRPVKFDPDFEEVYTN 168
YS + + L + F V+ +
Sbjct: 474 YSH----------------------------------IGHHLKNIEHPERMTLFRMVFLD 499
Query: 169 L-FEPFKVSRLQFKKLVNDQVIKTQTLQPGEAYAVQNITRTDRLALLLTGKAYVAQDKQY 227
F L+ +K+ +D A+ L L K Y K Y
Sbjct: 500 FRF-------LE-QKIRHD----------STAWN----ASGSILNTLQQLKFY----KPY 533
Query: 228 LHPIATGEFLDSPEFESRANSENKF 252
+ + P++E N+ F
Sbjct: 534 ICD-------NDPKYERLVNAILDF 551
>1rid_A Complement control protein; regulation, SCR, immune system; HET:
IDS SGN; 2.10A {Vaccinia virus} SCOP: g.18.1.1 g.18.1.1
g.18.1.1 g.18.1.1 PDB: 1g44_A 1g40_A* 1y8e_A* 1e5g_A
1vvc_A 1vvd_A 1vve_A
Length = 244
Score = 28.7 bits (64), Expect = 4.0
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 76 CMHTFLIVG----KCQAGTWPGALSCAYIPCP 103
C + ++G C G W +C + CP
Sbjct: 157 CNSGYSLIGNSGVLCSGGEWSDPPTCQIVKCP 188
Score = 28.7 bits (64), Expect = 4.0
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 403 CMHTFLIVG----KCQAGTWPGALSCAYIPCP 430
C + ++G C G W +C + CP
Sbjct: 157 CNSGYSLIGNSGVLCSGGEWSDPPTCQIVKCP 188
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 28.5 bits (63), Expect = 4.6
Identities = 11/66 (16%), Positives = 26/66 (39%), Gaps = 14/66 (21%)
Query: 318 TEKGSHLDIRLPC-----VTSAIKSKERRTSMLKAVKKNIAMEKVINSSPESGLFGWCHN 372
+G +L+I L C I + ++ A+ + +K++++ E
Sbjct: 12 GRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDTRSE--------- 62
Query: 373 WKEFQH 378
W+ F +
Sbjct: 63 WRTFSN 68
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
0.329 0.140 0.465
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: 7,935,406
Number of extensions: 465251
Number of successful extensions: 1432
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1429
Number of HSP's successfully gapped: 26
Length of query: 508
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 410
Effective length of database: 3,965,535
Effective search space: 1625869350
Effective search space used: 1625869350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 59 (27.0 bits)