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= 006996
(622 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KYC|B Chain B, Human Sumo E1 Complex With A Sumo1-Amp Mimic
Length = 660
Score = 345 bits (884), Expect = 6e-95, Method: Compositional matrix adjust.
Identities = 220/595 (36%), Positives = 334/595 (56%), Gaps = 58/595 (9%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
ID+DTI+VSNLNRQFLF++ HVG+SKA+VA+++VL+F P+ +I A+H ++ +P +NVEFF
Sbjct: 67 IDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFF 126
Query: 72 KQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHVKGKTECYECQPKPA 131
+QF +V+N LDN AR HVNR+CLAADVPL+ESGT G+LGQVT KG TECYEC PKP
Sbjct: 127 RQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPT 186
Query: 132 PKTYPVCTITSTPSKFVHCIVWAKDLLFAKLFGDKNQENDLNVRXXXXXXXXXXEDVFVR 191
+T+P CTI +TPS+ +HCIVWAK LF +LFG+++ + +++ + R
Sbjct: 187 QRTFPGCTIRNTPSEPIHCIVWAK-YLFNQLFGEEDADQEVSPDRADPEAAWEPTEAEAR 245
Query: 192 RK----DEDIDQYGRRIYDHVFGY------------NIEVASSNEETWKNRNRPKPIYSA 235
+ D DI + + + GY +I + ++ W+ R P P+ A
Sbjct: 246 ARACNEDGDIKRISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWA 305
Query: 236 DVMPENLTEQNGNVAKNCVVDTSSVSAMASLGLKNPQDTWTLLESSRIF---LEALKLFF 292
+V + E N + +N LGLK+ Q + +R+F +E L++
Sbjct: 306 EVQSQG-EETNASDQQN----------EPQLGLKD-QQVLDVKSYARLFSKSIETLRVHL 353
Query: 293 AKREKEIGNLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNIVHAVATTNA 352
A++ + L +DKDD A++FVT+AAN+R F +++ S F+ K +AGNI+ A+ATTNA
Sbjct: 354 AEK-GDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNA 412
Query: 353 IIAGLIVIEAIKVLLKDTDKYRMTYCLEHIT-KKMLLMPVEPYEPNKSCYVCSETP-LSL 410
+IAGLIV+E +K+L D+ R + + +K LL+P PN +CYVC+ P +++
Sbjct: 413 VIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTV 472
Query: 411 EINTSRSKLRDFVEKIVKAKLGINFPLIMHGSNLLYEVGDDLDEVEVANYAANLEKVLSQ 470
+N + + +KIVK K F ++ + G L E AN K LS+
Sbjct: 473 RLNVHKVTVLTLQDKIVKEK----FAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSE 528
Query: 471 LPSPVTNGTMLTVEDLQQELTCNINIKHREEFDEEKEPDGMLLSGWTQAPPAKDDKQSMN 530
+ NG+ L +D Q+ T INI H E+ ++ E + + AP KQ+ +
Sbjct: 529 F--GIRNGSRLQADDFLQDYTLLINILHSEDLGKDVEFEVV-----GDAPEKVGPKQAED 581
Query: 531 DKQSIGNGGD-----SSNALQTEPADAVKDGEMEEIS-------EPSGKKRKLSE 573
+SI NG D S++ Q + + D + E+ S E +KRKL E
Sbjct: 582 AAKSITNGSDDGAQPSTSTAQEQDDVLIVDSDEEDSSNNADVSEEERSRKRKLDE 636
>pdb|1Y8Q|B Chain B, Sumo E1 Activating Enzyme Sae1-Sae2-Mg-Atp Complex
pdb|1Y8Q|D Chain D, Sumo E1 Activating Enzyme Sae1-Sae2-Mg-Atp Complex
pdb|1Y8R|B Chain B, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
pdb|1Y8R|E Chain E, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
Length = 640
Score = 342 bits (877), Expect = 4e-94, Method: Compositional matrix adjust.
