RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15142
(744 letters)
>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 = 140 bits (354), Expect = 9e-36
Identities = 40/320 (12%), Positives = 91/320 (28%), Gaps = 5/320 (1%)
Query: 319 KHINWTVAQESAVDSSFFWGYLITQVPGGFFASRYPANRIFGTAIACTSFLHLF--VPTA 376
++ S Y ++ G + R + + + LF
Sbjct: 55 VEQGFSRGDLGFALSGISIAYGFSKFIMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPW 114
Query: 377 IKLNPGSVIIVRICQGLVEGVCYPAVHGIWRFWAPPLERSRLATIAFCGTYAGIVLGLPI 436
+ + ++ G +G+ +P W ER + ++ C G + +
Sbjct: 115 ATSSIAVMFVLLFLCGWFQGMGWPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGIPPLL 174
Query: 437 SAILTEHF-SWEAMFYFYGCMGLLWYLCWLWLSFEKPCLHPTISGRELLYIEKSLGSSVQ 495
+ F W A Y +L L + + P E +
Sbjct: 175 FLLGMAWFNDWHAALYMPAFCAILVALFAFAMMRDTPQSCGLPPIEEYKNDYPDDYNEKA 234
Query: 496 VAMPTLATTPWREFAHSMPVYAIIVANFCRSWNFYLLVLFQASYLKSTFHLQIQETGFIG 555
T + + ++ I +AN Y ++ + +YLK H + ++ +
Sbjct: 235 EQELTAKQIFMQYVLPNKLLWYIAIANVFVYLLRYGILDWSPTYLKEVKHFALDKSSWAY 294
Query: 556 SLPHLLMTIVVPCGGMLADHLRKKGILSTTMVRKLFNCGGFGMEAFFFVVVAYTKSEVTA 615
L G ++D + + T V + ++ ++
Sbjct: 295 FLYEYAGIPGTLLCGWMSDKVFRGNR-GATGVFFMT-LVTIATIVYWMNPAGNPTVDMIC 352
Query: 616 TMALCLGIEGRWTVVFLIAA 635
+ + I G ++ L A
Sbjct: 353 MIVIGFLIYGPVMLIGLHAL 372
Score = 41.6 bits (98), Expect = 8e-04
Identities = 24/159 (15%), Positives = 49/159 (30%), Gaps = 6/159 (3%)
Query: 313 FYLGKVKHINWTVAQESAVDSSFFWGYLITQVPGGFFASRYPANRIFGTAIACTSFLHLF 372
YL +VKH + S + + + + G+ + + T + + + +
Sbjct: 277 TYLKEVKHFALDKS--SWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIA 334
Query: 373 VPTAIKLNPGSVIIVRICQGLVEGVCYPAVHGIWRFWAPPLERSRLATIA----FCGTYA 428
G+ + IC ++ + Y V I + T A G
Sbjct: 335 TIVYWMNPAGNPTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLG 394
Query: 429 GIVLGLPISAILTEHFSWEAMFYFYGCMGLLWYLCWLWL 467
G V I + F W+ F +L + + +
Sbjct: 395 GSVAASAIVGYTVDFFGWDGGFMVMIGGSILAVILLIVV 433
Score = 41.2 bits (97), Expect = 0.001
Identities = 12/109 (11%), Positives = 32/109 (29%), Gaps = 6/109 (5%)
Query: 129 TGFIGSLPHLLMTIVVPCGGMLADHLRKKGILSTTMVRKLFNCGGFGMEAFFFVVVAYTK 188
+ + L G ++D + + T V + A +
Sbjct: 290 SSWAYFLYEYAGIPGTLLCGWMSDKVFRGNR-GATGVFFMTLVTI----ATIVYWMNPAG 344
Query: 189 SEVTATMALCLGVAFSGFAISGYNVNHLDIAPRYA-SILMGMSNGIGTI 236
+ + + + + ++ L++AP+ A G + G +
Sbjct: 345 NPTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYL 393
>4ds1_A Dynein light chain 1, cytoplasmic; dynein light chain fold, peptide
binding, nucle structural protein-transport protein
complex; 1.85A {Saccharomyces cerevisiae}
Length = 97
Score = 104 bits (260), Expect = 8e-27
Identities = 24/69 (34%), Positives = 46/69 (66%), Gaps = 1/69 (1%)
Query: 251 MDADMQQKAIDATKEGLEKFNIEREVATYIKQYFENAYGPYWQCVVGRNFGSYVSFET-H 309
+ +++ + +K+ L+K+ +ER++A +K+ + YG W +VG+NFGSYV+ E H
Sbjct: 21 ITDKLKEDILTISKDALDKYQLERDIAGTVKKQLDVKYGNTWHVIVGKNFGSYVTHEKGH 80
Query: 310 YIYFYLGKV 318
++YFY+G +
Sbjct: 81 FVYFYIGPL 89
>1yo3_A Dynein light chain 1; structural genomics consortium, microtub
malaria, SGC, transport protein; 1.65A {Plasmodium
falciparum} PDB: 1f3c_A 1f95_A 1f96_A 1rhw_A 2p1k_A
2p2t_A 3bri_A 3e2b_A 3fm7_E 3glw_A 3dvt_A 2pg1_A 3p8m_A
1pwj_A 2xqq_A 3brl_A 1re6_A 1cmi_A 3dvh_A 3dvp_A ...
