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= 011057
(494 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HBX|A Chain A, Crystal Structure Of Gad1 From Arabidopsis Thaliana
pdb|3HBX|B Chain B, Crystal Structure Of Gad1 From Arabidopsis Thaliana
pdb|3HBX|C Chain C, Crystal Structure Of Gad1 From Arabidopsis Thaliana
pdb|3HBX|D Chain D, Crystal Structure Of Gad1 From Arabidopsis Thaliana
pdb|3HBX|E Chain E, Crystal Structure Of Gad1 From Arabidopsis Thaliana
pdb|3HBX|F Chain F, Crystal Structure Of Gad1 From Arabidopsis Thaliana
Length = 502
Score = 880 bits (2274), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 424/496 (85%), Positives = 454/496 (91%), Gaps = 10/496 (2%)
Query: 1 MVLSKTFSESDESIHSTFASRYVRNSLPRFTMPENSIPKEAAYQIINDELMLDGNPRLNL 60
MVLS SESD S+HSTFASRYVR SLPRF MPENSIPKEAAYQIINDELMLDGNPRLNL
Sbjct: 1 MVLSHAVSESDVSVHSTFASRYVRTSLPRFKMPENSIPKEAAYQIINDELMLDGNPRLNL 60
Query: 61 ASFVTTWMEPECDKLMMAAINKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVG 120
ASFVTTWMEPECDKL+M++INKNYVDMDEYPVTTELQNRCVN+IA LFNAPLE++ETAVG
Sbjct: 61 ASFVTTWMEPECDKLIMSSINKNYVDMDEYPVTTELQNRCVNMIAHLFNAPLEEAETAVG 120
Query: 121 VGTVGSSEAIMLAGLAFKRKWQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKE 180
VGTVGSSEAIMLAGLAFKRKWQNKRKAEGKP DKPNIVTGANVQVCWEKFARYFEVELKE
Sbjct: 121 VGTVGSSEAIMLAGLAFKRKWQNKRKAEGKPVDKPNIVTGANVQVCWEKFARYFEVELKE 180
Query: 181 VKLSEGYYVMDPVKAVEMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTP 240
VKLSEGYYVMDP +AV+MVDENTICVAAILGSTLNGEFEDVKLLNDLL EKNKETGWDTP
Sbjct: 181 VKLSEGYYVMDPQQAVDMVDENTICVAAILGSTLNGEFEDVKLLNDLLVEKNKETGWDTP 240
Query: 241 IHVDAASGGFIAPFLYPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEEL 300
IHVDAASGGFIAPFLYPELEWDFRLPLVKSINVSGH YGLVYAGIGWVIWRNKEDLPEEL
Sbjct: 241 IHVDAASGGFIAPFLYPELEWDFRLPLVKSINVSGHXYGLVYAGIGWVIWRNKEDLPEEL 300
Query: 301 IFHINYLGADQPTFTLNFSKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEK 360
IFHINYLGADQPTFTLNFSKGSSQVIAQYYQLIRLG EGYRNVMENC EN +VL+EGLEK
Sbjct: 301 IFHINYLGADQPTFTLNFSKGSSQVIAQYYQLIRLGHEGYRNVMENCRENMIVLREGLEK 360
Query: 361 TGRFNIVSKDEGVPLVAFSLKDNKRHDEFEVAELLRRFGWIVPAYTMPADAQHITVLRVV 420
T RFNIVSKDEGVPLVAFSLKD+ H EFE++++LRR+GWIVPAYTMP +AQHITVLRVV
Sbjct: 361 TERFNIVSKDEGVPLVAFSLKDSSCHTEFEISDMLRRYGWIVPAYTMPPNAQHITVLRVV 420
Query: 421 IREDFSRTLAERLVLDITKVLHELDSLPSKVL------VPASEQNGRN----GKKTEIET 470
IREDFSRTLAERLV+DI KV+ ELD LPS+V+ SE N N KK++I+
Sbjct: 421 IREDFSRTLAERLVIDIEKVMRELDELPSRVIHKISLGQEKSESNSDNLMVTVKKSDIDK 480
Query: 471 QREVTTYWRKFVSERK 486
QR++ T W+KFV++RK
Sbjct: 481 QRDIITGWKKFVADRK 496
>pdb|1PMM|A Chain A, Crystal Structure Of Escherichia Coli Gadb (Low Ph)
pdb|1PMM|B Chain B, Crystal Structure Of Escherichia Coli Gadb (Low Ph)
pdb|1PMM|C Chain C, Crystal Structure Of Escherichia Coli Gadb (Low Ph)
pdb|1PMM|D Chain D, Crystal Structure Of Escherichia Coli Gadb (Low Ph)
pdb|1PMM|E Chain E, Crystal Structure Of Escherichia Coli Gadb (Low Ph)
pdb|1PMM|F Chain F, Crystal Structure Of Escherichia Coli Gadb (Low Ph)
pdb|1PMO|A Chain A, Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
pdb|1PMO|B Chain B, Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