Identities = 221/595 (37%), Positives = 334/595 (56%), Gaps = 58/595 (9%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
ID+DTI+VSNLNRQFLF++ HVG+SKA+VA+++VL+F P+ +I A+H ++ +P +NVEFF
Sbjct: 47 IDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFF 106
Query: 72 KQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHVKGKTECYECQPKPA 131
+QF +V+N LDN AR HVNR+CLAADVPL+ESGT G+LGQVT KG TECYEC PKP
Sbjct: 107 RQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPT 166
Query: 132 PKTYPVCTITSTPSKFVHCIVWAKDLLFAKLFG--DKNQENDLNVRXXXXXXXXXXEDVF 189
+T+P TI +TPS+ +HCIVWAK LF +LFG D +QE + +
Sbjct: 167 QRTFPGATIRNTPSEPIHCIVWAK-YLFNQLFGEEDADQEVSPDRADPEAAWEPTEAEAR 225
Query: 190 VRRKDEDID-------QYGR-------RIYDHVFGYNIEVASSNEETWKNRNRPKPIYSA 235
R +ED D ++ + +++ +F +I + ++ W+ R P P+ A
Sbjct: 226 ARASNEDGDIKRISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWA 285
Query: 236 DVMPENLTEQNGNVAKNCVVDTSSVSAMASLGLKNPQDTWTLLESSRIF---LEALKLFF 292
+V + E N + +N LGLK+ Q + +R+F +E L++
Sbjct: 286 EVQSQG-EETNASDQQN----------EPQLGLKD-QQVLDVKSYARLFSKSIETLRVHL 333
Query: 293 AKREKEIGNLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNIVHAVATTNA 352
A++ + L +DKDD A++FVT+AAN+R F +++ S F+ K +AGNI+ A+ATTNA
Sbjct: 334 AEK-GDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNA 392
Query: 353 IIAGLIVIEAIKVLLKDTDKYRMTYCLEHIT-KKMLLMPVEPYEPNKSCYVCSETP-LSL 410
+IAGLIV+E +K+L D+ R + + +K LL+P PN +CYVC+ P +++
Sbjct: 393 VIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTV 452
Query: 411 EINTSRSKLRDFVEKIVKAKLGINFPLIMHGSNLLYEVGDDLDEVEVANYAANLEKVLSQ 470
+N + + +KIVK K F ++ + G L E AN K LS+
Sbjct: 453 RLNVHKVTVLTLQDKIVKEK----FAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSE 508
Query: 471 LPSPVTNGTMLTVEDLQQELTCNINIKHREEFDEEKEPDGMLLSGWTQAPPAKDDKQSMN 530
+ NG+ L +D Q+ T INI H E+ ++ E + + AP KQ+ +
Sbjct: 509 F--GIRNGSRLQADDFLQDYTLLINILHSEDLGKDVEFEVV-----GDAPEKVGPKQAED 561
Query: 531 DKQSIGNGGD-----SSNALQTEPADAVKDGEMEEIS-------EPSGKKRKLSE 573
+SI NG D S++ Q + + D + E+ S E +KRKL E
Sbjct: 562 AAKSITNGSDDGAQPSTSTAQEQDDVLIVDSDEEDSSNNADVSEEERSRKRKLDE 616
>pdb|3KYD|B Chain B, Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mimic
Length = 551
Score = 336 bits (862), Expect = 2e-92, Method: Compositional matrix adjust.
Identities = 200/517 (38%), Positives = 302/517 (58%), Gaps = 41/517 (7%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
ID+DTI+VSNLNRQFLF++ HVG+SKA+VA+++VL+F P+ +I A+H ++ +P +NVEFF
Sbjct: 49 IDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFF 108
Query: 72 KQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHVKGKTECYECQPKPA 131
+QF +V+N LDN AR HVNR+CLAADVPL+ESGT G+LGQVT KG TECYEC PKP
Sbjct: 109 RQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPT 168
Query: 132 PKTYPVCTITSTPSKFVHCIVWAKDLLFAKLFGDKNQENDLNVRXXXXXXXXXXEDVFVR 191
+T+P CTI +TPS+ +HCIVWAK LF +LFG+++ + +++ + R
Sbjct: 169 QRTFPGCTIRNTPSEPIHCIVWAK-YLFNQLFGEEDADQEVSPDRADPEAAWEPTEAEAR 227
Query: 192 RK----DEDIDQYGRRIYDHVFGY------------NIEVASSNEETWKNRNRPKPIYSA 235
+ D DI + + + GY +I + ++ W+ R P P+ A
Sbjct: 228 ARACNEDGDIKRISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWA 287
Query: 236 DVMPENLTEQNGNVAKNCVVDTSSVSAMASLGLKNPQDTWTLLESSRIF---LEALKLFF 292
+V + E N + +N LGLK+ Q + +R+F +E L++
Sbjct: 288 EVQSQG-EETNASDQQN----------EPQLGLKD-QQVLDVKSYARLFSKSIETLRVHL 335
Query: 293 AKREKEIGNLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNIVHAVATTNA 352
A++ + L +DKDD A++FVT+AAN+R F +++ S F+ K +AGNI+ A+ATTNA
Sbjct: 336 AEK-GDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNA 394
Query: 353 IIAGLIVIEAIKVLLKDTDKYRMTYCLEHIT-KKMLLMPVEPYEPNKSCYVCSETP-LSL 410
+IAGLIV+E +K+L D+ R + + +K LL+P PN +CYVC+ P +++
Sbjct: 395 VIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTV 454
Query: 411 EINTSRSKLRDFVEKIVKAKLGINFPLIMHGSNLLYEVGDDLDEVEVANYAANLEKVLSQ 470
+N + + +KIVK K F ++ + G L E AN K LS+
Sbjct: 455 RLNVHKVTVLTLQDKIVKEK----FAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSE 510
Query: 471 LPSPVTNGTMLTVEDLQQELTCNINIKHREEFDEEKE 507
+ NG+ L +D Q+ T INI H E+ ++ E
Sbjct: 511 F--GIRNGSRLQADDFLQDYTLLINILHSEDLGKDVE 545
>pdb|4II2|A Chain A, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1)
In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg
pdb|4II3|A Chain A, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
pdb|4II3|C Chain C, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