Length = 102
Score = 97.6 bits (243), Expect = 1e-24
Identities = 36/69 (52%), Positives = 52/69 (75%), Gaps = 1/69 (1%)
Query: 251 MDADMQQKAIDATKEGLEKFNIEREVATYIKQYFENAYGPYWQCVVGRNFGSYVSFET-H 309
M +MQ AID + L+K+N+E+++A +IK+ F+ Y P W CVVGRNFGSYV+ ET +
Sbjct: 26 MTEEMQIDAIDCANQALQKYNVEKDIAAHIKKEFDRKYDPTWHCVVGRNFGSYVTHETKN 85
Query: 310 YIYFYLGKV 318
+IYFY+G+V
Sbjct: 86 FIYFYIGQV 94
>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 = 47.7 bits (113), Expect = 1e-05
Identities = 87/565 (15%), Positives = 156/565 (27%), Gaps = 235/565 (41%)
Query: 239 FISYIGRRGKSTMDADMQQKAIDATKEGLEKFNIEREVATYIKQYFENAYGPYWQCVVGR 298
F+ Y+ ++ + + L FEN Y + G
Sbjct: 64 FLGYVSSL--------VEPSKVGQFDQVLNL----------CLTEFENCY------LEGN 99
Query: 299 NFGSYVS----------FETHYI---YFYLGKVKHINWTVAQESAVDSSFFWGYLITQVP 345
+ + + +T + Y + + SA L V
Sbjct: 100 DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSA---------LFRAVG 150
Query: 346 GG---FFASRYPANRIFGTAIACTSFLHLFVPTAIKLNPGSVIIVRICQGLVEGVCYPAV 402
G A IFG G QG + Y
Sbjct: 151 EGNAQLVA-------IFG---------------------G--------QGNTDD--Y--- 169
Query: 403 HGIWRFWAPPLERSRLATIAFCGTYAGIVLGL--PISAILTE--HFSWEAMFYFYGCMGL 458
+ E L + + TY +V L + L+E + +A F + +
Sbjct: 170 ---FE------E---LRDL-YQ-TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215
Query: 459 LWYLCWLWLSFEKPCLHPTISGRELLYIEKSLGSSVQVAMP---------------TLAT 503
L WL E P P Y+ S+ ++ P L
Sbjct: 216 L-----EWL--ENPSNTPDKD-----YL-----LSIPISCPLIGVIQLAHYVVTAKLLGF 258
Query: 504 TPWREFAHSMP-----VYAIIVANFC---RSW-NFYLLVLFQASYLKSTFH--LQIQETG 552
TP E + ++ A SW +F++ V + F ++ E
Sbjct: 259 TP-GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV---RKAITVLFFIGVRCYEAY 314
Query: 553 FIGSLPHLLMTIVVPCG-G----MLA-DHLRKKGILSTTMVRK--------------LFN 592
SLP ++ + G ML+ +L ++ + V K L N
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD--YVNKTNSHLPAGKQVEISLVN 372
Query: 593 CGGFGMEAFFFVVVAYTKSEVTATMALCLGIEG-------------------RWTVVFL- 632
G + VV +S L L + +++ FL
Sbjct: 373 ----GAKN--LVVSGPPQS----LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP 422
Query: 633 IAATVHFIGITFYAIFASGELQPWAEPTSEEVA----SWNPMEQLQ-P----TDGKDEKY 683
+A+ H + L P ++ ++++ S+N + +Q P DG D
Sbjct: 423 VASPFH----SHL-------LVPASDLINKDLVKNNVSFNA-KDIQIPVYDTFDGSD--- 467
Query: 684 AIQNYGSTEDAPYNNYSNHIVAQPV 708
++ S + + I+ PV
Sbjct: 468 -LRVL-SGSISE--RIVDCIIRLPV 488
Score = 45.0 bits (106), Expect = 9e-05
Identities = 75/465 (16%), Positives = 135/465 (29%), Gaps = 173/465 (37%)
Query: 336 FWGYLITQVPGGFFASRYPANRIFGTAIAC--TSFL-----HLFVPTAIKLNPGSVIIVR 388
F GY+ + V +++ + +L H ++ N +++ +
Sbjct: 64 FLGYVSSLVEPSKVGQF---DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 389 -ICQGLVEGVCY-PAVHGIWRFWAPPLE----------RSRLATIAFCG----------- 425
