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= psy2287
(268 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IS2|A Chain A, Crystal Structure Of Peroxisomal Acyl-coa Oxidase-ii From
Rat Liver
pdb|1IS2|B Chain B, Crystal Structure Of Peroxisomal Acyl-coa Oxidase-ii From
Rat Liver
pdb|2DDH|A Chain A, Crystal Structure Of Acyl-Coa Oxidase Complexed With
3-Oh-Dodecanoate
Length = 661
Score = 283 bits (725), Expect = 6e-77, Method: Compositional matrix adjust.
Identities = 146/277 (52%), Positives = 190/277 (68%), Gaps = 12/277 (4%)
Query: 2 PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYG 61
PLPGI++G+IG K G ++NGYL N RIPR NMLMK AQV DGTYVK ++KLTYG
Sbjct: 217 PLPGITVGDIGPKFGYEEMDNGYLKMDNYRIPRENMLMKYAQVKPDGTYVKPLSNKLTYG 276
Query: 62 TMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAI 121
TM+FVR LV N AA LSKA TIA RYSAVRRQSE+K E EPQILD++TQQYKLFP +
Sbjct: 277 TMVFVRSFLVGN-AAQSLSKACTIAIRYSAVRRQSEIKQSEPEPQILDFQTQQYKLFPLL 335
Query: 122 ATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRS 181
AT+YA F ++ + Y +N + +G++ LPELHA++ LKA +T + IE CR +
Sbjct: 336 ATAYAFHFVGRYMKETYLRINESIGQGDLSELPELHALTAGLKAFTTWTANAGIEECRMA 395
Query: 182 CGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYL 241
CGGHGY +SS PN Y T A T+EGENTV+ LQTARFL+K ++Q++SG L+ V+YL
Sbjct: 396 CGGHGYSHSSGIPNIYVTFTPACTFEGENTVMMLQTARFLMKIYDQVRSGKLVGGMVSYL 455
Query: 242 GKIGAPKSQY-----------VHSLDSLLQAYQQVAA 267
+ + + Q ++SL+ L +AY+ AA
Sbjct: 456 NDLPSQRIQPQQVAVWPTMVDINSLEGLTEAYKLRAA 492
>pdb|2FON|A Chain A, X-Ray Crystal Structure Of Leacx1, An Acyl-Coa Oxidase
From Lycopersicon Esculentum (Tomato)
pdb|2FON|B Chain B, X-Ray Crystal Structure Of Leacx1, An Acyl-Coa Oxidase
From Lycopersicon Esculentum (Tomato)
pdb|2FON|C Chain C, X-Ray Crystal Structure Of Leacx1, An Acyl-Coa Oxidase
From Lycopersicon Esculentum (Tomato)
Length = 683
Score = 239 bits (611), Expect = 8e-64, Method: Compositional matrix adjust.
Identities = 121/247 (48%), Positives = 169/247 (68%), Gaps = 5/247 (2%)
Query: 2 PLPGISIGEIGSKLG---MNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSK-NDK 57
PLPG+++G+IG K G N+++NG L F +VRIPR+ MLM+ +QV K+G YV+S +
Sbjct: 235 PLPGVTVGDIGMKFGNGAYNSMDNGVLSFDHVRIPRDQMLMRVSQVTKEGKYVQSDIPRQ 294
Query: 58 LTYGTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKL 117
L YGTM++VR S+V + + A +S+AV IATRYSAVRRQ + G +E Q++DYKTQQ +L
Sbjct: 295 LLYGTMVYVRQSIVADASLA-MSRAVCIATRYSAVRRQFGSQNGGQETQVIDYKTQQNRL 353
Query: 118 FPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEV 177
FP +A++YA RF +WL +Y V L + LPE HA + LK+++TS +A IE
Sbjct: 354 FPLLASAYAFRFVGEWLKWLYTDVTQRLAANDFSTLPEAHACTAGLKSLTTSATADGIEE 413
Query: 178 CRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSST 237
CR+ CGGHGY+ SS P + + A TYEG+N VL LQ ARFL+K +QL +G T
Sbjct: 414 CRKLCGGHGYLCSSGLPELFAVYVPACTYEGDNVVLQLQVARFLMKTISQLGTGKKPVGT 473
Query: 238 VTYLGKI 244
V+Y+G+I
Sbjct: 474 VSYMGRI 480
>pdb|1W07|A Chain A, Arabidopsis Thaliana Acyl-Coa Oxidase 1
pdb|1W07|B Chain B, Arabidopsis Thaliana Acyl-Coa Oxidase 1
Length = 659
Score = 231 bits (588), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 123/277 (44%), Positives = 177/277 (63%), Gaps = 13/277 (4%)
Query: 2 PLPGISIGEIGSKLG---MNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDK- 57
PLP I++G+IG+K+G N+++NG+L F +VRIPR+ MLM+ ++V ++G YV S K
Sbjct: 216 PLPNITVGDIGTKMGNGAYNSMDNGFLMFDHVRIPRDQMLMRLSKVTREGEYVPSDVPKQ 275
Query: 58 LTYGTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKL 117
L YGTM++VR ++V + + A LS+AV IATRYSAVRRQ G E Q++DYKTQQ +L
Sbjct: 276 LVYGTMVYVRQTIVADASNA-LSRAVCIATRYSAVRRQFGAHNGGIETQVIDYKTQQNRL 334
Query: 118 FPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEV 177
FP +A++YA RF +WL +Y V L + LPE HA + LK+++T+ +A IE
Sbjct: 335 FPLLASAYAFRFVGEWLKWLYTDVTERLAASDFATLPEAHACTAGLKSLTTTATADGIEE 394
Query: 178 CRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSST 237
CR+ CGGHGY+ S P + + A TYEG+N VL LQ ARFL+K QL SG + T
Sbjct: 395 CRKLCGGHGYLWCSGLPELFAVYVPACTYEGDNVVLQLQVARFLMKTVAQLGSGKVPVGT 454
Query: 238 VTYLGKI--------GAPKSQYVHSLDSLLQAYQQVA 266
Y+G+ G K++ + D +L+A++ A
Sbjct: 455 TAYMGRAAHLLQCRSGVQKAEDWLNPDVVLEAFEARA 491