Length = 1001
Score = 124 bits (311), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 84/250 (33%), Positives = 121/250 (48%), Gaps = 30/250 (12%)
Query: 13 DMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMS--ITAHHANV---KDPKFN 67
DMD+IE SNLNRQFLFR VG+ K++ A AV P ++ IT++ V + F
Sbjct: 452 DMDSIEKSNLNRQFLFRPRDVGKLKSECASTAVSIMNPSLTGKITSYQERVGPESEGIFG 511
Query: 68 VEFFKQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHVKGKTECYECQ 127
EFF++ ++V N LDN++AR +V+R C+ + PL+ESGT G G V V TE Y
Sbjct: 512 DEFFEKLSLVTNALDNVEARMYVDRRCVFFEKPLLESGTLGTKGNTQVVVPHLTESYGSS 571
Query: 128 PKPAPKTYPVCTITSTPSKFVHCIVWAKDL---LFAKLFGDKNQ--------ENDLNVRX 176
P K++P+CT+ + P++ H I WA+DL LF + + N E L
Sbjct: 572 QDPPEKSFPICTLKNFPNRIEHTIAWARDLFEGLFKQPIDNVNMYLSSPNFLETSLKTSS 631
Query: 177 XXXXXXXXXEDVFVRRKD---EDIDQYGRRIYDHVFGYNIE----------VASSNEETW 223
D V K E+ + R +D F NI+ V S+ + W
Sbjct: 632 NPREVLENIRDYLVTEKPLSFEECIMWARLQFDKFFNNNIQQLLFNFPKDSVTSTGQPFW 691
Query: 224 KNRNR-PKPI 232
R P P+
Sbjct: 692 SGPKRAPTPL 701
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 46/65 (70%), Gaps = 2/65 (3%)
Query: 304 FDKDDQL--AVEFVTAAANIRAASFGISLHSLFEAKGIAGNIVHAVATTNAIIAGLIVIE 361
F+KDD ++F+TAA+N+RA ++ I+ F+ K +AG IV A+ T+ A+++GL+ +E
Sbjct: 799 FEKDDDSNHHIDFITAASNLRAMNYDITPADRFKTKFVAGKIVPAMCTSTAVVSGLVCLE 858
Query: 362 AIKVL 366
+K++
Sbjct: 859 LVKLV 863
>pdb|2NVU|B Chain B, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A
Trapped Ubiquitin-Like Protein Activation Complex
Length = 805
Score = 119 bits (297), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 65/171 (38%), Positives = 98/171 (57%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 436 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 492
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 493 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 551
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+CTI S P HCI + + L + K
Sbjct: 552 ARVILPGMTACIECTLELYPPQVNFPMCTIASMPRLPEHCIEYVRMLQWPK 602
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 592 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 651
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 652 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 700
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 701 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 744
>pdb|3GZN|B Chain B, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
pdb|3GZN|D Chain D, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
Length = 463
Score = 117 bits (294), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 63/164 (38%), Positives = 95/164 (57%), Gaps = 16/164 (9%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
IDMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D FN F+
Sbjct: 99 IDMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD--FNDTFY 156
Query: 72 KQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQVTVHVKG 119
+QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G V + G
Sbjct: 157 RQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGNARVILPG 216
Query: 120 KTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
T C EC + P +P+CTI S P HCI + + L + K
Sbjct: 217 MTACIECTLELYPPQVNFPMCTIASMPRLPEHCIEYVRMLQWPK 260
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 250 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 309
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 310 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 358
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 359 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 402
>pdb|1TT5|B Chain B, Structure Of Appbp1-Uba3-Ubc12n26: A Unique E1-E2
Interaction Required For Optimal Conjugation Of The
Ubiquitin-Like Protein Nedd8
pdb|1TT5|D Chain D, Structure Of Appbp1-Uba3-Ubc12n26: A Unique E1-E2
Interaction Required For Optimal Conjugation Of The
Ubiquitin-Like Protein Nedd8
Length = 434
Score = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 65/171 (38%), Positives = 98/171 (57%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 65 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 121
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 122 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 180
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+CTI S P HCI + + L + K