pdb|1PMO|C Chain C, Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
pdb|1PMO|D Chain D, Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
pdb|1PMO|E Chain E, Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
pdb|1PMO|F Chain F, Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
pdb|2DGL|A Chain A, Crystal Structure Of Escherichia Coli Gadb In Complex With
Bromide
pdb|2DGL|B Chain B, Crystal Structure Of Escherichia Coli Gadb In Complex With
Bromide
pdb|2DGL|C Chain C, Crystal Structure Of Escherichia Coli Gadb In Complex With
Bromide
pdb|2DGL|D Chain D, Crystal Structure Of Escherichia Coli Gadb In Complex With
Bromide
pdb|2DGL|E Chain E, Crystal Structure Of Escherichia Coli Gadb In Complex With
Bromide
pdb|2DGL|F Chain F, Crystal Structure Of Escherichia Coli Gadb In Complex With
Bromide
pdb|2DGM|A Chain A, Crystal Structure Of Escherichia Coli Gadb In Complex With
Iodide
pdb|2DGM|B Chain B, Crystal Structure Of Escherichia Coli Gadb In Complex With
Iodide
pdb|2DGM|C Chain C, Crystal Structure Of Escherichia Coli Gadb In Complex With
Iodide
pdb|2DGM|D Chain D, Crystal Structure Of Escherichia Coli Gadb In Complex With
Iodide
pdb|2DGM|E Chain E, Crystal Structure Of Escherichia Coli Gadb In Complex With
Iodide
pdb|2DGM|F Chain F, Crystal Structure Of Escherichia Coli Gadb In Complex With
Iodide
pdb|3FZ6|A Chain A, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Complex With Xenon
pdb|3FZ6|B Chain B, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Complex With Xenon
pdb|3FZ6|C Chain C, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Complex With Xenon
pdb|3FZ6|D Chain D, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Complex With Xenon
pdb|3FZ6|E Chain E, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Complex With Xenon
pdb|3FZ6|F Chain F, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Complex With Xenon
pdb|3FZ7|A Chain A, Crystal Structure Of Apo Glutamate Decarboxylase Beta From
Escherichia Coli
pdb|3FZ7|B Chain B, Crystal Structure Of Apo Glutamate Decarboxylase Beta From
Escherichia Coli
pdb|3FZ7|C Chain C, Crystal Structure Of Apo Glutamate Decarboxylase Beta From
Escherichia Coli
pdb|3FZ7|D Chain D, Crystal Structure Of Apo Glutamate Decarboxylase Beta From
Escherichia Coli
pdb|3FZ7|E Chain E, Crystal Structure Of Apo Glutamate Decarboxylase Beta From
Escherichia Coli
pdb|3FZ7|F Chain F, Crystal Structure Of Apo Glutamate Decarboxylase Beta From
Escherichia Coli
pdb|3FZ8|A Chain A, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Reduced Schiff Base With Plp
pdb|3FZ8|B Chain B, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Reduced Schiff Base With Plp
pdb|3FZ8|C Chain C, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Reduced Schiff Base With Plp
pdb|3FZ8|D Chain D, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Reduced Schiff Base With Plp
pdb|3FZ8|E Chain E, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Reduced Schiff Base With Plp
pdb|3FZ8|F Chain F, Crystal Structure Of Glutamate Decarboxylase Beta From
Escherichia Coli: Reduced Schiff Base With Plp
Length = 466
Score = 401 bits (1031), Expect = e-112, Method: Compositional matrix adjust.
