RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16627
(713 letters)
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 517 bits (1331), Expect = e-172
Identities = 197/661 (29%), Positives = 344/661 (52%), Gaps = 39/661 (5%)
Query: 89 YDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLFLLDVSQIAAQSGYLYTV 148
+ Y R EI+ A +EY+A +YT+R P PA Y FL+DVSQ + +SG L T
Sbjct: 267 DQSDPNDPKSRYDRNEIKCAVMEYMAPKEYTLR-QPPPATYCFLIDVSQSSIKSGLLATT 325
Query: 149 CEVLLNQLKSMPG-DRRTSIAIITYDSAVHFYSLAEGQT-------QPSQMILTDIDDIF 200
LL L S+P D RT I+I+ D+A+H++ + Q + M + D+++ F
Sbjct: 326 INTLLQNLDSIPNHDERTRISILCVDNAIHYFKIPLDSENNEESADQINMMDIADLEEPF 385
Query: 201 LPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLLQPTGGRITIF 260
LP P +++V+L C I LL ++P F+ +L + ALGPAL++A+ L+ GG+I +
Sbjct: 386 LPRPNSMVVSLKACRQNIETLLTKIPQIFQSNLITNFALGPALKSAYHLIGGVGGKIIVV 445
Query: 261 QTCLPNRGPGALQSRENPNQRSN--DDPPHMNPATDFYKKIALECTSFYIAVDLFILNSQ 318
LPN G G LQ R + + ++ FYK ++C+ I VDLF+ +
Sbjct: 446 SGTLPNLGIGKLQRRNESGVVNTSKETAQLLSCQDSFYKNFTIDCSKVQITVDLFLASED 505
Query: 319 YVDLATLSGVSKFSSGCIHHIPLYSGKNMSHVYQLDRMFSRYLTRKIGFESVMRIRCTKG 378
Y+D+A+LS +S+F++G H P +SGKN + + + F+++++ E+VMR R + G
Sbjct: 506 YMDVASLSNLSRFTAGQTHFYPGFSGKNPNDIVKFSTEFAKHISMDFCMETVMRARGSTG 565
Query: 379 MSIHTFHGNFFVRSTDLLALPNVNPDAGYGIQISIDENLTHIQYACFQVAVLYTSSKGDR 438
+ + F+G+FF RS+DL A + D Y ++++DE++ Y QVAVL + + R
Sbjct: 566 LRMSRFYGHFFNRSSDLCAFSTMPRDQSYLFEVNVDESIMA-DYCYVQVAVLLSLNNSQR 624
Query: 439 RIRVHTLCLPVVSNINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVVCDVLS 498
RIR+ TL +P ++ +V ADQ IA AV+++L SL DAR V D+L+
Sbjct: 625 RIRIITLAMPTTESLAEVYASADQLAIASFYNSKAVEKALNSSLDDARVLINKSVQDILA 684
Query: 499 TYKMTQAGHLTG---SLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDRLFAMTEMKCL 555
TYK T L ++L++ PL + +L KH AFR G D R A+ ++ L
Sbjct: 685 TYKKEIVVSNTAGGAPLRLCANLRMFPLLMHSLTKHMAFRSG-IVPSDHRASALNNLESL 743
Query: 556 PLNSLMLSIYPELYPIHTLDQDPTIEWNEL------QVPIPRILQLSAERLQATGTYLLN 609
PL L+ +IYP++Y +H + + + + +P+ + ++ + G YL++
Sbjct: 744 PLKYLIKNIYPDVYSLHDMADEAGLPVQTEDGEATGTIVLPQPINATSSLFERYGLYLID 803
Query: 610 MPDLIIILVRHGTSPAICSGLFGFQSVAQMPETLFELPQLE-TQLSLKLNSFISYLNDDK 668
+ + + + PA+ +FG Q + +P E+P +E ++ + ++ + I+ L +
Sbjct: 804 NGNELFLWMGGDAVPALVFDVFGTQDIFDIPIGKQEIPVVENSEFNQRVRNIINQLRNHD 863
Query: 669 AYVS--PVKVIK--------------DSSPDRMEFYDKLIEDKNAGGMAYYEFLLRIREQ 712
++ + +++ + + R+ L+EDK +Y EFL ++ +
Sbjct: 864 DVITYQSLYIVRGASLSEPVNHASAREVATLRLWASSTLVEDKILNNESYREFLQIMKAR 923
Query: 713 V 713
+
Sbjct: 924 I 924
Score = 29.4 bits (65), Expect = 4.7
Identities = 18/84 (21%), Positives = 23/84 (27%), Gaps = 11/84 (13%)
Query: 1 AQPGNYPSVPVGYPSLNQAGYQQQQ-----------QQQQQQTLNSQFSNLSVNQGMNKM 49
A P ++ Y Q Q QQQ + ++ Q M M
Sbjct: 76 ATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPM 135
Query: 50 WGYEPHDLLNTRDILPATKVEPPP 73
P DLL PPP
Sbjct: 136 NQLYPIDLLTELPPPITDLTLPPP 159
>3eh1_A Protein transport protein SEC24B; copii coat protein, vesicle
transport, transport signal sequence, cytoplasm,
endoplasmic reticulum; 1.80A {Homo sapiens} PDB: 2nut_B
2nup_B 3egd_B 3egx_B
Length = 751
Score = 503 bits (1296), Expect = e-169
Identities = 329/640 (51%), Positives = 453/640 (70%), Gaps = 3/640 (0%)
Query: 76 LPQNLPEIHEQFLYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLFLLDV 135
L + ++ E+F+Y+ T +G+P++RPE+Q++TVE++A++DY PPQPA+YLF+LDV
Sbjct: 111 LCYRVNDVPEEFMYNPLTRSYGEPHKRPEVQNSTVEFIASSDYM-LRPPQPAVYLFVLDV 169
Query: 136 SQIAAQSGYLYTVCEVLLNQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQTQPSQMILTD 195
S A ++GYL +C+ LL L +PGD RT I +T+DS +HFY+L EG +QP +I++D
Sbjct: 170 SHNAVEAGYLTILCQSLLENLDKLPGDSRTRIGFMTFDSTIHFYNLQEGLSQPQMLIVSD 229
Query: 196 IDDIFLPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLLQPTGG 255
IDD+FLP+P+++LVNL E ++I DLL LP F ++ ++ SALGPALQAAFKL+ PTGG
Sbjct: 230 IDDVFLPTPDSLLVNLYESKELIKDLLNALPNMFTNTRETHSALGPALQAAFKLMSPTGG 289
Query: 256 RITIFQTCLPNRGPGALQSRENPNQR-SNDDPPHMNPATDFYKKIALECTSFYIAVDLFI 314
R+++FQT LP+ G G LQSRE+PNQR S H+ PATDFYKK+AL+C+ AVDLF+
Sbjct: 290 RVSVFQTQLPSLGAGLLQSREDPNQRSSTKVVQHLGPATDFYKKLALDCSGQQTAVDLFL 349
Query: 315 LNSQYVDLATLSGVSKFSSGCIHHIPLYSG-KNMSHVYQLDRMFSRYLTRKIGFESVMRI 373
L+SQY DLA+L+ +SK+S+GCI++ P + N S +L + RYLTRKIGFE+VMRI
