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= 014369
(426 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 = 353 bits (907), Expect = 7e-98, Method: Compositional matrix adjust.
Identities = 173/297 (58%), Positives = 215/297 (72%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ VKIVEVGPRDGLQNEKN V T VK++LI L +GL V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPRDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 183 RDVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLV 242
+V++ ++ G PVLTPNL +ASE F+K NINCSIE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ A+ AA+ +I VRGYVSC +GCP EG I P+KVA V K+ + MGC+EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
GTPG + ML AVM VP+ LAVH HDTYGQ+L N L++LQMG+S VD SVAGLGGCPY
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQMGVSVVDSSVAGLGGCPY 241
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSKTAIALNRI 419
A+GASGN+ATED+VYML GLG+ T V+L+KL+ AG+FI + L R + SK A A ++
Sbjct: 242 AQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAGNFICQALNRKTSSKVAQATCKL 298
>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 = 351 bits (900), Expect = 5e-97, Method: Compositional matrix adjust.
Identities = 172/297 (57%), Positives = 214/297 (72%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ VKIVEVGP DGLQNEKN V T VK++LI L +GL V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPMDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 183 RDVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLV 242
+V++ ++ G PVLTPNL +ASE F+K NINCSIE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ A+ AA+ +I VRGYVSC +GCP EG I P+KVA V K+ + MGC+EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
GTPG + ML AVM VP+ LAVH HDTYGQ+L N L++LQMG+S VD SVAGLGGCPY
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQMGVSVVDSSVAGLGGCPY 241
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSKTAIALNRI 419
A+GASGN+ATED+VYML GLG+ T V+L+KL+ AG+FI + L R + SK A A ++
Sbjct: 242 AQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAGNFICQALNRKTSSKVAQATCKL 298
>pdb|2FTP|A Chain A, Crystal Structure Of Hydroxymethylglutaryl-Coa Lyase From
Pseudomonas Aeruginosa
Length = 302
Score = 303 bits (776), Expect = 1e-82, Method: Compositional matrix adjust.
Identities = 150/289 (51%), Positives = 196/289 (67%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ V++VEVGPRDGLQNEK + K+ L+ L ++GL +E SFVSPKWVPQ+A +
Sbjct: 5 LPKKVRLVEVGPRDGLQNEKQPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQMAGS 64
Query: 183 RDVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLV 242
+V +R G L PNL +ASEAFS+ NINCSI+DSL
Sbjct: 65 AEVFAGIRQRPGVTYAALAPNLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLE 124
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ V AA+ + VRGY+SCV+GCP +G + P +VA+VA+EL MGC+E+SLGDTIGV
Sbjct: 125 RFVPVLEAARQHQVRVRGYISCVLGCPYDGDVDPRQVAWVARELQQMGCYEVSLGDTIGV 184
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
GT G ++EAV + VP E+LA H HDTYGQ+L NI SL GI+ D SVAGLGGCPY
Sbjct: 185 GTAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYASLLEGIAVFDSSVAGLGGCPY 244
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSK 411
AKGA+GNVA+EDV+Y+L+GL + T VD+ L+ AG I 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 = 263 bits (671), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 140/273 (51%), Positives = 170/273 (62%)
Query: 127 VKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADARDVM 186
V+IVE RDGLQNEK VPT K+ LI RL G +EATSFVSPKWVPQLAD+R+V
Sbjct: 5 VEIVEXAARDGLQNEKRFVPTADKIALINRLSDCGYARIEATSFVSPKWVPQLADSREVX 64
Query: 187 EAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLVRYRA 246
+R +G R VL PN SASE FSK+NINC+I +S+ R
Sbjct: 65 AGIRRADGVRYSVLVPNXKGYEAAAAAHADEIAVFISASEGFSKANINCTIAESIERLSP 124
Query: 247 VAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTPG 306
V AA + +RGYVSCVV CP +G + P VA V ++L +GC E+SLGDTIG GTP
Sbjct: 125 VIGAAINDGLAIRGYVSCVVECPYDGPVTPQAVASVTEQLFSLGCHEVSLGDTIGRGTPD 184