Identities = 199/442 (45%), Positives = 280/442 (63%), Gaps = 6/442 (1%)
Query: 12 ESIHSTFASRYVRNSLPRFTMPENSIPKEAAYQIINDELMLDGNPRLNLASFVTTWMEPE 71
E + S F ++ + P + + + A+QIINDEL LDGN R NLA+F TW +
Sbjct: 12 ELLDSRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDEN 71
Query: 72 CDKLMMAAINKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIM 131
KLM +INKN++D +EYP + + RCVN++A L++AP + AVG T+GSSEA M
Sbjct: 72 VHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACM 131
Query: 132 LAGLAFKRKWQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMD 191
L G+A K +W+ + +A GKP DKPN+V G VQ+CW KFARY++VEL+E+ + G MD
Sbjct: 132 LGGMAMKWRWRKRMEAAGKPTDKPNLVCGP-VQICWHKFARYWDVELREIPMRPGQLFMD 190
Query: 192 PVKAVEMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFI 251
P + +E DENTI V G T G +E + L+D L + +TG D +H+DAASGGF+
Sbjct: 191 PKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFL 250
Query: 252 APFLYPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQ 311
APF+ P++ WDFRLP VKSI+ SGHK+GL G GWVIWR++E LP+EL+F+++YLG
Sbjct: 251 APFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQI 310
Query: 312 PTFTLNFSKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSK-- 369
TF +NFS+ + QVIAQYY+ +RLG EGY V ++ A L + + K G + +
Sbjct: 311 GTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGR 370
Query: 370 -DEGVPLVAFSLKDNKR--HDEFEVAELLRRFGWIVPAYTMPADAQHITVLRVVIREDFS 426
DEG+P V F LKD + + ++++E LR GW VPA+T+ +A I V+R++ R F
Sbjct: 371 PDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFE 430
Query: 427 RTLAERLVLDITKVLHELDSLP 448
AE L+ D L L P
Sbjct: 431 MDFAELLLEDYKASLKYLSDHP 452
>pdb|1XEY|A Chain A, Crystal Structure Of The Complex Of Escherichia Coli Gada
With Glutarate At 2.05 A Resolution
pdb|1XEY|B Chain B, Crystal Structure Of The Complex Of Escherichia Coli Gada
With Glutarate At 2.05 A Resolution
Length = 466
Score = 401 bits (1030), Expect = e-112, Method: Compositional matrix adjust.
Identities = 202/453 (44%), Positives = 285/453 (62%), Gaps = 8/453 (1%)
Query: 12 ESIHSTFASRYVRNSLPRFTMPENSIPKEAAYQIINDELMLDGNPRLNLASFVTTWMEPE 71
E + S F ++ + P + + + A+QIINDEL LDGN R NLA+F TW +
Sbjct: 12 ELLDSRFGAKAISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDEN 71
Query: 72 CDKLMMAAINKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIM 131
KLM +INKN++D +EYP + + RCVN++A L++AP + AVG T+GSSEA M
Sbjct: 72 VHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACM 131
Query: 132 LAGLAFKRKWQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMD 191
L G+A K +W+ + +A GKP DKPN+V G VQ+CW KFARY++VEL+E+ + G MD
Sbjct: 132 LGGMAMKWRWRKRMEAAGKPTDKPNLVCGP-VQICWHKFARYWDVELREIPMRPGQLFMD 190
Query: 192 PVKAVEMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFI 251
P + +E DENTI V G T G +E + L+D L + +TG D +H+DAASGGF+
Sbjct: 191 PKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFL 250
Query: 252 APFLYPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQ 311
APF+ P++ WDFRLP VKSI+ SGHK+GL G GWVIWR++E LP+EL+F+++YLG
Sbjct: 251 APFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQI 310
Query: 312 PTFTLNFSKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSK-- 369
TF +NFS+ + QVIAQYY+ +RLG EGY V ++ A L + + K G + +
Sbjct: 311 GTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGR 370
Query: 370 -DEGVPLVAFSLKDNKR--HDEFEVAELLRRFGWIVPAYTMPADAQHITVLRVVIREDFS 426
DEG+P V F LKD + + ++++E LR GW VPA+T+ +A I V+R++ R F
Sbjct: 371 PDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFE 430
Query: 427 RTLAERLVLDITKVLHELDSLPSKVLVPASEQN 459
AE L+ D L L P L ++QN
Sbjct: 431 MDFAELLLEDYKASLKYLSDHPK--LQGIAQQN 461
>pdb|2DGK|A Chain A, Crystal Structure Of An N-terminal Deletion Mutant Of
Escherichia Coli Gadb In An Autoinhibited State
(aldamine)
pdb|2DGK|B Chain B, Crystal Structure Of An N-terminal Deletion Mutant Of
Escherichia Coli Gadb In An Autoinhibited State
(aldamine)
pdb|2DGK|C Chain C, Crystal Structure Of An N-terminal Deletion Mutant Of
Escherichia Coli Gadb In An Autoinhibited State
(aldamine)
pdb|2DGK|D Chain D, Crystal Structure Of An N-terminal Deletion Mutant Of
Escherichia Coli Gadb In An Autoinhibited State
(aldamine)
pdb|2DGK|E Chain E, Crystal Structure Of An N-terminal Deletion Mutant Of
Escherichia Coli Gadb In An Autoinhibited State
(aldamine)
pdb|2DGK|F Chain F, Crystal Structure Of An N-terminal Deletion Mutant Of
Escherichia Coli Gadb In An Autoinhibited State
(aldamine)
Length = 452
Score = 399 bits (1026), Expect = e-111, Method: Compositional matrix adjust.
