RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11593
(400 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 = 49.7 bits (118), Expect = 1e-06
Identities = 51/253 (20%), Positives = 74/253 (29%), Gaps = 72/253 (28%)
Query: 113 TGVLMAEVVKLV--VCLGLVFADEGFHVGRFINLVRAHTIQNPLDTLKV-GVPALLYVIQ 169
+ + +V V L G V I+LV N L V G P LY +
Sbjct: 342 SNLTQEQVQDYVNKTNSHL---PAGKQV--EISLV------NGAKNLVVSGPPQSLYGLN 390
Query: 170 NNLLYISA-SNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGV----A 224
L A S LD Q +I F+ ++K+ S L V
Sbjct: 391 LTLRKAKAPSGLD--------QSRIP----FS----ERKLK----FSNRFLPVASPFHSH 430
Query: 225 LVQLSSVVEKARPADFVENRMLGFAATILACLLSGLAGVYFEMILKGSDVSIWMRNVQLS 284
L L + D + + F A + VY GSD +R + S
Sbjct: 431 L--LVPASDLI-NKD-LVKNNVSFNAKDIQI------PVYD--TFDGSD----LRVLSGS 474
Query: 285 LLSLPCAACTCFISDWDKIFQHGFFYNYTWFIVF----------LVLLNASG---GLIVA 331
+ W+ Q + T + F L N G +IVA
Sbjct: 475 ISERIVDCIIRLPVKWETTTQ----FKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVA 530
Query: 332 VVVKYADNILKGF 344
+ + GF
Sbjct: 531 GTLDINPDDDYGF 543
Score = 48.5 bits (115), Expect = 4e-06
Identities = 41/264 (15%), Positives = 90/264 (34%), Gaps = 61/264 (23%)
Query: 138 VGRFINLVRAHTIQNPLDTLKVGVPALL------YVIQNNLLYISASNLDAATSQVTYQL 191
VG+F+ V + + + + L Y+ N++ ++A L + +
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 192 KILTTAIFAIILLKKKISKIQWISL----------VILVVG------VALVQLSSVVEKA 235
+++ I A I+ K+ K +L ++ + G +L + +
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 236 RP--ADFVENRMLGFAATILACLLSGL--AGVYFEMILKGSDVSIWMRN----------- 280
D ++ F+A L+ L+ A F +G ++ W+ N
Sbjct: 181 HVLVGDLIK-----FSAETLSELIRTTLDAEKVFT---QGLNILEWLENPSNTPDKDYLL 232
Query: 281 -VQLS-----LLSLPCAACTCFISDWDKIFQHGFFYNYTWFIVFLVLLNASGGLIVAVVV 334
+ +S ++ L T + + G +Y S GL+ AV +
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFT----PGELRSY-----LKGATGHSQGLVTAVAI 283
Query: 335 KYADNILKGFATSLAIVLACVFQV 358
D+ + F S+ + +F +
Sbjct: 284 AETDSW-ESFFVSVRKAITVLFFI 306
Score = 44.7 bits (105), Expect = 5e-05
Identities = 48/291 (16%), Positives = 87/291 (29%), Gaps = 109/291 (37%)
Query: 107 ELFISSTGVLMAEVVKLVVCLGLVF--ADE------GFHVGRFINLVRAHTIQNPLD-TL 157
+L+ +S + + V + AD GF + +++V NP++ T+
Sbjct: 1634 DLYKTS------KAAQDV------WNRADNHFKDTYGFSI---LDIVI----NNPVNLTI 1674
Query: 158 KVGVPALLYVIQNNLLYISASNLDAATSQVTYQLKILTTAIFAIILLKKKISKIQW---- 213
G + +N I + +D K+ T IF I + + +
Sbjct: 1675 HFGGEKGKRIRENYSAMIFETIVDG---------KLKTEKIFKEI--NEHSTSYTFRSEK 1723
Query: 214 --ISL------VILVVGVALVQLSSVVEKA--RPADFVENRM----LG-FAATILACLLS 258
+S + ++ A + ++ PAD LG +AA LA
Sbjct: 1724 GLLSATQFTQPALTLMEKAAFE---DLKSKGLIPADAT---FAGHSLGEYAA--LAS--- 1772
Query: 259 GLAGVY-FEMILK-------------------GSDVSIWMRNVQLSLLSLPCAACTCFIS 298
LA V E +++ S+ + N S A +
Sbjct: 1773 -LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVE 1831
Query: 299 DWDKIFQHGFFY---NYTWFIVFLVLLNASGGLIVA----VVVKYADNILK 342
K + G+ NY N VA + N+L
Sbjct: 1832 RVGK--RTGWLVEIVNY----------NVENQQYVAAGDLRALDTVTNVLN 1870
Score = 40.8 bits (95), Expect = 8e-04
Identities = 63/444 (14%), Positives = 115/444 (25%), Gaps = 183/444 (41%)
Query: 72 QSRAFMLKTTSLITLTL-----QNAIVSLSMRYARMKNKDEL-FISS-----TGVLMAEV 120
Q + K T L ++ L ++SS +V
Sbjct: 32 QLQEQFNKILPEPTEGFAADDEPTTPAELVGKF--------LGYVSSLVEPSKVGQFDQV 83
Query: 121 VKLVVCLGLVFADEGF------H-------------VGRFINLVRA-----HTIQNPLDT 156
+ L L + + H + + L++ + P D
Sbjct: 84 LNLC----LTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD- 138
Query: 157 LKVGVPAL----------LYVI---QNN-------L--LY-ISASNLDAATSQVTYQLK- 192
K AL L I Q N L LY + L
Sbjct: 139 -KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE 197
Query: 193 ILTTAIFAIILLKKKISKIQW-----------------ISLVILVVGVALVQLSSVVEKA 235
++ T + A + + ++ ++W IS ++ ++QL+ V
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLI----GVIQLAHYV--- 250
Query: 236 RPADFVENRMLGFAATILACLLSGLAGVYFEMILKGSDVSIWMRNVQLSLLSLPCAACTC 295
V ++LGF L L G G + + ++ A
