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= 012148
(470 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 = 356 bits (914), Expect = 1e-98, Method: Compositional matrix adjust.
Identities = 187/418 (44%), Positives = 262/418 (62%), Gaps = 28/418 (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+KD+S QL E L P T G V+ S+
Sbjct: 173 VQVHELGCEG--ISKSYVFRGTKDLSAKQLQEMLGL---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---GDYDLGL 406
+D++ACALDQ G+ E+K TGG +V+ DSF ++FK + +RVF G + +G
Sbjct: 345 IDIYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGF 402
>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 = 356 bits (913), Expect = 2e-98, Method: Compositional matrix adjust.
Identities = 187/418 (44%), Positives = 262/418 (62%), Gaps = 28/418 (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---GDYDLGL 406
+D++ACALDQ G+ E+K TGG +V+ DSF ++FK + +RVF G + +G
Sbjct: 349 IDIYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGF 406
>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 = 353 bits (907), Expect = 1e-97, Method: Compositional matrix adjust.
Identities = 186/418 (44%), Positives = 261/418 (62%), Gaps = 28/418 (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---GDYDLGL 406
+D++ACALDQ G+ E+K TGG +V+ DSF ++FK + +RVF G + +G
Sbjct: 345 IDIYACALDQTGLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGF 402
>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 = 312 bits (799), Expect = 3e-85, Method: Compositional matrix adjust.
Identities = 161/401 (40%), Positives = 238/401 (59%), Gaps = 21/401 (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 RT--CRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEP 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 S--SETIDRCNVFRGDREYQLEALTEMLTG--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 CALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF 397
DQ+G++E+K + TGG+++L+D+F A+FK S R+F
Sbjct: 348 GCYDQIGMSEMKQLTDSTGGVLLLTDAFSTAIFKQSYLRLF 388
>pdb|2QTV|A Chain A, Structure Of Sec23-Sar1 Complexed With The Active Fragment
Of Sec31
Length = 772
Score = 312 bits (799), Expect = 3e-85, Method: Compositional matrix adjust.
Identities = 160/401 (39%), Positives = 239/401 (59%), Gaps = 18/401 (4%)
Query: 2 TEFMDLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPLRC 61
++F E +GVR WNV P T+ +A++ VVPV +YTP+K + + + + PY P+ C
Sbjct: 5 SDFETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEY----DELNVAPYNPVVC 60
Query: 62 RT--CRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEP 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 CALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF 397
DQ+G++E+K + TGG+++L+D+F A+FK S R+F
Sbjct: 352 GCYDQIGMSEMKQLTDSTGGVLLLTDAFSTAIFKQSYLRLF 392
>pdb|2YRC|A Chain A, Solution Structure Of The Zf-Sec23_sec24 From Human Sec23a
Length = 59
Score = 68.2 bits (165), Expect = 1e-11, Method: Composition-based stats.
Identities = 28/51 (54%), Positives = 36/51 (70%), 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 PVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPA 59
>pdb|2YRD|A Chain A, Solution Structure Of The Zf-Sec23_sec24 From Human Sec23a
Mutant V69a
Length = 59
Score = 66.6 bits (161), Expect = 3e-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|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 = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 88/386 (22%), Positives = 141/386 (36%), Gaps = 47/386 (12%)