Identities = 198/438 (45%), Positives = 278/438 (63%), Gaps = 6/438 (1%)
Query: 16 STFASRYVRNSLPRFTMPENSIPKEAAYQIINDELMLDGNPRLNLASFVTTWMEPECDKL 75
S F ++ + P + + + A+QIINDEL LDGN R NLA+F TW + KL
Sbjct: 2 SRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKL 61
Query: 76 MMAAINKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGL 135
M +INKN++D +EYP + + RCVN++A L++AP + AVG T+GSSEA ML G+
Sbjct: 62 MDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGM 121
Query: 136 AFKRKWQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKA 195
A K +W+ + +A GKP DKPN+V G VQ+CW KFARY++VEL+E+ + G MDP +
Sbjct: 122 AMKWRWRKRMEAAGKPTDKPNLVCGP-VQICWHKFARYWDVELREIPMRPGQLFMDPKRM 180
Query: 196 VEMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL 255
+E DENTI V G T G +E + L+D L + +TG D +H+DAASGGF+APF+
Sbjct: 181 IEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFV 240
Query: 256 YPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPTFT 315
P++ WDFRLP VKSI+ SGHK+GL G GWVIWR++E LP+EL+F+++YLG TF
Sbjct: 241 APDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFA 300
Query: 316 LNFSKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSK---DEG 372
+NFS+ + QVIAQYY+ +RLG EGY V ++ A L + + K G + + DEG
Sbjct: 301 INFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTGRPDEG 360
Query: 373 VPLVAFSLKDNKR--HDEFEVAELLRRFGWIVPAYTMPADAQHITVLRVVIREDFSRTLA 430
+P V F LKD + + ++++E LR GW VPA+T+ +A I V+R++ R F A
Sbjct: 361 IPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGFEMDFA 420
Query: 431 ERLVLDITKVLHELDSLP 448
E L+ D L L P
Sbjct: 421 ELLLEDYKASLKYLSDHP 438
>pdb|3MC6|C Chain C, Crystal Structure Of Scdpl1
Length = 497
Score = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 102/368 (27%), Positives = 178/368 (48%), Gaps = 42/368 (11%)
Query: 83 NYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRKWQ 142
N + D +P ++++ V+++ R+FNAP S+T G T G +E+++LA L+ K
Sbjct: 95 NQLHPDVFPAVRKMESEVVSMVLRMFNAP---SDTGCGTTTSGGTESLLLACLSAKMYAL 151
Query: 143 NKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVDEN 202
+ R +P I+ ++K A YF ++L+ V+L Y +D K + +++N
Sbjct: 152 HHRG-----ITEPEIIAPVTAHAGFDKAAYYFGMKLRHVELDPTTYQVDLGKVKKFINKN 206
Query: 203 TICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----YPE 258
T+ + + +G +D++ L +A+K K P+HVD+ G FI F+ Y
Sbjct: 207 TVLLVGSAPNFPHGIADDIEGLGK-IAQKYK-----LPLHVDSCLGSFIVSFMEKAGYKN 260
Query: 259 LE-WDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPTFTLN 317
L DFR+P V SI+ HKYG G +++RN + + + + G + TL
Sbjct: 261 LPLLDFRVPGVTSISCDTHKYGFAPKGSSVIMYRNSDLRMHQYYVNPAWTGGLYGSPTLA 320
Query: 318 FSKGSSQVIAQYYQLIRLGFEGYRNVMENCHE---NAMVLKEGLEKTGRFNIVSKD-EGV 373
S+ + V+ + ++ +G GY +E+C E AM K+ +++ NI D G
Sbjct: 321 GSRPGAIVVGCWATMVNMGENGY---IESCQEIVGAAMKFKKYIQE----NIPDLDIMGN 373
Query: 374 P---LVAFSLKDNKRHDEFEVAELLRRFGWIVPAYTMPADAQHITVLRV---VIRE--DF 425
P +++FS K H E+++ L + GW A P A H+ R+ V+ E D
Sbjct: 374 PRYSVISFSSKTLNIH---ELSDRLSKKGWHFNALQKPV-ALHMAFTRLSAHVVDEICDI 429
Query: 426 SRTLAERL 433
RT + L
Sbjct: 430 LRTTVQEL 437
>pdb|3MC6|A Chain A, Crystal Structure Of Scdpl1
