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= 008566
(561 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 475 bits (1222), Expect = e-134, Method: Compositional matrix adjust.
Identities = 248/559 (44%), Positives = 346/559 (61%), Gaps = 35/559 (6%)
Query: 1 MTEFMDL----EAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPY 56
MT +++ E +DGVR WNV P ++ EA+ VVPV+A++TP+K P +P + Y
Sbjct: 1 MTTYLEFIQQNEERDGVRFSWNVWPSSRLEATRMVVPVAALFTPLKERP----DLPPIQY 56
Query: 57 APLRCR--TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTT 114
P+ C TCR++LNP VD+ AK+W C FC+QRN FPP YA I++ N PAEL PQ+++
Sbjct: 57 EPVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPAELLPQFSS 116
Query: 115 IEYEP-PGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTL 173
IEY GP +P +F++VVDTC+ +E++ LK ++ ++ LLP +LVGLITFG +
Sbjct: 117 IEYVVLRGP----QMPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTALVGLITFGRM 172
Query: 174 VQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTI 233
VQVHELG G I K+YVF+G+KD+S QL E L K P V+ S+
Sbjct: 173 VQVHELGCEG--ISKSYVFRGTKDLSAKQLQEMLGL-SKVPLTQATRGPQVQQPPPSN-- 227
Query: 234 ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARI 293
RFL P + L +L ELQ+DPWPVP +R R +G ALSIA LL P +GARI
Sbjct: 228 -RFLQPVQKIDMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTFPNTGARI 286
Query: 294 LAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLD 353
+ F+GGP+T+GP +V L PIRS D+DKD+A + K K ++AL+ + GHV+D
Sbjct: 287 MMFIGGPATQGPGMVVGDELKTPIRSWHDIDKDNAKYVKKGTKHFEALANRAATTGHVID 346
Query: 354 LFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHS---GDYDLGLSSNG 410
++ACALDQ G+ E+K TGG +V+ DSF ++FK + +RVF G + +G G
Sbjct: 347 IYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGF--GG 404
Query: 411 IFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIV 470
EI S++IK+ G IGPC SL KGP S+ +G G T WK+CGL T+L + FE+V
Sbjct: 405 TLEIKTSREIKISGAIGPCVSLNSKGPCVSENEIGTGGTCQWKICGLSPTTTLAIYFEVV 464
Query: 471 KKE---IPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFD 527
+ IP + QF+T YQH+ GQ R+RVTT++R W +Q++ A FD
Sbjct: 465 NQHNAPIPQG------GRGAIQFVTQYQHSSGQRRIRVTTIARNWADAQTQIQNIAASFD 518
Query: 528 QEAAAVVMARLVSFKMEIE 546
QEAAA++MARL ++ E E
Sbjct: 519 QEAAAILMARLAIYRAETE 537
>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 = 475 bits (1222), Expect = e-134, Method: Compositional matrix adjust.
