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= psy12516
(327 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 276 bits (705), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 124/202 (61%), Positives = 155/202 (76%)
Query: 108 GVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVRGYISCVVGCPYEGA 167
G KE+ +F +ASE+F+K+NINC+IEES +RF ++ A + I VRGY+SC +GCPYEG
Sbjct: 93 GAKEVVIFGAASELFTKKNINCSIEESFQRFDAILKAAQSANISVRGYVSCALGCPYEGK 152
Query: 168 VPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYG 227
+ P V V Y MGCYEISLGDTIGVGTPG M+ ML V+ +P LAVHCHDTYG
Sbjct: 153 ISPAKVAEVTKKFYSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAALAVHCHDTYG 212
Query: 228 QALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADLTSL 287
QALAN L A++ G+SV DSS+AGLGGCPYA+GASGN+ATEDLVYMLEG+GI TG +L L
Sbjct: 213 QALANTLMALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGLGIHTGVNLQKL 272
Query: 288 LRTGHYICGKLKKPSNSKVAKA 309
L G++IC L + ++SKVA+A
Sbjct: 273 LEAGNFICQALNRKTSSKVAQA 294
Score = 160 bits (404), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 75/108 (69%), Positives = 86/108 (79%)
Query: 2 KVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANIL 61
+V Y MGCYEISLGDTIGVGTPG M+ ML V+ +P LAVHCHDTYGQALAN L
Sbjct: 160 EVTKKFYSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTL 219
Query: 62 TAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKSMQCGV 109
A++ G+SV DSS+AGLGGCPYA+GASGN+ATEDLVYMLEG + GV
Sbjct: 220 MALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGLGIHTGV 267
>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 = 275 bits (704), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 124/202 (61%), Positives = 155/202 (76%)
Query: 108 GVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVRGYISCVVGCPYEGA 167
G KE+ +F +ASE+F+K+NINC+IEES +RF ++ A + I VRGY+SC +GCPYEG
Sbjct: 93 GAKEVVIFGAASELFTKKNINCSIEESFQRFDAILKAAQSANISVRGYVSCALGCPYEGK 152
Query: 168 VPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYG 227
+ P V V Y MGCYEISLGDTIGVGTPG M+ ML V+ +P LAVHCHDTYG
Sbjct: 153 ISPAKVAEVTKKFYSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAALAVHCHDTYG 212
Query: 228 QALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADLTSL 287
QALAN L A++ G+SV DSS+AGLGGCPYA+GASGN+ATEDLVYMLEG+GI TG +L L
Sbjct: 213 QALANTLMALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGLGIHTGVNLQKL 272
Query: 288 LRTGHYICGKLKKPSNSKVAKA 309
L G++IC L + ++SKVA+A
Sbjct: 273 LEAGNFICQALNRKTSSKVAQA 294
Score = 160 bits (404), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 75/108 (69%), Positives = 86/108 (79%)
Query: 2 KVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANIL 61
+V Y MGCYEISLGDTIGVGTPG M+ ML V+ +P LAVHCHDTYGQALAN L
Sbjct: 160 EVTKKFYSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTL 219
Query: 62 TAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKSMQCGV 109
A++ G+SV DSS+AGLGGCPYA+GASGN+ATEDLVYMLEG + GV
Sbjct: 220 MALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGLGIHTGV 267
>pdb|2FTP|A Chain A, Crystal Structure Of Hydroxymethylglutaryl-Coa Lyase From
Pseudomonas Aeruginosa
Length = 302
Score = 256 bits (654), Expect = 1e-68, Method: Compositional matrix adjust.
