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= 008629
(559 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2AW5|A Chain A, Crystal Structure Of A Human Malic Enzyme
pdb|2AW5|B Chain B, Crystal Structure Of A Human Malic Enzyme
pdb|2AW5|C Chain C, Crystal Structure Of A Human Malic Enzyme
Length = 575
Score = 483 bits (1242), Expect = e-136, Method: Compositional matrix adjust.
Identities = 247/541 (45%), Positives = 332/541 (61%), Gaps = 35/541 (6%)
Query: 48 SVASGYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQ 107
S+ GY L R+P NK LAFT +ER + GLLPP+ SQ++Q +++ +
Sbjct: 22 SMQRGYLLTRNPHLNKDLAFTLEERQQLNIHGLLPPSFNSQEIQVLRVVKNFEHLNSDFD 81
Query: 108 KYVAMMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEK 167
+Y+ +M+L++RNE+LFY++L ++E+ +P+VYTPTVG ACQ+Y +FR+P+GL+I++ ++
Sbjct: 82 RYLLLMDLQDRNEKLFYRVLTSDIEKFMPIVYTPTVGLACQQYSLVFRKPRGLFITIHDR 141
Query: 168 GKILEVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRPS---- 223
G I VL WPE I+ IVVTDGERILGLGDLGC GMGIPVGKLALYTA GG+ P
Sbjct: 142 GHIASVLNAWPEDVIKAIVVTDGERILGLGDLGCNGMGIPVGKLALYTACGGMNPQECLP 201
Query: 224 ----------------------------AEYAELLDEFMSAVKQNYGEKVLIQFEDFANH 255
+EY + LDEFM AV YG LIQFEDFAN
Sbjct: 202 VILDVGTENEELLKDPLYIGLRQRRVRGSEYDDFLDEFMEAVSSKYGMNCLIQFEDFANV 261
Query: 256 NAFELLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIA 315
NAF LL KY + FNDDIQ L++ LF GAGEA GIA
Sbjct: 262 NAFRLLNKYRNQYCTFNDDIQGTASVAVAGLLAALRITKNKLSDQTILFQGAGEAALGIA 321
Query: 316 ELIALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAHEHEPVNNLLDAV 375
LI + + K+ P E+ KKI LVDSKGLIV R SL K+ +AHEHE + NL V
Sbjct: 322 HLIVMALEKE-GLPKEKAIKKIWLVDSKGLIVKGRA-SLTQEKEKFAHEHEEMKNLEAIV 379
Query: 376 KVIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRA 435
+ IKPT LIG + +G F++++++ MA+FNE+P+I ALSNPTS++EC+AE+ Y +KGRA
Sbjct: 380 QEIKPTALIGVAAIGGAFSEQILKDMAAFNERPIIFALSNPTSKAECSAEQCYKITKGRA 439
Query: 436 IFASGSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQ 494
IFASGSPFDP NG+ PGQ NN+Y+FPG LG+V G ++ D++ L +E +A+Q
Sbjct: 440 IFASGSPFDPVTLPNGQTLYPGQGNNSYVFPGVALGVVACGLRQITDNIFLTTAEVIAQQ 499
Query: 495 VTEENFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVKCAESCMYTPV 554
V++++ E+G +YPP + IR Y+ AT P PQN S MY+
Sbjct: 500 VSDKHLEEGRLYPPLNTIRDVSLKIAEKIVKDAYQEKTATVYPEPQNKEAFVRSQMYSTD 559
Query: 555 Y 555
Y
Sbjct: 560 Y 560
>pdb|1GZ3|A Chain A, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|B Chain B, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|C Chain C, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|D Chain D, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
Length = 554
Score = 471 bits (1213), Expect = e-133, Method: Compositional matrix adjust.
Identities = 234/529 (44%), Positives = 326/529 (61%), Gaps = 38/529 (7%)
Query: 52 GYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVA 111
G L+ +PR NKG+AFT +ER L+GLLPP + +Q +Q + ++++ PL+KY+
Sbjct: 6 GKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHRNLKKMTSPLEKYIY 65
Query: 112 MMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKIL 171
+M ++ERNE+LFY++L D++E L+P+VYTPTVG AC +YG IFRRP+GL+IS+ ++G +
Sbjct: 66 IMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVR 125
Query: 172 EVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRP--------- 222
++ NWPE ++ +VVTDGERILGLGDLG GMGIPVGKL LYTA GIRP
Sbjct: 126 SIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIRPDQCLPVCID 185
Query: 223 -----------------------SAEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFE 259
+ +Y +L+DEFM A+ YG LIQFEDF NHNAF
Sbjct: 186 VGTDNIALLKDPFYMGLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFR 245
Query: 260 LLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIA 319
L KY + FNDDIQ ++EH+ LFLGAGEA GIA LI
Sbjct: 246 FLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIV 305
Query: 320 LEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAH---EHEPVNNLLDAVK 376
+ + + + +E +KKI + D GL+V RK + +++P+ H E P + DAV
Sbjct: 306 MSMVENGLSE-QEAQKKIWMFDKYGLLVKGRKAKIDSYQEPFTHSAPESIP-DTFEDAVN 363
Query: 377 VIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAI 436
++KP+ +IG +G GR FT +VI AMAS NE+P+I ALSNPT+Q+ECTAEEAYT ++GR +
Sbjct: 364 ILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFALSNPTAQAECTAEEAYTLTEGRCL 423
Query: 437 FASGSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQV 495