>pdb|1JQI|A Chain A, Crystal Structure Of Rat Short Chain Acyl-Coa
Dehydrogenase Complexed With Acetoacetyl-Coa
pdb|1JQI|B Chain B, Crystal Structure Of Rat Short Chain Acyl-Coa
Dehydrogenase Complexed With Acetoacetyl-Coa
Length = 388
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 25/38 (65%)
Query: 1 MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNML 38
MP PG+++G+ KLG+ + L F++ RIP+ N+L
Sbjct: 193 MPTPGLTLGKKEDKLGIRASSTANLIFEDCRIPKENLL 230
>pdb|1UKW|A Chain A, Crystal Structure Of Medium-Chain Acyl-Coa Dehydrogenase
From Thermus Thermophilus Hb8
pdb|1UKW|B Chain B, Crystal Structure Of Medium-Chain Acyl-Coa Dehydrogenase
From Thermus Thermophilus Hb8
Length = 379
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 51/224 (22%), Positives = 86/224 (38%), Gaps = 37/224 (16%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTM 63
PG +I K+G L F++V++P N L + + K + T+
Sbjct: 190 PGFKAIKIHGKMGQRASGTYELVFEDVKVPVENRLGEEGEGFK-----------IAMQTL 238
Query: 64 IFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFP---A 120
R+ + + +A+ A +Y A R++ +P I +++ Q+KL
Sbjct: 239 NKTRIPVAAG-SVGVARRALDEARKY-AKEREAFGEP------IANFQAIQFKLVDMLIG 290
Query: 121 IATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRR 180
I T+ + A WL D GLP HA S KA ++ + +
Sbjct: 291 IETARMYTYYAAWLAD--------------QGLPHAHA-SAIAKAYASEIAFEAANQAIQ 335
Query: 181 SCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKA 224
GG+GY+ V + YEG N + L AR ++ A
Sbjct: 336 IHGGYGYVREFPVEKLLRDVKLNQIYEGTNEIQRLIIARHILAA 379
>pdb|2VIG|A Chain A, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|B Chain B, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|C Chain C, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|D Chain D, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|E Chain E, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|F Chain F, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|G Chain G, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
pdb|2VIG|H Chain H, Crystal Structure Of Human Short-Chain Acyl Coa
Dehydrogenase
Length = 391
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 26/38 (68%)
Query: 1 MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNML 38
MP PG+++G+ KLG+ + L F++ RIP++++L
Sbjct: 189 MPTPGLTLGKKEDKLGIRGSSTANLIFEDCRIPKDSIL 226
>pdb|2JIF|A Chain A, Structure Of Human Short-Branched Chain Acyl-Coa
Dehydrogenase (Acadsb)
pdb|2JIF|B Chain B, Structure Of Human Short-Branched Chain Acyl-Coa
Dehydrogenase (Acadsb)
pdb|2JIF|C Chain C, Structure Of Human Short-Branched Chain Acyl-Coa
Dehydrogenase (Acadsb)
pdb|2JIF|D Chain D, Structure Of Human Short-Branched Chain Acyl-Coa
Dehydrogenase (Acadsb)
Length = 404
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNML 38
PG+ IG+ +KLG+ + L F+NV++P N+L
Sbjct: 214 PGLHIGKPENKLGLRASSTCPLTFENVKVPEANIL 248
>pdb|1BUC|A Chain A, Three-Dimensional Structure Of Butyryl-Coa Dehydrogenase
From Megasphaera Elsdenii
pdb|1BUC|B Chain B, Three-Dimensional Structure Of Butyryl-Coa Dehydrogenase
From Megasphaera Elsdenii
Length = 383
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLK 46
PG + G+ K+G++T L F++V++P NML + + K
Sbjct: 195 PGFTYGKKEDKMGIHTSQTMELVFQDVKVPAENMLGEEGKGFK 237
>pdb|2DVL|A Chain A, Crystal Structure Of Project Tt0160 From Thermus
Thermophilus Hb8
pdb|2DVL|B Chain B, Crystal Structure Of Project Tt0160 From Thermus
Thermophilus Hb8
Length = 372
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 52/223 (23%), Positives = 78/223 (34%), Gaps = 37/223 (16%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTM 63
PG+S G K+G++ + + + V +P N+L + + L Y + D G
Sbjct: 184 PGLSFGRPEEKMGLHAAHTAEVRLEEVFVPEENLLGEEGRGL---AYALAGLDSGRVG-- 238
Query: 64 IFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIAT 123
V A A IA Y+ R Q K +E Q + +K + IA
Sbjct: 239 -------VAAQAVGIARGAFEIAKAYAEEREQFGKKL--KEHQAIAFKIADMHV--KIAA 287
Query: 124 SYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSC- 182
+ AL A K + G + A SA +EV R +
Sbjct: 288 ARALVLEA-------------ARKKDRG-----ERFTLEASAAKLFASAAAVEVTREAVQ 329
Query: 183 --GGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIK 223
GG+GY Y E YEG + + L AR L +