+ + Y A R + ++L I F G
Sbjct: 121 ELIK------NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI-FGGQGNTDDYFEEL 173
Query: 426 -----TYAGIVLGL--PISAILTE--HFSWEAMFYFYGCMGLLWYLCWLWLSFEKPCLHP 476
TY +V L + L+E + +A F + +L WL E P P
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL-----EWL--ENPSNTP 226
Query: 477 TISGRELLYIEKSLGSSVQVAMPTLATTPWREFAHSMPVYAIIVANFCRSWNFYLLVLFQ 536
Y+ S+ ++ P + + AH Y + +
Sbjct: 227 DKD-----YL-----LSIPISCPLIGVI---QLAH----YVV----TAKL---------- 255
Query: 537 ASYLKSTFHLQIQETGFIGSLPHLLMTIVVPCGGMLADHLR-----KKGILSTTMVRKLF 591
+G P G L +L+ +G+++
Sbjct: 256 -----------------LGFTP-----------GELRSYLKGATGHSQGLVT-------- 279
Query: 592 NCGGFGMEAFFFVVVAYTKSEVTATMALCLGIEGRWTVVFLIAATVHFIGITFYAIFASG 651
A V +A T S + +++ I V+F FIG+ Y + +
Sbjct: 280 --------A---VAIAETDSWESFFVSVRKAIT----VLF-------FIGVRCYEAYPNT 317
Query: 652 ELQPW----AEPTSEEVASWNPM--------EQLQPTDGKDEKYAIQNYGSTEDAPYNNY 699
L P + +E V S PM EQ+Q K + E + N
Sbjct: 318 SLPPSILEDSLENNEGVPS--PMLSISNLTQEQVQDYVNKTNSHLPAG-KQVEISLVNGA 374
Query: 700 SNHIVAQPVQPASQDSYMNEQRNIVEESQNEFNPFKQTSTNPFTQ 744
N +V+ P P S R S + Q+ PF++
Sbjct: 375 KNLVVSGP--PQSLYGLNLTLRKAKAPSGLD-----QSRI-PFSE 411
Score = 33.1 bits (75), Expect = 0.44
Identities = 40/270 (14%), Positives = 74/270 (27%), Gaps = 79/270 (29%)
Query: 531 LLV----LFQASYLKSTFHLQIQE--TGFIG-----SLPHLLMTIVVPCGGMLADHLRKK 579
LLV F AS L+ F+ + E GF + L+ + G ++ +
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL----GYVSSLVEPS 75
Query: 580 GILSTTMVRKL----FNCGGF-------------------GMEAFFFVVVAYTKSEVTAT 616
+ V L F + + ++ Y + + A
Sbjct: 76 KVGQFDQVLNLCLTEFEN-CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 617 MALCLGIEGRWTVVFLIAATVHFIGITFYAIFASG---------ELQ-------PWAEPT 660
A AIF G EL+
Sbjct: 135 RPFDKKSNSA----LFRAVGEG--NAQLVAIFG-GQGNTDDYFEELRDLYQTYHVLVGDL 187
Query: 661 SEEVASWNPMEQLQPTDGKDEKYAIQNY------GSTEDAPYNNYSNHI-VAQP----VQ 709
+ A + +L T EK Q + + P +Y I ++ P +Q
Sbjct: 188 IKFSA--ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245
Query: 710 PASQDSYMNEQRNIVEESQNEFNPFKQTST 739
A Y+ + ++ + E + + +T
Sbjct: 246 LA---HYVVTAK-LLGFTPGELRSYLKGAT 271
Score = 32.7 bits (74), Expect = 0.54
Identities = 38/218 (17%), Positives = 64/218 (29%), Gaps = 86/218 (39%)
Query: 264 KEGLEKFNIEREVATYIKQYFENAYGPYWQCVVGRN-------FGS---------YVSFE 307
+ + ++V +F++ YG +V N FG Y +
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 308 THYIYFYLGKVKHINWTVAQESAVDSSFFW----GYL----ITQVPGGFFASR------- 352
I K + I + + S +S+ + G L TQ P +
Sbjct: 1693 FETIVDGKLKTEKIFKEINEHS---TSYTFRSEKGLLSATQFTQ-PALTLMEKAAFEDLK 1748
Query: 353 ----YPANRIF-G------TAIACTS-----------------FLHLFVPT--------- 375
