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= 015894
(398 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CW6|A Chain A, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|B Chain B, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|C Chain C, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|D Chain D, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|E Chain E, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|F Chain F, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|3MP3|A Chain A, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|B Chain B, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|C Chain C, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|D Chain D, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|E Chain E, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|F Chain F, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
Length = 298
Score = 359 bits (922), Expect = 1e-99, Method: Compositional matrix adjust.
Identities = 173/296 (58%), Positives = 216/296 (72%)
Query: 94 VPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADA 153
+P VKIVEVGPRDGLQNEKNIV VK++LI +L +GL+V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPRDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 154 KDVMAAIQNVEGARFPVLTPNLXXXXXXXXXXXXXXXXXXSASESFSKSNINCTIEDSLI 213
+V+ IQ G +PVLTPNL +ASE F+K NINC+IE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 214 RYRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGV 273
R+ + AA+ +I VRGY+SC +GCP EG + P+KVA V+K+ Y MGC EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 274 GTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPY 333
GTPG + ML AV+ VP+ LAVH HDTYGQAL+N L +LQMG+S VDSSV+GLGGCPY
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQMGVSVVDSSVAGLGGCPY 241
Query: 334 AKGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSKTAIALSK 389
A+GASGN+ATED+VYML GLG+ T V+++KL+ AG+FIC+ L R + SK A A K
Sbjct: 242 AQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAGNFICQALNRKTSSKVAQATCK 297
>pdb|3MP4|A Chain A, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|B Chain B, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|C Chain C, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|D Chain D, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|E Chain E, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|F Chain F, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP5|A Chain A, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|B Chain B, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|C Chain C, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|D Chain D, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|E Chain E, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|F Chain F, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
Length = 298
Score = 357 bits (915), Expect = 7e-99, Method: Compositional matrix adjust.
Identities = 172/296 (58%), Positives = 215/296 (72%)
Query: 94 VPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADA 153
+P VKIVEVGP DGLQNEKNIV VK++LI +L +GL+V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPMDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 154 KDVMAAIQNVEGARFPVLTPNLXXXXXXXXXXXXXXXXXXSASESFSKSNINCTIEDSLI 213
+V+ IQ G +PVLTPNL +ASE F+K NINC+IE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 214 RYRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGV 273
R+ + AA+ +I VRGY+SC +GCP EG + P+KVA V+K+ Y MGC EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 274 GTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPY 333
GTPG + ML AV+ VP+ LAVH HDTYGQAL+N L +LQMG+S VDSSV+GLGGCPY
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQMGVSVVDSSVAGLGGCPY 241
Query: 334 AKGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSKTAIALSK 389
A+GASGN+ATED+VYML GLG+ T V+++KL+ AG+FIC+ L R + SK A A K
Sbjct: 242 AQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAGNFICQALNRKTSSKVAQATCK 297
>pdb|2FTP|A Chain A, Crystal Structure Of Hydroxymethylglutaryl-Coa Lyase From
Pseudomonas Aeruginosa
Length = 302
Score = 315 bits (807), Expect = 3e-86, Method: Compositional matrix adjust.
Identities = 153/289 (52%), Positives = 202/289 (69%)
Query: 94 VPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADA 153
+P V++VEVGPRDGLQNEK + K+ L+ L ++GL +E SFVSPKWVPQ+A +
Sbjct: 5 LPKKVRLVEVGPRDGLQNEKQPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQMAGS 64
Query: 154 KDVMAAIQNVEGARFPVLTPNLXXXXXXXXXXXXXXXXXXSASESFSKSNINCTIEDSLI 213
+V A I+ G + L PNL +ASE+FS+ NINC+I+DSL
Sbjct: 65 AEVFAGIRQRPGVTYAALAPNLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLE 124
Query: 214 RYRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGV 273
R+ V AAR+ + VRGY+SCV+GCP +G V P +VA+V+++L MGC E+SLGDTIGV
Sbjct: 125 RFVPVLEAARQHQVRVRGYISCVLGCPYDGDVDPRQVAWVARELQQMGCYEVSLGDTIGV 184
Query: 274 GTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPY 333
GT G ++EAV VP ++LA HFHDTYGQAL+NI ASL GI+ DSSV+GLGGCPY
Sbjct: 185 GTAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYASLLEGIAVFDSSVAGLGGCPY 244
Query: 334 AKGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSK 382
AKGA+GNVA+EDV+Y+LNGL + T VD+ L+ AG IC LG+++GS+
Sbjct: 245 AKGATGNVASEDVLYLLNGLEIHTGVDMHALVDAGQRICAVLGKSNGSR 293
>pdb|1YDN|A Chain A, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35.