Identities = 119/202 (58%), Positives = 156/202 (77%)
Query: 104 SMQCGVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVRGYISCVVGCP 163
+++ GVKE+AVFA+ASE FS+RNINC+I++SLERF V+ A + +RVRGYISCV+GCP
Sbjct: 92 ALESGVKEVAVFAAASEAFSQRNINCSIKDSLERFVPVLEAARQHQVRVRGYISCVLGCP 151
Query: 164 YEGAVPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCH 223
Y+G V P V VA L +MGCYE+SLGDTIGVGT G R ++E V + +P +RLA H H
Sbjct: 152 YDGDVDPRQVAWVARELQQMGCYEVSLGDTIGVGTAGATRRLIEAVASEVPRERLAGHFH 211
Query: 224 DTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGAD 283
DTYGQALANI ++ GI+VFDSS+AGLGGCPYA+GA+GNVA+ED++Y+L G+ I TG D
Sbjct: 212 DTYGQALANIYASLLEGIAVFDSSVAGLGGCPYAKGATGNVASEDVLYLLNGLEIHTGVD 271
Query: 284 LTSLLRTGHYICGKLKKPSNSK 305
+ +L+ G IC L K + S+
Sbjct: 272 MHALVDAGQRICAVLGKSNGSR 293
Score = 144 bits (362), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 67/107 (62%), Positives = 85/107 (79%)
Query: 3 VASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANILT 62
VA L +MGCYE+SLGDTIGVGT G R ++E V + +P +RLA H HDTYGQALANI
Sbjct: 164 VARELQQMGCYEVSLGDTIGVGTAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYA 223
Query: 63 AMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKSMQCGV 109
++ GI+VFDSS+AGLGGCPYA+GA+GNVA+ED++Y+L G + GV
Sbjct: 224 SLLEGIAVFDSSVAGLGGCPYAKGATGNVASEDVLYLLNGLEIHTGV 270
>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 = 202 bits (515), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 101/183 (55%), Positives = 125/183 (68%)
Query: 111 EIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVRGYISCVVGCPYEGAVPP 170
EIAVF SASE FSK NINCTI ES+ER S V+ A+ +G+ +RGY+SCVV CPY+G V P
Sbjct: 95 EIAVFISASEGFSKANINCTIAESIERLSPVIGAAINDGLAIRGYVSCVVECPYDGPVTP 154
Query: 171 HNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQAL 230
V V L+ +GC+E+SLGDTIG GTP T+ L+ VL + PA LA H HDT G+AL
Sbjct: 155 QAVASVTEQLFSLGCHEVSLGDTIGRGTPDTVAAXLDAVLAIAPAHSLAGHYHDTGGRAL 214
Query: 231 ANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADLTSLLRT 290
NI ++E G+ VFD+S+ GLGGCP+A GA GNV T +V L G ETG DL L
Sbjct: 215 DNIRVSLEKGLRVFDASVGGLGGCPFAPGAKGNVDTVAVVEXLHEXGFETGLDLDRLRSA 274
Query: 291 GHY 293
G +
Sbjct: 275 GLF 277
Score = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 54/107 (50%), Positives = 71/107 (66%)
Query: 3 VASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANILT 62
V L+ +GC+E+SLGDTIG GTP T+ L+ VL + PA LA H HDT G+AL NI
Sbjct: 160 VTEQLFSLGCHEVSLGDTIGRGTPDTVAAXLDAVLAIAPAHSLAGHYHDTGGRALDNIRV 219
Query: 63 AMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKSMQCGV 109
++E G+ VFD+S+ GLGGCP+A GA GNV T +V L + G+
Sbjct: 220 SLEKGLRVFDASVGGLGGCPFAPGAKGNVDTVAVVEXLHEXGFETGL 266
>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 = 191 bits (485), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 94/202 (46%), Positives = 127/202 (62%)
Query: 104 SMQCGVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVRGYISCVVGCP 163
+++ G+ E VF SASE +++NIN + ESL +V + A + R Y+S V GCP
Sbjct: 90 ALEGGINEACVFXSASETHNRKNINKSTSESLHILKQVNNDAQKANLTTRAYLSTVFGCP 149
Query: 164 YEGAVPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCH 223
YE VP V R++ AL++ G E+SLGDTIG P + +LE +L PA+++A+H H
Sbjct: 150 YEKDVPIEQVIRLSEALFEFGISELSLGDTIGAANPAQVETVLEALLARFPANQIALHFH 209
Query: 224 DTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGAD 283
DT G ALAN +TA++ GI+VFD S GLGGCPYA G+SGN ATED+VY LE I+T
Sbjct: 210 DTRGTALANXVTALQXGITVFDGSAGGLGGCPYAPGSSGNAATEDIVYXLEQXDIKTNVK 269