PA+ F G A+A + + + VP
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYG 1808
Query: 376 AIKLNPGSV-----------IIVRICQ---GLVEGVCY 399
I +NPG V ++ R+ + LVE V Y
Sbjct: 1809 MIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY 1846
Score = 31.2 bits (70), Expect = 1.7
Identities = 30/159 (18%), Positives = 46/159 (28%), Gaps = 45/159 (28%)
Query: 2 KEKKKEKKEIWKLELEKYKKKF-----PTF--FN----GEEQELVMRLNTDYEEFQIPNP 50
K K + ++ + K KF P F+ +L+ D + +
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN---KDLVKNNVSFN 451
Query: 51 PDDSNIP-YASTGGLPGGPSIDIPSPERPPLRHIDKYVRPEI-------PCLSKRYTMAT 102
D IP Y + G D LR + + I P + T
Sbjct: 452 AKDIQIPVYDTFDG------SD--------LRVLSGSISERIVDCIIRLPVKWETTTQFK 497
Query: 103 LTCVGFIISFGMKCNLGFAKL---QFEGR-TGFI--GSL 135
T I+ FG G L +G I G+L
Sbjct: 498 ATH---ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTL 533
Score = 30.4 bits (68), Expect = 2.7
Identities = 18/102 (17%), Positives = 32/102 (31%), Gaps = 35/102 (34%)
Query: 647 IFASGELQP-WAEPTSEEVASWNPMEQLQ---------PTDGKDEKYAIQNYGSTEDAP- 695
+ G L+ PT+ S+ QLQ PT+G +D P
Sbjct: 10 TLSHGSLEHVLLVPTA----SFFIASQLQEQFNKILPEPTEGFAA----------DDEPT 55
Query: 696 -----YNNYSNHIVAQPVQPASQDSYMNEQRNIVEESQNEFN 732
+ + V+ V+P+ + ++ EF
Sbjct: 56 TPAELVGKFLGY-VSSLVEPSKVGQF----DQVLNLCLTEFE 92
Score = 28.9 bits (64), Expect = 9.2
Identities = 33/190 (17%), Positives = 57/190 (30%), Gaps = 57/190 (30%)
Query: 27 FNGEEQELV-------MRLNTDYEEFQIPNPPDDSNIPYA------STGGLPGGPSIDIP 73
NG + +V LN + + P+ D S IP++ S LP + P
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP----VASP 426
Query: 74 --SPERPPLRHIDKYVRPEIPCLSKRYTMATLTCVGFIISFGMKCNLGFAKLQFEGRTG- 130
S + P ++K L + ++ ++ G
Sbjct: 427 FHSH----------LLVPASDLINKD-----LVKNNVSFN---AKDIQIP--VYDTFDGS 466
Query: 131 ----FIGSLPHLL--MTIVVPCGGMLADHLRKKGIL-----STTMVRKLF--NCGGFGME 177
GS+ + I +P + IL + + L N G G+
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVR 526
Query: 178 AFFFVVVAYT 187
V+VA T
Sbjct: 527 ----VIVAGT 532
>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 = 41.8 bits (98), Expect = 6e-04
Identities = 12/128 (9%), Positives = 32/128 (25%), Gaps = 4/128 (3%)
Query: 347 GFFASRYPANRIFGTAIACTSFLHLFVPTAIKLNPGSVIIVRICQGLVEGVCYPAVHGIW 406
+R A S + ++ + V+I++
Sbjct: 280 PLIINRIGGKNALLLAGTIMSVR--IIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYI 337
Query: 407 RFWAPPLERSRL-ATIAFCGTYAGIVLGLPISAILTEHFSWEAMFYFYGCMGLLWYLC-W 464
+ + ++ ++ + E ++ + G + L + L
Sbjct: 338 TSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISV 397
Query: 465 LWLSFEKP 472
LS P
Sbjct: 398 FTLSGPGP 405
Score = 28.7 bits (64), Expect = 7.4
Identities = 22/103 (21%), Positives = 32/103 (31%), Gaps = 9/103 (8%)
