RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6142
(483 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 = 57.8 bits (139), Expect = 6e-09
Identities = 70/390 (17%), Positives = 123/390 (31%), Gaps = 139/390 (35%)
Query: 156 PFLI------CMFLIPETPRWYIGRNKQKQARKALQWLRGKDADISREFAEIEKMNNEGN 209
P + + L+P T ++I A Q L+ +F +I EG
Sbjct: 8 PLTLSHGSLEHVLLVP-TASFFI----------ASQ-LQ-------EQFNKILPEPTEGF 48
Query: 210 AAEDENSTGCSEV--------FKAMYMRPL-------LISIGLMFFQQ--MSG--INAVL 250
AA+DE + + + + + P ++++ L F+ + G I+A+
Sbjct: 49 AADDEPT---TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA 105
Query: 251 ASLTVSLGSMIV---GFASAYTSPAIPSMNQMGSRVSPT------EEEDA-------GST 294
A L + +V Y + A + + S + E +A G
Sbjct: 106 AKLLQENDTTLVKTKELIKNYIT-ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 295 INENYCTIIVGVVNLLSVLIAT--ALIDRLGRKILLYISSTAMIL-TLA--TLGTFFYFK 349
++Y L L T L+ L I +A L L TL F
Sbjct: 165 NTDDY-------FEELRDLYQTYHVLVGDL-------IKFSAETLSELIRTTLDAEKVF- 209
Query: 350 STGSDVSELGWL-------------------P---LLSFVVYVIGFSIGFGSIPWLMMGE 387
+ G ++ L WL P ++ YV+ + G P GE
Sbjct: 210 TQGLNI--LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV-TAKLLGFTP----GE 262
Query: 388 ILPAKIRG---------SAASLATAFNWTCTFIVTKTFNDLTALLGTHGAFWLFGVVCLV 438
+ ++G +A ++A +W ++F F++ GV C
Sbjct: 263 LRS-YLKGATGHSQGLVTAVAIAETDSW-------ESFFVS-VRKAITVLFFI-GVRCY- 311
Query: 439 GLFFVIIFVPETQGKSLEDIERNLTGGGSP 468
+ P SLE+ G P
Sbjct: 312 EAYPNTSLPPSILEDSLEN------NEGVP 335
Score = 38.1 bits (88), Expect = 0.007
Identities = 29/187 (15%), Positives = 52/187 (27%), Gaps = 62/187 (33%)
Query: 1 M--VKLLLRADTHSRIDANYNEY--DDVKINYIQASWIGSLMPLSALFGG-----MAGGP 51
M + L + ++ N + ++ I +L G ++G P
Sbjct: 338 MLSISNLTQEQVQDYVNK-TNSHLPAGKQV-EI------------SLVNGAKNLVVSGPP 383
Query: 52 LIESLGRRTTIL-----STGL-----PF-------IVSFLLIA-------LANGVPMILA 87
+SL L +GL PF FL +A L +I
Sbjct: 384 --QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINK 441
Query: 88 GRCVAGFCVGIASLALPVYL---GETVQPEVRGTLGLLPTFLGNIGILTCFIAGTFLNWY 144
+ +PVY G ++ + G++ + I + W
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTFDGSDLR-VLSGSI---------SERIVDCIIRLPVKWE 491
Query: 145 QLAFFGA 151
F A
Sbjct: 492 TTTQFKA 498
Score = 33.1 bits (75), Expect = 0.28
Identities = 37/183 (20%), Positives = 57/183 (31%), Gaps = 73/183 (39%)
Query: 7 RADTHSRIDANYNEYDDVKINYIQASWIGSLMP--LSALFGGMAGG-------------- 50
RAD H + ++ D V N P L+ FGG G
Sbjct: 1648 RADNHFKDTYGFSILDIVINN-----------PVNLTIHFGGEKGKRIRENYSAMIFETI 1696
Query: 51 --------PLIESLGRRTTILS----TGL--------P--FIVSFLLIAL--ANGVPMIL 86
+ + + +T + GL P ++ + G+ I
Sbjct: 1697 VDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGL--IP 1754
Query: 87 AGRCVAGFCVG----IASLA--LP----VYL----GETVQPEV-RGTLGLLPTFLGNIGI 131