Query: 307 TVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPYAKGA 366
TV L+AV+A+ P LA H HDT G++L NI +SL+ G+ D SV GLGGCP+A GA
Sbjct: 185 TVAAXLDAVLAIAPAHSLAGHYHDTGGRALDNIRVSLEKGLRVFDASVGGLGGCPFAPGA 244
Query: 367 SGNVATEDVVYMLSGLGVETNVDLRKLMLAGDF 399
GNV T VV L G ET +DL +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 = 230 bits (587), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 122/288 (42%), Positives = 167/288 (57%)
Query: 124 PRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADAR 183
P+ V I EVGPRDGLQNE + T K+ I +L +GL +E TSFV PKW+P L DA
Sbjct: 4 PKKVTIKEVGPRDGLQNEPVWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPALRDAI 63
Query: 184 DVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLVR 243
DV + + +G L PN SASE ++ NIN S +SL
Sbjct: 64 DVAKGIDREKGVTYAALVPNQRGLENALEGGINEACVFXSASETHNRKNINKSTSESLHI 123
Query: 244 YRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVG 303
+ V + A+ ++ R Y+S V GCP E +P +V +++ L + G E+SLGDTIG
Sbjct: 124 LKQVNNDAQKANLTTRAYLSTVFGCPYEKDVPIEQVIRLSEALFEFGISELSLGDTIGAA 183
Query: 304 TPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPYA 363
P V +LEA++A P ++A+H HDT G +L N + +LQ GI+ D S GLGGCPYA
Sbjct: 184 NPAQVETVLEALLARFPANQIALHFHDTRGTALANXVTALQXGITVFDGSAGGLGGCPYA 243
Query: 364 KGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSK 411
G+SGN ATED+VY L ++TNV L KL+ A +I + G+P S+
Sbjct: 244 PGSSGNAATEDIVYXLEQXDIKTNVKLEKLLSAAKWIEEKXGKPLPSR 291
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 60/112 (53%), Gaps = 7/112 (6%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILI 341
VA++L ++G I+L D G+ TP ++ + V VE L +H H T G + +L
Sbjct: 163 VAQQLAELGVDSIALKDMAGILTPYAAEELVSTLKKQVDVE-LHLHCHSTAGLADMTLLK 221
Query: 342 SLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+++ G+ VD +++ + G G+ ATE +V L G G +T +D+ KL
Sbjct: 222 AIEAGVDRVDTAISSMSGT------YGHPATESLVATLQGTGYDTGLDIAKL 267
>pdb|1RQE|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Oxaloacetate
Length = 539
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 57/113 (50%), Gaps = 7/113 (6%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNIL 340
+A +L DMG I+L D + P +++A+ + ++ +H H T G + +++
Sbjct: 180 LAGQLLDMGADSIALKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLM 239
Query: 341 ISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+++ G+ VD +++ + P G+ TE V ML G G TN+D +L
Sbjct: 240 KAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 286
>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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/134 (26%), Positives = 60/134 (44%), Gaps = 13/134 (9%)
Query: 288 DMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAV---HLHDTYGQSLPNILISLQ 344
+ G I++ DT+G P ++A P V H H+ G ++ N L +L+
Sbjct: 168 EAGATTINIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLAALK 227
Query: 345 MGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSG----LGVETNVDLRKLMLAGDFI 400
G V+C+V GLG +GN + E++V L G+ET +D +++ + +
Sbjct: 228 GGARQVECTVNGLG------ERAGNASVEEIVMALKVRHDLFGLETGIDTTQIVPSSKLV 281
Query: 401 NKHLGRPSGSKTAI 414
+ G P AI
Sbjct: 282 STITGYPVQPNKAI 295
>pdb|1U5J|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit,
Met186ile
Length = 539
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 57/113 (50%), Gaps = 7/113 (6%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNIL 340
+A +L DMG I+L D + P +++A+ + ++ +H H T G + +++
Sbjct: 180 LAGQLLDMGADSIALXDIAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLM 239
Query: 341 ISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+++ G+ VD +++ + P G+ TE V ML G G TN+D +L
Sbjct: 240 KAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 286
>pdb|1S3H|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
A59t
Length = 539
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 57/113 (50%), Gaps = 7/113 (6%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNIL 340
+A +L DMG I+L D + P +++A+ + ++ +H H T G + +++
Sbjct: 180 LAGQLLDMGADSIALXDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLM 239