Query: 535 FQASYLKSTFHLQIQETGFIGSLPHLLMTIVVPCGGMLADHLRKKGILSTTMVRKLFNCG 594
F +L H+ +TG I + L + P G+L+D L RK
Sbjct: 29 FFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGL---------RKYLLWI 79
Query: 595 GFGMEAFFFVVVAYTKSEVTATMALCLGIEGRWTVVFLIAATV 637
GM F + + L I G + F A
Sbjct: 80 ITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGA 122
>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 = 0.036
Identities = 8/61 (13%), Positives = 20/61 (32%), Gaps = 9/61 (14%)
Query: 3 EKKKEKKEIWK----LELEKYKKKFPTFFNGEEQELVMRLNTDYEEFQIPNPPDDSNIPY 58
E ++ W + +K + N E ++ ++ + P ++IP
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM---FDRLSVF--PPSAHIPT 389
Query: 59 A 59
Sbjct: 390 I 390
Score = 36.0 bits (82), Expect = 0.055
Identities = 51/322 (15%), Positives = 97/322 (30%), Gaps = 92/322 (28%)
Query: 431 VLGLPISAILTEHFS-WEAMFYFYGCMGLLWYLCW-----LWLSFEKPCLHPTISGRELL 484
L + I+ + + + W+ + + C + S L P R++
Sbjct: 329 RLSI-IAESIRDGLATWD--NWKH-------VNCDKLTTIIESSLN--VLEPAEY-RKM- 374
Query: 485 YIEKSLG---SSVQVAMPTLATTPWREFAHSMPVYAIIVANFCRSWNFYLLVLFQASYLK 541
+ L S + L+ W + S ++V + Y LV Q +
Sbjct: 375 F--DRLSVFPPSAHIPTILLSLI-WFDVIKSDV--MVVVNKLHK----YSLVEKQPK--E 423
Query: 542 STFHLQIQETGFIGSLPHLLMTIVVPCGGMLADHLRKKGILSTTMVRKLFNCGGFG---M 598
ST S+P + + + V A H + I+ + K F+ +
Sbjct: 424 STI-----------SIPSIYLELKVKLENEYALH---RSIVDHYNIPKTFDSDDLIPPYL 469
Query: 599 EAFFFVVVAY--TKSEVTATMALCLGIEGRWTVVFLIAATVHFIGITFYAIFASGELQPW 656
+ +F+ + + E M L + +VFL F+ I W
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTL-------FRMVFL---DFRFLEQK---IRHDS--TAW 514
Query: 657 AEPTSEEVASWNPMEQLQPTDGKDEKYAIQNYGSTEDAPYN-----------NYSNHIVA 705
S N ++QL + Y + Y D Y +++
Sbjct: 515 NASGS----ILNTLQQL-------KFY--KPYICDNDPKYERLVNAILDFLPKIEENLIC 561
Query: 706 QPVQPASQDSYMNEQRNIVEES 727
+ + M E I EE+
Sbjct: 562 SKYTDLLRIALMAEDEAIFEEA 583
Score = 35.2 bits (80), Expect = 0.085
Identities = 33/238 (13%), Positives = 61/238 (25%), Gaps = 83/238 (34%)
Query: 159 ILSTTMVRKLFNCGGFGMEAFFFVV---VAYTKSEVTATMALCLGVAFSGFAISGYNVNH 215
IL TT +++ + + + T EV + + L
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV----- 322
Query: 216 LDIAPRYASILMG--MSNGIGTIDIFISYIGRRGKSTMDADMQQKAIDATKEGLEKFNIE 273
L PR SI+ + +G+ T D + + D I+++ LE
Sbjct: 323 LTTNPRRLSII-AESIRDGLATWDNWKHV---------NCDKLTTIIESSLNVLE----- 367
Query: 274 REVATYIKQYF-------ENAYGP------YWQ------------------CVVGRNFGS 302
++ F +A+ P W V + S
Sbjct: 368 ---PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
Query: 303 YVSFETHYIYF-------------------YLGKVKHINWTVAQESAVDSSFFW--GY 339
+S IY Y + + +D F+ G+
Sbjct: 425 TISI--PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY-LDQYFYSHIGH 479
Score = 32.9 bits (74), Expect = 0.54