A AG +G +ASLA + V + G T+Q V R LG N G+
Sbjct: 1755 ADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELG-----RSNYGM 1809
Query: 132 LTC 134
+
Sbjct: 1810 IAI 1812
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 42.0 bits (99), Expect = 3e-04
Identities = 24/154 (15%), Positives = 48/154 (31%), Gaps = 14/154 (9%)
Query: 29 IQASWIGSLMPLSALFGGMAGGPLIESLGRRT-----TILSTGLPFIVSFLLIALANGVP 83
++SW L + + G + G + + + R T + + A
Sbjct: 288 DKSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPT 347
Query: 84 MILAGRCVAGFCVGIASLALPVYLGETVQPEVRGTLGLLPTFLGNIG------ILTCFIA 137
+ + V GF + + + ++ E + GT G +G + +
Sbjct: 348 VDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTV 407
Query: 138 GTFLNWYQLAFF--GACIPVPFLICMFLIPETPR 169
F W G I L+ + +I E R
Sbjct: 408 DFF-GWDGGFMVMIGGSILAVILLIVVMIGEKRR 440
Score = 33.1 bits (76), Expect = 0.18
Identities = 26/142 (18%), Positives = 52/142 (36%), Gaps = 10/142 (7%)
Query: 309 LLSVLIATALIDRLGRKILLYISSTAMILTLATLGTFFYFKSTGSDVSELGWLPLLSFVV 368
+ L+ + D++ R ++ +TL T+ T Y+ + + + +
Sbjct: 302 IPGTLLCGWMSDKVFRG--NRGATGVFFMTLVTIATIVYWMNPAGNP------TVDMICM 353
Query: 369 YVIGFSI-GFGSIPWLMMGEILPAKIRGSAASLATAFNWTCTFIVTKTFN-DLTALLGTH 426
VIGF I G + L E+ P K G+AA F + + G
Sbjct: 354 IVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTVDFFGWD 413
Query: 427 GAFWLFGVVCLVGLFFVIIFVP 448
G F + ++ + +I+ +
Sbjct: 414 GGFMVMIGGSILAVILLIVVMI 435
Score = 29.6 bits (67), Expect = 2.4
Identities = 24/150 (16%), Positives = 48/150 (32%), Gaps = 25/150 (16%)
Query: 310 LSVLIATALIDRLGRKILLYISSTAMILT-LATLGTFFYFKSTGSDVSELGWLPLLSFVV 368
S I ++ DR ++ L +IL L F +T S + ++ ++
Sbjct: 77 FSKFIMGSVSDRSNPRVFL---PAGLILAAAVMLFMGFVPWATSS-------IAVMFVLL 126
Query: 369 YVIGFSIGFGSIP-WLMMGEILPAKIRG-------SAASLATAFNWTCTFIVTKTFNDLT 420
++ G+ G G P M K RG A ++ + +
Sbjct: 127 FLCGWFQGMGWPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGI---PPLLFLLG---MA 180
Query: 421 ALLGTHGAFWLFGVVCLVGLFFVIIFVPET 450
H A ++ ++ F + +T
Sbjct: 181 WFNDWHAALYMPAFCAILVALFAFAMMRDT 210
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 40.3 bits (94), Expect = 0.001
Identities = 17/142 (11%), Positives = 38/142 (26%), Gaps = 8/142 (5%)
Query: 31 ASWIGSLMPLSAL---FGGMAGGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILA 87
G + + L +I +G + +L G V + + A ++
Sbjct: 258 TRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVI 317
Query: 88 GRCVAGFCVGIASLALPVYLGETVQPEVRGTLGLLPTFLGN--IGILTCFIAGTFLNWYQ 145
+ + F V + Y+ + T+ L+ I +AG
Sbjct: 318 LKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIG 377
Query: 146 LA---FFGACIPVPFLICMFLI 164
+ + F +
Sbjct: 378 FQGAYLVLGLVALGFTLISVFT 399
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 36.8 bits (86), Expect = 0.014