Query: 284 LTSLLRTGHYICGKLKKPSNSK 305
L LL +I K KP S+
Sbjct: 270 LEKLLSAAKWIEEKXGKPLPSR 291
Score = 127 bits (318), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 59/124 (47%), Positives = 85/124 (68%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANI 60
++++ AL++ G E+SLGDTIG P + +LE +L PA+++A+H HDT G ALAN
Sbjct: 160 IRLSEALFEFGISELSLGDTIGAANPAQVETVLEALLARFPANQIALHFHDTRGTALANX 219
Query: 61 LTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKSMQCGVKEIAVFASASE 120
+TA++ GI+VFD S GLGGCPYA G+SGN ATED+VY LE ++ VK + ++A
Sbjct: 220 VTALQXGITVFDGSAGGLGGCPYAPGSSGNAATEDIVYXLEQXDIKTNVKLEKLLSAAKW 279
Query: 121 MFSK 124
+ K
Sbjct: 280 IEEK 283
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 77/295 (26%), Positives = 130/295 (44%), Gaps = 30/295 (10%)
Query: 20 TIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANI-LTAME-FGISVFDSSIAG 77
T + G ++L D + A RL + Q L I ++E +G + FDS I
Sbjct: 2 TQAIKRVGVTDVVLRDAHQSLFATRLRIDDMLPIAQQLDQIGYWSLECWGGATFDSCIRF 61
Query: 78 LGGCPYARGASGNVATED--LVYMLEGKSMQCGVKEIAVFASASEMFSKRNINCTIEESL 135
LG P+ R A + L +L G+++ G + A + F +R ++ +
Sbjct: 62 LGEDPWQRLRLLKQAMPNTPLQMLLRGQNL-LGYRHYA--DDVVDTFVER----AVKNGM 114
Query: 136 ERFSEVVSTALTNGIRVRGYISCV--VGCPYEGAV-----PPHNVT---RVATALYKMGC 185
+ F V A+ + ++ + V +G +G + P HN+ VA L ++G
Sbjct: 115 DVFR--VFDAMNDVRNMQQALQAVKKMGAHAQGTLCYTTSPVHNLQTWVDVAQQLAELGV 172
Query: 186 YEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANILTAMEFGISVFD 245
I+L D G+ TP ++ + + + L +HCH T G A +L A+E G+ D
Sbjct: 173 DSIALKDMAGILTPYAAEELVSTLKKQVDVE-LHLHCHSTAGLADMTLLKAIEAGVDRVD 231
Query: 246 SSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADLTSLLRTGHYICGKLKK 300
++I+ + G G+ ATE LV L+G G +TG D+ L + Y KK
Sbjct: 232 TAISSMSGT------YGHPATESLVATLQGTGYDTGLDIAKLEQIAAYFRDVRKK 280
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 58/120 (48%), Gaps = 8/120 (6%)
Query: 3 VASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANILT 62
VA L ++G I+L D G+ TP ++ + + + L +HCH T G A +L
Sbjct: 163 VAQQLAELGVDSIALKDMAGILTPYAAEELVSTLKKQVDVE-LHLHCHSTAGLADMTLLK 221
Query: 63 AMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKSMQCGVKEIAVFASASEMF 122
A+E G+ D++I+ + G G+ ATE LV L+G G+ +IA + F
Sbjct: 222 AIEAGVDRVDTAISSMSGT------YGHPATESLVATLQGTGYDTGL-DIAKLEQIAAYF 274
>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 = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 62/140 (44%), Gaps = 13/140 (9%)
Query: 162 CPYEGAVPPHNVTRVATALYKMGCYEISLGDTIGVGTP---GTMRLMLEDVLTVIPADRL 218
C G + R A+ + G +++ DT G P G L D ++ I L
Sbjct: 142 CEDAGRADQAFLARXVEAVIEAGADVVNIPDTTGYXLPWQYGERIKYLXDNVSNIDKAIL 201
Query: 219 AVHCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYML----E 274
+ HCH+ G A AN L A++ G + +I G+G +GN A E++V E
Sbjct: 202 SAHCHNDLGLATANSLAALQNGARQVECTINGIG------ERAGNTALEEVVXAXECHKE 255
Query: 275 GMGIETGADLTSLLRTGHYI 294
+G+ETG + L+ H +
Sbjct: 256 TLGLETGINHKKLVPISHLV 275
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 48/103 (46%), Gaps = 9/103 (8%)
Query: 2 KVASALYKMGCYEISLGDTIGVGTP---GTMRLMLEDVLTVIPADRLAVHCHDTYGQALA 58
+ A+ + G +++ DT G P G L D ++ I L+ HCH+ G A A
Sbjct: 155 RXVEAVIEAGADVVNIPDTTGYXLPWQYGERIKYLXDNVSNIDKAILSAHCHNDLGLATA 214
Query: 59 NILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLE 101
N L A++ G + +I G+G +GN A E++V E
Sbjct: 215 NSLAALQNGARQVECTINGIG------ERAGNTALEEVVXAXE 251
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 56/117 (47%), Gaps = 13/117 (11%)