Identities = 249/561 (44%), Positives = 347/561 (61%), Gaps = 39/561 (6%)
Query: 1 MTEFMDL----EAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPY 56
MT +++ E +DGVR WNV P ++ EA+ VVPV+A++TP+K P +P + Y
Sbjct: 5 MTTYLEFIQQNEERDGVRFSWNVWPSSRLEATRMVVPVAALFTPLKERP----DLPPIQY 60
Query: 57 APLRCR--TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTT 114
P+ C TCR++LNP VD+ AK+W C FC+QRN FPP YA I++ N PAEL PQ+++
Sbjct: 61 EPVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPAELLPQFSS 120
Query: 115 IEYEP-PGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTL 173
IEY GP +P +F++VVDTC+ +E++ LK ++ ++ LLP +LVGLITFG +
Sbjct: 121 IEYVVLRGP----QMPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTALVGLITFGRM 176
Query: 174 VQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAG--VRDGLSSD 231
VQVHELG G I K+YVF+G+KD+S QL E L P T G V+ S+
Sbjct: 177 VQVHELGCEG--ISKSYVFRGTKDLSAKQLQEMLGL---SKVPVTQATRGPQVQQPPPSN 231
Query: 232 TIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGA 291
RFL P + L +L ELQ+DPWPVP +R R +G ALSIA LL P +GA
Sbjct: 232 ---RFLQPVQKIDMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTFPNTGA 288
Query: 292 RILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHV 351
RI+ F+GGP+T+GP +V L PIRS D+DKD+A + K K ++AL+ + GHV
Sbjct: 289 RIMMFIGGPATQGPGMVVGDELKTPIRSWHDIDKDNAKYVKKGTKHFEALANRAATTGHV 348
Query: 352 LDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHS---GDYDLGLSS 408
+D++ACALDQ G+ E+K TGG +V+ DSF ++FK + +RVF G + +G
Sbjct: 349 IDIYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGF-- 406
Query: 409 NGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFE 468
G EI S++IK+ G IGPC SL KGP S+ +G G T WK+CGL T+L + FE
Sbjct: 407 GGTLEIKTSREIKISGAIGPCVSLNSKGPCVSENEIGTGGTCQWKICGLSPTTTLAIYFE 466
Query: 469 IVKKE---IPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAG 525
+V + IP + QF+T YQH+ GQ R+RVTT++R W +Q++ A
Sbjct: 467 VVNQHNAPIPQG------GRGAIQFVTQYQHSSGQRRIRVTTIARNWADAQTQIQNIAAS 520
Query: 526 FDQEAAAVVMARLVSFKMEIE 546
FDQEAAA++MARL ++ E E
Sbjct: 521 FDQEAAAILMARLAIYRAETE 541
>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 = 472 bits (1215), Expect = e-133, Method: Compositional matrix adjust.
Identities = 248/561 (44%), Positives = 346/561 (61%), Gaps = 39/561 (6%)
Query: 1 MTEFMDL----EAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPY 56
MT +++ E +DGVR WNV P ++ EA+ VVPV+A++TP+K P +P + Y
Sbjct: 1 MTTYLEFIQQNEERDGVRFSWNVWPSSRLEATRMVVPVAALFTPLKERP----DLPPIQY 56
Query: 57 APLRCR--TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTT 114
P+ C TCR++LNP VD+ AK+W C FC+QRN FPP YA I++ N PAEL PQ+++
Sbjct: 57 EPVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPAELLPQFSS 116
Query: 115 IEYEP-PGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTL 173
IEY GP +P +F++VVDTC+ +E++ LK ++ ++ LLP +LVGLITFG +
Sbjct: 117 IEYVVLRGP----QMPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTALVGLITFGRM 172
Query: 174 VQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAG--VRDGLSSD 231
VQVHELG G I K+YVF+G+ D+S QL E L P T G V+ S+
Sbjct: 173 VQVHELGCEG--ISKSYVFRGTGDLSAKQLQEMLGL---SKVPLTQATRGPQVQQPPPSN 227
Query: 232 TIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGA 291
RFL P + L +L ELQ+DPWPVP +R R +G ALSIA LL P +GA
Sbjct: 228 ---RFLQPVQKIDMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTFPNTGA 284
Query: 292 RILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHV 351
RI+ F+GGP+T+GP +V L PIRS D+DKD+A + K K ++AL+ + GHV
Sbjct: 285 RIMMFIGGPATQGPGMVVGDELKTPIRSWHDIDKDNAKYVKKGTKHFEALANRAATTGHV 344
Query: 352 LDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHS---GDYDLGLSS 408
+D++ACALDQ G+ E+K TGG +V+ DSF ++FK + +RVF G + +G
Sbjct: 345 IDIYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGF-- 402
Query: 409 NGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFE 468
G EI S++IK+ G IGPC SL KGP S+ +G G T WK+CGL T+L + FE
Sbjct: 403 GGTLEIKTSREIKISGAIGPCVSLNSKGPCVSENEIGTGGTCQWKICGLSPTTTLAIYFE 462
Query: 469 IVKKE---IPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAG 525
+V + IP + QF+T YQH+ GQ R+RVTT++R W +Q++ A
Sbjct: 463 VVNQHNAPIPQG------GRGAIQFVTQYQHSSGQRRIRVTTIARNWADAQTQIQNIAAS 516
Query: 526 FDQEAAAVVMARLVSFKMEIE 546
FDQEAAA++MARL ++ E E
Sbjct: 517 FDQEAAAILMARLAIYRAETE 537
>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 = 392 bits (1006), Expect = e-109, Method: Compositional matrix adjust.
