BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 002239
(948 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EH2|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24c
pdb|3EH2|B Chain B, Crystal Structure Of The Human Copii-Coat Protein Sec24c
pdb|3EH2|C Chain C, Crystal Structure Of The Human Copii-Coat Protein Sec24c
Length = 766
Score = 368 bits (945), Expect = e-102, Method: Compositional matrix adjust.
Identities = 202/551 (36%), Positives = 298/551 (54%), Gaps = 14/551 (2%)
Query: 382 GNQANPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHP 441
G + PP T+ ++V+D GN SPRY+RCT IPCT+D+ + + P
Sbjct: 20 GVRGQVPPLVTTNFLVKDQGNASPRYIRCTSYNIPCTSDMAKQAQVPLAAVIKPLARLPP 79
Query: 442 SEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXX 501
E +VD G+ GP+RC+RCKAY+ PFM+FI+ GRRF C C ++ P Y +L
Sbjct: 80 EEASPYVVDHGESGPLRCNRCKAYMCPFMQFIEGGRRFQCCFCSCINDVPPQYFQHLDHT 139
Query: 502 XXXXXXXXXXELCRGTVEFVATKEYMVRD--PMPAVFFFLIDVSMNALQTGATAAACSAI 559
EL G+ EF+AT +Y + P P F F+IDVS NA++TG C +
Sbjct: 140 GKRVDAYDRPELSLGSYEFLATVDYCKNNKFPSPPAFIFMIDVSYNAIRTGLVRLLCEEL 199
Query: 560 SQVISDLP-----EGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614
++ LP E VG T++ +HFYN+K +L QP M++V DV D++ PL
Sbjct: 200 KSLLDFLPREGGAEESAIRVGFVTYNKVLHFYNVKSSLAQPQMMVVSDVADMFVPLLDGF 259
Query: 615 IVPVSECRQHLELLLESIPSMFQNNRTXXXXXX--XXXXXXXXXXXXTGGKLLVFQSVLP 672
+V V+E R + LL+ IP MF + R GKL +F + LP
Sbjct: 260 LVNVNESRAVITSLLDQIPEMFADTRETETVFVPVIQAGMEALKAAECAGKLFLFHTSLP 319
Query: 673 SVGI-GALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY 731
G L R+ R I++ +++T L QP + +A E CVD+F+ Y
Sbjct: 320 IAEAPGKLKNRD--DRKLINTDKEKT--LFQPQTGAYQTLAKECVAQGCCVDLFLFPNQY 375
Query: 732 VDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQV 791
VD+A++SV+P+ TGG VY Y F +D + +DLR ++ + GF+AVMRVR S GI+
Sbjct: 376 VDVATLSVVPQLTGGSVYKYASFQVENDQERFLSDLRRDVQKVVGFDAVMRVRTSTGIRA 435
Query: 792 QEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIR 851
++ G F TD++L +D +K + V KHDD+L + S QCALLYT+ GQRR+R
Sbjct: 436 VDFFGAFYMSNTTDVELAGLDGDKTVTVEFKHDDRLNEESGALLQCALLYTSCAGQRRLR 495
Query: 852 VTTLSLPCTSNLSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYR 911
+ L+L C + L++LYR+ + DT K A + ++P+ VR+ ++ C L YR
Sbjct: 496 IHNLALNCCTQLADLYRNCETDTLINYMAKFAYRGVLNSPVKAVRDTLITQCAQILACYR 555
Query: 912 KFCATVSSSGQ 922
K CA+ SS+GQ
Sbjct: 556 KNCASPSSAGQ 566
>pdb|3EFO|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
SYNTAXIN 5
pdb|3EG9|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
MEMBRIN
Length = 770
Score = 342 bits (877), Expect = 6e-94, Method: Compositional matrix adjust.