Sbjct: 330 VLGGYGYHRDYRVERYYRDAKVTEIYEGTSEIQRLVIARELYR 372
>pdb|3MPI|A Chain A, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPI|B Chain B, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPI|C Chain C, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPI|D Chain D, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPJ|A Chain A, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|B Chain B, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|D Chain D, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|E Chain E, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|F Chain F, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|G Chain G, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Length = 397
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 13/93 (13%)
Query: 3 LPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGT 62
PGI + KLG + G L NV++P+ N+L K DG ++ +G+
Sbjct: 194 FPGIKTSNL-EKLGSHASPTGELFLDNVKVPKENILGKPG----DGA-------RIVFGS 241
Query: 63 MIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQ 95
+ R+S + A +Y RRQ
Sbjct: 242 LNHTRLSAAAG-GVGLAQACLDAAIKYCNERRQ 273
>pdb|1UDY|A Chain A, Medium-Chain Acyl-Coa Dehydrogenase With
3-Thiaoctanoyl-Coa
pdb|1UDY|B Chain B, Medium-Chain Acyl-Coa Dehydrogenase With
3-Thiaoctanoyl-Coa
pdb|1UDY|C Chain C, Medium-Chain Acyl-Coa Dehydrogenase With
3-Thiaoctanoyl-Coa
pdb|1UDY|D Chain D, Medium-Chain Acyl-Coa Dehydrogenase With
3-Thiaoctanoyl-Coa
Length = 396
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 12/91 (13%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTM 63
PG+ IG +G + + F++VR+P+ N+L K+ GT
Sbjct: 204 PGVQIGRKEINMGQRCSDTRGIVFEDVRVPKENVLTGEGAGF-----------KIAMGTF 252
Query: 64 IFVRVSLVKNVAAAFLSKAVTIATRYSAVRR 94
R + A +A+ AT+Y+ R+
Sbjct: 253 DKTRPPVAAG-AVGLAQRALDEATKYALERK 282
>pdb|3MDD|A Chain A, Crystal Structures Of Medium Chain Acyl-Coa Dehydrogenase
From Pig Liver Mitochondria With And Without Substrate
pdb|3MDD|B Chain B, Crystal Structures Of Medium Chain Acyl-Coa Dehydrogenase
From Pig Liver Mitochondria With And Without Substrate
pdb|3MDE|A Chain A, Crystal Structures Of Medium Chain Acyl-Coa Dehydrogenase
From Pig Liver Mitochondria With And Without Substrate
pdb|3MDE|B Chain B, Crystal Structures Of Medium Chain Acyl-Coa Dehydrogenase
From Pig Liver Mitochondria With And Without Substrate
Length = 385
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 12/91 (13%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTM 63
PG+ IG +G + + F++VR+P+ N+L K+ GT
Sbjct: 194 PGVQIGRKEINMGQRCSDTRGIVFEDVRVPKENVLTGEGAGF-----------KIAMGTF 242
Query: 64 IFVRVSLVKNVAAAFLSKAVTIATRYSAVRR 94
R + A +A+ AT+Y+ R+
Sbjct: 243 DKTRPPVAAG-AVGLAQRALDEATKYALERK 272
>pdb|2IX6|A Chain A, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4
pdb|2IX6|B Chain B, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4
pdb|2IX6|C Chain C, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4
pdb|2IX6|D Chain D, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4
pdb|2IX6|E Chain E, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4
pdb|2IX6|F Chain F, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4
Length = 449
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNML 38
PG+ +I +K+G+ V NG + +NV +P + L
Sbjct: 237 PGLKATKIPNKIGLRMVQNGDILLQNVFVPDEDRL 271
>pdb|2IX5|A Chain A, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4 In Complex With Acetoacetyl-Coa
pdb|2IX5|B Chain B, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4 In Complex With Acetoacetyl-Coa
pdb|2IX5|C Chain C, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4 In Complex With Acetoacetyl-Coa
pdb|2IX5|D Chain D, Short Chain Specific Acyl-Coa Oxidase From Arabidopsis
Thaliana, Acx4 In Complex With Acetoacetyl-Coa
Length = 436
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 4 PGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNML 38
PG+ +I +K+G+ V NG + +NV +P + L
Sbjct: 237 PGLKATKIPNKIGLRMVQNGDILLQNVFVPDEDRL 271
>pdb|1YAU|A Chain A, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
pdb|1YAU|B Chain B, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
pdb|1YAU|C Chain C, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