Sbjct: 350 LSSQYSDLASLACMSKYSAGCIYYYPSFHYTHNPSQAEKLQKDLKRYLTRKIGFEAVMRI 409
Query: 374 RCTKGMSIHTFHGNFFVRSTDLLALPNVNPDAGYGIQISIDENLTHIQYACFQVAVLYTS 433
RCTKG+S+HTFHGNFFVRSTDLL+L N+NPDAG+ +Q+SI+E+LT CFQ A+LYTS
Sbjct: 410 RCTKGLSMHTFHGNFFVRSTDLLSLANINPDAGFAVQLSIEESLTDTSLVCFQTALLYTS 469
Query: 434 SKGDRRIRVHTLCLPVVSNINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVV 493
SKG+RRIRVHTLCLPVVS++ DV G D LLA MAVDRS+ SLSDAR+A +N V
Sbjct: 470 SKGERRIRVHTLCLPVVSSLADVYAGVDVQAAICLLANMAVDRSVSSSLSDARDALVNAV 529
Query: 494 CDVLSTYKMTQAGHLTGSLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDRLFAMTEMK 553
D LS Y T + +L+APSSLK+ PLYVLALLK AFR G STRLDDR++AM ++K
Sbjct: 530 VDSLSAYGSTVSNLQHSALMAPSSLKLFPLYVLALLKQKAFRTGTSTRLDDRVYAMCQIK 589
Query: 554 CLPLNSLMLSIYPELYPIHTLDQDPTIEWNELQVPIPRILQLSAERLQATGTYLLNMPDL 613
PL LM I+P LY I L + + N+ VP P + +LSAE+L G +L++ +
Sbjct: 590 SQPLVHLMKMIHPNLYRIDRLTDEGAVHVNDRIVPQPPLQKLSAEKLTREGAFLMDCGSV 649
Query: 614 IIILVRHGTSPAICSGLFGFQSVAQMPETLFELPQLETQLSLKLNSFISYLNDDKAYVSP 673
I V G + G+ + A +P+ + LP+L+T S + SFI++L D +
Sbjct: 650 FYIWVGKGCDNNFIEDVLGYTNFASIPQKMTHLPELDTLSSERARSFITWLRDSRPLSPI 709
Query: 674 VKVIKDSSPDRMEFYDKLIEDKNAGGMAYYEFLLRIREQV 713
+ ++KD SP + EF+ LIED+ +YYEFLL +++Q+
Sbjct: 710 LHIVKDESPAKAEFFQHLIEDRTEAAFSYYEFLLHVQQQI 749
>3efo_B SEC24 related gene family, member D; copii, coat protein, transport
signal, disease mutation, endoplasmic reticulum,
ER-golgi transport, golgi apparatus, membrane; 2.70A
{Homo sapiens} PDB: 3eg9_B
Length = 770
Score = 482 bits (1242), Expect = e-161
Identities = 173/641 (26%), Positives = 303/641 (47%), Gaps = 22/641 (3%)
Query: 85 EQFLYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRD-PPQPAMYLFLLDVSQIAAQSG 143
F + + D Y +PE+ + EY+AT DY + PP P ++F++DVS ++G
Sbjct: 135 FYFQHLDHIGRRLDHYEKPELSLGSYEYVATLDYCRKSKPPNPPAFIFMIDVSYSNIKNG 194
Query: 144 YLYTVCEVLLNQLKSMPGD-----RRTSIAIITYDSAVHFYSLAEGQTQPSQMILTDIDD 198
+ +CE L L+ +P + + ITY+ +HF+++ QP M++TD+ +
Sbjct: 195 LVKLICEELKTMLEKIPKEEQEETSAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVGE 254
Query: 199 IFLPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLLQP--TGGR 256
+F+P + LVN E +I +LL Q+P F DS ++ + P +QA + L+ G+
Sbjct: 255 VFVPLLDGFLVNYQESQSVIHNLLDQIPDMFADSNENETVFAPVIQAGMEALKAADCPGK 314
Query: 257 ITIFQTCLPN-RGPGALQSRENPN-QRSNDDPPHMNPATDFYKKIALECTSFYIAVDLFI 314
+ IF + LP PG L++R++ ++ + P T+ Y +A +C + +V LF+
Sbjct: 315 LFIFHSSLPTAEAPGKLKNRDDKKLVNTDKEKILFQPQTNVYDSLAKDCVAHGCSVTLFL 374
Query: 315 LNSQYVDLATLSGVSKFSSGCIHHIPLYSGKNMSHVYQLDRMFSRYLTRKIGFESVMRIR 374
SQYVD+A+L V + + G ++ + Q + +KIGF+++MR+R
Sbjct: 375 FPSQYVDVASLGLVPQLTGGTLYKYNNFQMHLDRQ--QFLNDLRNDIEKKIGFDAIMRVR 432
Query: 375 CTKGMSIHTFHGNFFVRSTDLLALPNVNPDAGYGIQISIDENLTHIQYACFQVAVLYTSS 434
+ G F G + +T + + ++ D ++ D+ L+ A Q AVLYT+
Sbjct: 433 TSTGFRATDFFGGILMNNTTDVEMAAIDCDKAVTVEFKHDDKLSEDSGALIQCAVLYTTI 492
Query: 435 KGDRRIRVHTLCLPVVSNINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVVC 494
G RR+R+H L L S + D+ + + AK A L L RE +N
Sbjct: 493 SGQRRLRIHNLGLNCSSQLADLYKSCETDALINFFAKSAFKAVLHQPLKVIREILVNQTA 552
Query: 495 DVLSTYKMTQA-GHLTGSLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDRLFAMTEMK 553
+L+ Y+ A L+ P S+KVLP+Y+ LLK+ D+R + +
Sbjct: 553 HMLACYRKNCASPSAASQLILPDSMKVLPVYMNCLLKNCVLLSRPEISTDERAYQRQLVM 612
Query: 554 CLPLNSLMLSIYPELYPIHTLDQDPTIEWNELQVPIPRILQLSAERLQATGTYLLNMPDL 613
+ + L YP+L PIHTLD T +P ++ S RL G +LL
Sbjct: 613 TMGVADSQLFFYPQLLPIHTLDVKST--------MLPAAVRCSESRLSEEGIFLLANGLH 664
Query: 614 IIILVRHGTSPAICSGLFGFQSVAQMPETLFELPQLETQLSLKLNSFISYLNDDKAYVSP 673
+ + + + P + G+F S A + + LP++ S +L + + + Y
Sbjct: 665 MFLWLGVSSPPELIQGIFNVPSFAHINTDMTLLPEVGNPYSQQLRMIMGIIQQKRPYSMK 724
Query: 674 VKVIKDSSPDRMEFYDKLIEDKNA-GGMAYYEFLLRIREQV 713
+ ++K M F L+EDK GG +Y +FL + +++
Sbjct: 725 LTIVKQREQPEMVFRQFLVEDKGLYGGSSYVDFLCCVHKEI 765
>3eh2_A Protein transport protein SEC24C; copii-coat protein, vesicle
transport, cytoplasm, endoplasmic reticulum, ER-golgi
transport, golgi apparatus; 2.35A {Homo sapiens}
Length = 766
Score = 475 bits (1223), Expect = e-158
Identities = 174/649 (26%), Positives = 305/649 (46%), Gaps = 22/649 (3%)
Query: 77 PQNLPEIHEQFLYDRNTEMFGDPYRRPEIQSATVEYLATADYTV-RDPPQPAMYLFLLDV 135