Length = 497
Score = 98.6 bits (244), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 101/368 (27%), Positives = 177/368 (48%), Gaps = 42/368 (11%)
Query: 83 NYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRKWQ 142
N + D +P ++++ V+++ R+FNAP S+T G T G +E+++LA L+ K
Sbjct: 95 NQLHPDVFPAVRKMESEVVSMVLRMFNAP---SDTGCGTTTSGGTESLLLACLSAKMYAL 151
Query: 143 NKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVDEN 202
+ R +P I+ ++K A YF ++L+ V+L Y +D K + +++N
Sbjct: 152 HHRG-----ITEPEIIAPVTAHAGFDKAAYYFGMKLRHVELDPTTYQVDLGKVKKFINKN 206
Query: 203 TICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----YPE 258
T+ + + +G +D++ L +A+K K P+HVD+ G FI F+ Y
Sbjct: 207 TVLLVGSAPNFPHGIADDIEGLGK-IAQKYK-----LPLHVDSCLGSFIVSFMEKAGYKN 260
Query: 259 LE-WDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPTFTLN 317
L DFR+P V SI+ H YG G +++RN + + + + G + TL
Sbjct: 261 LPLLDFRVPGVTSISCDTHXYGFAPKGSSVIMYRNSDLRMHQYYVNPAWTGGLYGSPTLA 320
Query: 318 FSKGSSQVIAQYYQLIRLGFEGYRNVMENCHE---NAMVLKEGLEKTGRFNIVSKD-EGV 373
S+ + V+ + ++ +G GY +E+C E AM K+ +++ NI D G
Sbjct: 321 GSRPGAIVVGCWATMVNMGENGY---IESCQEIVGAAMKFKKYIQE----NIPDLDIMGN 373
Query: 374 P---LVAFSLKDNKRHDEFEVAELLRRFGWIVPAYTMPADAQHITVLRV---VIRE--DF 425
P +++FS K H E+++ L + GW A P A H+ R+ V+ E D
Sbjct: 374 PRYSVISFSSKTLNIH---ELSDRLSKKGWHFNALQKPV-ALHMAFTRLSAHVVDEICDI 429
Query: 426 SRTLAERL 433
RT + L
Sbjct: 430 LRTTVQEL 437
>pdb|3MBB|A Chain A, Crystal Structure Of Stspl - Apo Form, After Treatment
With Semicarbazide
pdb|3MBB|B Chain B, Crystal Structure Of Stspl - Apo Form, After Treatment
With Semicarbazide
Length = 514
Score = 88.2 bits (217), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 82/329 (24%), Positives = 135/329 (41%), Gaps = 32/329 (9%)
Query: 81 NKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRK 140
N + D +P T + + V + A + T G T G +E+++LA + R
Sbjct: 125 QSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGG-TVCGTVTSGGTESLLLA-MKTYRD 182
Query: 141 WQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVD 200
W K P V + ++K A+YF ++L L Y D E +
Sbjct: 183 WARATKG----ITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRA-DVAAMREAIT 237
Query: 201 ENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----Y 256
NT+ VA +G + + + L AE HVDA GGFI P+ Y
Sbjct: 238 PNTVVVAGSAPGXPHGVVDPIPEIAALAAEHGIGC------HVDACLGGFILPWAERLGY 291
Query: 257 PELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPT--- 313
P +DFRL V S++ HKYG G +++R +L+ + ++ AD P
Sbjct: 292 PVPPFDFRLEGVTSVSADTHKYGYGAKGTSVILYRRP-----DLLHYQYFIAADWPGGLY 346
Query: 314 FTLNF--SKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSKDE 371
F+ F S+ + + ++ LG EGY + + A LK G+ I+
Sbjct: 347 FSPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKIL---- 402
Query: 372 GVPLVAFSLKDNKRHDEFEVAELLRRFGW 400
G PL ++ ++ + ++V E + GW
Sbjct: 403 GDPLWVIAVASDEL-NIYQVMEEMAGRGW 430
>pdb|3MAF|B Chain B, Crystal Structure Of Stspl (Asymmetric Form)
Length = 518
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 82/329 (24%), Positives = 135/329 (41%), Gaps = 32/329 (9%)