Sbjct: 181 ARVILPGMTACIECTLELYPPQVNFPMCTIASMPRLPEHCIEYVRMLQWPK 231
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 221 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 280
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 281 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 329
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 330 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 373
>pdb|1YOV|B Chain B, Insights Into The Ubiquitin Transfer Cascade From The
Refined Structure Of The Activating Enzyme For Nedd8
pdb|1YOV|D Chain D, Insights Into The Ubiquitin Transfer Cascade From The
Refined Structure Of The Activating Enzyme For Nedd8
Length = 444
Score = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 65/171 (38%), Positives = 98/171 (57%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 75 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 131
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 132 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 190
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+CTI S P HCI + + L + K
Sbjct: 191 ARVILPGMTACIECTLELYPPQVNFPMCTIASMPRLPEHCIEYVRMLQWPK 241
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 231 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 290
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 291 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 339
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 340 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 383
>pdb|3CMM|A Chain A, Crystal Structure Of The Uba1-Ubiquitin Complex
pdb|3CMM|C Chain C, Crystal Structure Of The Uba1-Ubiquitin Complex
Length = 1015
Score = 116 bits (290), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 68/158 (43%), Positives = 89/158 (56%), Gaps = 6/158 (3%)
Query: 13 DMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMS--ITAHHANV---KDPKFN 67
D D+IE SNLNRQFLFR VG++K++VA +AV P + I A V + FN
Sbjct: 461 DNDSIEKSNLNRQFLFRPKDVGKNKSEVAAEAVCAMNPDLKGKINAKIDKVGPETEEIFN 520
Query: 68 VEFFKQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHVKGKTECYECQ 127
F++ + V N LDN+DAR +V+R C+ PL+ESGT G G V + TE Y
Sbjct: 521 DSFWESLDFVTNALDNVDARTYVDRRCVFYRKPLLESGTLGTKGNTQVIIPRLTESYSSS 580
Query: 128 PKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAKLFGD 165
P K+ P+CT+ S P+K H I WAK LF F D
Sbjct: 581 RDPPEKSIPLCTLRSFPNKIDHTIAWAKS-LFQGYFTD 617
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 75/153 (49%), Gaps = 14/153 (9%)
Query: 302 LSFDKDDQL--AVEFVTAAANIRAASFGISLHSLFEAKGIAGNIVHAVATTNAIIAGLIV 359
+ F+KDD +EF+TA +N RA ++ I + K IAG I+ A+ATT +++ GL+
Sbjct: 810 VDFEKDDDTNHHIEFITACSNCRAQNYFIETADRQKTKFIAGRIIPAIATTTSLVTGLVN 869
Query: 360 IEAIKVLLKDTD--KYRMTYCLEHIT----KKMLLMPVEPYEPNKSCYVCSETPLSLEIN 413
+E K++ TD +Y+ + + + + P Y K + + +I
Sbjct: 870 LELYKLIDNKTDIEQYKNGFVNLALPFFGFSEPIASPKGEYNNKKYDKIWDRFDIKGDI- 928
Query: 414 TSRSKLRDFVEKIVKAKLGINFPLIMHGSNLLY 446
KL D +E K + G+ ++ +G +LLY
Sbjct: 929 ----KLSDLIEHFEKDE-GLEITMLSYGVSLLY 956
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 24/107 (22%), Positives = 49/107 (45%), Gaps = 6/107 (5%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
D + +++++L+ QF + +GQ + V R + + + + NV D +V
Sbjct: 57 FDPEPVQLADLSTQFFLTEKDIGQKRGDVTRAKLAELNAYVPV-----NVLDSLDDVTQL 111
Query: 72 KQFNVVL-NGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHV 117
QF VV+ +L+ + +N C ++ + + S T G G V +
Sbjct: 112 SQFQVVVATDTVSLEDKVKINEFCHSSGIRFISSETRGLFGNTFVDL 158
>pdb|3DBH|B Chain B, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|D Chain D, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|F Chain F, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|H Chain H, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
Length = 434
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 64/171 (37%), Positives = 97/171 (56%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 65 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 121
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 122 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 180
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+ TI S P HCI + + L + K
Sbjct: 181 AAVILPGMTACIECTLELYPPQVNFPMATIASMPRLPEHCIEYVRMLQWPK 231
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 221 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 280