Identities = 36/359 (10%), Positives = 94/359 (26%), Gaps = 121/359 (33%)
Query: 411 PPLERSRLATIAFCGTYAGIVLGLPISAILTEHFSWEAMFYFYGCMGLLWYLCWLWLSFE 470
+ + +V + F E + Y +L +
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMV----------QKFVEEVLRINYK---------FLMSPIK 99
Query: 471 KPCLHPT------ISGRELLY-------------------IEKSLGSSVQVA-------M 498
P+ I R+ LY + ++L ++ A +
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL-LELRPAKNVLIDGV 158
Query: 499 P-----TLATTPWREFA--HSMP--VYAIIVANFCRS--------WNFYL-LVLFQASYL 540
+A + M ++ + + N C S + S
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN-CNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 541 KSTFHLQIQETGFIGSLPHLLMT-------IVVPCGGMLADHLRKKG----------ILS 583
+ +++++ L LL + +V+ +++ IL
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL-------LNVQNAKAWNAFNLSCKILL 270
Query: 584 TTMVRKLFNCGGFGMEAFFFVV---VAYTKSEVTATMALCLGIE----------GRWTVV 630
TT +++ + + + T EV + + L +
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL 330
Query: 631 FLIAATVHFIGITFYAIFASGELQPWAEPTSEEVASWNPM--EQLQPTDGKD--EKYAI 685
+IA ++ T+ W +++ + L+P + + ++ ++
Sbjct: 331 SIIAESIRDGLATW---------DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Score = 29.8 bits (66), Expect = 4.7
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 692 EDAPYNNYS---NHIVAQPVQPASQDSYMNEQRNIVEESQNEFNPFKQTSTNPFTQ 744
E+ NY + I + QP+ EQR+ + F + + P+ +
Sbjct: 84 EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK 139
>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 = 0.072
Identities = 9/52 (17%), Positives = 21/52 (40%), Gaps = 3/52 (5%)
Query: 3 EKKKEKKEIWKLELEKYKKKFPTFFNGEEQELVMRLNTDYEE-FQIPNPPDD 53
K ++ W+ + +K +++ + E+ E N ++ F P D
Sbjct: 103 AASKVMEQEWREKAKKDLEEWNQRQS-EQVEKNKINNRIADKAF-YQQPDAD 152
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.4 bits (75), Expect = 0.13
Identities = 6/15 (40%), Positives = 10/15 (66%), Gaps = 2/15 (13%)
Query: 7 EKKEIWKLE--LEKY 19
EK+ + KL+ L+ Y
Sbjct: 18 EKQALKKLQASLKLY 32
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 31.8 bits (73), Expect = 0.87
Identities = 20/149 (13%), Positives = 47/149 (31%), Gaps = 29/149 (19%)
Query: 333 SSFFWGYLITQVPGGFFASRY----PANRIFGTAI-ACTSFLHLFVPTAIKLNPGSVIIV 387
++ Y ++Q+ G + R + G +I + + + + L I
Sbjct: 42 GAYLLTYGVSQLFYGPISDRVGRRPVI--LVGMSIFMLATLVAVTTSSLTVL-----IAA 94
Query: 388 RICQGLVEGVCYPAVHG--IWRFWAPPLERSRLATIAFCGTYAGIVLGL-PISA-----I 439
QG+ G V + R + + + + + P+ A +
Sbjct: 95 SAMQGM--GTGVGGVMARTLPRDLYERTQLRHA------NSLLNMGILVSPLLAPLIGGL 146
Query: 440 LTEHFSWEAMFYFYGCMGLL-WYLCWLWL 467
L ++W A + F + + W+
Sbjct: 147 LDTMWNWRACYLFLLVLCAGVTFSMARWM 175
>3eey_A Putative rRNA methylase; rRNA methylation, S-adenosyl-methionine,