pdb|1YDN|B Chain B, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35.
pdb|1YDN|C Chain C, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35.
pdb|1YDN|D Chain D, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35
Length = 295
Score = 267 bits (682), Expect = 1e-71, Method: Compositional matrix adjust.
Identities = 140/273 (51%), Positives = 172/273 (63%)
Query: 98 VKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAKDVM 157
V+IVE RDGLQNEK VP K+ LI L G A +EATSFVSPKWVPQLAD+++V
Sbjct: 5 VEIVEXAARDGLQNEKRFVPTADKIALINRLSDCGYARIEATSFVSPKWVPQLADSREVX 64
Query: 158 AAIQNVEGARFPVLTPNLXXXXXXXXXXXXXXXXXXSASESFSKSNINCTIEDSLIRYRD 217
A I+ +G R+ VL PN SASE FSK+NINCTI +S+ R
Sbjct: 65 AGIRRADGVRYSVLVPNXKGYEAAAAAHADEIAVFISASEGFSKANINCTIAESIERLSP 124
Query: 218 VALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPG 277
V AA + +RGY+SCVV CP +G V P VA V++QL+ +GC E+SLGDTIG GTP
Sbjct: 125 VIGAAINDGLAIRGYVSCVVECPYDGPVTPQAVASVTEQLFSLGCHEVSLGDTIGRGTPD 184
Query: 278 TVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYAKGA 337
TV L+AVL P LA H+HDT G+AL NI SL+ G+ D+SV GLGGCP+A GA
Sbjct: 185 TVAAXLDAVLAIAPAHSLAGHYHDTGGRALDNIRVSLEKGLRVFDASVGGLGGCPFAPGA 244
Query: 338 SGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDF 370
GNV T VV L+ G T +D+ +L AG F
Sbjct: 245 KGNVDTVAVVEXLHEXGFETGLDLDRLRSAGLF 277
>pdb|1YDO|A Chain A, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181.
pdb|1YDO|B Chain B, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181.
pdb|1YDO|C Chain C, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181.
pdb|1YDO|D Chain D, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181
Length = 307
Score = 237 bits (605), Expect = 7e-63, Method: Compositional matrix adjust.