Identities = 189/545 (34%), Positives = 286/545 (52%), Gaps = 14/545 (2%)
Query: 388 PPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHPSEEPIQ 447
PP T++ +++D GN SPR++RCT PCT+D+ + + +E P+
Sbjct: 30 PPLVTTDCMIQDQGNASPRFIRCTTYCFPCTSDMAKQAQIPLAAVIKPFATIPSNESPLY 89
Query: 448 IVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXX 507
+V+ G+ GPVRC+RCKAY+ PFM+FI+ GRR+ C C ++ P Y +L
Sbjct: 90 LVNHGESGPVRCNRCKAYMCPFMQFIEGGRRYQCGFCNCVNDVPPFYFQHLDHIGRRLDH 149
Query: 508 XXXXELCRGTVEFVATKEYMVRD--PMPAVFFFLIDVSMNALQTGATAAACSAISQVISD 565
EL G+ E+VAT +Y + P P F F+IDVS + ++ G C + ++
Sbjct: 150 YEKPELSLGSYEYVATLDYCRKSKPPNPPAFIFMIDVSYSNIKNGLVKLICEELKTMLEK 209
Query: 566 LP-----EGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSE 620
+P E VG T++ +HF+N+K L QP M++V DV +V+ PL +V E
Sbjct: 210 IPKEEQEETSAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVGEVFVPLLDGFLVNYQE 269
Query: 621 CRQHLELLLESIPSMF--QNNRTXXXXXXXXXXXXXXXXXXTGGKLLVFQSVLPSVGI-G 677
+ + LL+ IP MF N GKL +F S LP+ G
Sbjct: 270 SQSVIHNLLDQIPDMFADSNENETVFAPVIQAGMEALKAADCPGKLFIFHSSLPTAEAPG 329
Query: 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASI 737
L R+ + N + EK L QP ++A + + V +F+ YVD+AS+
Sbjct: 330 KLKNRDDKKLVN-TDKEK---ILFQPQTNVYDSLAKDCVAHGCSVTLFLFPSQYVDVASL 385
Query: 738 SVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGN 797
++P+ TGG +Y Y F D + NDLR +I + GF+A+MRVR S G + ++ G
Sbjct: 386 GLVPQLTGGTLYKYNNFQMHLDRQQFLNDLRNDIEKKIGFDAIMRVRTSTGFRATDFFGG 445
Query: 798 FCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSL 857
TD+++ AIDC+KA+ V KHDDKL + S QCA+LYTT+ GQRR+R+ L L
Sbjct: 446 ILMNNTTDVEMAAIDCDKAVTVEFKHDDKLSEDSGALIQCAVLYTTISGQRRLRIHNLGL 505
Query: 858 PCTSNLSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATV 917
C+S L++LY+S + D F K A + PL +RE ++N + L YRK CA+
Sbjct: 506 NCSSQLADLYKSCETDALINFFAKSAFKAVLHQPLKVIREILVNQTAHMLACYRKNCASP 565
Query: 918 SSSGQ 922
S++ Q
Sbjct: 566 SAASQ 570
>pdb|3EH1|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24b
Length = 751
Score = 329 bits (843), Expect = 5e-90, Method: Compositional matrix adjust.