+ F + +T D Y RPE+ + E+LAT DY P P ++F++DV
Sbjct: 123 SCINDVPPQYFQHLDHTGKRVDAYDRPELSLGSYEFLATVDYCKNNKFPSPPAFIFMIDV 182
Query: 136 SQIAAQSGYLYTVCEVLLNQLKSMP-----GDRRTSIAIITYDSAVHFYSLAEGQTQPSQ 190
S A ++G + +CE L + L +P + + +TY+ +HFY++ QP
Sbjct: 183 SYNAIRTGLVRLLCEELKSLLDFLPREGGAEESAIRVGFVTYNKVLHFYNVKSSLAQPQM 242
Query: 191 MILTDIDDIFLPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLL 250
M+++D+ D+F+P + LVN++E +I LL Q+P F D+ ++ + P +QA + L
Sbjct: 243 MVVSDVADMFVPLLDGFLVNVNESRAVITSLLDQIPEMFADTRETETVFVPVIQAGMEAL 302
Query: 251 Q--PTGGRITIFQTCLPN-RGPGALQSRENPNQ-RSNDDPPHMNPATDFYKKIALECTSF 306
+ G++ +F T LP PG L++R++ ++ + P T Y+ +A EC +
Sbjct: 303 KAAECAGKLFLFHTSLPIAEAPGKLKNRDDRKLINTDKEKTLFQPQTGAYQTLAKECVAQ 362
Query: 307 YIAVDLFILNSQYVDLATLSGVSKFSSGCIHHIPLYSGKNMSHVYQLDRMFSRYLTRKIG 366
VDLF+ +QYVD+ATLS V + + G ++ + +N + R + + +G
Sbjct: 363 GCCVDLFLFPNQYVDVATLSVVPQLTGGSVYKYASFQVENDQE--RFLSDLRRDVQKVVG 420
Query: 367 FESVMRIRCTKGMSIHTFHGNFFVRSTDLLALPNVNPDAGYGIQISIDENLTHIQYACFQ 426
F++VMR+R + G+ F G F++ +T + L ++ D ++ D+ L A Q
Sbjct: 421 FDAVMRVRTSTGIRAVDFFGAFYMSNTTDVELAGLDGDKTVTVEFKHDDRLNEESGALLQ 480
Query: 427 VAVLYTSSKGDRRIRVHTLCLPVVSNINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAR 486
A+LYTS G RR+R+H L L + + D+ + + +AK A L + R
Sbjct: 481 CALLYTSCAGQRRLRIHNLALNCCTQLADLYRNCETDTLINYMAKFAYRGVLNSPVKAVR 540
Query: 487 EAFLNVVCDVLSTYKMTQA-GHLTGSLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDR 545
+ + +L+ Y+ A G L+ P +K+LP+Y+ +LK + G DDR
Sbjct: 541 DTLITQCAQILACYRKNCASPSSAGQLILPECMKLLPVYLNCVLKSDVLQPGAEVTTDDR 600
Query: 546 LFAMTEMKCLPLNSLMLSIYPELYPIHTLDQDPTIEWNELQVPIPRILQLSAERLQATGT 605
+ + + + + YP L P+ + P ++ S ERL
Sbjct: 601 AYVRQLVTSMDVTETNVFFYPRLLPLTKSPVE--------STTEPPAVRASEERLSNGDI 652
Query: 606 YLLNMPDLIIILVRHGTSPAICSGLFGFQSVAQMPETLFELPQLETQLSLKLNSFISYLN 665
YLL + + V + LF S +Q+ L LP L+ LS K+ I L
Sbjct: 653 YLLENGLNLFLWVGASVQQGVVQSLFSVSSFSQITSGLSVLPVLDNPLSKKVRGLIDSLR 712
Query: 666 DDKAYVSPVKVIKDSSPDRMEFYDKLIEDKNA-GGMAYYEFLLRIREQV 713
++ + V+K M F L+EDK+ GG +Y +FL + +++
Sbjct: 713 AQRSRYMKLTVVKQEDKMEMLFKHFLVEDKSLSGGASYVDFLCHMHKEI 761
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB:
1pd0_A 1pd1_A
Length = 810
Score = 453 bits (1166), Expect = e-149
Identities = 196/664 (29%), Positives = 343/664 (51%), Gaps = 39/664 (5%)
Query: 86 QFLYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLFLLDVSQIAAQSGYL 145
+ + Y R EI+ A +EY+A +YT P PA Y FL+DVSQ + +SG L
Sbjct: 148 MQMDQSDPNDPKSRYDRNEIKCAVMEYMAPKEYT-LRQPPPATYCFLIDVSQSSIKSGLL 206
Query: 146 YTVCEVLLNQLKSMPG-DRRTSIAIITYDSAVHFYSLAEGQT-------QPSQMILTDID 197
T LL L S+P D RT I+I+ D+A+H++ + Q + M + D++
Sbjct: 207 ATTINTLLQNLDSIPNHDERTRISILCVDNAIHYFKIPLDSENNEESADQINMMDIADLE 266
Query: 198 DIFLPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLLQPTGGRI 257
+ FLP P +++V+L C I LL ++P F+ +L + ALGPAL++A+ L+ GG+I
Sbjct: 267 EPFLPRPNSMVVSLKACRQNIETLLTKIPQIFQSNLITNFALGPALKSAYHLIGGVGGKI 326
Query: 258 TIFQTCLPNRGPGALQSRENPNQRS--NDDPPHMNPATDFYKKIALECTSFYIAVDLFIL 315
+ LPN G G LQ R + + ++ FYK ++C+ I VDLF+
Sbjct: 327 IVVSGTLPNLGIGKLQRRNESGVVNTSKETAQLLSCQDSFYKNFTIDCSKVQITVDLFLA 386
Query: 316 NSQYVDLATLSGVSKFSSGCIHHIPLYSGKNMSHVYQLDRMFSRYLTRKIGFESVMRIRC 375
+ Y+D+A+LS +S+F++G H P +SGKN + + + F+++++ E+VMR R
Sbjct: 387 SEDYMDVASLSNLSRFTAGQTHFYPGFSGKNPNDIVKFSTEFAKHISMDFCMETVMRARG 446
Query: 376 TKGMSIHTFHGNFFVRSTDLLALPNVNPDAGYGIQISIDENLTHIQYACFQVAVLYTSSK 435
+ G+ + F+G+FF RS+DL A + D Y ++++DE++ Y QVAVL + +
Sbjct: 447 STGLRMSRFYGHFFNRSSDLCAFSTMPRDQSYLFEVNVDESIMA-DYCYVQVAVLLSLNN 505
Query: 436 GDRRIRVHTLCLPVVSNINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVVCD 495
RRIR+ TL +P ++ +V ADQ IA AV+++L SL DAR V D
Sbjct: 506 SQRRIRIITLAMPTTESLAEVYASADQLAIASFYNSKAVEKALNSSLDDARVLINKSVQD 565
Query: 496 VLSTYKMTQAGHLTG---SLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDRLFAMTEM 552
+L+TYK T L ++L++ PL + +L KH AFR G D R A+ +
Sbjct: 566 ILATYKKEIVVSNTAGGAPLRLCANLRMFPLLMHSLTKHMAFRSG-IVPSDHRASALNNL 624
Query: 553 KCLPLNSLMLSIYPELYPIHTLDQDPTIEWNEL------QVPIPRILQLSAERLQATGTY 606
+ LPL L+ +IYP++Y +H + + + + +P+ + ++ + G Y
Sbjct: 625 ESLPLKYLIKNIYPDVYSLHDMADEAGLPVQTEDGEATGTIVLPQPINATSSLFERYGLY 684
Query: 607 LLNMPDLIIILVRHGTSPAICSGLFGFQSVAQMPETLFELPQLE-TQLSLKLNSFISYLN 665