Identities = 216/558 (38%), Positives = 319/558 (57%), Gaps = 31/558 (5%)
Query: 5 MDLEAQD---GVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPLRC 61
MD E + GVR WNV P T+ +A++ VVPV +YTP+K + + + + PY P+ C
Sbjct: 1 MDFETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEY----DELNVAPYNPVVC 56
Query: 62 R--TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEP 119
C+SILNP+ ++D W CP C RNH PP Y +++ +N+P EL Q TTIEY
Sbjct: 57 SGPHCKSILNPYCVIDPRNSSWSCPICNSRNHLPPQYTNLSQENMPLEL--QSTTIEYIT 114
Query: 120 PGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHEL 179
P +VPP+F FVVD E + LK ++ ++ LLP N+L+GLIT+G +VQ+H+L
Sbjct: 115 NKP---VTVPPIFFFVVDLTSETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHDL 171
Query: 180 GGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDT---IARF 236
+ I + VF+G ++ + L E L +KP G + + + ++ T + RF
Sbjct: 172 SS--ETIDRCNVFRGDREYQLEALTEMLTG--QKPTGPGGAASHLPNAMNKVTPFSLNRF 227
Query: 237 LVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAF 296
+P EF LN +LE L D W VP R R TG+AL+IA+ LL C ARI+ F
Sbjct: 228 FLPLEQVEFKLNQLLENLSPDQWSVPAGHRPLRATGSALNIASLLLQGCYKNIPARIILF 287
Query: 297 VGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFA 356
GP T P IV+ L +P+RSH D+D D A HY KA KFY+ +++++ GH +D+FA
Sbjct: 288 ASGPGTVAPGLIVNSELKDPLRSHHDIDSDHAQHYKKACKFYNQIAQRVAANGHTVDIFA 347
Query: 357 CALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYD-LGLSSNGIFEIN 415
DQ+G++E+K + TGG+++L+D+F A+FK S R+F + L ++ NG +
Sbjct: 348 GCYDQIGMSEMKQLTDSTGGVLLLTDAFSTAIFKQSYLRLFAKDEEGYLKMAFNGNMAVK 407
Query: 416 CSKDIKVQGIIGPCASLEK-KGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEI 474
SKD+KVQG+IG ++++K S++ +G G TS WKM L S + FEI
Sbjct: 408 TSKDLKVQGLIGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANTAA 467
Query: 475 PDATLQSTNNQ------FYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQ 528
+ S Y QF+T YQH+ G R+RVTT++ + + P + A FDQ
Sbjct: 468 NSNPMMSAPGSADRPHLAYTQFITTYQHSSGTNRIRVTTVANQLL--PFGTPAIAASFDQ 525
Query: 529 EAAAVVMARLVSFKMEIE 546
EAAAV+MAR+ K E +
Sbjct: 526 EAAAVLMARIAVHKAETD 543
>pdb|2QTV|A Chain A, Structure Of Sec23-Sar1 Complexed With The Active Fragment
Of Sec31
Length = 772
Score = 391 bits (1004), Expect = e-109, Method: Compositional matrix adjust.