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 281 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 329
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 330 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 373
>pdb|3DBR|B Chain B, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|D Chain D, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|F Chain F, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|H Chain H, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
Length = 434
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 64/171 (37%), Positives = 97/171 (56%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 65 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 121
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 122 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 180
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+ TI S P HCI + + L + K
Sbjct: 181 AQVILPGMTACIECTLELYPPQVNFPMATIASMPRLPEHCIEYVRMLQWPK 231
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 221 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 280
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 281 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 329
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 330 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 373
>pdb|3DBL|B Chain B, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
pdb|3DBL|D Chain D, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
pdb|3DBL|F Chain F, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
pdb|3DBL|H Chain H, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
Length = 434
Score = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 64/171 (37%), Positives = 97/171 (56%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 65 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 121
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 122 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 180
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+ TI S P HCI + + L + K
Sbjct: 181 ARVILPGMTACIECTLELYPPQVNFPMATIASMPRLPEHCIEYVRMLQWPK 231
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 221 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 280
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 281 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 329
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 330 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 373
>pdb|1R4M|B Chain B, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|D Chain D, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|F Chain F, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|H Chain H, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4N|B Chain B, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|D Chain D, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|F Chain F, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|H Chain H, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
Length = 431
Score = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 64/171 (37%), Positives = 97/171 (56%), Gaps = 18/171 (10%)
Query: 5 RQLEAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDP 64
RQ+ I DMDTI+VSNLNRQFLFR +G+ KA+VA + + P ++ H ++D
Sbjct: 62 RQIHVI--DMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQD- 118
Query: 65 KFNVEFFKQFNVVLNGLDNLDARRHVNRLCL------------AADVPLVESGTTGFLGQ 112
FN F++QF++++ GLD++ ARR +N + + ++ VPL++ GT GF G
Sbjct: 119 -FNDTFYRQFHIIVCGLDSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGGTEGFKGN 177
Query: 113 VTVHVKGKTECYEC--QPKPAPKTYPVCTITSTPSKFVHCIVWAKDLLFAK 161
V + G T C EC + P +P+ TI S P HCI + + L + K
Sbjct: 178 ARVILPGMTACIECTLELYPPQVNFPMATIASMPRLPEHCIEYVRMLQWPK 228
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/168 (22%), Positives = 75/168 (44%), Gaps = 29/168 (17%)
Query: 285 LEALKLFFAKREKEIG-NLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGNI 343
+E +++ +E+ G + D DD ++++ + RA+ + I + +G+ I
Sbjct: 218 IEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRI 277
Query: 344 VHAVATTNAIIAGLIVIEAIKV------------LLKDTDKYRMTYCLEHITKKMLLMPV 391
+ AVA+TNA+IA + E K+ + D D TY E
Sbjct: 278 IPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLVFNDVDGL-YTYTFEA---------- 326
Query: 392 EPYEPNKSCYVCSETPLSLEINTSRSKLRDFVEKIV-KAKLGINFPLI 438