L++ + + + + PA+ +FG Q + +P E+P +E ++ + ++ + I+ L
Sbjct: 685 LIDNGNELFLWMGGDAVPALVFDVFGTQDIFDIPIGKQEIPVVENSEFNQRVRNIINQLR 744
Query: 666 DDKAYVS--PVKVIK--------------DSSPDRMEFYDKLIEDKNAGGMAYYEFLLRI 709
+ ++ + +++ + + R+ L+EDK +Y EFL +
Sbjct: 745 NHDDVITYQSLYIVRGASLSEPVNHASAREVATLRLWASSTLVEDKILNNESYREFLQIM 804
Query: 710 REQV 713
+ ++
Sbjct: 805 KARI 808
>2nut_A Protein transport protein SEC23A; human copii SEC23/24 complexed
with SEC22, protein transport; 2.30A {Homo sapiens} PDB:
2nup_A 3egd_A 3eg9_A 3egx_A 3efo_A
Length = 769
Score = 342 bits (877), Expect = e-107
Identities = 98/668 (14%), Positives = 199/668 (29%), Gaps = 98/668 (14%)
Query: 91 RNTEMFGDPYRRPEI--QSATVEYLATADYTVRDPPQPAMYLFLLDVSQIAAQSGYLYTV 148
+ + + E+ Q +++EY+ +R P P ++L+++D + L +
Sbjct: 100 PSYAGISELNQPAELLPQFSSIEYVV-----LRGPQMPLIFLYVVDTCM---EDEDLQAL 151
Query: 149 CEVLLNQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQ-------------TQPSQMILTD 195
E + L +P + +IT+ V + L + +
Sbjct: 152 KESMQMSLSLLPPTAL--VGLITFGRMVQVHELGCEGISKSYVFRGTKDLSAKQLQEMLG 209
Query: 196 IDDIFL------------PSPENILVNLSECYDMIVDLLKQL---PGKFKDSLDSGSALG 240
+ + + P L + + + DLL +L P + G
Sbjct: 210 LSKVPVTQATRGPQVQQPPPSNRFLQPVQKIDMNLTDLLGELQRDPWPVPQGKRPLRSSG 269
Query: 241 PALQAAFKLLQ----PTGGRITIFQTCLPNRGPGALQSRENPNQR------SNDDPPHMN 290
AL A LL+ TG RI +F +GPG + E D+ ++
Sbjct: 270 VALSIAVGLLECTFPNTGARIMMFIGGPATQGPGMVVGDELKTPIRSWHDIDKDNAKYVK 329
Query: 291 PATDFYKKIALECTSFYIAVDLFILNSQYVDLATLSGVSKFSSGCIHHIPLYSGKNMSHV 350
T ++ +A + +D++ L + + G + ++
Sbjct: 330 KGTKHFEALANRAATTGHVIDIYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQT 389
Query: 351 YQLDRMFSRYLTRKIGFESVMRIRCTKGMSIHTFHGN---------------FFVRSTDL 395
+Q + K+GF + I+ ++ + I G T
Sbjct: 390 FQRVFTKDMHGQFKMGFGGTLEIKTSREIKISGAIGPCVSLNSKGPCVSENEIGTGGTCQ 449
Query: 396 LALPNVNPDAGYGIQISI----DENLTHIQYACFQVAVLYTSSKGDRRIRVHTLCLPVV- 450
+ ++P I + + + Q Y S G RRIRV T+
Sbjct: 450 WKICGLSPTTTLAIYFEVVNQHNAPIPQGGRGAIQFVTQYQHSSGQRRIRVTTIARNWAD 509
Query: 451 --SNINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVVCDVLSTYKMTQAGHL 508
+ I ++ DQ A L+A++A+ R+ D + + +
Sbjct: 510 AQTQIQNIAASFDQEAAAILMARLAIYRAETEEGPDVLRWLDRQLIRLCQKFGEYHKDD- 568
Query: 509 TGSLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDRLFAMTEMKCLPLNSLMLSIYPEL 568
S + + P ++ L + + + D+ + L ++ I P L
Sbjct: 569 PSSFRFSETFSLYPQFMFHLRRSSFLQ-VFNNSPDESSYYRHHFMRQDLTQSLIMIQPIL 627
Query: 569 YPIHTLDQDPTIEWNELQVPIPRILQLSAERLQATGTYLLNMPDLIIILVRHGTSPAICS 628
Y P + L + + A L++ I+I + S
Sbjct: 628 YAYSFSGP-------------PEPVLLDSSSILADRILLMDTFFQILIYHGETIAQWRKS 674
Query: 629 GLFGFQSVAQMPETLFELPQLETQLSLKLNSFISYLNDDKAYVSPVKVIKDSSPDRMEFY 688
G L + P + Q L+ + S R
Sbjct: 675 GYQDMPEYENFRHLL-QAPVDDAQ---------EILHSRFPMPRYIDTEHGGSQARF-LL 723
Query: 689 DKLIEDKN 696
K+ +
Sbjct: 724 SKVNPSQT 731
>1m2o_A SEC23, protein transport protein SEC23, SEC23P; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1
c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1m2v_A 2qtv_A*
Length = 768
Score = 320 bits (820), Expect = 9e-99
Identities = 109/703 (15%), Positives = 212/703 (30%), Gaps = 122/703 (17%)
Query: 97 GDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLFLLDVSQIAAQSGYLYTVCEVLLNQL 156
E+QS T+EY+ + P ++ F++D++ ++ L ++ E ++ L
Sbjct: 97 SQENMPLELQSTTIEYITN-----KPVTVPPIFFFVVDLTS---ETENLDSLKESIITSL 148
Query: 157 KSMPGDRRTSIAIITYDSAVHFYSLA----------EGQTQPSQMILTDIDDIFLPSPEN 206
+P + I +ITY + V + L+ G + LT++ P+
Sbjct: 149 SLLPPNAL--IGLITYGNVVQLHDLSSETIDRCNVFRGDREYQLEALTEMLTGQKPTGPG 206
Query: 207 I--------------------LVNLSECYDMIVDLLKQL-------PGKFKDSLDSGSAL 239
+ L + + LL+ L P + +GSAL
Sbjct: 207 GAASHLPNAMNKVTPFSLNRFFLPLEQVEFKLNQLLENLSPDQWSVPAGHRPLRATGSAL 266
Query: 240 GPALQAAFKLLQPTGGRITIFQTCLPNRGPGALQSRENPNQRS------NDDPPHMNPAT 293
A + RI +F + PG + + E + +D H A
Sbjct: 267 NIASLLLQGCYKNIPARIILFASGPGTVAPGLIVNSELKDPLRSHHDIDSDHAQHYKKAC 326
Query: 294 DFYKKIALECTSFYIAVDLFILNSQYVDLATLSGVSKFSSGCIHHIPLYSGKNMSHVYQL 353
FY +IA + VD+F + ++ + ++ + G + +S Y
Sbjct: 327 KFYNQIAQRVAANGHTVDIFAGCYDQIGMSEMKQLTDSTGGVLLLTDAFSTAIFKQSYLR 386
Query: 354 DRMFSRYLTRKIGFESVMRIRCTKGMSIHTFHGN----------------FFVRSTDLLA 397
K+ F M ++ +K + + G+ + +T