structural genomics structure initiative, PSI; HET: SAM;
2.20A {Clostridium thermocellum atcc 27405}
Length = 197
Score = 31.0 bits (70), Expect = 0.99
Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 3/60 (5%)
Query: 227 MGMSNGIGTIDIFISYIGRRGKSTMDADMQQKAIDATKEGLEKFNIEREVATYIKQYFEN 286
NG T S +G G+ D+Q KAI T + L N+ V T IK +N
Sbjct: 29 ATCGNGNDTA-FLASLVGENGRVFG-FDIQDKAIANTTKKLTDLNLIDRV-TLIKDGHQN 85
>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 = 31.4 bits (71), Expect = 1.2
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 3/57 (5%)
Query: 322 NWTVAQESAVDSSFFWGYLITQVPGGFFASR--YPANRIFGTAIACTSFLHLFVPTA 376
T Q + S+F++GY I +P G + Y A I G + LF P A
Sbjct: 57 TLTNFQAGLIQSAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAA-LFWPAA 112
>2z0v_A SH3-containing GRB2-like protein 3; helix bundle, alternative
splicing, coiled coil, SH3 domain, endocytosis,
structural genomics, NPPSFA; 2.49A {Homo sapiens}
Length = 240
Score = 30.1 bits (67), Expect = 2.2
Identities = 4/30 (13%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 243 IGRRGKSTMDADMQQ--KAIDATKEGLEKF 270
+ +D + + ID T + + +
Sbjct: 5 SSGAEGTKLDDEFLDMERKIDVTNKVVAEI 34
>3mti_A RRNA methylase; SAM-dependent, PSI, MCSG, structural genomics,
midwest cente structural genomics, protein structure
initiative; 1.95A {Streptococcus thermophilus} PDB:
3lby_A*
Length = 185
Score = 28.7 bits (64), Expect = 4.8
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 254 DMQQKAIDATKEGLEKFNIEREVATYIKQYFEN 286
D+Q++A+ T + L IE I EN
Sbjct: 51 DVQEQALGKTSQRLSDLGIEN--TELILDGHEN 81
>3gg6_A Nudix motif 18, nucleoside diphosphate-linked moiety X motif 18;
NUDT18, NXR1, nucleotide hydrolase, hydrolase,
structural genomics; 2.10A {Homo sapiens}
Length = 156
Score = 28.6 bits (64), Expect = 5.0
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 637 VHFIGITFYAIFASGELQPWAEPTSEEV-ASWNPMEQL 673
++ F A G L+ E +E + A+W P L
Sbjct: 90 PSWVRFVFLARPTGGILKTSKEADAESLQAAWYPRTSL 127
>3udf_A Penicillin-binding protein 1A; transglycosylase, transpeptidase;
HET: MES; 1.70A {Acinetobacter baumannii} PDB: 3udi_A*
3udx_A* 3ue0_A* 3ue1_A*
Length = 731
Score = 29.2 bits (66), Expect = 6.1
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 250 TMDADMQQKAIDATKEGLEKF 270
T++A Q A A ++GLE +
Sbjct: 263 TINAKRQAIAEKAVQDGLEAY 283
>3m73_A Tellurite resistance protein TEHA homolog; anion channel, alpha
helical integral membrane protein, STRU genomics, PSI-2;
HET: BOG; 1.15A {Haemophilus influenzae} PDB: 3m75_A*
3m74_A* 3m77_A* 3m71_A* 3m7b_A* 3m7c_A* 3m7e_A* 3m7l_A*
3m78_A* 3m76_A* 3m72_A*
Length = 314
Score = 28.7 bits (64), Expect = 6.6
Identities = 27/250 (10%), Positives = 60/250 (24%), Gaps = 29/250 (11%)