Identities = 186/512 (36%), Positives = 280/512 (54%), Gaps = 15/512 (2%)
Query: 402 NCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHPSEEPIQIVDFGDMGPVRCSR 461
NCSP RCT++ IP T LL + + HP + Q+ VRC
Sbjct: 37 NCSPDSFRCTLTNIPQTQALLNKAKLPLGLLL------HPFRDLTQLPVITSNTIVRCRS 90
Query: 462 CKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXELCRGTVEFV 521
C+ YINPF+ FIDQ RR+ C+LC ++ P ++ N E+ TVEF+
Sbjct: 91 CRTYINPFVSFIDQ-RRWKCNLCYRVNDVPEEFMYN-PLTRSYGEPHKRPEVQNSTVEFI 148
Query: 522 ATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDS 581
A+ +YM+R P PAV+ F++DVS NA++ G C ++ + + LP RT +G TFDS
Sbjct: 149 ASSDYMLRPPQPAVYLFVLDVSHNAVEAGYLTILCQSLLENLDKLPGDSRTRIGFMTFDS 208
Query: 582 TIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRT 641
TIHFYNL+ L QP MLIV D++DV+ P ++V + E ++ ++ LL ++P+MF N R
Sbjct: 209 TIHFYNLQEGLSQPQMLIVSDIDDVFLPTPDSLLVNLYESKELIKDLLNALPNMFTNTRE 268
Query: 642 XXXXXXXXXXXXXXXXXXTGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLL 701
TGG++ VFQ+ LPS+G G L +RE + SS + H L
Sbjct: 269 THSALGPALQAAFKLMSPTGGRVSVFQTQLPSLGAGLLQSREDPNQR--SSTKVVQH--L 324
Query: 702 QPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPA 761
PA K +A++ + Q VD+F+ + Y D+AS++ + K + G +YYY F +P+
Sbjct: 325 GPATDFYKKLALDCSGQQTAVDLFLLSSQYSDLASLACMSKYSAGCIYYYPSFHYTHNPS 384
Query: 762 ---KLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIM 818
KL DL+ +TR GFEAVMR+RC++G+ + +HGNF R + L I+ +
Sbjct: 385 QAEKLQKDLKRYLTRKIGFEAVMRIRCTKGLSMHTFHGNFFVRSTDLLSLANINPDAGFA 444
Query: 819 VTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRSADLDTQFTC 878
V L ++ L D S FQ ALLYT+ G+RRIRV TL LP S+L+++Y D+
Sbjct: 445 VQLSIEESLTDTSLVCFQTALLYTSSKGERRIRVHTLCLPVVSSLADVYAGVDVQAAICL 504
Query: 879 FMKQAASEIPSTPLANVREQMMNLCVNALVSY 910
A S+ L++ R+ ++N V++L +Y
Sbjct: 505 LANMAVDRSVSSSLSDARDALVNAVVDSLSAY 536
>pdb|3EGD|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 748
Score = 327 bits (838), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 183/529 (34%), Positives = 288/529 (54%), Gaps = 18/529 (3%)
Query: 386 NPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHPSEEP 445
PP P E I + NC+P RCT++ IP T LL + + HP ++
Sbjct: 21 KPPVPNLHEDIQK--LNCNPELFRCTLTSIPQTQALLNKAKLPLGLLL------HPFKDL 72
Query: 446 IQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXX 505
+Q+ VRC C+ YINPF+ F+DQ RR+ C+LC ++ P ++ N
Sbjct: 73 VQLPVVTSSTIVRCRSCRTYINPFVSFLDQ-RRWKCNLCYRVNDVPEEFLYN-PLTRVYG 130
Query: 506 XXXXXXELCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISD 565
E+ T+EF+A EYM+R P P V+ F+ DVS NA++TG + C ++ +
Sbjct: 131 EPHRRPEVQNATIEFMAPSEYMLRPPQPPVYLFVFDVSHNAVETGYLNSVCQSLLDNLDL 190
Query: 566 LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHL 625
LP RT +G TFDSTIHFY L+ +L QP MLIV D+EDV+ P+ +++V ++E ++ +
Sbjct: 191 LPGNTRTKIGFITFDSTIHFYGLQESLSQPQMLIVSDIEDVFIPMPENLLVNLNESKELV 250
Query: 626 ELLLESIPSMFQNNRTXXXXXXXXXXXXXXXXXXTGGKLLVFQSVLPSVGIGALSAREAE 685
+ LL+++P MF TGG++ VFQ+ LP++G+GAL RE
Sbjct: 251 QDLLKTLPQMFTKTLETQSALGPALQAAFKLMSPTGGRMSVFQTQLPTLGVGALKPRE-- 308
Query: 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTG 745
N S K+ H + P+ K +A++ + QV VD+F+ + Y D+AS+ I + +
Sbjct: 309 -EPNHRSSAKDIH--MTPSTDFYKKLALDCSGQQVAVDLFLLSGQYSDLASLGCISRYSA 365
Query: 746 GQVYYYYPFSALSDPA---KLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRI 802
G VYYY + +P KL +L+ +TR GFEAVMR+RC++G+ + +HGNF R
Sbjct: 366 GSVYYYPSYHHQHNPVQVQKLQKELQRYLTRKIGFEAVMRIRCTKGLSIHTFHGNFFVRS 425
Query: 803 PTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSN 862
+ LP ++ + V + ++ L D +FQ ALLYT+ G+RRIRV TL LP S
Sbjct: 426 TDLLSLPNVNPDAGYAVQMSVEESLTDTQLVSFQSALLYTSSKGERRIRVHTLCLPVVST 485
Query: 863 LSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYR 911
L++++ AD+ A + L++ R+ ++N +++L +YR
Sbjct: 486 LNDVFLGADVQAISGLLANMAVDRSMTASLSDARDALVNAVIDSLSAYR 534
>pdb|2NUP|B Chain B, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|B Chain B, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 753
Score = 327 bits (837), Expect = 3e-89, Method: Compositional matrix adjust.