Identities = 215/558 (38%), Positives = 320/558 (57%), Gaps = 28/558 (5%)
Query: 2 TEFMDLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPLRC 61
++F E +GVR WNV P T+ +A++ VVPV +YTP+K + + + + PY P+ C
Sbjct: 5 SDFETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEY----DELNVAPYNPVVC 60
Query: 62 R--TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEP 119
C+SILNP+ ++D W CP C RNH PP Y +++ +N+P EL Q TTIEY
Sbjct: 61 SGPHCKSILNPYCVIDPRNSSWSCPICNSRNHLPPQYTNLSQENMPLEL--QSTTIEYIT 118
Query: 120 PGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHEL 179
P +VPP+F FVVD E + LK ++ ++ LLP N+L+GLIT+G +VQ+H+L
Sbjct: 119 NKP---VTVPPIFFFVVDLTSETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHDL 175
Query: 180 GGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDT---IARF 236
+ I + VF+G ++ + L E L +KP G + + + ++ T + RF
Sbjct: 176 SS--ETIDRCNVFRGDREYQLEALTEMLTG--QKPTGPGGAASHLPNAMNKVTPFSLNRF 231
Query: 237 LVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAF 296
+P EF LN +LE L D W VP R R TG+AL+IA+ LL C ARI+ F
Sbjct: 232 FLPLEQVEFKLNQLLENLSPDQWSVPAGHRPLRATGSALNIASLLLQGCYKNIPARIILF 291
Query: 297 VGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFA 356
GP T P IV+ L +P+RSH D+D D A HY KA KFY+ +++++ GH +D+FA
Sbjct: 292 ASGPGTVAPGLIVNSELKDPLRSHHDIDSDHAQHYKKACKFYNQIAQRVAANGHTVDIFA 351
Query: 357 CALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYD-LGLSSNGIFEIN 415
DQ+G++E+K + TGG+++L+D+F A+FK S R+F + L ++ NG +
Sbjct: 352 GCYDQIGMSEMKQLTDSTGGVLLLTDAFSTAIFKQSYLRLFAKDEEGYLKMAFNGNMAVK 411
Query: 416 CSKDIKVQGIIGPCASLEK-KGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEI 474
SKD+KVQG+IG ++++K S++ +G G TS WKM L S + FEI
Sbjct: 412 TSKDLKVQGLIGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANTAA 471
Query: 475 PDATLQSTNNQ------FYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQ 528
+ S Y QF+T YQH+ G R+RVTT++ + + P + A FDQ
Sbjct: 472 NSNPMMSAPGSADRPHLAYTQFITTYQHSSGTNRIRVTTVANQLL--PFGTPAIAASFDQ 529
Query: 529 EAAAVVMARLVSFKMEIE 546
EAAAV+MAR+ K E +
Sbjct: 530 EAAAVLMARIAVHKAETD 547
>pdb|2YRC|A Chain A, Solution Structure Of The Zf-Sec23_sec24 From Human Sec23a
Length = 59
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 26/44 (59%), Positives = 33/44 (75%)
Query: 63 TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPA 106
TCR++LNP VD+ AK+W C FC+QRN FPP YA I++ N PA
Sbjct: 16 TCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPA 59
>pdb|2YRD|A Chain A, Solution Structure Of The Zf-Sec23_sec24 From Human Sec23a
Mutant V69a
Length = 59
Score = 66.2 bits (160), Expect = 5e-11, Method: Composition-based stats.