Query: 13 VRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYA---PLRCRTCRSILN 69
+R IP T A VP++A+ P+ P S ++ + PLRC C++ +
Sbjct: 46 IRCTSYNIPCTSDMAKQAQVPLAAVIKPLARLPPEEASPYVVDHGESGPLRCNRCKAYMC 105
Query: 70 PFSIVDFAAKIWICPFCFQRNHFPPHYASITD---DNLPAELFPQYTTIEYE-----PPG 121
PF + + C FC N PP Y D + A P+ + YE
Sbjct: 106 PFMQFIEGGRRFQCCFCSCINDVPPQYFQHLDHTGKRVDAYDRPELSLGSYEFLATVDYC 165
Query: 122 PGEKSSVPPVFMFVVD---TCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHE 178
K PP F+F++D I + L L +D LP E
Sbjct: 166 KNNKFPSPPAFIFMIDVSYNAIRTGLVRLLCEELKSLLDFLP----------------RE 209
Query: 179 LGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLV 238
G I + V+ +++L N +P V++ V D + + FLV
Sbjct: 210 GGAEESAIRVGF-------VTYNKVLHFYNVKSSLAQPQMMVVSDVAD-MFVPLLDGFLV 261
Query: 239 PAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVG 298
+ + S+L+++ + + D R T + A +G L
Sbjct: 262 NVNESRAVITSLLDQIPE----MFADTRETETVFVPVIQAGMEALKAAECAGKLFLFHTS 317
Query: 299 GPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACA 358
P E P + +++ + I + K+ + Y L+K+ V QG +DLF
Sbjct: 318 LPIAEAPGKLKNRDDRKLINTDKE-----KTLFQPQTGAYQTLAKECVAQGCCVDLFLFP 372
Query: 359 LDQVGVAELKVAVEKTGGLVVLSDSF 384
V VA L V + TGG V SF
Sbjct: 373 NQYVDVATLSVVPQLTGGSVYKYASF 398
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 99/413 (23%), Positives = 157/413 (38%), Gaps = 68/413 (16%)
Query: 14 RMPWNVIPGTKQEASNCVVPVSAIYTPIK---AFPVNNNSMPILPYAPLRCRTCRSILNP 70
R IP T+ + +P+ + P K PV +S + RCR+CR+ +NP
Sbjct: 47 RCTLTSIPQTQALLNKAKLPLGLLLHPFKDLVQLPVVTSSTIV------RCRSCRTYINP 100
Query: 71 F-SIVDFAAKIWICPFCFQRNHFPPH--YASITDDNLPAELFP--QYTTIEYEPPGPGE- 124
F S +D + W C C++ N P Y +T P Q TIE+ P
Sbjct: 101 FVSFLD--QRRWKCNLCYRVNDVPEEFLYNPLTRVYGEPHRRPEVQNATIEFMAPSEYML 158
Query: 125 KSSVPPVFMFVVDTCIIEEEMSFLKS---ALSQAIDLLPDNSL--VGLITFGTLVQVHEL 179
+ PPV++FV D E +L S +L +DLLP N+ +G ITF + + + L
Sbjct: 159 RPPQPPVYLFVFDVSHNAVETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYGL 218
Query: 180 GGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVP 239
+ +S+ Q+L +++ + D F+
Sbjct: 219 ---------------QESLSQPQML---------------IVSDIEDV--------FIPM 240
Query: 240 AFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGG 299
+ LN E +Q +P T T +AL A + +G R+ F
Sbjct: 241 PENLLVNLNESKELVQDLLKTLPQMFTKTLETQSALGPALQAAFKLMSPTGGRMSVFQTQ 300
Query: 300 PSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACAL 359
T G A+ K EP +H+ KD H + FY L+ Q +DLF +
Sbjct: 301 LPTLGVGAL--KPREEP--NHRSSAKDI--HMTPSTDFYKKLALDCSGQQVAVDLFLLSG 354
Query: 360 DQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDLGLSSKYGF 412
+A L + G V S+ H V+++ + L+ K GF
Sbjct: 355 QYSDLASLGCISRYSAGSVYYYPSYHHQHNPVQVQKL--QKELQRYLTRKIGF 405
>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 = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 99/413 (23%), Positives = 157/413 (38%), Gaps = 68/413 (16%)
Query: 14 RMPWNVIPGTKQEASNCVVPVSAIYTPIK---AFPVNNNSMPILPYAPLRCRTCRSILNP 70
R IP T+ + +P+ + P K PV +S + RCR+CR+ +NP
Sbjct: 42 RCTLTSIPQTQALLNKAKLPLGLLLHPFKDLVQLPVVTSSTIV------RCRSCRTYINP 95
Query: 71 F-SIVDFAAKIWICPFCFQRNHFPPH--YASITDDNLPAELFP--QYTTIEYEPPGPGE- 124
F S +D + W C C++ N P Y +T P Q TIE+ P
Sbjct: 96 FVSFLD--QRRWKCNLCYRVNDVPEEFLYNPLTRVYGEPHRRPEVQNATIEFMAPSEYML 153
Query: 125 KSSVPPVFMFVVDTCIIEEEMSFLKS---ALSQAIDLLPDNSL--VGLITFGTLVQVHEL 179
+ PPV++FV D E +L S +L +DLLP N+ +G ITF + + + L
Sbjct: 154 RPPQPPVYLFVFDVSHNAVETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYGL 213
Query: 180 GGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVP 239