Query: 179 ALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAV---HCHDTYGQALANILT 235
A+ + G I++ DT+G P +++ P V HCH+ G A+AN L
Sbjct: 165 AVIEAGATTINIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLA 224
Query: 236 AMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYML----EGMGIETGADLTSLL 288
A++ G + ++ GLG +GN + E++V L + G+ETG D T ++
Sbjct: 225 ALKGGARQVECTVNGLG------ERAGNASVEEIVMALKVRHDLFGLETGIDTTQIV 275
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 49/103 (47%), Gaps = 9/103 (8%)
Query: 2 KVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAV---HCHDTYGQALA 58
++ A+ + G I++ DT+G P +++ P V HCH+ G A+A
Sbjct: 161 EICGAVIEAGATTINIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVA 220
Query: 59 NILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLE 101
N L A++ G + ++ GLG +GN + E++V L+
Sbjct: 221 NSLAALKGGARQVECTVNGLG------ERAGNASVEEIVMALK 257
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 37/127 (29%), Positives = 59/127 (46%), Gaps = 9/127 (7%)
Query: 7 LYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANILTAMEF 66
L K I L DT+GV +P ++ ++ P H H+ Y ++AN L A+
Sbjct: 178 LSKEHIERIFLPDTLGVLSPEETFQGVDSLIQKYPDIHFEFHGHNDYDLSVANSLQAIRA 237
Query: 67 GISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGKS-MQCGVKEIAVFASAS--EMFS 123
G+ +SI GLG +GN E LV + KS + + EIA+ ++ E+FS
Sbjct: 238 GVKGLHASINGLG------ERAGNTPLEALVTTIHDKSNSKTNINEIAITEASRLVEVFS 291
Query: 124 KRNINCT 130
+ I+
Sbjct: 292 GKRISAN 298
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 67/164 (40%), Gaps = 9/164 (5%)
Query: 107 CGVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVRGYISCVVGCPYEG 166
G K + + S ++ + T +E S V+ A+ +G+++ Y+
Sbjct: 108 SGAKVLNLLTKGSLHHLEKQLGKTPKEFFTDVSFVIEYAIKSGLKINVYLEDWSNGFRNS 167
Query: 167 AVPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTY 226
P V + L K I L DT+GV +P ++ ++ P H H+ Y
Sbjct: 168 ---PDYVKSLVEHLSKEHIERIFLPDTLGVLSPEETFQGVDSLIQKYPDIHFEFHGHNDY 224
Query: 227 GQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLV 270
++AN L A+ G+ +SI GLG +GN E LV
Sbjct: 225 DLSVANSLQAIRAGVKGLHASINGLG------ERAGNTPLEALV 262
>pdb|1RQE|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Oxaloacetate
Length = 539
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 13/139 (9%)
Query: 169 PPHNV---TRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHD 224
P H V ++A L MG I+L D + P +++ + T ++ +HCH
Sbjct: 170 PVHTVEGYVKLAGQLLDMGADSIALKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHS 229
Query: 225 TYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADL 284
T G +++ A+E G+ V D++I+ + P G+ TE + MLEG G T D
Sbjct: 230 TTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDY 283
Query: 285 TSLLR-TGHY--ICGKLKK 300
L + H+ I K KK
Sbjct: 284 DRLHKIRDHFKAIRPKYKK 302
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 51/103 (49%), Gaps = 7/103 (6%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHDTYGQALAN 59
+K+A L MG I+L D + P +++ + T ++ +HCH T G +
Sbjct: 178 VKLAGQLLDMGADSIALKDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVS 237
Query: 60 ILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEG 102
++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 238 LMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEG 274
>pdb|1U5J|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit,
Met186ile
Length = 539
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 13/139 (9%)
Query: 169 PPHNV---TRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHD 224
P H V ++A L MG I+L D + P +++ + T ++ +HCH