Identities = 28/51 (54%), Positives = 35/51 (68%), Gaps = 2/51 (3%)
Query: 58 PLRCR--TCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPA 106
P+ C TCR+ LNP VD+ AK+W C FC+QRN FPP YA I++ N PA
Sbjct: 9 PVLCSRTTCRAALNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPA 59
>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 = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 126/536 (23%), Positives = 203/536 (37%), Gaps = 95/536 (17%)
Query: 20 IPGTKQEASNCVVPVSAIYTPIK---AFPVNNNSMPILPYAPLRCRTCRSILNPF-SIVD 75
IP T+ + +P+ + P K PV +S + RCR+CR+ +NPF S +D
Sbjct: 48 IPQTQALLNKAKLPLGLLLHPFKDLVQLPVVTSSTIV------RCRSCRTYINPFVSFLD 101
Query: 76 FAAKIWICPFCFQRNHFPPH--YASITDDNLPAELFP--QYTTIEYEPPGPGE-KSSVPP 130
+ W C C++ N P Y +T P Q TIE+ P + PP
Sbjct: 102 --QRRWKCNLCYRVNDVPEEFLYNPLTRVYGEPHRRPEVQNATIEFMAPSEYMLRPPQPP 159
Query: 131 VFMFVVDTCIIEEEMSFLKS---ALSQAIDLLPDNSL--VGLITFGTLVQVHELG-GFGQ 184
V++FV D E +L S +L +DLLP N+ +G ITF + + + L Q
Sbjct: 160 VYLFVFDVSHNAVETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYGLQESLSQ 219
Query: 185 IIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCE 244
P+ + +DV FI P+ ++ + + S + + L+
Sbjct: 220 --PQMLIVSDIEDV-----------FIPMPE---NLLVNLNE---SKELVQDLLKTLPQM 260
Query: 245 FTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEG 304
FT LE + G AL A L+ +G R+ F T G
Sbjct: 261 FT--KTLE--------------TQSALGPALQAAFKLMSP----TGGRMSVFQTQLPTLG 300
Query: 305 PAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGV 364
A+ K EP +H+ KD H + FY L+ Q +DLF + +
Sbjct: 301 VGAL--KPREEP--NHRSSAKDI--HMTPSTDFYKKLALDCSGQQVAVDLFLLSGQYSDL 354
Query: 365 AELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDL--GLSSNGIFEINCSKDIKV 422
A L + G V S+ H V+++ L + + I C+K + +
Sbjct: 355 ASLGCISRYSAGSVYYYPSYHHQHNPVQVQKLQKELQRYLTRKIGFEAVMRIRCTKGLSI 414
Query: 423 QGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDATLQST 482
G + L S V A +M V++ + D L S
Sbjct: 415 HTFHG--NFFVRSTDLLSLPNVNPDAGYAVQMS--------------VEESLTDTQLVS- 457
Query: 483 NNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARL 538
FQ Y + G+ R+RV TL V+ ++ D+ G D +A + ++A +
Sbjct: 458 -----FQSALLYTSSKGERRIRVHTLCLPVVS---TLNDVFLGADVQAISGLLANM 505
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 123/535 (22%), Positives = 201/535 (37%), Gaps = 93/535 (17%)
Query: 20 IPGTKQEASNCVVPVSAIYTPIK---AFPVNNNSMPILPYAPLRCRTCRSILNPF-SIVD 75
IP T+ + +P+ + P K PV +S + RCR+CR+ +NPF S +D
Sbjct: 53 IPQTQALLNKAKLPLGLLLHPFKDLVQLPVVTSSTIV------RCRSCRTYINPFVSFLD 106
Query: 76 FAAKIWICPFCFQRNHFPPH--YASITDDNLPAELFP--QYTTIEYEPPGPGE-KSSVPP 130
+ W C C++ N P Y +T P Q TIE+ P + PP
Sbjct: 107 --QRRWKCNLCYRVNDVPEEFLYNPLTRVYGEPHRRPEVQNATIEFMAPSEYMLRPPQPP 164
Query: 131 VFMFVVDTCIIEEEMSFLKS---ALSQAIDLLPDNSL--VGLITFGTLVQVHELGGFGQI 185
V++FV D E +L S +L +DLLP N+ +G ITF + + + L
Sbjct: 165 VYLFVFDVSHNAVETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYGL------ 218
Query: 186 IPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEF 245
+ +S+ Q+L +++ + D F+ +