Identities = 124/283 (43%), Positives = 167/283 (59%)
Query: 95 PGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAK 154
P V I EVGPRDGLQNE + K+ I L +GL+ +E TSFV PKW+P L DA
Sbjct: 4 PKKVTIKEVGPRDGLQNEPVWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPALRDAI 63
Query: 155 DVMAAIQNVEGARFPVLTPNLXXXXXXXXXXXXXXXXXXSASESFSKSNINCTIEDSLIR 214
DV I +G + L PN SASE+ ++ NIN + +SL
Sbjct: 64 DVAKGIDREKGVTYAALVPNQRGLENALEGGINEACVFXSASETHNRKNINKSTSESLHI 123
Query: 215 YRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVG 274
+ V A++ ++ R YLS V GCP E VP +V +S+ L++ G SE+SLGDTIG
Sbjct: 124 LKQVNNDAQKANLTTRAYLSTVFGCPYEKDVPIEQVIRLSEALFEFGISELSLGDTIGAA 183
Query: 275 TPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYA 334
P V +LEA+L P +++A+HFHDT G AL+N + +LQ GI+ D S GLGGCPYA
Sbjct: 184 NPAQVETVLEALLARFPANQIALHFHDTRGTALANXVTALQXGITVFDGSAGGLGGCPYA 243
Query: 335 KGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGR 377
G+SGN ATED+VY L ++TNV + KL+ A +I + G+
Sbjct: 244 PGSSGNAATEDIVYXLEQXDIKTNVKLEKLLSAAKWIEEKXGK 286
>pdb|2NX9|A Chain A, Crystal Structure Of The Carboxyltransferase Domain Of The
Oxaloacetate Decarboxylase Na+ Pump From Vibrio Cholerae
pdb|2NX9|B Chain B, Crystal Structure Of The Carboxyltransferase Domain Of The
Oxaloacetate Decarboxylase Na+ Pump From Vibrio Cholerae
Length = 464
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 74/151 (49%), Gaps = 12/151 (7%)
Query: 221 AARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVI 280
A +++ +G L C PV + VA +QL ++G I+L D G+ TP
Sbjct: 135 AVKKMGAHAQGTL-CYTTSPVHNLQTWVDVA---QQLAELGVDSIALKDMAGILTPYAAE 190
Query: 281 PMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYAKGASGN 340
++ + V V+ L +H H T G A +L +++ G+ VD+++S + G G+
Sbjct: 191 ELVSTLKKQVDVE-LHLHCHSTAGLADMTLLKAIEAGVDRVDTAISSMSGT------YGH 243
Query: 341 VATEDVVYMLNGLGVRTNVDIRKL-MIAGDF 370
ATE +V L G G T +DI KL IA F
Sbjct: 244 PATESLVATLQGTGYDTGLDIAKLEQIAAYF 274
>pdb|1U5J|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit,
Met186ile
Length = 539
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 55/110 (50%), Gaps = 7/110 (6%)
Query: 256 QLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILASL 314
QL DMG I+L D + P +++A+ D ++ +H H T G +++ ++
Sbjct: 183 QLLDMGADSIALXDIAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMKAI 242
Query: 315 QMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
+ G+ VD+++S + P G+ TE V ML G G TN+D +L
Sbjct: 243 EAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 286
>pdb|1RQE|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Oxaloacetate
Length = 539
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 55/110 (50%), Gaps = 7/110 (6%)
Query: 256 QLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILASL 314
QL DMG I+L D + P +++A+ D ++ +H H T G +++ ++
Sbjct: 183 QLLDMGADSIALKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMKAI 242
Query: 315 QMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
+ G+ VD+++S + P G+ TE V ML G G TN+D +L
Sbjct: 243 EAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 286
>pdb|1S3H|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
A59t
Length = 539
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 55/110 (50%), Gaps = 7/110 (6%)
Query: 256 QLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILASL 314
QL DMG I+L D + P +++A+ D ++ +H H T G +++ ++
Sbjct: 183 QLLDMGADSIALXDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMKAI 242
Query: 315 QMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
+ G+ VD+++S + P G+ TE V ML G G TN+D +L
Sbjct: 243 EAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 286
>pdb|3IVS|A Chain A, Homocitrate Synthase Lys4
pdb|3IVS|B Chain B, Homocitrate Synthase Lys4
Length = 423
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 260 MGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGIS 319
+G + + + DT+G TP V ++ + V D + HFH+ G A++N +L+ G +
Sbjct: 192 IGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGXAIANAYCALEAGAT 250
Query: 320 TVDSSVSGLG 329
+D+S+ G+G
Sbjct: 251 HIDTSILGIG 260
>pdb|3IVT|A Chain A, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3IVT|B Chain B, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3IVU|A Chain A, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3IVU|B Chain B, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3MI3|A Chain A, Homocitrate Synthase Lys4 Bound To Lysine
pdb|3MI3|B Chain B, Homocitrate Synthase Lys4 Bound To Lysine
Length = 423
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 260 MGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGIS 319
+G + + + DT+G TP V ++ + V D + HFH+ G A++N +L+ G +
Sbjct: 192 IGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGMAIANAYCALEAGAT 250
Query: 320 TVDSSVSGLG 329
+D+S+ G+G
Sbjct: 251 HIDTSILGIG 260
>pdb|1RR2|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To 2- Ketobutyric Acid
Length = 473
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 55/111 (49%), Gaps = 8/111 (7%)
Query: 256 QLYDMGCSEISLG-DTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILAS 313
QL DMG I+L D + P +++A+ D ++ +H H T G +++ +
Sbjct: 170 QLLDMGADSIALXKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMKA 229
Query: 314 LQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
++ G+ VD+++S + P G+ TE V ML G G TN+D +L
Sbjct: 230 IEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 274
>pdb|1RQH|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Pyruvic Acid
Length = 472
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 55/111 (49%), Gaps = 8/111 (7%)
Query: 256 QLYDMGCSEISLG-DTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILAS 313
QL DMG I+L D + P +++A+ D ++ +H H T G +++ +
Sbjct: 169 QLLDMGADSIALXKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMKA 228
Query: 314 LQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
++ G+ VD+++S + P G+ TE V ML G G TN+D +L
Sbjct: 229 IEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 273
>pdb|3EEG|A Chain A, Crystal Structure Of A 2-Isopropylmalate Synthase From
Cytophaga Hutchinsonii
pdb|3EEG|B Chain B, Crystal Structure Of A 2-Isopropylmalate Synthase From
Cytophaga Hutchinsonii
Length = 325
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/134 (27%), Positives = 65/134 (48%), Gaps = 13/134 (9%)
Query: 239 CPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVP-VDK--L 295
C G + +A + + + G +++ DT G P ++ + D V +DK L
Sbjct: 142 CEDAGRADQAFLARXVEAVIEAGADVVNIPDTTGYXLPWQYGERIKYLXDNVSNIDKAIL 201
Query: 296 AVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYML----N 351
+ H H+ G A +N LA+LQ G V+ +++G+G +GN A E+VV
Sbjct: 202 SAHCHNDLGLATANSLAALQNGARQVECTINGIG------ERAGNTALEEVVXAXECHKE 255
Query: 352 GLGVRTNVDIRKLM 365
LG+ T ++ +KL+
Sbjct: 256 TLGLETGINHKKLV 269
>pdb|1RQB|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Length = 539
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 52/117 (44%), Gaps = 7/117 (5%)
Query: 256 QLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILASL 314
QL D G I+L D + P +++A+ D ++ +H H T G ++ ++
Sbjct: 183 QLLDXGADSIALXDXAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLXKAI 242
Query: 315 QMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFI 371
+ G+ VD+++S P G+ TE V L G G TN+D +L D
Sbjct: 243 EAGVDVVDTAISSXSLGP------GHNPTESVAEXLEGTGYTTNLDYDRLHKIRDHF 293
>pdb|3RMJ|A Chain A, Crystal Structure Of Truncated Alpha-Isopropylmalate
Synthase From Neisseria Meningitidis
pdb|3RMJ|B Chain B, Crystal Structure Of Truncated Alpha-Isopropylmalate
Synthase From Neisseria Meningitidis
Length = 370
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 59/123 (47%), Gaps = 13/123 (10%)
Query: 250 VAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLAV---HFHDTYGQA 306
+A + + + G + I++ DT+G P ++ P V H H+ G A
Sbjct: 159 LAEICGAVIEAGATTINIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLA 218
Query: 307 LSNILASLQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYML----NGLGVRTNVDIR 362