E ++C CS+ P +++ + S +KL++ ++ + A L + P I
Sbjct: 327 ---ERKENCPACSQLPQNIQFSPS-AKLQEVLDYLTNSASLQMKSPAI 370
>pdb|2PX9|A Chain A, The Intrinsic Affinity Between E2 And The Cys Domain Of E1
In Ubiquitin-Like Modifications
Length = 217
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 68/229 (29%), Positives = 115/229 (50%), Gaps = 33/229 (14%)
Query: 133 KTYPVCTITSTPSKFVHCIVWAKDLLFAKLFG--DKNQENDLNVRXXXXXXXXXXEDVFV 190
+T+P CTI +TPS+ +HCIVWAK LF +LFG D +QE + +
Sbjct: 3 RTFPGCTIRNTPSEPIHCIVWAK-YLFNQLFGEEDADQEVSPDRADPEAAWEPTEAEARA 61
Query: 191 RRKDEDID-------QYGR-------RIYDHVFGYNIEVASSNEETWKNRNRPKPIYSAD 236
R +ED D ++ + +++ +F +I + ++ W+ R P P+ A+
Sbjct: 62 RASNEDGDIKRISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWAE 121
Query: 237 VMPENLTEQNGNVAKNCVVDTSSVSAMASLGLKNPQDTWTLLESSRIF---LEALKLFFA 293
V + E N + +N LGLK+ Q + +R+F +E L++ A
Sbjct: 122 VQSQG-EETNASDQQN----------EPQLGLKD-QQVLDVKSYARLFSKSIETLRVHLA 169
Query: 294 KREKEIGNLSFDKDDQLAVEFVTAAANIRAASFGISLHSLFEAKGIAGN 342
++ + L +DKDD A++FVT+AAN+R F +++ S F+ K +AGN
Sbjct: 170 EK-GDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGN 217
>pdb|1JWB|B Chain B, Structure Of The Covalent Acyl-Adenylate Form Of The
Moeb-Moad Protein Complex
pdb|1JWA|B Chain B, Structure Of The Atp-Bound Moeb-Moad Protein Complex
pdb|1JW9|B Chain B, Structure Of The Native Moeb-Moad Protein Complex
Length = 249
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/116 (37%), Positives = 62/116 (53%), Gaps = 2/116 (1%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
+D DT+ +SNL RQ L + VGQ K + ARDA+ + P ++IT +A + D +
Sbjct: 61 LDFDTVSLSNLQRQTLHSDATVGQPKVESARDALTRINPHIAITPVNALLDDAEL-AALI 119
Query: 72 KQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHVKGKTE-CYEC 126
+ ++VL+ DN+ R +N C AA VPLV GQ+TV E CY C
Sbjct: 120 AEHDLVLDCTDNVAVRNQLNAGCFAAKVPLVSGAAIRMEGQITVFTYQDGEPCYRC 175
>pdb|1ZFN|A Chain A, Structural Analysis Of Escherichia Coli Thif
pdb|1ZFN|B Chain B, Structural Analysis Of Escherichia Coli Thif
pdb|1ZFN|C Chain C, Structural Analysis Of Escherichia Coli Thif
pdb|1ZFN|D Chain D, Structural Analysis Of Escherichia Coli Thif
pdb|1ZKM|A Chain A, Structural Analysis Of Escherichia Coli Thif
pdb|1ZKM|B Chain B, Structural Analysis Of Escherichia Coli Thif
pdb|1ZKM|C Chain C, Structural Analysis Of Escherichia Coli Thif
pdb|1ZKM|D Chain D, Structural Analysis Of Escherichia Coli Thif
Length = 253
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 59/115 (51%), Gaps = 2/115 (1%)
Query: 13 DMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFFK 72
D D + +SNL RQ LF + + K++V++ + + P + +TA + +
Sbjct: 61 DDDDVHLSNLQRQILFTTEDIDRPKSQVSQQRLTQLNPDIQLTALQQRLTGEALK-DAVA 119
Query: 73 QFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHV-KGKTECYEC 126
+ +VVL+ DN+ R+ +N C+A + PL+ + GF GQ+ V + CY C
Sbjct: 120 RADVVLDCTDNMATRQEINAACVALNTPLITASAVGFGGQLMVLTPPWEQGCYRC 174
>pdb|1ZUD|1 Chain 1, Structure Of This-Thif Protein Complex
pdb|1ZUD|3 Chain 3, Structure Of This-Thif Protein Complex
Length = 251
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 59/115 (51%), Gaps = 2/115 (1%)
Query: 13 DMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFFK 72
D D + +SNL RQ LF + + K++V++ + + P + +TA + +
Sbjct: 59 DDDDVHLSNLQRQILFTTEDIDRPKSQVSQQRLTQLNPDIQLTALQQRLTGEALK-DAVA 117
Query: 73 QFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLGQVTVHV-KGKTECYEC 126
+ +VVL+ DN+ R+ +N C+A + PL+ + GF GQ+ V + CY C
Sbjct: 118 RADVVLDCTDNMATRQEINAACVALNTPLITASAVGFGGQLMVLTPPWEQGCYRC 172
>pdb|3H5A|A Chain A, Crystal Structure Of E. Coli Mccb
pdb|3H5A|B Chain B, Crystal Structure Of E. Coli Mccb
pdb|3H5A|C Chain C, Crystal Structure Of E. Coli Mccb
pdb|3H5A|D Chain D, Crystal Structure Of E. Coli Mccb
Length = 358
Score = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 66/122 (54%), Gaps = 3/122 (2%)
Query: 8 EAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFN 67
E I ID D IE +NL RQ LF + VG++K +V + +LK ++S++ N+ D +
Sbjct: 141 EIILIDNDQIENTNLTRQVLFSEDDVGKNKTEVIKRELLKRNSEISVSEIALNINDYT-D 199
Query: 68 VEFFKQFNVVLNGLDN-LDARRHVNRLCLAADVPLVESGTTGFLGQVT-VHVKGKTECYE 125
+ + ++ + D+ + VN+ C+ A+ P + +G + ++V GKT CYE
Sbjct: 200 LHKVPEADIWVVSADHPFNLINWVNKYCVRANQPYINAGYVNDIAVFGPLYVPGKTGCYE 259
Query: 126 CQ 127
CQ
Sbjct: 260 CQ 261
>pdb|3H5N|A Chain A, Crystal Structure Of E. Coli Mccb + Atp