Query: 81 NKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRK 140
N + D +P T + + V + A + T G T G +E+++LA + R
Sbjct: 129 QSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGG-TVCGTVTSGGTESLLLA-MKTYRD 186
Query: 141 WQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVD 200
W K P V + ++K A+YF ++L L Y D E +
Sbjct: 187 WARATKG----ITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRA-DVAAMREAIT 241
Query: 201 ENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----Y 256
NT+ VA +G + + + L AE HVDA GGFI P+ Y
Sbjct: 242 PNTVVVAGSAPGYPHGVVDPIPEIAALAAEHGIGC------HVDACLGGFILPWAERLGY 295
Query: 257 PELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPT--- 313
P +DFRL V S++ HKYG G +++R +L+ + ++ AD P
Sbjct: 296 PVPPFDFRLEGVTSVSADTHKYGYGAKGTSVILYRRP-----DLLHYQYFIAADWPGGLY 350
Query: 314 FTLNF--SKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSKDE 371
F+ F S+ + + ++ LG EGY + + A LK G+ I+
Sbjct: 351 FSPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKIL---- 406
Query: 372 GVPLVAFSLKDNKRHDEFEVAELLRRFGW 400
G PL ++ ++ + ++V E + GW
Sbjct: 407 GDPLWVIAVASDEL-NIYQVMEEMAGRGW 434
>pdb|3MAU|A Chain A, Crystal Structure Of Stspl In Complex With
Phosphoethanolamine
pdb|3MAU|B Chain B, Crystal Structure Of Stspl In Complex With
Phosphoethanolamine
pdb|3MAU|C Chain C, Crystal Structure Of Stspl In Complex With
Phosphoethanolamine
pdb|3MAU|D Chain D, Crystal Structure Of Stspl In Complex With
Phosphoethanolamine
Length = 514
Score = 86.3 bits (212), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 81/329 (24%), Positives = 134/329 (40%), Gaps = 32/329 (9%)
Query: 81 NKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRK 140
N + D +P T + + V + A + T G T G +E+++LA + R
Sbjct: 125 QSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGG-TVCGTVTSGGTESLLLA-MKTYRD 182
Query: 141 WQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVD 200
W K P V + ++K A+YF ++L L Y D E +
Sbjct: 183 WARATKG----ITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRA-DVAAMREAIT 237
Query: 201 ENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----Y 256
NT+ VA +G + + + L AE HVDA GGFI P+ Y
Sbjct: 238 PNTVVVAGSAPGYPHGVVDPIPEIAALAAEHGIGC------HVDACLGGFILPWAERLGY 291
Query: 257 PELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPT--- 313
P +DFRL V S++ H YG G +++R +L+ + ++ AD P
Sbjct: 292 PVPPFDFRLEGVTSVSADTHAYGYGAKGTSVILYRRP-----DLLHYQYFIAADWPGGLY 346
Query: 314 FTLNF--SKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSKDE 371
F+ F S+ + + ++ LG EGY + + A LK G+ I+
Sbjct: 347 FSPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKIL---- 402
Query: 372 GVPLVAFSLKDNKRHDEFEVAELLRRFGW 400
G PL ++ ++ + ++V E + GW
Sbjct: 403 GDPLWVIAVASDEL-NIYQVMEEMAGRGW 430
>pdb|3MAF|A Chain A, Crystal Structure Of Stspl (Asymmetric Form)
Length = 518
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 81/329 (24%), Positives = 134/329 (40%), Gaps = 32/329 (9%)
Query: 81 NKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRK 140
N + D +P T + + V + A + T G T G +E+++LA + R
