RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12819
(675 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 = 66.2 bits (161), Expect = 2e-11
Identities = 90/516 (17%), Positives = 155/516 (30%), Gaps = 182/516 (35%)
Query: 4 FLPQDGSKTESNNIGKDGETLTHLLKASLGTGILSMPYAFRNAGLTGGIFLT-----VLV 58
FL S E + +G+ + +L L F N +L L
Sbjct: 64 FLGYVSSLVEPSKVGQFDQ----VLNLCLT--------EFENC------YLEGNDIHALA 105
Query: 59 AVICTHCSYILVQCGHVL---YRRTKVTSMSFADIGEVAFAKGPAWGRRYARFARICILL 115
A + LV+ ++ + F A + G A++ +
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGN-----AQLVAIF 160
Query: 116 ---GLFLAYF----GTCSVYTVIIA---KNFSKVINHYTGTELDIRVYISAFLIPLILLS 165
G YF Y V++ K ++ ++ T LD + L +L
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ---GLNILE 217
Query: 166 WV------PN---LKSLAPVSMVANLLMGTGLGITFYYI---VWDLHKPMEMPQ------ 207
W+ P+ L S P+S + + + Y + + P E+
Sbjct: 218 WLENPSNTPDKDYLLS-IPISCPLIGV----IQLAHYVVTAKLLGFT-PGELRSYLKGAT 271
Query: 208 -----------IADISTMPTFFSIVIFAIEA---IGV-------VISFRTATL------- 239
IA+ + +FF V AI IGV S + L
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 240 ------------LSRPVI-------------SRELMIG--NGRDHNVQCGHV--LY---- 266
L++ + +++ I NG + V G LY
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL 391
Query: 267 --RRTKVTSMSFADIGEVAFAKGPAWGRR---YARFARI-----CILLGLFLAYFGTCSV 316
R+ K S D + F++ R+ RF + LL
Sbjct: 392 TLRKAKAPSG--LDQSRIPFSE-----RKLKFSNRFLPVASPFHSHLLV---------PA 435
Query: 317 YTVIIA----KNFSKSSKISIRISQVINHYTGTELDIRVY---ISAFLIPLIL---LSWV 366
+I N S ++K I+I V + + G+ D+RV IS ++ I+ + W
Sbjct: 436 SDLINKDLVKNNVSFNAK-DIQI-PVYDTFDGS--DLRVLSGSISERIVDCIIRLPVKWE 491
Query: 367 PNLKSLA-------P--VSMVANLLM----GTGLGI 389
+ A P S + L GTG+ +
Sbjct: 492 TTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRV 527
Score = 52.7 bits (126), Expect = 4e-07
Identities = 82/479 (17%), Positives = 137/479 (28%), Gaps = 184/479 (38%)
Query: 303 LLGLFLAYFGTC-----SVYTVIIAKNFSKSSKISIRISQVINHYTGTELDIRVYISAFL 357
+L L L F C ++ + A + + ++ ++ + I+ YI+A +
Sbjct: 83 VLNLCLTEFENCYLEGNDIHAL--AAKLLQENDTTLVKTKEL---------IKNYITARI 131
Query: 358 IPLILLSWVPN---LKSLA--PVSMVANLLMGTGLGIT-FY-------YIVYKVAVVPAK 404
+ N +++ +VA + G G G T Y Y Y V V
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVA--IFG-GQGNTDDYFEELRDLYQTYHVLVGDL- 187
Query: 405 IRDEAVQLNHL------DNKDYWDPFKERK-LAHPVT--DGETLTHLLKASLGTGILSMP 455
I+ A L+ L K + + L +P D + L + +S P
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP--------ISCP 239
Query: 456 ---------Y--AFRNAGLTGGIFLT-----------VLVAVICTHCSYILGWRNTDPLA 493
Y + G T G + ++ AV W
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD---SW------- 289
Query: 494 ESFTRYRNSIHALCVRF-------DLYSRFELSSKI----------------SIR---IS 527
ESF + + A+ V F + Y L I SI
Sbjct: 290 ESF--FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE 347
Query: 528 QVINH--YTGTEL--DIRVYISAFLIPLILLSWVPNLKSLAPVSMVANLLMG-----TGL 578
QV ++ T + L +V IS L+ N ++V + G GL
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEIS-----LV------N----GAKNLV---VSGPPQSLYGL 389
Query: 579 GITFYYIVYKVAVVPAKIRDEAVQLNHLDNKDYWDPFKERKLAHPVTDGETL-------T 631
+T K + PF ERK L +
Sbjct: 390 NLTLR----KAKAPSGLDQSRI-------------PFSERK---LKFSNRFLPVASPFHS 429
Query: 632 HLLKAS--------LGTGI------LSMP-YAFRNA----GLTGGIFLTVLVAVICTHC 671
HLL + + + + +P Y + L+G I +V I
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI-SERIVDCIIRLP 487
Score = 46.2 bits (109), Expect = 3e-05
Identities = 90/568 (15%), Positives = 171/568 (30%), Gaps = 201/568 (35%)
Query: 114 LLGLFLAYF------GTCSVYTVIIAKNFSKVINHYTGTEL---DI-------------- 150
L+G FL Y + ++ + + + L DI