Sbjct: 251 -----VTAKLLGFTPGELRSYLKGATGH-------SQGL----------VTAVAIAET-- 286
Query: 296 FISDWDKIFQHGFFYNYTWFIVFLVLLNASGGL----------IVAVVVKYADNILKGFA 345
W+ FF + I L + G+ + +++ + +G
Sbjct: 287 --DSWE-----SFFVSVRKAITVLFFI----GVRCYEAYPNTSLPPSILEDSLENNEGVP 335
Query: 346 TS-LAIV-----------------LACVFQVY--LF----AFVITFQFIVGAFFVMCSVF 381
+ L+I L QV L V++ G + +
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS-----GPPQSLYGLN 390
Query: 382 LY------------SRTPSSKPKP 393
L SR P S+ K
Sbjct: 391 LTLRKAKAPSGLDQSRIPFSERKL 414
>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 = 36.8 bits (84), Expect = 0.016
Identities = 50/341 (14%), Positives = 88/341 (25%), Gaps = 124/341 (36%)
Query: 14 LVKRINTINIKQANKNDNLKSNANSICGSYQFFPYPKEFYNCKLATNGEVREVGPEMAQS 73
L+ I T + + + + Q + K YN V S
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ--VFAK--YN-----------V------S 132
Query: 74 RAFMLKTTSLITLTLQNAIVSLSMRYARMKNKDELFISSTG-------VLMAEVVK--LV 124
R L L+ A++ L + + G + +V V
Sbjct: 133 RLQPY-------LKLRQALLEL---------RPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 125 VCLGLVFADEGFHVGRFINLVRAHTIQNPLDTLKVGVPALLYVIQNNLLYISASNLDAAT 184
C + F ++NL ++ P + + LLY N + +
Sbjct: 177 QC---KMDFKIF----WLNLKNCNS------------PETVLEMLQKLLYQIDPNWTSRS 217
Query: 185 SQ-VTYQLKILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSSVVEKARPADFVEN 243
+L+I + LLK K + L++L V+N
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYE---NCLLVL-------------------LNVQN 255
Query: 244 ----RMLGFAATIL--------ACLLSGLAGVYFEMI------LKGSDVSIWMRNVQLSL 285
+ IL LS + + S+ ++ +
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315
Query: 286 LSLPCAACTC----------FISD----WDKIFQHGFFYNY 312
LP T I D WD ++H N
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDN-WKH---VNC 352
>3b5d_A Multidrug transporter EMRE; helical membrane protein, multidrug
resistance transporter, SMR, antiport, inner membrane,
transmembrane; HET: P4P; 3.80A {Escherichia coli K12}
PDB: 3b61_A 3b62_A*
Length = 110
Score = 30.8 bits (70), Expect = 0.23
Identities = 6/38 (15%), Positives = 19/38 (50%)
Query: 193 ILTTAIFAIILLKKKISKIQWISLVILVVGVALVQLSS 230
I+ ++ + +++ I ++++ GV ++ L S
Sbjct: 68 IVLISLLSWGFFGQRLDLPAIIGMMLICAGVLIINLLS 105
>1jb0_B Photosystem I P700 chlorophyll A apoprotein A2; membrane protein,
multiprotein-pigment complex, photosynthes; HET: CL1 PQN
BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP:
f.29.1.1 PDB: 3pcq_B* 2o01_B* 2wsc_B* 2wse_B* 2wsf_B*
3lw5_B*
Length = 740
Score = 29.4 bits (65), Expect = 2.4
Identities = 19/87 (21%), Positives = 31/87 (35%), Gaps = 13/87 (14%)
Query: 237 PADFVENRMLGFAATILACLLSGLAGVYFEMILKGSDVSIWMRNVQLSLLSLPC----AA 292
P DF+ + A + L + G + S M + + + PC
Sbjct: 520 PGDFLVHHA--IALGLHTTTLILVKGALD------ARGSKLMPDKKDFGYAFPCDGPGRG 571
Query: 293 CTCFISDWDKIFQHGFF-YNYTWFIVF 318
TC IS WD + F+ N ++ F
Sbjct: 572 GTCDISAWDAFYLAMFWMLNTIGWVTF 598
>3rko_L NADH-quinone oxidoreductase subunit L; complex I, proton pump,
membrane protein, Na ubiquinone, cytoplasmic membrane;
HET: LFA CA7; 3.00A {Escherichia coli}
Length = 613
Score = 27.7 bits (62), Expect = 8.4
Identities = 7/56 (12%), Positives = 18/56 (32%), Gaps = 3/56 (5%)
Query: 311 NYTWFIVFLVLLNASGGLIVAVVVKYADNILKGFATSLAIVLACVFQVYLFAFVIT 366
N + L L+ G +++A + ++ LA + ++
Sbjct: 2 NMLALTIILPLI---GFVLLAFSRGRWSENVSAIVGVGSVGLAALVTAFIGVDFFA 54
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 0.139 0.407
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,773,522
Number of extensions: 334978
Number of successful extensions: 645
Number of sequences better than 10.0: 1
Number of HSP's gapped: 640
Number of HSP's successfully gapped: 18
Length of query: 400
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 304
Effective length of database: 4,021,377
Effective search space: 1222498608
Effective search space used: 1222498608
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: 58 (26.1 bits)