Identities = 183/529 (34%), Positives = 288/529 (54%), Gaps = 18/529 (3%)
Query: 386 NPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHPSEEP 445
PP P E I + NC+P RCT++ IP T LL + + HP ++
Sbjct: 26 KPPVPNLHEDIQK--LNCNPELFRCTLTSIPQTQALLNKAKLPLGLLL------HPFKDL 77
Query: 446 IQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXX 505
+Q+ VRC C+ YINPF+ F+DQ RR+ C+LC ++ P ++ N
Sbjct: 78 VQLPVVTSSTIVRCRSCRTYINPFVSFLDQ-RRWKCNLCYRVNDVPEEFLYN-PLTRVYG 135
Query: 506 XXXXXXELCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISD 565
E+ T+EF+A EYM+R P P V+ F+ DVS NA++TG + C ++ +
Sbjct: 136 EPHRRPEVQNATIEFMAPSEYMLRPPQPPVYLFVFDVSHNAVETGYLNSVCQSLLDNLDL 195
Query: 566 LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHL 625
LP RT +G TFDSTIHFY L+ +L QP MLIV D+EDV+ P+ +++V ++E ++ +
Sbjct: 196 LPGNTRTKIGFITFDSTIHFYGLQESLSQPQMLIVSDIEDVFIPMPENLLVNLNESKELV 255
Query: 626 ELLLESIPSMFQNNRTXXXXXXXXXXXXXXXXXXTGGKLLVFQSVLPSVGIGALSAREAE 685
+ LL+++P MF TGG++ VFQ+ LP++G+GAL RE
Sbjct: 256 QDLLKTLPQMFTKTLETQSALGPALQAAFKLMSPTGGRMSVFQTQLPTLGVGALKPRE-- 313
Query: 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTG 745
N S K+ H + P+ K +A++ + QV VD+F+ + Y D+AS+ I + +
Sbjct: 314 -EPNHRSSAKDIH--MTPSTDFYKKLALDCSGQQVAVDLFLLSGQYSDLASLGCISRYSA 370
Query: 746 GQVYYYYPFSALSDPA---KLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRI 802
G VYYY + +P KL +L+ +TR GFEAVMR+RC++G+ + +HGNF R
Sbjct: 371 GSVYYYPSYHHQHNPVQVQKLQKELQRYLTRKIGFEAVMRIRCTKGLSIHTFHGNFFVRS 430
Query: 803 PTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSN 862
+ LP ++ + V + ++ L D +FQ ALLYT+ G+RRIRV TL LP S
Sbjct: 431 TDLLSLPNVNPDAGYAVQMSVEESLTDTQLVSFQSALLYTSSKGERRIRVHTLCLPVVST 490
Query: 863 LSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYR 911
L++++ AD+ A + L++ R+ ++N +++L +YR
Sbjct: 491 LNDVFLGADVQAISGLLANMAVDRSMTASLSDARDALVNAVIDSLSAYR 539
>pdb|1M2V|B Chain B, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 926
Score = 243 bits (621), Expect = 3e-64, Method: Compositional matrix adjust.