++N LA+L+ G V+ +V+GLG +GN + E++V L + G+ T +D
Sbjct: 219 VANSLAALKGGARQVECTVNGLG------ERAGNASVEEIVMALKVRHDLFGLETGIDTT 272
Query: 363 KLM 365
+++
Sbjct: 273 QIV 275
>pdb|3EWB|X Chain X, Crystal Structure Of N-Terminal Domain Of Putative 2-
Isopropylmalate Synthase From Listeria Monocytogenes
Length = 293
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 55/122 (45%), Gaps = 13/122 (10%)
Query: 259 DMGCSEISLGDTIGVGTP---GTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQ 315
D G + I++ DT+G P G + L + A H HD G A +N LA+++
Sbjct: 161 DAGATVINIPDTVGYTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGXATANALAAIE 220
Query: 316 MGISTVDSSVSGLGGCPYAKGASGNVATEDVVYML----NGLGVRTNVDIRKLMIAGDFI 371
G V+ +++G+G +GN A E+V L + TN+ + + + D I
Sbjct: 221 NGARRVEGTINGIG------ERAGNTALEEVAVALHIRKDFYQAETNIVLNQFKNSSDLI 274
Query: 372 CK 373
+
Sbjct: 275 SR 276
>pdb|2ZTJ|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Alpha-Ketoglutarate
pdb|2ZTK|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Homocitrate
pdb|2ZYF|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Magnesuim Ion And
Alpha-Ketoglutarate
Length = 382
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 265 ISLGDTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILASLQMGISTVDS 323
+ L DT+GV TP V ++ V V P + H H+ G A++N +++ G + VD+
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 324 SVSGLG 329
++ G+G
Sbjct: 221 TILGIG 226
>pdb|3A9I|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Lys
Length = 376
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 265 ISLGDTIGVGTPGTVIPMLEAVLDAV-PVDKLAVHFHDTYGQALSNILASLQMGISTVDS 323
+ L DT+GV TP V ++ V V P + H H+ G A++N +++ G + VD+
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 324 SVSGLG 329
++ G+G
Sbjct: 221 TILGIG 226
>pdb|3BLE|A Chain A, Crystal Structure Of The Catalytic Domain Of Licms In
Complexed With Malonate
pdb|3BLF|A Chain A, Crystal Structure Of The Catalytic Domain Of Licms In
Complexed With Pyruvate
pdb|3BLI|A Chain A, Crystal Structure Of The Catalytic Domain Of Licms In
Complexed With Pyruvate And Acetyl-Coa
Length = 337
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 42/83 (50%)
Query: 247 PSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQA 306
P V + + L I L DT+GV +P +++++ P H H+ Y +
Sbjct: 168 PDYVKSLVEHLSKEHIERIFLPDTLGVLSPEETFQGVDSLIQKYPDIHFEFHGHNDYDLS 227
Query: 307 LSNILASLQMGISTVDSSVSGLG 329
++N L +++ G+ + +S++GLG
Sbjct: 228 VANSLQAIRAGVKGLHASINGLG 250
>pdb|2QF7|A Chain A, Crystal Structure Of A Complete Multifunctional Pyruvate
Carboxylase From Rhizobium Etli
pdb|2QF7|B Chain B, Crystal Structure Of A Complete Multifunctional Pyruvate
Carboxylase From Rhizobium Etli
Length = 1165
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 8/101 (7%)
Query: 235 CVVGCPVEGMVPPSKVAYVSK---QLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVP 291
C G + P + Y + +L G I++ D G+ P + +A+ +A
Sbjct: 693 CYTGDILNSARPKYDLKYYTNLAVELEKAGAHIIAVXDMAGLLKPAAAKVLFKALREAT- 751
Query: 292 VDKLAVHFH--DTYGQALSNILASLQMGISTVDSSVSGLGG 330
L +HFH DT G A + +LA+++ G+ VD+++ L G
Sbjct: 752 --GLPIHFHTHDTSGIAAATVLAAVEAGVDAVDAAMDALSG 790
>pdb|3TW7|A Chain A, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
Crystallized Without Acetyl Coenzyme-A
pdb|3TW7|B Chain B, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
Crystallized Without Acetyl Coenzyme-A
pdb|3TW6|A Chain A, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
pdb|3TW6|B Chain B, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
pdb|3TW6|C Chain C, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
pdb|3TW6|D Chain D, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
Length = 1165
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 8/101 (7%)
Query: 235 CVVGCPVEGMVPPSKVAYVSK---QLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVP 291
C G + P + Y + +L G I++ D G+ P + +A+ +A
Sbjct: 693 CYTGDILNSARPKYDLKYYTNLAVELEKAGAHIIAVXDMAGLLKPAAAKVLFKALREAT- 751