Sbjct: 170 PVHTVEGYVKLAGQLLDMGADSIALXDIAALLKPQPAYDIIKAIKDTYGQKTQINLHCHS 229
Query: 225 TYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADL 284
T G +++ A+E G+ V D++I+ + P G+ TE + MLEG G T D
Sbjct: 230 TTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDY 283
Query: 285 TSLLR-TGHY--ICGKLKK 300
L + H+ I K KK
Sbjct: 284 DRLHKIRDHFKAIRPKYKK 302
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 51/103 (49%), Gaps = 7/103 (6%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHDTYGQALAN 59
+K+A L MG I+L D + P +++ + T ++ +HCH T G +
Sbjct: 178 VKLAGQLLDMGADSIALXDIAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVS 237
Query: 60 ILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEG 102
++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 238 LMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEG 274
>pdb|1S3H|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
A59t
Length = 539
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 64/139 (46%), Gaps = 13/139 (9%)
Query: 169 PPHNV---TRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHD 224
P H V ++A L MG I+L D + P +++ + T ++ +HCH
Sbjct: 170 PVHTVEGYVKLAGQLLDMGADSIALXDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHS 229
Query: 225 TYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADL 284
T G +++ A+E G+ V D++I+ + P G+ TE + MLEG G T D
Sbjct: 230 TTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGTGYTTNLDY 283
Query: 285 TSLLR-TGHY--ICGKLKK 300
L + H+ I K KK
Sbjct: 284 DRLHKIRDHFKAIRPKYKK 302
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 51/103 (49%), Gaps = 7/103 (6%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHDTYGQALAN 59
+K+A L MG I+L D + P +++ + T ++ +HCH T G +
Sbjct: 178 VKLAGQLLDMGADSIALXDMAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVS 237
Query: 60 ILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEG 102
++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 238 LMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEG 274
>pdb|3IVS|A Chain A, Homocitrate Synthase Lys4
pdb|3IVS|B Chain B, Homocitrate Synthase Lys4
Length = 423
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANI 60
+ + A+ K+G + + DT+G TP + ++ + V+ D + H H+ G A+AN
Sbjct: 183 LSLYKAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGXAIANA 241
Query: 61 LTAMEFGISVFDSSIAGLG 79
A+E G + D+SI G+G
Sbjct: 242 YCALEAGATHIDTSILGIG 260
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 72/154 (46%), Gaps = 17/154 (11%)
Query: 104 SMQCGVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVR-----GYISC 158
+++ GV + V S+ K + + ++ +EV++ + GI VR + S
Sbjct: 119 AVETGVDGVDVVIGTSQYLRKYSHGKDMTYIIDSATEVINFVKSKGIEVRFSSEDSFRSD 178
Query: 159 VVGCPYEGAVPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRL 218
+V ++ + A+ K+G + + DT+G TP + ++ + V+ D +
Sbjct: 179 LV-----------DLLSLYKAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-I 226
Query: 219 AVHCHDTYGQALANILTAMEFGISVFDSSIAGLG 252
H H+ G A+AN A+E G + D+SI G+G
Sbjct: 227 ECHFHNDTGXAIANAYCALEAGATHIDTSILGIG 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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 72/154 (46%), Gaps = 17/154 (11%)
Query: 104 SMQCGVKEIAVFASASEMFSKRNINCTIEESLERFSEVVSTALTNGIRVR-----GYISC 158
+++ GV + V S+ K + + ++ +EV++ + GI VR + S
Sbjct: 119 AVETGVDGVDVVIGTSQYLRKYSHGKDMTYIIDSATEVINFVKSKGIEVRFSSEDSFRSD 178
Query: 159 VVGCPYEGAVPPHNVTRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRL 218