Identities = 150/533 (28%), Positives = 267/533 (50%), Gaps = 18/533 (3%)
Query: 399 DMGNCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHPSEEPIQIVDFGDMGPVR 458
++ N SP Y+R T++ +P + LL S + + +P + + G + VR
Sbjct: 173 ELSNASPDYIRSTLNAVPKNSSLLKKSKLPFGLVIRPYQHLYDDIDPPPLNEDGLI--VR 230
Query: 459 CSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXELCRGTV 518
C RC++Y+NPF+ FI+QGRR+ C+ C ++ P + E+ +
Sbjct: 231 CRRCRSYMNPFVTFIEQGRRWRCNFCRLANDVP--MQMDQSDPNDPKSRYDRNEIKCAVM 288
Query: 519 EFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLP-EGPRTMVGIA 577
E++A KEY +R P PA + FLIDVS +++++G A + + Q + +P RT + I
Sbjct: 289 EYMAPKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNLDSIPNHDERTRISIL 348
Query: 578 TFDSTIHFY-------NLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLE 630
D+ IH++ N + + Q M+ + D+E+ + P + ++V + CRQ++E LL
Sbjct: 349 CVDNAIHYFKIPLDSENNEESADQINMMDIADLEEPFLPRPNSMVVSLKACRQNIETLLT 408
Query: 631 SIPSMFQNNRTXXXXXXXXXXXXXXXXXXTGGKLLVFQSVLPSVGIGALSAREAEGRSNI 690
IP +FQ+N GGK++V LP++GIG L R G N
Sbjct: 409 KIPQIFQSNLITNFALGPALKSAYHLIGGVGGKIIVVSGTLPNLGIGKLQRRNESGVVNT 468
Query: 691 SSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750
S KET +LL D K I+ ++ Q+ VD+F+ ++ Y+D+AS+S + + T GQ ++
Sbjct: 469 S---KETAQLLSCQDSFYKNFTIDCSKVQITVDLFLASEDYMDVASLSNLSRFTAGQTHF 525
Query: 751 YYPFSAL--SDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDL 808
Y FS +D K + +I+ E VMR R S G+++ ++G+F R
Sbjct: 526 YPGFSGKNPNDIVKFSTEFAKHISMDFCMETVMRARGSTGLRMSRFYGHFFNRSSDLCAF 585
Query: 809 PAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYR 868
+ +++ + + D+ + C Q A+L + QRRIR+ TL++P T +L+ +Y
Sbjct: 586 STMPRDQSYLFEVNVDESIM-ADYCYVQVAVLLSLNNSQRRIRIITLAMPTTESLAEVYA 644
Query: 869 SADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSG 921
SAD + + +A + ++ L + R + + L +Y+K +++G
Sbjct: 645 SADQLAIASFYNSKAVEKALNSSLDDARVLINKSVQDILATYKKEIVVSNTAG 697
>pdb|1PCX|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Bet1
pdb|1PD0|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Sed5
(Yeast Syntaxin-5)
pdb|1PD1|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide Containing The Dxe Cargo
Sorting Signal Of Yeast Sys1 Protein
Length = 810
Score = 239 bits (611), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 150/533 (28%), Positives = 267/533 (50%), Gaps = 18/533 (3%)
Query: 399 DMGNCSPRYMRCTISQIPCTNDLLTTSGMXXXXXXXXXXXXHPSEEPIQIVDFGDMGPVR 458
++ N SP Y+R T++ +P + LL S + + +P + + G + VR
Sbjct: 57 ELSNASPDYIRSTLNAVPKNSSLLKKSKLPFGLVIRPYQHLYDDIDPPPLNEDGLI--VR 114
Query: 459 CSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXELCRGTV 518
C RC++Y+NPF+ FI+QGRR+ C+ C ++ P + E+ +
Sbjct: 115 CRRCRSYMNPFVTFIEQGRRWRCNFCRLANDVP--MQMDQSDPNDPKSRYDRNEIKCAVM 172
Query: 519 EFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLP-EGPRTMVGIA 577
E++A KEY +R P PA + FLIDVS +++++G A + + Q + +P RT + I
Sbjct: 173 EYMAPKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNLDSIPNHDERTRISIL 232
Query: 578 TFDSTIHFY-------NLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLE 630
D+ IH++ N + + Q M+ + D+E+ + P + ++V + CRQ++E LL
Sbjct: 233 CVDNAIHYFKIPLDSENNEESADQINMMDIADLEEPFLPRPNSMVVSLKACRQNIETLLT 292