+ +S+ Q+L +++ + D F+
Sbjct: 214 ---------------QESLSQPQML---------------IVSDIEDV--------FIPM 235
Query: 240 AFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGG 299
+ LN E +Q +P T T +AL A + +G R+ F
Sbjct: 236 PENLLVNLNESKELVQDLLKTLPQMFTKTLETQSALGPALQAAFKLMSPTGGRMSVFQTQ 295
Query: 300 PSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACAL 359
T G A+ K EP +H+ KD H + FY L+ Q +DLF +
Sbjct: 296 LPTLGVGAL--KPREEP--NHRSSAKDI--HMTPSTDFYKKLALDCSGQQVAVDLFLLSG 349
Query: 360 DQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDLGLSSKYGF 412
+A L + G V S+ H V+++ + L+ K GF
Sbjct: 350 QYSDLASLGCISRYSAGSVYYYPSYHHQHNPVQVQKL--QKELQRYLTRKIGF 400
>pdb|3EH1|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24b
Length = 751
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 95/423 (22%), Positives = 156/423 (36%), Gaps = 81/423 (19%)
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 HVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDLGLSSK 409
+DLF + +A L + + G + SF + ++ D L+ K
Sbjct: 343 TAVDLFLLSSQYSDLASLACMSKYSAGCIYYYPSFHYTHNPSQAEKL--QKDLKRYLTRK 400
Query: 410 YGF 412
GF
Sbjct: 401 IGF 403
>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 = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 82/395 (20%), Positives = 152/395 (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 -CEELKTMLEKIPKEEQEETSAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVGE-VFV 257
Query: 231 DTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSG 290
+ FLV + + ++++L+++ D + ++ T + +L A PG
Sbjct: 258 PLLDGFLVNYQESQSVIHNLLDQI-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|1M2V|B Chain B, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 926
Score = 43.5 bits (101), Expect = 2e-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|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 = 37/167 (22%), Positives = 63/167 (37%), Gaps = 22/167 (13%)
Query: 11 DGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAF-------PVNNNSMPILPYAPLRCRT 63
D +R N +P +P + P + P+N + + + RCR
Sbjct: 64 DYIRSTLNAVPKNSSLLKKSKLPFGLVIRPYQHLYDDIDPPPLNEDGLIV------RCRR 117
Query: 64 CRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQY----TTIEYEP 119
CRS +NPF + W C FC N P +D N P + + +EY
Sbjct: 118 CRSYMNPFVTFIEQGRRWRCNFCRLANDVPMQMDQ-SDPNDPKSRYDRNEIKCAVMEYMA 176
Query: 120 PGPGEKSSVPP-VFMFVVDTCIIEEEMSFLKSALS---QAIDLLPDN 162
P PP + F++D + L + ++ Q +D +P++
Sbjct: 177 PKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNLDSIPNH 223
>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 = 3.7, 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|2E18|A Chain A, Crystal Structure Of Project Ph0182 From Pyrococcus
Horikoshii Ot3
pdb|2E18|B Chain B, Crystal Structure Of Project Ph0182 From Pyrococcus
Horikoshii Ot3
Length = 257
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 201 DQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVL 251
D+++E++ FI++ K + GV+ G+ G+ S T+A A E L ++
Sbjct: 7 DKVIERILEFIRE-KGNNGVVIGISGGVDSATVAYLATKALGKEKVLGLIM 56
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
0.322 0.139 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,900,251
Number of Sequences: 62578
Number of extensions: 576428
Number of successful extensions: 1220
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1184
Number of HSP's gapped (non-prelim): 21
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
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: 53 (25.0 bits)