Query: 292 VDKLAVHFH--DTYGQALSNILASLQMGISTVDSSVSGLGG 330
L +HFH DT G A + +LA+++ G+ VD+++ L G
Sbjct: 752 --GLPIHFHTHDTSGIAAATVLAAVEAGVDAVDAAMDALSG 790
>pdb|3DXI|A Chain A, Crystal Structure Of The N-Terminal Domain Of A Putative
Aldolase (Bvu_2661) From Bacteroides Vulgatus
pdb|3DXI|B Chain B, Crystal Structure Of The N-Terminal Domain Of A Putative
Aldolase (Bvu_2661) From Bacteroides Vulgatus
Length = 320
Score = 35.0 bits (79), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 47/96 (48%), Gaps = 14/96 (14%)
Query: 269 DTIGVGTPGTVIPMLEAV--LDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVS 326
D+ G TP V +L+ V VPV H HD L N + ++ GI +D++++
Sbjct: 164 DSFGGITPKEVKNLLKEVRKYTHVPV---GFHGHDNLQLGLINSITAIDDGIDFIDATIT 220
Query: 327 GLGGCPYAKGASGNVATEDVVYMLN---GLGVRTNV 359
G G +GA GN+ E ++ LN GL V NV
Sbjct: 221 GXG-----RGA-GNLKXELLLTYLNKHHGLNVDFNV 250
>pdb|1NVM|A Chain A, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
pdb|1NVM|C Chain C, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
pdb|1NVM|E Chain E, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
pdb|1NVM|G Chain G, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
Length = 345
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 49/107 (45%), Gaps = 11/107 (10%)
Query: 222 ARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTV-- 279
AR L + G+L + M+P K+A K + G + I + D+ G + +
Sbjct: 129 ARNLGMDTVGFLM------MSHMIPAEKLAEQGKLMESYGATCIYMADSGGAMSMNDIRD 182
Query: 280 -IPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSV 325
+ +AVL P ++ +H H ++N + +++ G VD+S+
Sbjct: 183 RMRAFKAVLK--PETQVGMHAHHNLSLGVANSIVAVEEGCDRVDASL 227
>pdb|2J9D|E Chain E, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
Length = 119
Score = 28.1 bits (61), Expect = 8.5, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 241 VEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPML---EAVLDAVPVDKL 295
VE ++ P K+ V K L D G +++ + G G G ++ E ++D +P K+
Sbjct: 6 VEAIIRPEKLEIVKKALSDAGYVGMTVSEVKGRGVQGGIVERYRGREYIVDLIPKVKI 63
>pdb|2J9C|A Chain A, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9C|B Chain B, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9C|C Chain C, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|A Chain A, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|B Chain B, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|C Chain C, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|D Chain D, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|F Chain F, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|G Chain G, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|H Chain H, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|I Chain I, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|J Chain J, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|K Chain K, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9D|L Chain L, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9E|A Chain A, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9E|B Chain B, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
pdb|2J9E|C Chain C, Structure Of Glnk1 With Bound Effectors Indicates
Regulatory Mechanism For Ammonia Uptake
Length = 119
Score = 28.1 bits (61), Expect = 8.5, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 241 VEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPML---EAVLDAVPVDKL 295
VE ++ P K+ V K L D G +++ + G G G ++ E ++D +P K+
Sbjct: 6 VEAIIRPEKLEIVKKALSDAGYVGMTVSEVKGRGVQGGIVERYRGREYIVDLIPKVKI 63
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 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,050,691
Number of Sequences: 62578
Number of extensions: 384915
Number of successful extensions: 1039
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1001
Number of HSP's gapped (non-prelim): 33
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
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: 52 (24.6 bits)