pdb|3H5N|B Chain B, Crystal Structure Of E. Coli Mccb + Atp
pdb|3H5N|C Chain C, Crystal Structure Of E. Coli Mccb + Atp
pdb|3H5N|D Chain D, Crystal Structure Of E. Coli Mccb + Atp
pdb|3H5R|A Chain A, Crystal Structure Of E. Coli Mccb + Succinimide
pdb|3H5R|B Chain B, Crystal Structure Of E. Coli Mccb + Succinimide
pdb|3H5R|C Chain C, Crystal Structure Of E. Coli Mccb + Succinimide
pdb|3H5R|D Chain D, Crystal Structure Of E. Coli Mccb + Succinimide
pdb|3H9G|A Chain A, Crystal Structure Of E. Coli Mccb + Mcca-N7isoasn
pdb|3H9G|B Chain B, Crystal Structure Of E. Coli Mccb + Mcca-N7isoasn
pdb|3H9G|C Chain C, Crystal Structure Of E. Coli Mccb + Mcca-N7isoasn
pdb|3H9G|D Chain D, Crystal Structure Of E. Coli Mccb + Mcca-N7isoasn
pdb|3H9J|A Chain A, Crystal Structure Of E. Coli Mccb + Ampcpp + Semet Mcca
pdb|3H9J|B Chain B, Crystal Structure Of E. Coli Mccb + Ampcpp + Semet Mcca
pdb|3H9J|C Chain C, Crystal Structure Of E. Coli Mccb + Ampcpp + Semet Mcca
pdb|3H9J|D Chain D, Crystal Structure Of E. Coli Mccb + Ampcpp + Semet Mcca
pdb|3H9Q|A Chain A, Crystal Structure Of E. Coli Mccb + Semet Mcca
pdb|3H9Q|B Chain B, Crystal Structure Of E. Coli Mccb + Semet Mcca
pdb|3H9Q|C Chain C, Crystal Structure Of E. Coli Mccb + Semet Mcca
pdb|3H9Q|D Chain D, Crystal Structure Of E. Coli Mccb + Semet Mcca
Length = 353
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 66/122 (54%), Gaps = 3/122 (2%)
Query: 8 EAIKIDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFN 67
E I ID D IE +NL RQ LF + VG++K +V + +LK ++S++ N+ D +
Sbjct: 144 EIILIDNDQIENTNLTRQVLFSEDDVGKNKTEVIKRELLKRNSEISVSEIALNINDYT-D 202
Query: 68 VEFFKQFNVVLNGLDN-LDARRHVNRLCLAADVPLVESGTTGFLGQVT-VHVKGKTECYE 125
+ + ++ + D+ + VN+ C+ A+ P + +G + ++V GKT CYE
Sbjct: 203 LHKVPEADIWVVSADHPFNLINWVNKYCVRANQPYINAGYVNDIAVFGPLYVPGKTGCYE 262
Query: 126 CQ 127
CQ
Sbjct: 263 CQ 264
>pdb|3GUC|A Chain A, Human Ubiquitin-Activating Enzyme 5 In Complex With Amppnp
pdb|3GUC|B Chain B, Human Ubiquitin-Activating Enzyme 5 In Complex With Amppnp
pdb|3H8V|A Chain A, Human Ubiquitin-Activating Enzyme 5 In Complex With Atp
pdb|3H8V|B Chain B, Human Ubiquitin-Activating Enzyme 5 In Complex With Atp
Length = 292
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 35/134 (26%), Positives = 60/134 (44%), Gaps = 22/134 (16%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANVKDPKFNVEFF 71
D D +E++N+NR F F+ G SK + A + P + H+ N+ VE F
Sbjct: 66 FDYDKVELANMNRLF-FQPHQAGLSKVQAAEHTLRNINPDVLFEVHNYNIT----TVENF 120
Query: 72 KQF---------------NVVLNGLDNLDARRHVNRLCLAADVPLVESGTT--GFLGQVT 114
+ F ++VL+ +DN +AR +N C +ESG + G +
Sbjct: 121 QHFMDRISNGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQ 180
Query: 115 VHVKGKTECYECQP 128
+ + G++ C+ C P
Sbjct: 181 LIIPGESACFACAP 194
>pdb|1Z7L|A Chain A, Crystal Structure Of Fragment Of Mouse
Ubiquitin-Activating Enzyme
pdb|1Z7L|B Chain B, Crystal Structure Of Fragment Of Mouse
Ubiquitin-Activating Enzyme
pdb|1Z7L|C Chain C, Crystal Structure Of Fragment Of Mouse
Ubiquitin-Activating Enzyme
Length = 276
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 6/66 (9%)
Query: 285 LEALKLFFAKREKEIG----NLSFDKDD--QLAVEFVTAAANIRAASFGISLHSLFEAKG 338
LE LK +K G + F+KDD ++F+ AA+N+RA ++ IS ++K
Sbjct: 211 LEELKATLPSPDKLPGFKMYPIDFEKDDDSNFHMDFIVAASNLRAENYDISPADRHKSKL 270
Query: 339 IAGNIV 344
IAG I+
Sbjct: 271 IAGKII 276
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 133 KTYPVCTITSTPSKFVHCIVWAKD 156
K+ P+CT+ + P+ H + WA+D
Sbjct: 12 KSIPICTLKNFPNAIEHTLQWARD 35
>pdb|3VPS|A Chain A, Structure Of A Novel Nad Dependent-Ndp-Hexosamine
5,6-Dehydratase, Tuna, Involved In Tunicamycin
Biosynthesis
pdb|3VPS|B Chain B, Structure Of A Novel Nad Dependent-Ndp-Hexosamine
5,6-Dehydratase, Tuna, Involved In Tunicamycin
Biosynthesis
Length = 321
Score = 32.0 bits (71), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 72 KQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTT 107
+ F L+ LDN+D+ RH+ LC + VP V G+T
Sbjct: 84 RSFKQPLDYLDNVDSGRHLLALCTSVGVPKVVVGST 119
>pdb|1Y8Q|A Chain A, Sumo E1 Activating Enzyme Sae1-Sae2-Mg-Atp Complex
pdb|1Y8Q|C Chain C, Sumo E1 Activating Enzyme Sae1-Sae2-Mg-Atp Complex
pdb|1Y8R|A Chain A, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
pdb|1Y8R|D Chain D, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
pdb|3KYC|A Chain A, Human Sumo E1 Complex With A Sumo1-Amp Mimic