Sbjct: 219 ---------QESLSQPQML---------------IVSDIEDV--------FIPMPENLLV 246
Query: 246 TLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGP 305
LN E +Q +P T T +AL A + +G R+ F T G
Sbjct: 247 NLNESKELVQDLLKTLPQMFTKTLETQSALGPALQAAFKLMSPTGGRMSVFQTQLPTLGV 306
Query: 306 AAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVA 365
A+ K EP +H+ KD H + FY L+ Q +DLF + +A
Sbjct: 307 GAL--KPREEP--NHRSSAKDI--HMTPSTDFYKKLALDCSGQQVAVDLFLLSGQYSDLA 360
Query: 366 ELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDL--GLSSNGIFEINCSKDIKVQ 423
L + G V S+ H V+++ L + + I C+K + +
Sbjct: 361 SLGCISRYSAGSVYYYPSYHHQHNPVQVQKLQKELQRYLTRKIGFEAVMRIRCTKGLSIH 420
Query: 424 GIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDATLQSTN 483
G + L S V A +M V++ + D L S
Sbjct: 421 TFHG--NFFVRSTDLLSLPNVNPDAGYAVQMS--------------VEESLTDTQLVS-- 462
Query: 484 NQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARL 538
FQ Y + G+ R+RV TL V+ ++ D+ G D +A + ++A +
Sbjct: 463 ----FQSALLYTSSKGERRIRVHTLCLPVVS---TLNDVFLGADVQAISGLLANM 510
>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 = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 110/508 (21%), Positives = 178/508 (35%), Gaps = 78/508 (15%)
Query: 20 IPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYA---PLRCRTCRSILNPFSIVDF 76
IP T A VP++A+ P+ P S ++ + PLRC C++ + PF
Sbjct: 53 IPCTSDMAKQAQVPLAAVIKPLARLPPEEASPYVVDHGESGPLRCNRCKAYMCPFMQFIE 112
Query: 77 AAKIWICPFCFQRNHFPPHYASITD---DNLPAELFPQYTTIEYEPPG-----PGEKSSV 128
+ + C FC N PP Y D + A P+ + YE K
Sbjct: 113 GGRRFQCCFCSCINDVPPQYFQHLDHTGKRVDAYDRPELSLGSYEFLATVDYCKNNKFPS 172
Query: 129 PPVFMFVVD---TCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQI 185
PP F+F++D I + L L +D LP E G
Sbjct: 173 PPAFIFMIDVSYNAIRTGLVRLLCEELKSLLDFLP----------------REGGAEESA 216
Query: 186 IPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEF 245
I + V+ +++L N +P V++ V D + + FLV +
Sbjct: 217 IRVGF-------VTYNKVLHFYNVKSSLAQPQMMVVSDVAD-MFVPLLDGFLVNVNESRA 268
Query: 246 TLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGP 305
+ S+L+++ + + D R T + A +G L P E P
Sbjct: 269 VITSLLDQIPE----MFADTRETETVFVPVIQAGMEALKAAECAGKLFLFHTSLPIAEAP 324
Query: 306 AAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVA 365
+ +++ + I + K+ + Y L+K+ V QG +DLF V VA
Sbjct: 325 GKLKNRDDRKLINTDKE-----KTLFQPQTGAYQTLAKECVAQGCCVDLFLFPNQYVDVA 379
Query: 366 ELKVAVEKTGGLVVLSDSF----GHAVFKDSVRRVFHSGDYDLGLSSNGIFEINCSKDIK 421
L V + TGG V SF F +RR D + + + + S I+
Sbjct: 380 TLSVVPQLTGGSVYKYASFQVENDQERFLSDLRR-----DVQKVVGFDAVMRVRTSTGIR 434
Query: 422 VQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDATLQS 481
G NT+ ++ GLD ++ + F+ D L
Sbjct: 435 AVDFFG---------------AFYMSNTTDVELAGLDGDKTVTVEFK------HDDRLNE 473
Query: 482 TNNQFYFQFLTYYQHNCGQMRLRVTTLS 509
+ Q Y GQ RLR+ L+
Sbjct: 474 ESGAL-LQCALLYTSCAGQRRLRIHNLA 500
>pdb|3EH1|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24b
Length = 751
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 121/557 (21%), Positives = 206/557 (36%), Gaps = 118/557 (21%)