+V ++ + A+ K+G + + DT+G TP + ++ + V+ D +
Sbjct: 179 LV-----------DLLSLYKAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-I 226
Query: 219 AVHCHDTYGQALANILTAMEFGISVFDSSIAGLG 252
H H+ G A+AN A+E G + D+SI G+G
Sbjct: 227 ECHFHNDTGMAIANAYCALEAGATHIDTSILGIG 260
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPADRLAVHCHDTYGQALANI 60
+ + A+ K+G + + DT+G TP + ++ + V+ D + H H+ G A+AN
Sbjct: 183 LSLYKAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGMAIANA 241
Query: 61 LTAMEFGISVFDSSIAGLG 79
A+E G + D+SI G+G
Sbjct: 242 YCALEAGATHIDTSILGIG 260
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 15 ISLGDTIGVGTPGTMRLMLEDVLTVI-PADRLAVHCHDTYGQALANILTAMEFGISVFDS 73
+ L DT+GV TP + ++ +V V+ P + H H+ G A+AN A+E G + D+
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 74 SIAGLG 79
+I G+G
Sbjct: 221 TILGIG 226
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 188 ISLGDTIGVGTPGTMRLMLEDVLTVI-PADRLAVHCHDTYGQALANILTAMEFGISVFDS 246
+ L DT+GV TP + ++ +V V+ P + H H+ G A+AN A+E G + D+
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 247 SIAGLG 252
+I 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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 15 ISLGDTIGVGTPGTMRLMLEDVLTVI-PADRLAVHCHDTYGQALANILTAMEFGISVFDS 73
+ L DT+GV TP + ++ +V V+ P + H H+ G A+AN A+E G + D+
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 74 SIAGLG 79
+I G+G
Sbjct: 221 TILGIG 226
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 188 ISLGDTIGVGTPGTMRLMLEDVLTVI-PADRLAVHCHDTYGQALANILTAMEFGISVFDS 246
+ L DT+GV TP + ++ +V V+ P + H H+ G A+AN A+E G + D+
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDT 220
Query: 247 SIAGLG 252
+I G+G
Sbjct: 221 TILGIG 226
>pdb|3EWB|X Chain X, Crystal Structure Of N-Terminal Domain Of Putative 2-
Isopropylmalate Synthase From Listeria Monocytogenes
Length = 293
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 52/116 (44%), Gaps = 19/116 (16%)
Query: 170 PHNVTR---------VATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVLTVIPA-DRL- 218
P + TR V TA+ G I++ DT+G P + +D+ I D +
Sbjct: 141 PEDATRSDRAFLIEAVQTAI-DAGATVINIPDTVGYTNPTEFGQLFQDLRREIKQFDDII 199
Query: 219 -AVHCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYML 273
A HCHD G A AN L A+E G + +I G+G +GN A E++ L
Sbjct: 200 FASHCHDDLGXATANALAAIENGARRVEGTINGIG------ERAGNTALEEVAVAL 249
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 11 GCYEISLGDTIGVGTPGTMRLMLEDVLTVIPA-DRL--AVHCHDTYGQALANILTAMEFG 67
G I++ DT+G P + +D+ I D + A HCHD G A AN L A+E G
Sbjct: 163 GATVINIPDTVGYTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGXATANALAAIENG 222
Query: 68 ISVFDSSIAGLGGCPYARGASGNVATEDLVYML 100
+ +I G+G +GN A E++ L
Sbjct: 223 ARRVEGTINGIG------ERAGNTALEEVAVAL 249
>pdb|1RR2|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To 2- Ketobutyric Acid
Length = 473
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 44/87 (50%), Gaps = 9/87 (10%)
Query: 217 RLAVHCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGM 276
++ +HCH T G +++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 210 QINLHCHSTTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGT 263
Query: 277 GIETGADLTSLLR-TGHY--ICGKLKK 300
G T D L + H+ I K KK
Sbjct: 264 GYTTNLDYDRLHKIRDHFKAIRPKYKK 290
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 6/59 (10%)
Query: 44 RLAVHCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEG 102
++ +HCH T G +++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 210 QINLHCHSTTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEG 262