pdb|3KYD|A Chain A, Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mimic
Length = 346
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/101 (20%), Positives = 43/101 (42%), Gaps = 4/101 (3%)
Query: 12 IDMDTIEVSNLNRQFLFRQSHVGQSKAKVARDAVLKFRPQMSITAHHANV-KDPKFNVEF 70
+D + + + QFL R VG+++A+ + + P + + ++ K P+ F
Sbjct: 66 LDHEQVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDIEKKPE---SF 122
Query: 71 FKQFNVVLNGLDNLDARRHVNRLCLAADVPLVESGTTGFLG 111
F QF+ V + D V+++C + G+ G
Sbjct: 123 FTQFDAVCLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHG 163
>pdb|2PX2|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Monoclinic Form 1)
pdb|2PX2|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Monoclinic Form 1)
pdb|2PX4|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Monoclinic Form 2)
pdb|2PX5|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Orthorhombic Crystal Form)
pdb|2PX5|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Orthorhombic Crystal Form)
pdb|2PXA|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-o Methyltransferase Domain In Complex With Sah
And Gtpg
pdb|2PXA|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-o Methyltransferase Domain In Complex With Sah
And Gtpg
pdb|2PXC|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-o Methyltransferase Domain In Complex With Sam
And Gtpa
Length = 269
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 331 HSLFEAKGIAGNIVHAVATTNAIIAG 356
H ++ G +GNIVHAV T+ ++ G
Sbjct: 217 HEMYWVSGASGNIVHAVNMTSQVLIG 242
>pdb|2PX8|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
And 7m-Gtp
pdb|2PX8|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
And 7m-Gtp
Length = 269
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 331 HSLFEAKGIAGNIVHAVATTNAIIAG 356
H ++ G +GNIVHAV T+ ++ G
Sbjct: 217 HEMYWVSGASGNIVHAVNMTSQVLIG 242
>pdb|2CNM|A Chain A, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With A Bisubstrate Inhibitor (Cterm-Arg-Arg-Phe-
Tyr-Arg-Ala-N-Alpha-Acetyl-S-Coa).
pdb|2CNM|B Chain B, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With A Bisubstrate Inhibitor (Cterm-Arg-Arg-Phe-
Tyr-Arg-Ala-N-Alpha-Acetyl-S-Coa).
pdb|2CNM|C Chain C, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With A Bisubstrate Inhibitor (Cterm-Arg-Arg-Phe-
Tyr-Arg-Ala-N-Alpha-Acetyl-S-Coa).
pdb|2CNS|A Chain A, Rimi - Ribosomal S18 N-alpha-protein Acetyltransferase In
Complex With Acetylcoa.
pdb|2CNS|B Chain B, Rimi - Ribosomal S18 N-alpha-protein Acetyltransferase In
Complex With Acetylcoa.
pdb|2CNS|C Chain C, Rimi - Ribosomal S18 N-alpha-protein Acetyltransferase In
Complex With Acetylcoa.
pdb|2CNT|A Chain A, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With Coenzymea.
pdb|2CNT|B Chain B, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With Coenzymea.
pdb|2CNT|C Chain C, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With Coenzymea.
pdb|2CNT|D Chain D, Rimi - Ribosomal S18 N-Alpha-Protein Acetyltransferase In
Complex With Coenzymea
Length = 160
Score = 30.0 bits (66), Expect = 3.9, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 30/66 (45%)
Query: 275 WTLLESSRIFLEALKLFFAKREKEIGNLSFDKDDQLAVEFVTAAANIRAASFGISLHSLF 334
W + + + F + K FF + + NL DD++A +T A F I++ F
Sbjct: 16 WQIEQRAHAFPWSEKTFFGNQGERYLNLKLTADDRMAAFAITQVVLDEATLFNIAVDPDF 75
Query: 335 EAKGIA 340
+ +G+
Sbjct: 76 QRRGLG 81
>pdb|3KA7|A Chain A, Crystal Structure Of An Oxidoreductase From Methanosarcina
Mazei. Northeast Structural Genomics Consortium Target
Id Mar208
Length = 425
Score = 28.9 bits (63), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 92 RLCLAADVPLVESGTTG-FLGQVTVHVKGKTECYECQPKPAP 132
++CLAAD PLV G TG L T + G E + P+ AP
Sbjct: 283 KICLAADEPLV--GHTGVLLTPYTRRINGVNEVTQADPELAP 322
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
0.315 0.131 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,012,930
Number of Sequences: 62578
Number of extensions: 696885
Number of successful extensions: 1756
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1666
Number of HSP's gapped (non-prelim): 46
length of query: 622
length of database: 14,973,337
effective HSP length: 105
effective length of query: 517
effective length of database: 8,402,647
effective search space: 4344168499
effective search space used: 4344168499
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)