Query: 631 SIPSMFQNNRTXXXXXXXXXXXXXXXXXXTGGKLLVFQSVLPSVGIGALSAREAEGRSNI 690
IP +FQ+N GGK++V LP++GIG L R G N
Sbjct: 293 KIPQIFQSNLITNFALGPALKSAYHLIGGVGGKIIVVSGTLPNLGIGKLQRRNESGVVNT 352
Query: 691 SSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750
S KET +LL D K I+ ++ Q+ VD+F+ ++ Y+D+AS+S + + T GQ ++
Sbjct: 353 S---KETAQLLSCQDSFYKNFTIDCSKVQITVDLFLASEDYMDVASLSNLSRFTAGQTHF 409
Query: 751 YYPFSAL--SDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDL 808
Y FS +D K + +I+ E VMR R S G+++ ++G+F R
Sbjct: 410 YPGFSGKNPNDIVKFSTEFAKHISMDFCMETVMRARGSTGLRMSRFYGHFFNRSSDLCAF 469
Query: 809 PAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYR 868
+ +++ + + D+ + C Q A+L + QRRIR+ TL++P T +L+ +Y
Sbjct: 470 STMPRDQSYLFEVNVDESIM-ADYCYVQVAVLLSLNNSQRRIRIITLAMPTTESLAEVYA 528
Query: 869 SADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSG 921
SAD + + +A + ++ L + R + + L +Y+K +++G
Sbjct: 529 SADQLAIASFYNSKAVEKALNSSLDDARVLINKSVQDILATYKKEIVVSNTAG 581
>pdb|2QTV|A Chain A, Structure Of Sec23-Sar1 Complexed With The Active Fragment
Of Sec31
Length = 772
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 61/136 (44%), Gaps = 18/136 (13%)
Query: 455 GPVRCS--RCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXE 512
PV CS CK+ +NP+ + + C +C + P Y NL E
Sbjct: 56 NPVVCSGPHCKSILNPYCVIDPRNSSWSCPICNSRNHLPPQY-TNL------SQENMPLE 108
Query: 513 LCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572
L T+E++ K V P +FFF++D++ +T + +I +S LP P
Sbjct: 109 LQSTTIEYITNKPVTV----PPIFFFVVDLTS---ETENLDSLKESIITSLSLLP--PNA 159
Query: 573 MVGIATFDSTIHFYNL 588
++G+ T+ + + ++L
Sbjct: 160 LIGLITYGNVVQLHDL 175
>pdb|1M2O|A Chain A, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2O|C Chain C, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2V|A Chain A, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 768
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 61/136 (44%), Gaps = 18/136 (13%)
Query: 455 GPVRCS--RCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXE 512
PV CS CK+ +NP+ + + C +C + P Y NL E
Sbjct: 52 NPVVCSGPHCKSILNPYCVIDPRNSSWSCPICNSRNHLPPQY-TNL------SQENMPLE 104
Query: 513 LCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572
L T+E++ K V P +FFF++D++ +T + +I +S LP P
Sbjct: 105 LQSTTIEYITNKPVTV----PPIFFFVVDLTS---ETENLDSLKESIITSLSLLP--PNA 155
Query: 573 MVGIATFDSTIHFYNL 588
++G+ T+ + + ++L
Sbjct: 156 LIGLITYGNVVQLHDL 171
>pdb|3EFO|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
SYNTAXIN 5
Length = 765
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 59/136 (43%), Gaps = 18/136 (13%)
Query: 456 PVRCSR--CKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXEL 513
PV CSR C+A +NP + + + + C+ C ++ P Y EL
Sbjct: 58 PVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSY-------AGISELNQPAEL 110
Query: 514 CRGTVEFVATKEYMVRDP-MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572
+F + + ++R P MP +F +++D M + A ++ +S LP P
Sbjct: 111 L---PQFSSIEYVVLRGPQMPLIFLYVVDTCM---EDEDLQALKESMQMSLSLLP--PTA 162
Query: 573 MVGIATFDSTIHFYNL 588
+VG+ TF + + L
Sbjct: 163 LVGLITFGRMVQVHEL 178
>pdb|3EG9|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