Sbjct: 387 LFAKDEEGYLKMAFNGNMAVKTSKDLKVQGLIGHASAVKKTDANNISESEIGIGATSTWK 446
Query: 398 LPNVNPDAGYGIQISIDENLT-------------HIQYACFQVAVLYTSSKGDRRIRVHT 444
+ +++P Y I I A Q Y S G RIRV T
Sbjct: 447 MASLSPYHSYAIFFEIANTAANSNPMMSAPGSADRPHLAYTQFITTYQHSSGTNRIRVTT 506
Query: 445 LCLPVVS-NINDVLVGADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVVCDVLSTYKMT 503
+ ++ + DQ A L+A++AV ++ +D + + Y
Sbjct: 507 VANQLLPFGTPAIAASFDQEAAAVLMARIAVHKAETDDGADVIRWLDRTLIKLCQKYADY 566
Query: 504 QAGHLTGSLLAPSSLKVLPLYVLALLKHPAFRIGQSTRLDDRLFAMTEMKCLPLNSLMLS 563
S + + P + L + + D+ F + ++
Sbjct: 567 NKDD-PQSFRLAPNFSLYPQFTYYLRRSQFLS-VFNNSPDETAFYRHIFTREDTTNSLIM 624
Query: 564 IYPELYPIHTLDQDPTIEWNELQVPIPRILQLSAERLQATGTYLLNMPDLIIILVRHGTS 623
I P L D P+ + L + ++ LL+ I+I
Sbjct: 625 IQPTLTSFSMEDD-------------PQPVLLDSISVKPNTILLLDTFFFILIYH----- 666
Query: 624 PAICSGLFGFQSVAQMPETLFELPQLETQLSLKLNSFISYLNDDKAYVSPVKVIKDSSPD 683
G Q + + + L L D + S
Sbjct: 667 -----GEQIAQWRKAGYQDDPQYADFKALLEEPKLEAAELLVDRFPLPRFIDTEAGGSQA 721
Query: 684 RMEFYDKLI-----EDKNAGG--------MAYYEFLLRIREQV 713
R KL +D GG ++ F+ +++
Sbjct: 722 RF-LLSKLNPSDNYQDMARGGSTIVLTDDVSLQNFMTHLQQVA 763
>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 = 58.5 bits (141), Expect = 6e-09
Identities = 83/470 (17%), Positives = 138/470 (29%), Gaps = 195/470 (41%)
Query: 44 QGMNKMW---------GYEPH--DLLNTRDILPATKVEPPPIRLPQNLPEIHEQ------ 86
QG + Y DL+ + + IR + ++ Q
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIKF-----SAETLSELIRTTLDAEKVFTQGLNILE 217
Query: 87 FLYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLFLLDVSQIAAQSGYLY 146
+L +P P+ +YL + + P L+ V Q+A Y
Sbjct: 218 WL--------ENPSNTPD-----KDYLLSIPISC-----P-----LIGVIQLAH---Y-V 250
Query: 147 TVCEVL-LNQLKSMPGDRR--------------TSIAIITYDSAVHFYSLA--------- 182
++L PG+ R T++AI DS F+
Sbjct: 251 VTAKLLGFT-----PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF 305
Query: 183 ---EGQ-----TQPSQMILTDIDDIF--LPSPENILV--NLS-ECYDMIVDLL-KQLPGK 228
T IL D + +PSP +L NL+ E V+ LP
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSP--MLSISNLTQEQVQDYVNKTNSHLPAG 363
Query: 229 FKDSLDSGSAL----------GP--ALQAAFKLLQPTGGRITIFQTCLPNRGPGALQSRE 276
+ + +L GP +L L+ + G QSR
Sbjct: 364 KQVEI----SLVNGAKNLVVSGPPQSLYGLNLTLR----KAK--------APSGLDQSRI 407
Query: 277 NPNQR----SND-DP-------PHMNPATDFYKKIALECTSFYIAVDLFILNSQY--VDL 322
++R SN P + PA+D I DL N + D+
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLLVPASDL------------INKDLVKNNVSFNAKDI 455
Query: 323 ATLSGVSKFSSGCIHHIPLYS---GKNMSHVYQLDRMFSRYLTRKIGFESVMRIRC---- 375
IP+Y G ++ R+ S ++ +I + ++R+
Sbjct: 456 Q---------------IPVYDTFDGSDL-------RVLSGSISERI-VDCIIRLPVKWET 492
Query: 376 -TKGMSIH--TF-------HGNFFVRSTD-------LLALPNVNPDAGYG 408
T+ + H F G R+ D + ++NPD YG
Sbjct: 493 TTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
Score = 57.0 bits (137), Expect = 2e-08
Identities = 86/603 (14%), Positives = 171/603 (28%), Gaps = 195/603 (32%)
Query: 74 IRLPQNLPEIHEQFLYDRNTEMFGDPYRRPEI---QSATVEYLA-----TADYTVRDPPQ 125
+ +P I Q L ++ ++ +P + E + + +P +
Sbjct: 20 LLVPTASFFIASQ-LQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLV--EPSK 76
Query: 126 PAMYLFLLDVSQIAAQSGYL-----YTVCEVLLNQLKSMPGDRRTSIA-----IITYDSA 175
+ +L++ ++ YL + + + + T++ I Y +A
Sbjct: 77 VGQFDQVLNLCLTEFENCYLEGNDIHAL-------AAKLLQENDTTLVKTKELIKNYITA 129
Query: 176 VHFYSLAEGQTQPSQMILTDIDD----IFLP-----SPENILVNLSECYDMIVDLLKQLP 226
+ S + + + + + ++ L + Y
Sbjct: 130 RIMAKRPFDKKSNSA-LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ---------- 178
Query: 227 GKFKDSLDSGSALGPALQAAFKLLQPTGGRITIFQTCLPNRGPGALQSRENPNQRSNDDP 286
+G ++ + + L + +G L+ ENP+
Sbjct: 179 -------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFT-QGLNILEWLENPSNT----- 225
Query: 287 PHMNPATDFYKKIALEC-----TSF--YIAVDLFILNSQYVDL-ATLSGVSKFSSGCIHH 338
P D+ I + C Y+ V +L +L + L G + S G +
Sbjct: 226 ----PDKDYLLSIPISCPLIGVIQLAHYV-VTAKLLGFTPGELRSYLKGATGHSQGLVTA 280
Query: 339 IPLYSGKNMSHVYQLDRMFSRYLTRKIGFESVMRIRCTKGMSIHTFHGNFFVRSTDLLAL 398
+ + + + R L IG RC + A
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFF-IGV------RCYE-------------------AY 314
Query: 399 PNVNPDAGYGIQISIDENLTHIQYACFQVAVLYTSSKGDRRIRVHTLCLPVVSNINDVLV 458
PN + ++ S++ N +++ + +V V+ N L
Sbjct: 315 PNTSLPPSI-LEDSLENNEG---VPSPMLSI-----SNLTQEQVQDY----VNKTNSHLP 361