Sbjct: 129 QSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGG-TVCGTVTSGGTESLLLA-MKTYRD 186
Query: 141 WQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVD 200
W K P V + ++K A+YF ++L L Y D E +
Sbjct: 187 WARATKG----ITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRA-DVAAMREAIT 241
Query: 201 ENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----Y 256
NT+ VA +G + + + L AE HVDA GGFI P+ Y
Sbjct: 242 PNTVVVAGSAPGYPHGVVDPIPEIAALAAEHGIGC------HVDACLGGFILPWAERLGY 295
Query: 257 PELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPT--- 313
P +DFRL V S++ H YG G +++R +L+ + ++ AD P
Sbjct: 296 PVPPFDFRLEGVTSVSADTHXYGYGAKGTSVILYRRP-----DLLHYQYFIAADWPGGLY 350
Query: 314 FTLNF--SKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSKDE 371
F+ F S+ + + ++ LG EGY + + A LK G+ I+
Sbjct: 351 FSPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKIL---- 406
Query: 372 GVPLVAFSLKDNKRHDEFEVAELLRRFGW 400
G PL ++ ++ + ++V E + GW
Sbjct: 407 GDPLWVIAVASDEL-NIYQVMEEMAGRGW 434
>pdb|3MAD|A Chain A, Crystal Structure Of Stspl (Symmetric Form)
pdb|3MAD|B Chain B, Crystal Structure Of Stspl (Symmetric Form)
Length = 514
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 81/329 (24%), Positives = 134/329 (40%), Gaps = 32/329 (9%)
Query: 81 NKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEAIMLAGLAFKRK 140
N + D +P T + + V + A + T G T G +E+++LA + R
Sbjct: 125 QSNPLHPDLWPSTAKFEAEVVAMTAHMLGGDAAGG-TVCGTVTSGGTESLLLA-MKTYRD 182
Query: 141 WQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPVKAVEMVD 200
W K P V + ++K A+YF ++L L Y D E +
Sbjct: 183 WARATKG----ITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPLDADYRA-DVAAMREAIT 237
Query: 201 ENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFL----Y 256
NT+ VA +G + + + L AE HVDA GGFI P+ Y
Sbjct: 238 PNTVVVAGSAPGYPHGVVDPIPEIAALAAEHGIGC------HVDACLGGFILPWAERLGY 291
Query: 257 PELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPT--- 313
P +DFRL V S++ H YG G +++R +L+ + ++ AD P
Sbjct: 292 PVPPFDFRLEGVTSVSADTHXYGYGAKGTSVILYRRP-----DLLHYQYFIAADWPGGLY 346
Query: 314 FTLNF--SKGSSQVIAQYYQLIRLGFEGYRNVMENCHENAMVLKEGLEKTGRFNIVSKDE 371
F+ F S+ + + ++ LG EGY + + A LK G+ I+
Sbjct: 347 FSPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRLKAGVRAIPSLKIL---- 402
Query: 372 GVPLVAFSLKDNKRHDEFEVAELLRRFGW 400
G PL ++ ++ + ++V E + GW
Sbjct: 403 GDPLWVIAVASDEL-NIYQVMEEMAGRGW 430
>pdb|3F9T|A Chain A, Crystal Structure Of L-tyrosine Decarboxylase Mfna (ec
4.1.1.25) (np_247014.1) From Methanococcus Jannaschii At
2.11 A Resolution
pdb|3F9T|B Chain B, Crystal Structure Of L-tyrosine Decarboxylase Mfna (ec
4.1.1.25) (np_247014.1) From Methanococcus Jannaschii At
2.11 A Resolution
Length = 397
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 73/309 (23%), Positives = 126/309 (40%), Gaps = 43/309 (13%)
Query: 70 PECDKLMMAAINKNYVDMDEYPVTTELQNRCVNIIARLFNAPLEDSETAVGVGTVGSSEA 129
P K++ + N D + T L+ + V ++ L N ++ A G G +EA
Sbjct: 44 PITRKIVDIFLETNLGDPGLFKGTKLLEEKAVALLGSLLN-----NKDAYGHIVSGGTEA 98