Query: 11 DGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPL-RCRTCRSILN 69
D R IP T+ + +P+ + P + +P++ + RCR+CR+ +N
Sbjct: 41 DSFRCTLTNIPQTQALLNKAKLPLGLLLHPFRDL----TQLPVITSNTIVRCRSCRTYIN 96
Query: 70 PF-SIVDFAAKIWICPFCFQRNHFPPH--YASITDDNLPAELFP--QYTTIEY------- 117
PF S +D + W C C++ N P Y +T P Q +T+E+
Sbjct: 97 PFVSFID--QRRWKCNLCYRVNDVPEEFMYNPLTRSYGEPHKRPEVQNSTVEFIASSDYM 154
Query: 118 -EPPGPGEKSSVPPVFMFVVDTCIIEEEMSFLK---SALSQAIDLLPDNS--LVGLITFG 171
PP P V++FV+D E +L +L + +D LP +S +G +TF
Sbjct: 155 LRPPQPA-------VYLFVLDVSHNAVEAGYLTILCQSLLENLDKLPGDSRTRIGFMTFD 207
Query: 172 TLVQVHELG-GFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSS 230
+ + + L G Q P+ + DV F+ P D L
Sbjct: 208 STIHFYNLQEGLSQ--PQMLIVSDIDDV-----------FLPTP-----------DSL-- 241
Query: 231 DTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQ-RSTRCTGTALSIAASLLGACVPGS 289
LV ++ +EL KD P+ +TR T +AL A + +
Sbjct: 242 ------LVNLYES--------KELIKDLLNALPNMFTNTRETHSALGPALQAAFKLMSPT 287
Query: 290 GARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQG 349
G R+ F + G + S+ S K + H A FY L+ Q
Sbjct: 288 GGRVSVFQTQLPSLGAGLLQSREDPNQRSSTKVVQ-----HLGPATDFYKKLALDCSGQQ 342
Query: 350 HVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHA--------VFKDSVRRVFHSGD 401
+DLF + +A L + + G + SF + + KD R +
Sbjct: 343 TAVDLFLLSSQYSDLASLACMSKYSAGCIYYYPSFHYTHNPSQAEKLQKDLKRYLTRKIG 402
Query: 402 YDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKAT 461
++ + I C+K + + G + L S A + A ++
Sbjct: 403 FE------AVMRIRCTKGLSMHTFHG--NFFVRSTDLLSLANINPDAGFAVQLS------ 448
Query: 462 SLCLVFEIVKKEIPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQD 521
+++ + D +L FQ Y + G+ R+RV TL V+ S+ D
Sbjct: 449 --------IEESLTDTSL------VCFQTALLYTSSKGERRIRVHTLCLPVVS---SLAD 491
Query: 522 LIAGFDQEAAAVVMARL 538
+ AG D +AA ++A +
Sbjct: 492 VYAGVDVQAAICLLANM 508
>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 = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 82/395 (20%), Positives = 151/395 (38%), Gaps = 65/395 (16%)
Query: 13 VRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYA---PLRCRTCRSILN 69
+R P T A +P++A+ P P N + + ++ + P+RC C++ +
Sbjct: 50 IRCTTYCFPCTSDMAKQAQIPLAAVIKPFATIPSNESPLYLVNHGESGPVRCNRCKAYMC 109
Query: 70 PFSIVDFAAKIWICPFCFQRNHFPPHYASITDD-----------NLPAELFPQYTTIEY- 117
PF + + C FC N PP Y D L + T++Y
Sbjct: 110 PFMQFIEGGRRYQCGFCNCVNDVPPFYFQHLDHIGRRLDHYEKPELSLGSYEYVATLDYC 169
Query: 118 ---EPPGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTLV 174
+PP PP F+F++D S +K N LV LI
Sbjct: 170 RKSKPPN-------PPAFIFMIDV-----SYSNIK------------NGLVKLI------ 199
Query: 175 QVHELGGFGQIIPKTYVFKGSKD----VSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSS 230
EL + IPK + S ++ +++L N +P V+ V +
Sbjct: 200 -CEELKTMLEKIPKEEQEETSAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVGEVFVP 258
Query: 231 DTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSG 290
+ FLV + + ++++L+++ D + ++ T + +L A PG
Sbjct: 259 -LLDGFLVNYQESQSVIHNLLDQI-PDMF-ADSNENETVFAPVIQAGMEALKAADCPG-- 313