Query: 459 GADQACIAGLLAKMAVDRSLQHSLSDAREAFLNVVCDVLSTYKMTQAGHLTGSLLAPSSL 518
Q I SL + + VV +G P SL
Sbjct: 362 AGKQVEI---------------SLVNGAKNL--VV-----------SGP-------PQSL 386
Query: 519 KVLPLYVLALLKHPA------FRIGQSTR---LDDRLFAMTEMKCLPLNSLMLSIYPELY 569
L L L K A RI S R +R F LP+ S
Sbjct: 387 YGL---NLTLRKAKAPSGLDQSRIPFSERKLKFSNR-F-------LPVAS---------- 425
Query: 570 PIHT---------LDQD---PTIEWN--ELQVPIPRILQLSAERLQATGTYLL-NMPDLI 614
P H+ +++D + +N ++Q+P+ L+ + + D I
Sbjct: 426 PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV--YDTFDGSDLRVLSGSISERIVDCI 483
Query: 615 IIL 617
I L
Sbjct: 484 IRL 486
Score = 54.3 bits (130), Expect = 1e-07
Identities = 86/557 (15%), Positives = 150/557 (26%), Gaps = 175/557 (31%)
Query: 8 SVPVGYPSLNQAGYQQQQQQQQQQTLNSQFSNLSVNQGMNKMWGYEPHDL--LNTRDILP 65
+ V P+ Q Q+Q + L + + EP L + L
Sbjct: 19 VLLV--PT-ASFFIASQLQEQFNKILPEPTEGFAADD--------EPTTPAELVGK-FLG 66
Query: 66 --ATKVEPPPIR-----LPQNLPEIHEQFLYDRN---------TEMFGDPYRRPEIQSAT 109
++ VEP + L L E +L + E + E+
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY 126
Query: 110 VEYLATADYTVRDPPQPAMYLFLLDVSQIAAQSG--YLYTVC------EVLLNQLKSMPG 161
+ A A L A G L + + +L+ +
Sbjct: 127 ITARIMAKRPFDKKSNSA----LFR----AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ 178
Query: 162 DRRTSIAIITYDSAVHFYSLAEGQTQPSQMILT--DI-----------DDIFLPS----- 203
+ + SA L ++ +I D +L S
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC 238
Query: 204 PENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAA-----------F----- 247
P ++ L+ Y + LL PG+ + L + L A F
Sbjct: 239 PLIGVIQLA-HYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 248 ---KLLQPTGGRITIFQTCLPNRG--PGALQ-SRENPNQRSNDDPPHM-----NPATDFY 296
+L G R PN P L+ S EN + P M
Sbjct: 298 KAITVLFFIGVR---CYEAYPNTSLPPSILEDSLEN----NEGVPSPMLSISNLTQEQVQ 350
Query: 297 KKIALECTSF----YIAVDLFILNS--QYVDLA----TLSGVSKFSSGCIHHIPLYSGKN 346
+ + + + L N V ++ +L G++ + SG +
Sbjct: 351 DYVNKTNSHLPAGKQVEISLV--NGAKNLV-VSGPPQSLYGLNLT----LRKAKAPSGLD 403
Query: 347 MSHVYQLDRMFSRYLTRKIGFESVMR---IRCTKGMSIHT--FHGNFFVRSTDLL--ALP 399
S + FS RK+ F R + FH + LL A
Sbjct: 404 QSRI-----PFSE---RKLKF--SNRFLPV---------ASPFH-------SHLLVPASD 437
Query: 400 NVNPD-AGYGIQISIDENLTHIQYACFQVAVLYTSSKGDRRIRVHTLCLPVVSNINDVLV 458
+N D + + + Q+ V T D R+ + +I++ +V
Sbjct: 438 LINKDLVKNNVSFNAKD---------IQIPVYDTFDGSDLRV--------LSGSISERIV 480
Query: 459 GADQACIAGLLAKMAVD 475
D ++ V
Sbjct: 481 --DCII------RLPVK 489
Score = 38.1 bits (88), Expect = 0.012
Identities = 27/125 (21%), Positives = 49/125 (39%), Gaps = 17/125 (13%)
Query: 584 ELQVPIPRILQLSAERLQATGTYLLNMPDLIIILVRHGTSPA-ICSGLFGFQSVAQMPET 642
E + +P A +LQ +L P T+PA + G+ V+ + E
Sbjct: 17 EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY--VSSLVEP 74
Query: 643 LFELPQLETQLSLKLNSFIS-YL--NDDKAYVSPVKVIKDSSPDRMEFYDKLIEDKNAGG 699
++ Q + L+L L F + YL ND A + + D++ + + +LI+
Sbjct: 75 S-KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK---ELIK------ 124
Query: 700 MAYYE 704
Y
Sbjct: 125 -NYIT 128
Score = 33.1 bits (75), Expect = 0.41
Identities = 54/386 (13%), Positives = 91/386 (23%), Gaps = 184/386 (47%)
Query: 35 SQFSNLSVNQGMNKMWG---YEPH----DLLNTRD----------ILPATKVEPPPIRL- 76
SQ QGM G Y+ D+ N D IL P + +
Sbjct: 1626 SQE------QGM----GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIH 1675
Query: 77 --PQNLPEIHEQF---LYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPP------- 124
+ I E + +++ + G + + YT R
Sbjct: 1676 FGGEKGKRIRENYSAMIFETIVD--GKLKTEKIFKEINEH---STSYTFRSEKGLLSATQ 1730
Query: 125 --QPAMYLFLLDVSQIAAQSGYLYTVCEVLLNQLKSMPGDRRTSIAIITYDSAV--HFYS 180
QPA+ L++ + LKS +I D+ H S
Sbjct: 1731 FTQPAL--TLMEKAAFED---------------LKSK--------GLIPADATFAGH--S 1763
Query: 181 LAEGQTQPSQMILTDIDDIFLPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSAL- 239
L E Y +AL
Sbjct: 1764 LGE-------------------------------Y---------------------AALA 1771
Query: 240 GPA----LQAAFKLLQPTGGRITIFQTCLPNRGPGALQSRENPNQRSNDDPPHM---NPA 292
A +++ +++ F R G P M NP
Sbjct: 1772 SLADVMSIESLVEVV---------FY-----R--GMTMQVAVPRDELGRSNYGMIAINPG 1815
Query: 293 T-----------DFYKKIALECTSFYIAVDLFILN-----SQYV------DLATLSGVSK 330
+++ + I+N QYV L T++ V
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWL-----VEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870