Query: 130 IMLAGLAFKRKWQNKRKAEGKPFDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYV 189
+ A K W+ KR+ + P I+ +EK ++E + E Y +
Sbjct: 99 NLXALRCIKNIWREKRRKGLSKNEHPKIIVPITAHFSFEKGREXXDLEYIYAPIKEDYTI 158
Query: 190 MDPVKAVEMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGG 249
+ + D + + I G+T G ++++ L+ + E N IHVDAA GG
Sbjct: 159 DEKFVKDAVEDYDVDGIIGIAGTTELGTIDNIEELSKIAKENN------IYIHVDAAFGG 212
Query: 250 FIAPFLYPE-------LEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIF 302
+ PFL + ++DF L V SI + HK G G +++++ I
Sbjct: 213 LVIPFLDDKYKKKGVNYKFDFSLG-VDSITIDPHKXGHCPIPSGGILFKD--------IG 263
Query: 303 HINYLGADQPTFT-----------LNFSKGSSQVIAQYYQLIRLGFEGYRNVMENCHENA 351
+ YL D P T + F + + +Y LG EG R ++ C EN
Sbjct: 264 YKRYLDVDAPYLTETRQATILGTRVGFGGACTYAVLRY-----LGREGQRKIVNECXENT 318
Query: 352 MVLKEGLEK 360
+ L + L++
Sbjct: 319 LYLYKKLKE 327
>pdb|1ECX|A Chain A, Nifs-Like Protein
pdb|1ECX|B Chain B, Nifs-Like Protein
Length = 384
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 46/93 (49%), Gaps = 12/93 (12%)
Query: 197 EMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFLY 256
++VDE+T V+ + + G + V+ + ++ +KNKE T +HVDA PF
Sbjct: 134 KLVDEDTFLVSIMAANNEVGTIQPVEDVTRIVKKKNKE----TLVHVDAVQTIGKIPFSL 189
Query: 257 PELEWDFRLPLVKSINVSGHKY-GLVYAGIGWV 288
+LE D+ + S HK+ G GI ++
Sbjct: 190 EKLEVDY-------ASFSAHKFHGPKGVGITYI 215
>pdb|1EG5|A Chain A, Nifs-like Protein
pdb|1EG5|B Chain B, Nifs-like Protein
Length = 384
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 45/93 (48%), Gaps = 12/93 (12%)
Query: 197 EMVDENTICVAAILGSTLNGEFEDVKLLNDLLAEKNKETGWDTPIHVDAASGGFIAPFLY 256
++VDE+T V+ + G + V+ + ++ +KNKE T +HVDA PF
Sbjct: 134 KLVDEDTFLVSIXAANNEVGTIQPVEDVTRIVKKKNKE----TLVHVDAVQTIGKIPFSL 189
Query: 257 PELEWDFRLPLVKSINVSGHKY-GLVYAGIGWV 288
+LE D+ + S HK+ G GI ++
Sbjct: 190 EKLEVDY-------ASFSAHKFHGPKGVGITYI 215
>pdb|2H9A|A Chain A, Corrinoid Iron-Sulfur Protein
pdb|2YCL|A Chain A, Complete Structure Of The Corrinoid,Iron-Sulfur Protein
Including The N-Terminal Domain With A 4fe-4s Cluster
Length = 445
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 48/99 (48%), Gaps = 10/99 (10%)
Query: 339 GYRN-VMENCHENAMVLKEGL---EKTGRFNI--VSKDEGVPLVAFSLKDNKRHDEFEVA 392
GY+N +++ EN + EGL + R I + + G P +AF+L +N E +
Sbjct: 224 GYKNLILDPQPEN---ISEGLFYQTQIRRLAIKKLFRPFGYPTIAFALDENPYQAVMEAS 280
Query: 393 ELLRRFGWIVPAYTM-PADAQHITVLRVVIREDFSRTLA 430
+ ++ I+ T+ PAD + LR+ I D + +A
Sbjct: 281 VYIAKYAGIIVLNTVEPADILPLITLRLNIYTDPQKPIA 319
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
0.318 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,016,179
Number of Sequences: 62578
Number of extensions: 656465
Number of successful extensions: 1536
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1497
Number of HSP's gapped (non-prelim): 23
length of query: 494
length of database: 14,973,337
effective HSP length: 103
effective length of query: 391
effective length of database: 8,527,803
effective search space: 3334370973
effective search space used: 3334370973
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)