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVL----NLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 151 --------RVYISAFLIPLILLSWVPN---LKSLA--PVSMVANLLMGTGLGITFYYIVW 197
+ YI+A ++ N +++ +VA + G G G T Y +
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA--IFG-GQGNTDDY--F 170
Query: 198 DLHKPMEMPQIADISTMPTFFSIVIFAIEAIGVVISFRTATL--LSRPVISRELMIGNGR 255
+ E+ + T+ +V I+ TL L R + E + G
Sbjct: 171 E-----ELRDLYQ-----TYHVLVGDLIKFSA-------ETLSELIRTTLDAEKVFTQGL 213
Query: 256 D------HNVQCGHVLYRRTKVTSMSFADIGEVAFAKGPAWGRRYARFARICILLGL--- 306
+ + Y + +S IG + A + LLG
Sbjct: 214 NILEWLENPSNTPDKDYLLS--IPISCPLIGVIQL----------AHYVVTAKLLGFTPG 261
Query: 307 -FLAYFGTCSVYT--VIIAKNFSKSSKISIRISQVINHYTGTELDIRVYISAFLIPLILL 363
+Y + ++ ++ A +++ + + + + +L
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETD-------------SWES-----FFVSVRKAITVL 303
Query: 364 SWV--------PNLKSLAPVSMVANLLMGTG-----LGITFYYIVYKVAVVPAKIRDEAV 410
++ PN SL P + +L G L I+ + +++D
Sbjct: 304 FFIGVRCYEAYPNT-SLPPSILEDSLENNEGVPSPMLSIS--------NLTQEQVQDYVN 354
Query: 411 QLN-HLDNKDYWDPFKERKLA--------HPVTDG--ETLTHL------LKASLGTGILS 453
+ N HL P +++ + V G ++L L KA G
Sbjct: 355 KTNSHL-------P-AGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR 406
Query: 454 MPYAFRNAGLTGGI-FLTVLVAVICTHCSYILGWRNTDPLAESFTRYRNSIHALCVRFDL 512
+P++ R L FL V H L + + DL
Sbjct: 407 IPFSER--KLKFSNRFLPVASPF---HSHL---------LVPASDL---------INKDL 443
Query: 513 YSR-FELSSKISIRISQVINHYTGTELDIRVY---ISAFLIPLIL---LSWVPNLKSLA- 564
++K I+I V + + G+ D+RV IS ++ I+ + W + A
Sbjct: 444 VKNNVSFNAK-DIQI-PVYDTFDGS--DLRVLSGSISERIVDCIIRLPVKWETTTQFKAT 499
Query: 565 ------P--VSMVANLLM----GTGLGI 580
P S + L GTG+ +
Sbjct: 500 HILDFGPGGASGLGVLTHRNKDGTGVRV 527
Score = 45.0 bits (106), Expect = 8e-05
Identities = 60/317 (18%), Positives = 91/317 (28%), Gaps = 102/317 (32%)
Query: 401 VPAKIRDEAVQLNHLDNKDYWDPFKERKLAHPVTDG-------ETLTHLLKASLGTGILS 453
VP A QL + F + L P T+G T L+ LG
Sbjct: 22 VPTASFFIASQL--------QEQFN-KILPEP-TEGFAADDEPTTPAELVGKFLG----- 66
Query: 454 MPY-AFRNAGLTGGIFLTVLVAVICT-HCSYILGWRNTDPLAESFTRYRNSIHALCVRFD 511
Y + G F VL + Y+ G N IHAL +
Sbjct: 67 --YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG---------------NDIHALAAKLL 109
Query: 512 LYSRFELSSKISIRISQVINHYTGTELDIRVYISAFLIPLILLSWVPN---LKSLA--PV 566
+ L + I+ YI+A ++ N +++
Sbjct: 110 QENDTTLVKTKEL---------------IKNYITARIMAKRPFDKKSNSALFRAVGEGNA 154
Query: 567 SMVANLLMGTGLGIT-FY-------YIVYKVAVVPAKIRDEAVQLNHL------DNKDYW 612
+VA + G G G T Y Y Y V V I+ A L+ L K +
Sbjct: 155 QLVA--IFG-GQGNTDDYFEELRDLYQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFT 210
Query: 613 DPFKERK-LAHPVT--DGETLTHLLKASLGTGILSMP---------Y--AFRNAGLTGGI 658
+ L +P D + L + +S P Y + G T G
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIP--------ISCPLIGVIQLAHYVVTAKLLGFTPGE 262
Query: 659 FLTVLVAVICTHCSYIL 675
+ L H ++
Sbjct: 263 LRSYLKGAT-GHSQGLV 278
>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 = 31.2 bits (70), Expect = 0.77
Identities = 7/25 (28%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 475 VICTHCSYILGWRNTDPLAE--SFT 497
V+C C +L + D +E +F+
Sbjct: 43 VVCALCGLVLSDKLVDTRSEWRTFS 67
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
0.327 0.141 0.430
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,584,120
Number of extensions: 664370
Number of successful extensions: 1478
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1469
Number of HSP's successfully gapped: 9
Length of query: 675
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 575
Effective length of database: 3,909,693
Effective search space: 2248073475
Effective search space used: 2248073475
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 (21.7 bits)
S2: 61 (27.4 bits)