Query: 341 ISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+++ G+ VD +++ + P G+ TE V ML G G TN+D +L
Sbjct: 240 KAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 286
>pdb|3IVS|A Chain A, Homocitrate Synthase Lys4
pdb|3IVS|B Chain B, Homocitrate Synthase Lys4
Length = 423
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 284 KELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISL 343
K + +G + + DT+G TP V ++ + VV + + H H+ G ++ N +L
Sbjct: 187 KAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGXAIANAYCAL 245
Query: 344 QMGISTVDCSVAGLG 358
+ G + +D S+ G+G
Sbjct: 246 EAGATHIDTSILGIG 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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 284 KELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISL 343
K + +G + + DT+G TP V ++ + VV + + H H+ G ++ N +L
Sbjct: 187 KAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGMAIANAYCAL 245
Query: 344 QMGISTVDCSVAGLG 358
+ G + +D S+ G+G
Sbjct: 246 EAGATHIDTSILGIG 260
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 35/134 (26%), Positives = 62/134 (46%), Gaps = 13/134 (9%)
Query: 268 CPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTP---GTVVPMLEAVMAVVPVEKL 324
C G + +A + + + G +++ DT G P G + L ++ + L
Sbjct: 142 CEDAGRADQAFLARXVEAVIEAGADVVNIPDTTGYXLPWQYGERIKYLXDNVSNIDKAIL 201
Query: 325 AVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYML----S 380
+ H H+ G + N L +LQ G V+C++ G+G +GN A E+VV
Sbjct: 202 SAHCHNDLGLATANSLAALQNGARQVECTINGIG------ERAGNTALEEVVXAXECHKE 255
Query: 381 GLGVETNVDLRKLM 394
LG+ET ++ +KL+
Sbjct: 256 TLGLETGINHKKLV 269
>pdb|1RR2|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To 2- Ketobutyric Acid
Length = 473
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 57/114 (50%), Gaps = 8/114 (7%)
Query: 282 VAKELHDMGCFEISL-GDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNI 339
+A +L DMG I+L D + P +++A+ + ++ +H H T G + ++
Sbjct: 167 LAGQLLDMGADSIALXKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSL 226
Query: 340 LISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+ +++ G+ VD +++ + P G+ TE V ML G G TN+D +L
Sbjct: 227 MKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 274
>pdb|1RQH|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Pyruvic Acid
Length = 472
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 57/114 (50%), Gaps = 8/114 (7%)
Query: 282 VAKELHDMGCFEISL-GDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNI 339
+A +L DMG I+L D + P +++A+ + ++ +H H T G + ++
Sbjct: 166 LAGQLLDMGADSIALXKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSL 225
Query: 340 LISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+ +++ G+ VD +++ + P G+ TE V ML G G TN+D +L
Sbjct: 226 MKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDYDRL 273
>pdb|3EWB|X Chain X, Crystal Structure Of N-Terminal Domain Of Putative 2-
Isopropylmalate Synthase From Listeria Monocytogenes
Length = 293
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 54/127 (42%), Gaps = 13/127 (10%)
Query: 288 DMGCFEISLGDTIGVGTP---GTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQ 344
D G I++ DT+G P G + L + A H HD G + N L +++
Sbjct: 161 DAGATVINIPDTVGYTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGXATANALAAIE 220
Query: 345 MGISTVDCSVAGLGGCPYAKGASGNVATEDVVYML----SGLGVETNVDLRKLMLAGDFI 400
G V+ ++ G+G +GN A E+V L ETN+ L + + D I
Sbjct: 221 NGARRVEGTINGIG------ERAGNTALEEVAVALHIRKDFYQAETNIVLNQFKNSSDLI 274
Query: 401 NKHLGRP 407
++ G P
Sbjct: 275 SRLSGXP 281
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVV-PVEKLAVHLHDTYGQSLPNILISLQMGISTVDC 352
+ L DT+GV TP V ++ V VV P + H H+ G ++ N +++ G + VD
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 353 SVAGLG 358
++ 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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVV-PVEKLAVHLHDTYGQSLPNILISLQMGISTVDC 352
+ L DT+GV TP V ++ V VV P + H H+ G ++ N +++ G + VD
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 353 SVAGLG 358