Query: 331 FSSGCIHHIPLYSGKNMSHVYQLDRM 356
F + I + + L+ +
Sbjct: 1871 FIK--LQKIDI---IELQKSLSLEEV 1891
>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 = 48.7 bits (115), Expect = 6e-06
Identities = 70/450 (15%), Positives = 129/450 (28%), Gaps = 143/450 (31%)
Query: 288 HMNPATDF--------YKKIALECTSFYIAVDLFI--LNSQYV-DLATLSGVSKFSSGCI 336
HM DF YK I + D F+ + + V D+ + S I
Sbjct: 6 HM----DFETGEHQYQYKDI------LSVFEDAFVDNFDCKDVQDM--PKSI--LSKEEI 51
Query: 337 HHIPLYSGKNMSHVYQLDRMFSRYLTRKIGFESVMRIRCTKGMSIHTFHGNFFVRSTDLL 396
HI + S +S R+F +K + FV
Sbjct: 52 DHI-IMSKDAVSGTL---RLFW--------------TLLSKQEEMV----QKFVEEVL-- 87
Query: 397 ALPNVNPDAGYGIQISIDENLTHIQYACFQVAVLYTSSKGDRRIRVHTLCLPVVSNINDV 456
+ Y +S I+ Q + + T ++R R++ ND
Sbjct: 88 -----RIN--YKFLMS------PIKTEQRQPS-MMTRMYIEQRDRLY----------NDN 123
Query: 457 LVGADQACIAGLLAKMAVDR-----SLQHSLSDAREAFLNVVCDVLSTYKMTQAGHLTG- 510
V AK V R L+ +L + R A NV+ + G +G
Sbjct: 124 QV----------FAKYNVSRLQPYLKLRQALLELRPA-KNVL-----IDGV--LG--SGK 163
Query: 511 SLLAPSSLKVLPLYVLALLKHPAFRI-----GQSTRLDDRLFAMTEMKCLPLNSLMLSIY 565
+ +A + F+I + L EM L L+ I
Sbjct: 164 TWVALDVCLSYKV-----QCKMDFKIFWLNLKNCNSPETVL----EM----LQKLLYQID 210
Query: 566 PELYPIHTLDQDPTIEWNELQVPIPRILQLSAERLQATGTYLLNMPDL------------ 613
P + + + +Q + R+L+ + + LL + ++
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKS--KPYENC---LLVLLNVQNAKAWNAFNLS 265
Query: 614 --IIILVRHGTSPAICSGLFGFQSVAQMPETLFELPQLETQLSLKLNSFISYLNDDKAYV 671
I++ R S ++++ L L+ L +
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 672 SPVKV------IKDSSPDRMEFYDKLIEDK 695
+P ++ I+D + + + DK
Sbjct: 326 NPRRLSIIAESIRD-GLATWDNWKHVNCDK 354
Score = 48.3 bits (114), Expect = 8e-06
Identities = 90/627 (14%), Positives = 178/627 (28%), Gaps = 162/627 (25%)
Query: 80 LPEIHEQFLYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLF-LLDVSQI 138
L + F+ + + + D + + ++++ +D + LF L Q
Sbjct: 22 LSVFEDAFVDNFDCKDVQD-MPKSILSKEEIDHI----IMSKDAVSGTLRLFWTLLSKQ- 75
Query: 139 AAQSGYLYTVCEV-------LLNQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQTQPSQM 191
+ V EV L++ +K+ R+ S+ Y
Sbjct: 76 --EEMVQKFVEEVLRINYKFLMSPIKTEQ--RQPSMMTRMYIEQRD-------------- 117
Query: 192 ILTDIDDIFLPSPENILVNLSECYDMIVDLLKQL-PGKF----------KDSLDSGSALG 240
L + + +F V+ + Y + L +L P K K +
Sbjct: 118 RLYNDNQVFAKYN----VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV------- 166
Query: 241 PALQAA--FKLLQPTGGRI---TIFQTCLPNRGPGALQS---RENPNQRSNDDPPHMNPA 292
AL +K+ +I + P LQ + +PN S D
Sbjct: 167 -ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS----- 220
Query: 293 TDFYKKIALECTSFYIAVDLFILNSQYVD-LATLSGVS------KFSSGC--------IH 337
I L S + + + Y + L L V F+ C
Sbjct: 221 ----SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 338 HIPLYSGKNMSHVYQLDRM--FSRYLTRKIGFESVMRIRCTK----GMSIHTFHGNFFVR 391
S +H+ + + + + R ++ + +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSL-LLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 392 ST-DLLA----LPNVNPDA-GYGIQISIDENLTHIQYACFQ-VAVLYTSSKGDRRIRVHT 444
S D LA +VN D I+ S++ F ++V S+ I
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH----IPTIL 391
Query: 445 LCL----PVVSNINDVLVGADQACIAGLLAKMAVDRSLQ-HSLS-DAREAFLNVVC---D 495
L L + S++ V+ ++ L+ K + ++ S+ + + N
Sbjct: 392 LSLIWFDVIKSDVMVVV---NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 496 VLSTYKMTQAGHLTGSLLAPSSLKVLPL--YVLALLKHPAFRIGQSTR--------LDDR 545
++ Y + + L L Y + + H I R LD R
Sbjct: 449 IVDHYNIPKT-------FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR 501
Query: 546 LF--------AMTEMKCLPLNSLMLSIYPELYPIHTLDQDPT--------------IEWN 583
F + + + + + + Y + D DP IE N
Sbjct: 502 -FLEQKIRHDSTAWNASGSILNTLQQL--KFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Query: 584 ELQVPIPRILQLSAERLQATGTYLLNM 610
+ +L+++ L A +
Sbjct: 559 LICSKYTDLLRIA---LMAEDEAIFEE 582
Score = 46.4 bits (109), Expect = 3e-05
Identities = 63/430 (14%), Positives = 129/430 (30%), Gaps = 128/430 (29%)
Query: 78 QNLPEIHEQFLYDRNTEMFGDPYRRPEIQSATVEYLATADYTVRDPPQPAMYLFLLDVSQ 137
Q L + R+ R IQ+ L + Y L LL+V
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-------ENCLLVLLNVQN 255
Query: 138 ---IAAQSGYLYTV-CEVLL-----NQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQTQP 188