Query: 291 ARILAFVGG-PSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQG 349
++ F P+ E P + +++ + + + K+ + YD+L+K V G
Sbjct: 314 -KLFIFHSSLPTAEAPGKLKNRDDKKLVNTDKE-----KILFQPQTNVYDSLAKDCVAHG 367
Query: 350 HVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSF 384
+ LF V VA L + + TGG + ++F
Sbjct: 368 CSVTLFLFPSQYVDVASLGLVPQLTGGTLYKYNNF 402
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 57/140 (40%), Gaps = 15/140 (10%)
Query: 31 VVPVSAIYTPIKAFPVNNNSMPILPYAPLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90
+ P +Y I P+N + + + RCR CRS +NPF + W C FC N
Sbjct: 91 IRPYQHLYDDIDPPPLNEDGLIV------RCRRCRSYMNPFVTFIEQGRRWRCNFCRLAN 144
Query: 91 HFPPHYASITDDNLPAELFPQY----TTIEYEPPGPGEKSSVPP-VFMFVVDTCIIEEEM 145
P +D N P + + +EY P PP + F++D +
Sbjct: 145 DVPMQMDQ-SDPNDPKSRYDRNEIKCAVMEYMAPKEYTLRQPPPATYCFLIDVSQSSIKS 203
Query: 146 SFLKSALS---QAIDLLPDN 162
L + ++ Q +D +P++
Sbjct: 204 GLLATTINTLLQNLDSIPNH 223
>pdb|1M2V|B Chain B, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 926
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 57/140 (40%), Gaps = 15/140 (10%)
Query: 31 VVPVSAIYTPIKAFPVNNNSMPILPYAPLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90
+ P +Y I P+N + + + RCR CRS +NPF + W C FC N
Sbjct: 207 IRPYQHLYDDIDPPPLNEDGLIV------RCRRCRSYMNPFVTFIEQGRRWRCNFCRLAN 260
Query: 91 HFPPHYASITDDNLPAELFPQY----TTIEYEPPGPGEKSSVPP-VFMFVVDTCIIEEEM 145
P +D N P + + +EY P PP + F++D +
Sbjct: 261 DVPMQMDQ-SDPNDPKSRYDRNEIKCAVMEYMAPKEYTLRQPPPATYCFLIDVSQSSIKS 319
Query: 146 SFLKSALS---QAIDLLPDN 162
L + ++ Q +D +P++
Sbjct: 320 GLLATTINTLLQNLDSIPNH 339
>pdb|1T3Q|B Chain B, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
pdb|1T3Q|E Chain E, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
Length = 788
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 246 TLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGP 305
T+N +LEE+ +P Q R G L + S+ V G+G R L+F+G P+T
Sbjct: 429 TIN-LLEEM-VNPEAFRQRQAEARARGKYLGLGVSVFNE-VTGTGTRTLSFLGTPTTTHD 485
Query: 306 AAIV 309
+A V
Sbjct: 486 SATV 489
>pdb|2Z2U|A Chain A, Crystal Structure Of Archaeal Tyw1
Length = 311
Score = 28.9 bits (63), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%)
Query: 342 SKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGD 401
K L ++ +A LD+VG + K A+E + LS + D + ++FH
Sbjct: 97 EKILAMHKRIIMGYAGVLDRVGEKKFKEALEPKHVAISLSGEPTLYPYLDELIKIFHKNG 156
Query: 402 YDLGLSSNGIF 412
+ + SNGI
Sbjct: 157 FTTFVVSNGIL 167
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
0.321 0.137 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,882,884
Number of Sequences: 62578
Number of extensions: 710950
Number of successful extensions: 1522
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1471
Number of HSP's gapped (non-prelim): 21
length of query: 561
length of database: 14,973,337
effective HSP length: 104
effective length of query: 457
effective length of database: 8,465,225
effective search space: 3868607825
effective search space used: 3868607825
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)