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 40 LSALFGGMA-----GGPLIESLGRRTTILSTGLPFIVSFLLIALANGVPMILAGRCVAGF 94
+ A GP+ + +GRR IL F+++ L+ + + +++A + G
Sbjct: 41 MGAYLLTYGVSQLFYGPISDRVGRRPVILVGMSIFMLATLVAVTTSSLTVLIAASAMQGM 100
Query: 95 CVGIAS 100
G+
Sbjct: 101 GTGVGG 106
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.4 bits (78), Expect = 0.043
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 6/31 (19%)
Query: 170 WYIGRNKQKQARKAL------QWLRGKDADI 194
W +++Q + K + + DADI
Sbjct: 123 WNQRQSEQVEKNKINNRIADKAFYQQPDADI 153
>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 = 34.1 bits (78), Expect = 0.14
Identities = 18/110 (16%), Positives = 31/110 (28%), Gaps = 34/110 (30%)
Query: 8 ADTHSRIDANYNEYDDVKINYIQASWIGSLMPLSALFGGMAGGPLIESL-------GRRT 60
A S I Y Y V ++ + + GS M GG+ + +
Sbjct: 1023 AFIASGITDPYEMYKYVHVSEV-GNCSGSGM------GGV---SALRGMFKDRFKDEPVQ 1072
Query: 61 TILSTGLPFIVSFLLIALANGVPMILAG-----RCVAGFC------VGIA 99
+ + ++ V M+L + G C V I
Sbjct: 1073 N------DILQESFINTMSAWVNMLLISSSGPIKTPVGACATSVESVDIG 1116
>3ar4_A Sarcoplasmic/endoplasmic reticulum calcium ATPase; P-type ATPase,
hydrolase, calcium transport, calcium binding binding;
HET: ATP TG1 PTY; 2.15A {Oryctolagus cuniculus} PDB:
2ear_A* 2eas_A* 2eat_A* 2eau_A* 2dqs_A* 2zbe_A 2zbf_A*
2zbg_A* 3ar2_A* 2zbd_A* 3ar3_A* 3ar5_A* 3ar6_A* 3ar7_A*
3ar8_A* 3ar9_A* 3n5k_A* 1kju_A 1iwo_A 1t5s_A* ...
Length = 995
Score = 33.8 bits (78), Expect = 0.16
Identities = 22/136 (16%), Positives = 43/136 (31%), Gaps = 22/136 (16%)
Query: 322 LGRKILLYISSTAMILTLATLGTFFYFKSTGSDVSELGWLPLLSFVVYVIGFSIGFGSIP 381
+ + + + AT+G ++ D + + L F
Sbjct: 830 ISGWLFFRYMAIGGYVGAATVGAAAWWFMYAEDGPGVTYHQLTHF----------MQCTE 879
Query: 382 WLMMGEILPAKIRGSAASLATAFNWTCTFIVTKTFNDLTALLGTHGAF--------WLFG 433
E L +I + + A + + + N L +L WL G
Sbjct: 880 DHPHFEGLDCEIFEAPEPMTMALS---VLVTIEMCNALNSLSENQSLMRMPPWVNIWLLG 936
Query: 434 VVCL-VGLFFVIIFVP 448
+CL + L F+I++V
Sbjct: 937 SICLSMSLHFLILYVD 952
>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 = 32.9 bits (74), Expect = 0.30
Identities = 32/310 (10%), Positives = 72/310 (23%), Gaps = 119/310 (38%)
Query: 140 FLNWYQLAFFG----ACIPVPFLICMF--LIPETP-RW----YIGRNKQKQARKALQWLR 188
L + P + + I + W ++ +K ++
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES----- 361
Query: 189 GKDADISREFAEIEKMNNEGNAAEDENSTGCSEVFKAMYMRPLLISIGLMFFQQMSGI-N 247
V + R + + + F + I
Sbjct: 362 ------------------------------SLNVLEPAEYRKMFDRLSV--FPPSAHIPT 389
Query: 248 AVLASL---TVSLGSMIVGFASAYTSPAIPSMNQMGSRVSPTEEEDAGSTINENYCTIIV 304
+L+ + + M+V +N++ S + + +
Sbjct: 390 ILLSLIWFDVIKSDVMVV-------------VNKLHKY----------SLVEKQPKESTI 426
Query: 305 GVVNLLSVLIATALIDR-LGRKILLYISSTAMILTLATLGTFFYFKSTGSDVSELGWLPL 363
+ ++ L + L R I+ + Y D +L L