MEMBRIN
pdb|3EGD|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 764
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 59/136 (43%), Gaps = 18/136 (13%)
Query: 456 PVRCSR--CKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXEL 513
PV CSR C+A +NP + + + + C+ C ++ P Y EL
Sbjct: 58 PVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSY-------AGISELNQPAEL 110
Query: 514 CRGTVEFVATKEYMVRDP-MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572
+F + + ++R P MP +F +++D M + A ++ +S LP P
Sbjct: 111 L---PQFSSIEYVVLRGPQMPLIFLYVVDTCM---EDEDLQALKESMQMSLSLLP--PTA 162
Query: 573 MVGIATFDSTIHFYNL 588
+VG+ TF + + L
Sbjct: 163 LVGLITFGRMVQVHEL 178
>pdb|2NUP|A Chain A, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|A Chain A, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 769
Score = 37.4 bits (85), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 59/136 (43%), Gaps = 18/136 (13%)
Query: 456 PVRCSR--CKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLXXXXXXXXXXXXXEL 513
PV CSR C+A +NP + + + + C+ C ++ P Y EL
Sbjct: 62 PVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSY-------AGISELNQPAEL 114
Query: 514 CRGTVEFVATKEYMVRDP-MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572
+F + + ++R P MP +F +++D M + A ++ +S LP P
Sbjct: 115 L---PQFSSIEYVVLRGPQMPLIFLYVVDTCM---EDEDLQALKESMQMSLSLLP--PTA 166
Query: 573 MVGIATFDSTIHFYNL 588
+VG+ TF + + L
Sbjct: 167 LVGLITFGRMVQVHEL 182
>pdb|4DIL|A Chain A, Flavo Di-Iron Protein H90n Mutant From Thermotoga Maritima
pdb|4DIL|B Chain B, Flavo Di-Iron Protein H90n Mutant From Thermotoga Maritima
Length = 410
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 20/27 (74%)
Query: 558 AISQVISDLPEGPRTMVGIATFDSTIH 584
AIS+++ D+P+ + G++T+++ IH
Sbjct: 309 AISEILKDIPDSEALIFGVSTYEAEIH 335
>pdb|4DIK|A Chain A, Flavo Di-Iron Protein H90a Mutant From Thermotoga Maritima
pdb|4DIK|B Chain B, Flavo Di-Iron Protein H90a Mutant From Thermotoga Maritima
Length = 410
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 20/27 (74%)
Query: 558 AISQVISDLPEGPRTMVGIATFDSTIH 584
AIS+++ D+P+ + G++T+++ IH
Sbjct: 309 AISEILKDIPDSEALIFGVSTYEAEIH 335
>pdb|1VME|A Chain A, Crystal Structure Of Flavoprotein (Tm0755) From Thermotoga
Maritima At 1.80 A Resolution
pdb|1VME|B Chain B, Crystal Structure Of Flavoprotein (Tm0755) From Thermotoga
Maritima At 1.80 A Resolution
Length = 410
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 20/27 (74%)
Query: 558 AISQVISDLPEGPRTMVGIATFDSTIH 584
AIS+++ D+P+ + G++T+++ IH
Sbjct: 309 AISEILKDIPDSEALIFGVSTYEAEIH 335
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.133 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,150,542
Number of Sequences: 62578
Number of extensions: 787620
Number of successful extensions: 1302
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1247
Number of HSP's gapped (non-prelim): 23
length of query: 948
length of database: 14,973,337
effective HSP length: 108
effective length of query: 840
effective length of database: 8,214,913
effective search space: 6900526920
effective search space used: 6900526920
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)