>pdb|1RQH|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Pyruvic Acid
Length = 472
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 44/87 (50%), Gaps = 9/87 (10%)
Query: 217 RLAVHCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGM 276
++ +HCH T G +++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 209 QINLHCHSTTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEGT 262
Query: 277 GIETGADLTSLLR-TGHY--ICGKLKK 300
G T D L + H+ I K KK
Sbjct: 263 GYTTNLDYDRLHKIRDHFKAIRPKYKK 289
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 6/59 (10%)
Query: 44 RLAVHCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEG 102
++ +HCH T G +++ A+E G+ V D++I+ + P G+ TE + MLEG
Sbjct: 209 QINLHCHSTTGVTEVSLMKAIEAGVDVVDTAISSMSLGP------GHNPTESVAEMLEG 261
>pdb|1RQB|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Length = 539
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 60/139 (43%), Gaps = 13/139 (9%)
Query: 169 PPHNV---TRVATALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHD 224
P H V ++A L G I+L D + P +++ + T ++ +HCH
Sbjct: 170 PVHTVEGYVKLAGQLLDXGADSIALXDXAALLKPQPAYDIIKAIKDTYGQKTQINLHCHS 229
Query: 225 TYGQALANILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEGMGIETGADL 284
T G ++ A+E G+ V D++I+ P G+ TE + LEG G T D
Sbjct: 230 TTGVTEVSLXKAIEAGVDVVDTAISSXSLGP------GHNPTESVAEXLEGTGYTTNLDY 283
Query: 285 TSLLR-TGHY--ICGKLKK 300
L + H+ I K KK
Sbjct: 284 DRLHKIRDHFKAIRPKYKK 302
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 7/103 (6%)
Query: 1 MKVASALYKMGCYEISLGDTIGVGTPGTMRLMLEDVL-TVIPADRLAVHCHDTYGQALAN 59
+K+A L G I+L D + P +++ + T ++ +HCH T G +
Sbjct: 178 VKLAGQLLDXGADSIALXDXAALLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVS 237
Query: 60 ILTAMEFGISVFDSSIAGLGGCPYARGASGNVATEDLVYMLEG 102
+ A+E G+ V D++I+ P G+ TE + LEG
Sbjct: 238 LXKAIEAGVDVVDTAISSXSLGP------GHNPTESVAEXLEG 274
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 19 DTIGVGTPGTMRLMLEDV--LTVIPADRLAVHCHDTYGQALANILTAMEFGISVFDSSIA 76
D+ G TP ++ +L++V T +P + H HD L N +TA++ GI D++I
Sbjct: 164 DSFGGITPKEVKNLLKEVRKYTHVP---VGFHGHDNLQLGLINSITAIDDGIDFIDATIT 220
Query: 77 GLGGCPYARGASGNVATEDLVYMLE 101
G G RGA GN+ E L+ L
Sbjct: 221 GXG-----RGA-GNLKXELLLTYLN 239
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 192 DTIGVGTPGTMRLMLEDV--LTVIPADRLAVHCHDTYGQALANILTAMEFGISVFDSSIA 249
D+ G TP ++ +L++V T +P + H HD L N +TA++ GI D++I
Sbjct: 164 DSFGGITPKEVKNLLKEVRKYTHVP---VGFHGHDNLQLGLINSITAIDDGIDFIDATIT 220
Query: 250 GLGGCPYARGASGNVATEDLVYMLE 274
G G RGA GN+ E L+ L
Sbjct: 221 GXG-----RGA-GNLKXELLLTYLN 239
>pdb|1QI9|A Chain A, X-ray Siras Structure Determination Of A
Vanadium-dependent Haloperoxidase From Ascophyllum
Nodosum At 2.0 A Resolution
pdb|1QI9|B Chain B, X-ray Siras Structure Determination Of A
Vanadium-dependent Haloperoxidase From Ascophyllum
Nodosum At 2.0 A Resolution
Length = 556
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 44/103 (42%), Gaps = 8/103 (7%)
Query: 213 IPADRLAVHCHDTYGQALANILTAMEFGISVFD----SSIAGLGGCP----YARGASGNV 264
+P+ LA + Y ALA + M++G +++AG+ G P + G+ G V
Sbjct: 129 LPSPELAAQLAEVYWMALARDVPFMQYGTDDITVTAAANLAGMEGFPNLDAVSIGSDGTV 188
Query: 265 ATEDLVYMLEGMGIETGADLTSLLRTGHYICGKLKKPSNSKVA 307
++ +G+ETG ++ LL I +P A
Sbjct: 189 DPLSQLFRATFVGVETGPFISQLLVNSFTIDSITVEPKQETFA 231
>pdb|3U36|H Chain H, Crystal Structure Of Pg9 Fab
pdb|3U36|A Chain A, Crystal Structure Of Pg9 Fab
pdb|3U36|C Chain C, Crystal Structure Of Pg9 Fab