Query: 427 YAGIVLGLPISAILTEHFSW-----EAMFYFYGCMGLLWYLCWLWLSFEKPCLHPTISGR 481
Y GI LGL ++ H + G + ++ ++ + K +
Sbjct: 13 YFGIPLGLAALSLAWFHLENLFPAARMVSDVLGIVASAVWILFILMYAYKLRYYFEEVRA 72
Query: 482 ELL-YIEKSLGSSVQVAMPTLAT---TPWREFAHSMPVYAIIVANFCRSWNFYLLVLFQA 537
E + S + + + + A + I + L
Sbjct: 73 EYHSPVRFSFIALIPITTMLVGDILYRWNPLIAEVLIWIGTIGQLLFSTLRVSELWQGGV 132
Query: 538 SYLKSTF---HLQIQETGFIGSLPHLLMTIVVPCGGMLA--------------DHLRKKG 580
KST +L F + L+ HLR
Sbjct: 133 FEQKSTHPSFYLPAVAANFTSASSLALLGYHDLGYLFFGAGMIAWIIFEPVLLQHLRISS 192
Query: 581 ILSTTMVRKLFNCGGFGMEAFFFVVVAYTKSEVTATMALCLGIEGRWTVVFLIAATVHFI 640
+ + ++ + + + + A + G + FL+ +
Sbjct: 193 LEPQFRATMGIVLAPAFVCVSAYLSINHGEVDTLAKILWGYGF---LQLFFLLRLFPWIV 249
Query: 641 GITFYAIFAS 650
+
Sbjct: 250 EKGLNIGLWA 259
>1zcd_A Na(+)/H(+) antiporter 1; membrane protein; 3.45A {Escherichia coli}
PDB: 3fi1_A
Length = 388
Score = 28.7 bits (65), Expect = 7.9
Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 21/66 (31%)
Query: 436 ISAIL------TEHFSWEAMFYFYGCMGLLWYLCW---------------LWLSFEKPCL 474
+ AI+ T S ++ + +L L LW + K +
Sbjct: 165 LGAIIIIALFYTNDLSMASLGVAAVAIAVLAVLNLCGARRTGVYILVGVVLWTAVLKSGV 224
Query: 475 HPTISG 480
H T++G
Sbjct: 225 HATLAG 230
>3id7_A Dipeptidase; streptomyces coelicolor A3(2), hydrolase; 1.30A
{Streptomyces coelicolor} PDB: 3isi_X* 3itc_A* 3k5x_A*
3s2j_A* 3s2l_A* 3s2m_A* 3s2n_A*
Length = 400
Score = 28.6 bits (64), Expect = 9.4
Identities = 8/72 (11%), Positives = 20/72 (27%)
Query: 632 LIAATVHFIGITFYAIFASGELQPWAEPTSEEVASWNPMEQLQPTDGKDEKYAIQNYGST 691
++A +TF F W + + + + A +
Sbjct: 232 RLSANGGMAMVTFVPKFVLQAAVDWTAEADDNMRAHGFHHLDSSPEAMKVHAAFEERVPR 291
Query: 692 EDAPYNNYSNHI 703
A + ++H+
Sbjct: 292 PVATVSTVADHL 303
>2wa0_A Melanoma-associated antigen 4; immune system, multiple anomalous
dispersion, cancer/testis 1.4, melanoma antigen family
A 4, CT1.4, MAGE-41; 2.30A {Homo sapiens}
Length = 240
Score = 27.9 bits (62), Expect = 9.8
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 1 MKEKKKE---KKEIWKLELEKYKKKFPTFFN 28
K + KE K E+ + ++ YK+ FP F
Sbjct: 46 RKYRAKELVTKAEMLERVIKNYKRCFPVIFG 76
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 0.139 0.440
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,817,229
Number of extensions: 740570
Number of successful extensions: 1968
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1958
Number of HSP's successfully gapped: 37
Length of query: 744
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 643
Effective length of database: 3,881,772
Effective search space: 2495979396
Effective search space used: 2495979396
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: 61 (27.4 bits)