A + + C++LL + T I++ + + E ++
Sbjct: 256 AKAWNA-----FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT---LTPDEVKSLL 307
Query: 189 SQMILTDIDDIFLPSPENILVN---LSECYDMIVDLLKQLPGKFKDSLDSG-SALGPALQ 244
+ + D LP E + N LS +I + ++ + + L ++
Sbjct: 308 LKYLDCRPQD--LP-REVLTTNPRRLS----IIAESIRDGLATWDNWKHVNCDKLTTIIE 360
Query: 245 AAFKLLQPTGGR-----ITIFQTCLPNRGPGALQSREN---P--------NQRSNDDPPH 288
++ +L+P R +++F + P D
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVF--------------PPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 289 MNPATDFYKKIALEC----TSFYIAVDLFI-LNSQYVDLATL--------SGVSKFSSGC 335
+ +K +E ++ I +++ L + + L + F S
Sbjct: 407 V--VNKLHKYSLVEKQPKESTISIP-SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 336 I----------HHIPLYSGKNMSHVYQLDRMFS------RYLTRKIGFESVMRIRCTKGM 379
+ HI + KN+ H + +F R+L +KI +S G
Sbjct: 464 LIPPYLDQYFYSHIG-HHLKNIEH-PERMTLFRMVFLDFRFLEQKIRHDSTA--WNASGS 519
Query: 380 SIHT-----FHGNFFVRS--------TDLLA-LPNVNPDAGYGIQISIDENLTHIQYACF 425
++T F+ + + +L LP + ENL +Y
Sbjct: 520 ILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIE------------ENLICSKYTDL 567
Query: 426 -QVAVLYTSS 434
++A++
Sbjct: 568 LRIALMAEDE 577
Score = 43.7 bits (102), Expect = 2e-04
Identities = 57/410 (13%), Positives = 112/410 (27%), Gaps = 155/410 (37%)
Query: 50 WGYEPHDLLNTRDILPATKVEPPPIRLPQNLPEIHEQFLYDRNTEMFG----------DP 99
P + + +L ++ P LP+ + + + L + D
Sbjct: 296 MTLTPDE---VKSLL-LKYLDCRPQDLPREVLTTNPRRL-----SIIAESIRDGLATWDN 346
Query: 100 YRRP------EIQSATVEYLATADYTVRDPPQPAMY----LFLLDVSQIAAQ------SG 143
++ I +++ L A+Y R M+ +F I
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEY--RK-----MFDRLSVFPPSA-HIPTILLSLIWFD 398
Query: 144 YLYTVCEVLLNQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQTQPSQMILTDIDDIFLPS 203
+ + V++N+L H YSL E Q + S + +
Sbjct: 399 VIKSDVMVVVNKL--------------------HKYSLVEKQPKESTISI---------- 428
Query: 204 PENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLLQPTGGRITIFQTC 263
+ ++L +L + AL +
Sbjct: 429 -----------PSIYLELKVKLENE------------YALHRSI---------------- 449
Query: 264 LPNRGPGALQSRENPNQRSNDDPPHMNPATD--FYKKIA--LECTSFYIAVDLFILNSQY 319
+ P +DD P D FY I L+ + LF +
Sbjct: 450 --------VDHYNIPKTFDSDDLI--PPYLDQYFYSHIGHHLKNIEHPERMTLF--RMVF 497
Query: 320 VDLATLSGVSKFSSGCIHH--IPLYSGKNMSHVYQLDRMFSRYLTRKIG-FESVMRIRCT 376
+D +F I H + ++ + Q + + Y+ +E ++
Sbjct: 498 LDF-------RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN---- 546
Query: 377 KGMSIHTF---HGNFFVRS--TDLLALPNVNPDAGYGIQISIDENLTHIQ 421
+I F + S TDLL + + D +E +Q
Sbjct: 547 ---AILDFLPKIEENLICSKYTDLLRIALMAEDEAI-----FEEAHKQVQ 588
>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 = 39.1 bits (91), Expect = 0.002
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 1/61 (1%)
Query: 199 IFLPSPENILVNLSECYDMIVDLLKQLPGKFKDSLDSGSALGPALQAAFKLLQPTGGRIT 258
+ L EN+ + E + L LP K + A++ L+ GGR+
Sbjct: 74 LILDGHENLDHYVREPIRAAIFNLGYLPSADKSVITKPHTTLEAIEKILDRLEV-GGRLA 132
Query: 259 I 259
I
Sbjct: 133 I 133
>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 = 0.11
Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 15/42 (35%)
Query: 645 ELPQLETQLSLKLNSFISYLNDDKAYVSPVKVIKDSSPDRME 686
L +L+ SLKL Y DD A P IK + ME
Sbjct: 21 ALKKLQA--SLKL-----Y-ADDSA---PALAIKAT----ME 47
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG,
structural genomics, center for structural genomics;
1.65A {Burkholderia thailandensis} PDB: 3mqo_A
Length = 120
Score = 28.3 bits (64), Expect = 3.1
Identities = 4/28 (14%), Positives = 10/28 (35%), Gaps = 2/28 (7%)
Query: 40 LSVNQGMNKMWGYEPHDLL--NTRDILP 65
N + ++ DL+ + + P
Sbjct: 25 EDCNDELAAIFRCARADLIGRSFEVLYP 52
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
0.321 0.137 0.402
Gapped
Lambda K H
0.267 0.0612 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,706,867
Number of extensions: 644455
Number of successful extensions: 1257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1192
Number of HSP's successfully gapped: 22
Length of query: 713
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 613
Effective length of database: 3,909,693
Effective search space: 2396641809
Effective search space used: 2396641809
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 61 (27.5 bits)