pdb|1YAU|D Chain D, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
pdb|1YAU|E Chain E, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
pdb|1YAU|F Chain F, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
pdb|1YAU|G Chain G, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex
Length = 233
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 38 LMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVA 75
L+ +A+VL D + ++ +K+TYG+++ + +LVK VA
Sbjct: 81 LVADARVLVDFARISAQQEKVTYGSLVNIE-NLVKRVA 117
>pdb|1YAR|A Chain A, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
pdb|1YAR|B Chain B, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
pdb|1YAR|C Chain C, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
pdb|1YAR|D Chain D, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
pdb|1YAR|E Chain E, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
pdb|1YAR|F Chain F, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
pdb|1YAR|G Chain G, Structure Of Archeabacterial 20s Proteasome Mutant D9s-
Pa26 Complex
Length = 233
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 38 LMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVA 75
L+ +A+VL D + ++ +K+TYG+++ + +LVK VA
Sbjct: 81 LVADARVLVDFARISAQQEKVTYGSLVNIE-NLVKRVA 117
>pdb|2KU2|A Chain A, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU2|B Chain B, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU2|C Chain C, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU2|D Chain D, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU2|E Chain E, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU2|F Chain F, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU2|G Chain G, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
Length = 237
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 38 LMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVA 75
L+ +A+VL D + ++ +K+TYG+++ + +LVK VA
Sbjct: 85 LVADARVLVDFARISAQQEKVTYGSLVNIE-NLVKRVA 121
>pdb|2KU1|A Chain A, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU1|B Chain B, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU1|C Chain C, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU1|D Chain D, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU1|E Chain E, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU1|F Chain F, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
pdb|2KU1|G Chain G, Dynamic Regulation Of Archaeal Proteasome Gate Opening As
Studied By Trosy-Nmr
Length = 237
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 38 LMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVA 75
L+ +A+VL D + ++ +K+TYG+++ + +LVK VA
Sbjct: 85 LVADARVLVDFARISAQQEKVTYGSLVNIE-NLVKRVA 121
>pdb|1PMA|A Chain A, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|C Chain C, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|D Chain D, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|E Chain E, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|F Chain F, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|G Chain G, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|H Chain H, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|I Chain I, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|J Chain J, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|K Chain K, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|L Chain L, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|M Chain M, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|N Chain N, Proteasome From Thermoplasma Acidophilum
pdb|1PMA|O Chain O, Proteasome From Thermoplasma Acidophilum
pdb|1YA7|A Chain A, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|1YA7|B Chain B, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|1YA7|C Chain C, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|1YA7|D Chain D, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|1YA7|E Chain E, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|1YA7|F Chain F, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|1YA7|G Chain G, Implications For Interactions Of Proteasome With Pan And
Pa700 From The 1.9 A Structure Of A Proteasome-11s