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDH-----------------YNIPKTFDSDDLIPPYL 469
Query: 364 ----LSFVVY----------VIGFSIGFGSIPWLMMGEILPAKIRGSAASLATAFNWTCT 409
S + + + F + F + L KIR + W +
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF------LEQKIR------HDSTAWNAS 517
Query: 410 FIVTKTFNDL 419
+ T L
Sbjct: 518 GSILNTLQQL 527
>3jz0_A Lincosamide nucleotidyltransferase; alpha-beta structure,
transferase-antibiotic CO; HET: APC CLY; 2.00A
{Enterococcus faecium} PDB: 3jyy_A*
Length = 287
Score = 30.2 bits (67), Expect = 1.4
Identities = 8/47 (17%), Positives = 19/47 (40%)
Query: 7 RADTHSRIDANYNEYDDVKINYIQASWIGSLMPLSALFGGMAGGPLI 53
D +S I+ + N+ ++W+ + P L+ G ++
Sbjct: 54 EGDQYSDIEFYIFLKHSITSNFDSSNWLFDVAPYLMLYKNEYGTEVV 100
>3ayf_A Nitric oxide reductase; oxidoreductase; HET: HEM BOG EPE LOP; 2.50A
{Geobacillus stearothermophilus} PDB: 3ayg_A*
Length = 800
Score = 29.6 bits (66), Expect = 2.7
Identities = 15/122 (12%), Positives = 34/122 (27%), Gaps = 2/122 (1%)
Query: 326 ILLYISSTAMILTLATLGTFFYFKSTGSDVSELGWLPLLSFVVYVIGFSIGFGSIPWLMM 385
+ + + + +F G + ELG + + VV ++ + +
Sbjct: 401 VGGSMIGQWLGVNGYLGNEWFLLGHQGWEYIELGRIWQIILVVGMLLWLFIVFRG--VKR 458
Query: 386 GEILPAKIRGSAASLATAFNWTCTFIVTKTFNDLTALLGTHGAFWLFGVVCLVGLFFVII 445
G + G L + F + F + + + V F +
Sbjct: 459 GLKRESDKGGLIHLLFYSAIAVPFFYIFAFFIQPDTNFTMADFWRWWIIHLWVEGIFEVF 518
Query: 446 FV 447
V
Sbjct: 519 AV 520
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei
transport protein; HET: BNG; 3.14A {Escherichia coli}
PDB: 3o7p_A*
Length = 438
Score = 28.0 bits (62), Expect = 7.6
Identities = 14/76 (18%), Positives = 25/76 (32%), Gaps = 3/76 (3%)
Query: 26 INYIQASWIGSLMPLSALFGGMAGGPLIESLGRRTTIL-STGLPFIVSFLLI--ALANGV 82
+ QA I S + G L++ L + I+ L + + L A
Sbjct: 58 LTNFQAGLIQSAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNY 117
Query: 83 PMILAGRCVAGFCVGI 98
+ L G + +G
Sbjct: 118 TLFLVGLFIIAAGLGC 133
>1bf2_A Isoamylase; hydrolase, glycosidase, debranching enzyme; 2.00A
{Pseudomonas amyloderamosa} SCOP: b.1.18.2 b.71.1.1
c.1.8.1
Length = 750
Score = 28.1 bits (63), Expect = 9.1
Identities = 4/11 (36%), Positives = 7/11 (63%)
Query: 78 LANGVPMILAG 88
L+ G P++ G
Sbjct: 571 LSAGTPLMQGG 581
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
0.325 0.141 0.428
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,365,225
Number of extensions: 450986
Number of successful extensions: 1141
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1133
Number of HSP's successfully gapped: 41
Length of query: 483
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 386
Effective length of database: 3,993,456
Effective search space: 1541474016
Effective search space used: 1541474016
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 (21.6 bits)
S2: 59 (26.9 bits)