++ G+G
Sbjct: 221 TILGIG 226
>pdb|1RQB|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Length = 539
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 53/113 (46%), Gaps = 7/113 (6%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNIL 340
+A +L D G I+L D + P +++A+ + ++ +H H T G + ++
Sbjct: 180 LAGQLLDXGADSIALXDXAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLX 239
Query: 341 ISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+++ G+ VD +++ P G+ TE V L G G TN+D +L
Sbjct: 240 KAIEAGVDVVDTAISSXSLGP------GHNPTESVAEXLEGTGYTTNLDYDRL 286
>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 = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%)
Query: 276 PSKVAYVAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQS 335
P V + + L I L DT+GV +P +++++ P H H+ Y S
Sbjct: 168 PDYVKSLVEHLSKEHIERIFLPDTLGVLSPEETFQGVDSLIQKYPDIHFEFHGHNDYDLS 227
Query: 336 LPNILISLQMGISTVDCSVAGLG 358
+ N L +++ G+ + S+ GLG
Sbjct: 228 VANSLQAIRAGVKGLHASINGLG 250
>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 = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 45/94 (47%), Gaps = 10/94 (10%)
Query: 298 DTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGL 357
D+ G TP V +L+ V V + H HD L N + ++ GI +D ++ G
Sbjct: 164 DSFGGITPKEVKNLLKEVRKYTHVP-VGFHGHDNLQLGLINSITAIDDGIDFIDATITGX 222
Query: 358 GGCPYAKGASGNVATEDVVYMLS---GLGVETNV 388
G +GA GN+ E ++ L+ GL V+ NV
Sbjct: 223 G-----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 = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 1/82 (1%)
Query: 274 IPPSKVAYVAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVV-PVEKLAVHLHDTY 332
IP K+A K + G I + D+ G + + + A AV+ P ++ +H H
Sbjct: 146 IPAEKLAEQGKLMESYGATCIYMADSGGAMSMNDIRDRMRAFKAVLKPETQVGMHAHHNL 205
Query: 333 GQSLPNILISLQMGISTVDCSV 354
+ N +++++ G VD S+
Sbjct: 206 SLGVANSIVAVEEGCDRVDASL 227
>pdb|3MMZ|A Chain A, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
pdb|3MMZ|B Chain B, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
pdb|3MMZ|C Chain C, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
pdb|3MMZ|D Chain D, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
Length = 176
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 247 VAHAAKVLSIPV-----RGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIG 301
VA A+ L IPV R ++ C +G I P +V YV +++D+ CF + +G +
Sbjct: 69 VAARARKLKIPVLHGIDRKDLALKQWCEEQG-IAPERVLYVGNDVNDLPCFAL-VGWPVA 126
Query: 302 VGTPGTVVPMLEAVMAVVP 320
V + VV + VP
Sbjct: 127 VASAHDVVRGAARAVTTVP 145
>pdb|3Q3E|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase
pdb|3Q3E|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase
pdb|3Q3H|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In Complex With Udp-Glc
pdb|3Q3H|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In Complex With Udp-Glc
pdb|3Q3I|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In The Presence Of Peptide
N1131
pdb|3Q3I|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In The Presence Of Peptide
N1131
Length = 631
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 14/70 (20%)
Query: 270 VEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTPGTVVPM----LEAVMAVVPVEKLA 325
V A+ P KV Y+ +E + + +G T + + LEA+ A+ K+
Sbjct: 422 VPSALAPEKVDYLLREN----------PEVVNIGIASTTMKLNPYFLEALKAIRDRAKVK 471
Query: 326 VHLHDTYGQS 335
VH H GQS
Sbjct: 472 VHFHFALGQS 481
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 0.134 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,900,040
Number of Sequences: 62578
Number of extensions: 491798
Number of successful extensions: 1295
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1261
Number of HSP's gapped (non-prelim): 34
length of query: 426
length of database: 14,973,337
effective HSP length: 102
effective length of query: 324
effective length of database: 8,590,381
effective search space: 2783283444
effective search space used: 2783283444
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: 53 (25.0 bits)