Activator Complex
pdb|3C91|A Chain A, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|B Chain B, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|C Chain C, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|D Chain D, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|E Chain E, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|F Chain F, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|G Chain G, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|O Chain O, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|P Chain P, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|Q Chain Q, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|R Chain R, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|S Chain S, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|T Chain T, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C91|U Chain U, Thermoplasma Acidophilum 20s Proteasome With An Open Gate
pdb|3C92|A Chain A, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|B Chain B, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|C Chain C, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|D Chain D, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|E Chain E, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|F Chain F, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|G Chain G, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|O Chain O, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|P Chain P, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|Q Chain Q, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|R Chain R, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|S Chain S, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|T Chain T, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3C92|U Chain U, Thermoplasma Acidophilum 20s Proteasome With A Closed Gate
pdb|3IPM|A Chain A, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
pdb|3IPM|B Chain B, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
pdb|3IPM|C Chain C, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
pdb|3IPM|D Chain D, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
pdb|3IPM|E Chain E, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
pdb|3IPM|F Chain F, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
pdb|3IPM|G Chain G, Crystal Structure Of Archaeal 20s Proteasome In Complex
With The C- Terminus Of Pan
Length = 233
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 38 LMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVA 75
L+ +A+VL D + ++ +K+TYG+++ + +LVK VA
Sbjct: 81 LVADARVLVDFARISAQQEKVTYGSLVNIE-NLVKRVA 117
>pdb|3JRM|A Chain A, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JRM|B Chain B, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JRM|C Chain C, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JRM|D Chain D, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JRM|E Chain E, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JRM|F Chain F, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JRM|G Chain G, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|A Chain A, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|B Chain B, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|C Chain C, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|D Chain D, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|E Chain E, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|F Chain F, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JSE|G Chain G, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|A Chain A, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|B Chain B, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|C Chain C, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|D Chain D, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|E Chain E, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|F Chain F, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
pdb|3JTL|G Chain G, Crystal Structure Of Archaeal 20s Proteasome In Complex
With Mutated P26 Activator
Length = 227
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 38 LMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVA 75