pdb|3U36|E Chain E, Crystal Structure Of Pg9 Fab
Length = 248
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 17/31 (54%)
Query: 290 TGHYICGKLKKPSNSKVAKALPVKETSKTLE 320
T YIC KPSN+KV K + K K LE
Sbjct: 214 TQTYICNVNHKPSNTKVDKKVEPKSCDKGLE 244
>pdb|3U2S|H Chain H, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Zm109
pdb|3U2S|A Chain A, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Zm109
pdb|3U4E|H Chain H, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Cap45
pdb|3U4E|A Chain A, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Cap45
Length = 248
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 17/31 (54%)
Query: 290 TGHYICGKLKKPSNSKVAKALPVKETSKTLE 320
T YIC KPSN+KV K + K K LE
Sbjct: 214 TQTYICNVNHKPSNTKVDKKVEPKSCDKGLE 244
>pdb|2X3N|A Chain A, Crystal Structure Of Pqsl, A Probable Fad-Dependent
Monooxygenase From Pseudomonas Aeruginosa
Length = 399
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 33 LEDVLTVIPADRLAV-HCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARG 86
LED L A+R V +YG ALA L + VFD+++ G P A G
Sbjct: 330 LEDALAGYQAERFPVNQAIVSYGHALATSLEDRQRFAGVFDTALQGSSRTPEALG 384
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 206 LEDVLTVIPADRLAV-HCHDTYGQALANILTAMEFGISVFDSSIAGLGGCPYARG 259
LED L A+R V +YG ALA L + VFD+++ G P A G
Sbjct: 330 LEDALAGYQAERFPVNQAIVSYGHALATSLEDRQRFAGVFDTALQGSSRTPEALG 384
>pdb|3HR5|H Chain H, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|B Chain B, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|I Chain I, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|J Chain J, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
Length = 226
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 290 TGHYICGKLKKPSNSKVAKALPVKETSKT 318
T YIC KPSN+KV K + K KT
Sbjct: 195 TQTYICNVNHKPSNTKVDKKVEPKSCDKT 223
>pdb|2NZ9|D Chain D, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
pdb|2NZ9|F Chain F, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
Length = 224
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 290 TGHYICGKLKKPSNSKVAKALPVKETSKT 318
T YIC KPSN+KV K + K KT
Sbjct: 196 TQTYICNVNHKPSNTKVDKKVEPKSCDKT 224
>pdb|1TZH|B Chain B, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
pdb|1TZH|H Chain H, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
Length = 229
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 290 TGHYICGKLKKPSNSKVAKALPVKETSKT 318
T YIC KPSN+KV K + K KT
Sbjct: 200 TQTYICNVNHKPSNTKVDKKVEPKSCDKT 228
>pdb|2QQK|H Chain H, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
pdb|2QQL|H Chain H, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
Length = 231
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 290 TGHYICGKLKKPSNSKVAKALPVKETSKT 318
T YIC KPSN+KV K + K KT
Sbjct: 202 TQTYICNVNHKPSNTKVDKKVEPKSCDKT 230
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
0.319 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,077,465
Number of Sequences: 62578
Number of extensions: 352696
Number of successful extensions: 1305
Number of sequences better than 100.0: 126
Number of HSP's better than 100.0 without gapping: 123
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1141
Number of HSP's gapped (non-prelim): 151
length of query: 327
length of database: 14,973,337
effective HSP length: 99
effective length of query: 228
effective length of database: 8,778,115
effective search space: 2001410220
effective search space used: 2001410220
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)