L+ +A+VL D + ++ +K+TYG+++ + +LVK VA
Sbjct: 75 LVADARVLVDFARISAQQEKVTYGSLVNIE-NLVKRVA 111
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 7/68 (10%)
Query: 61 GTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPA 120
GT++FV + A+FLS+ T R QS +RE + D+K K+
Sbjct: 302 GTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQS-----QREQALRDFKNGSMKVL-- 354
Query: 121 IATSYALR 128
IATS A R
Sbjct: 355 IATSVASR 362
>pdb|3DJL|A Chain A, Crystal Structure Of Alkylation Response Protein E. Coli
Aidb
pdb|3U33|A Chain A, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|B Chain B, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|C Chain C, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|D Chain D, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|E Chain E, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|F Chain F, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|G Chain G, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|H Chain H, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|I Chain I, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|J Chain J, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|K Chain K, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
pdb|3U33|L Chain L, Crystal Structure Of The E. Coli Adaptive Response Protein
Aidb In The Space Group P3(2)
Length = 541
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 21/60 (35%)
Query: 164 KAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIK 223
K V F+ GG GY S P Y + +EG ++ L R L K
Sbjct: 382 KFVICKRGMPFVAEAMEVLGGIGYCEESELPRLYREMPVNSIWEGSGNIMCLDVLRVLNK 441
>pdb|3B96|A Chain A, Structural Basis For Substrate Fatty-Acyl Chain
Specificity: Crystal Structure Of Human Very-Long-Chain
Acyl-Coa Dehydrogenase
Length = 587
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 43/214 (20%), Positives = 77/214 (35%), Gaps = 30/214 (14%)
Query: 5 GISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMI 64
GI+ G K+G+ N + F VR+P N+L + K ++ L G
Sbjct: 222 GITHGPPEKKMGIKASNTAEVFFDGVRVPSENVLGEVGSGFKVAMHI------LNNGR-- 273
Query: 65 FVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIATS 124
F + + ++KAV AT + GE+ I ++ Q KL +
Sbjct: 274 FGMAAALAGTMRGIIAKAVDHATNRTQF--------GEK---IHNFGLIQEKLARMVMLQ 322
Query: 125 YALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGG 184
Y + V+A++++G + + K + + + C + GG
Sbjct: 323 YVTE-------SMAYMVSANMDQGAT----DFQIEAAISKIFGSEAAWKVTDECIQIMGG 371
Query: 185 HGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTA 218
G+M + +EG N +L L A
Sbjct: 372 MGFMKEPGVERVLRDLRIFRIFEGTNDILRLFVA 405
>pdb|2UXW|A Chain A, Crystal Structure Of Human Very Long Chain Acyl-coa
Dehydrogenase (acadvl)
Length = 607
Score = 27.3 bits (59), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 41/214 (19%), Positives = 76/214 (35%), Gaps = 30/214 (14%)
Query: 5 GISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMI 64
GI+ G K+G+ N + F VR+P N+L + K ++ +
Sbjct: 242 GITHGPPEKKMGIKASNTAEVFFDGVRVPSENVLGEVGSGFKVAMHILNNGR-------- 293
Query: 65 FVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIATS 124
F + + ++KAV AT + GE+ I ++ Q KL +
Sbjct: 294 FGMAAALAGTMRGIIAKAVDHATNRTQF--------GEK---IHNFGLIQEKLARMVMLQ 342
Query: 125 YALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGG 184
Y + V+A++++G + + K + + + C + GG
Sbjct: 343 YVTE-------SMAYMVSANMDQGAT----DFQIEAAISKIFGSEAAWKVTDECIQIMGG 391
Query: 185 HGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTA 218
G+M + +EG N +L L A
Sbjct: 392 MGFMKEPGVERVLRDLRIFRIFEGTNDILRLFVA 425
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
0.317 0.131 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,677,465
Number of Sequences: 62578
Number of extensions: 297975
Number of successful extensions: 638
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 613
Number of HSP's gapped (non-prelim): 26
length of query: 268
length of database: 14,973,337
effective HSP length: 97
effective length of query: 171
effective length of database: 8,903,271
effective search space: 1522459341
effective search space used: 1522459341
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)