FASGSPF P + +G+VF PGQ NN YIFPG L +++ + D + L A++AL Q+
Sbjct: 424 FASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQL 483
Query: 496 TEENFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVK 544
T+E +G +YPP +NI+ Y +A P P++ K
Sbjct: 484 TDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKMAFVYPEPEDKAK 532
>pdb|1GQ2|A Chain A, Malic Enzyme From Pigeon Liver
pdb|1GQ2|B Chain B, Malic Enzyme From Pigeon Liver
pdb|1GQ2|C Chain C, Malic Enzyme From Pigeon Liver
pdb|1GQ2|D Chain D, Malic Enzyme From Pigeon Liver
pdb|1GQ2|E Chain E, Malic Enzyme From Pigeon Liver
pdb|1GQ2|F Chain F, Malic Enzyme From Pigeon Liver
pdb|1GQ2|G Chain G, Malic Enzyme From Pigeon Liver
pdb|1GQ2|H Chain H, Malic Enzyme From Pigeon Liver
pdb|1GQ2|I Chain I, Malic Enzyme From Pigeon Liver
pdb|1GQ2|J Chain J, Malic Enzyme From Pigeon Liver
pdb|1GQ2|K Chain K, Malic Enzyme From Pigeon Liver
pdb|1GQ2|L Chain L, Malic Enzyme From Pigeon Liver
pdb|1GQ2|M Chain M, Malic Enzyme From Pigeon Liver
pdb|1GQ2|N Chain N, Malic Enzyme From Pigeon Liver
pdb|1GQ2|O Chain O, Malic Enzyme From Pigeon Liver
pdb|1GQ2|P Chain P, Malic Enzyme From Pigeon Liver
Length = 555
Score = 462 bits (1190), Expect = e-130, Method: Compositional matrix adjust.
Identities = 240/540 (44%), Positives = 320/540 (59%), Gaps = 35/540 (6%)
Query: 52 GYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVA 111
GY +LRDP NKG AFT +ER + GLLPP + Q Q ++ + + L +Y+
Sbjct: 3 GYEVLRDPHLNKGXAFTLEERQQLNIHGLLPPCFLGQDAQVYSILKNFERLTSDLDRYIL 62
Query: 112 MMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKIL 171
+ L++RNE+LFYK+L ++E P+VYTPTVG ACQ YG FRRP+GL+I++ ++G I
Sbjct: 63 LXSLQDRNEKLFYKVLTSDIERFXPIVYTPTVGLACQHYGLAFRRPRGLFITIHDRGHIA 122
Query: 172 EVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRP--------- 222
L++WPE I+ IVVTDGERILGLGDLGC G GIPVGKLALYTA GG++P
Sbjct: 123 TXLQSWPESVIKAIVVTDGERILGLGDLGCYGXGIPVGKLALYTACGGVKPHQCLPVXLD 182
Query: 223 -----------------------SAEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFE 259
Y +LLDEF AV YG LIQFEDFAN NAF
Sbjct: 183 VGTDNETLLKDPLYIGLRHKRIRGQAYDDLLDEFXEAVTSRYGXNCLIQFEDFANANAFR 242
Query: 260 LLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIA 319
LL KY + FNDDIQ L++H LF GAGEA GIA LI
Sbjct: 243 LLHKYRNKYCTFNDDIQGTASVAVAGLLAALRITKNRLSDHTVLFQGAGEAALGIANLIV 302
Query: 320 LEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAHEHEPVNNLLDAVKVIK 379
K+ + EE K+I VDSKGLIV R SL K+ +AHEH NL D VK IK
Sbjct: 303 XAXQKEGVSK-EEAIKRIWXVDSKGLIVKGRA-SLTPEKEHFAHEHCEXKNLEDIVKDIK 360
Query: 380 PTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAIFAS 439
PT+LIG + +G FT+++++ A+FN++P+I ALSNPTS++ECTAE+ Y +++GR IFAS
Sbjct: 361 PTVLIGVAAIGGAFTQQILQDXAAFNKRPIIFALSNPTSKAECTAEQLYKYTEGRGIFAS 420
Query: 440 GSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQVTEE 498
GSPFDP +G+ PGQ NN+Y+FPG LG++ G + DD+ L +E +A++V+EE
Sbjct: 421 GSPFDPVTLPSGQTLYPGQGNNSYVFPGVALGVISCGLKHIGDDVFLTTAEVIAQEVSEE 480
Query: 499 NFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVKCAESCMYTPVYRNY 558
N ++G +YPP I+ Y A+ P+P++L S +Y+ Y +
Sbjct: 481 NLQEGRLYPPLVTIQQVSLKIAVRIAKEAYRNNTASTYPQPEDLEAFIRSQVYSTDYNCF 540
>pdb|1EFK|A Chain A, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFK|B Chain B, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFK|C Chain C, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFK|D Chain D, Structure Of Human Malic Enzyme In Complex With
Ketomalonate
pdb|1EFL|A Chain A, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1EFL|B Chain B, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1EFL|C Chain C, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1EFL|D Chain D, Human Malic Enzyme In A Quaternary Complex With Nad, Mg,
And Tartronate
pdb|1PJL|A Chain A, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|B Chain B, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|C Chain C, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|D Chain D, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|E Chain E, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|F Chain F, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|G Chain G, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
pdb|1PJL|H Chain H, Crystal Structure Of Human M-Nad-Me In Ternary Complex
With Nad And Lu3+
Length = 584
Score = 455 bits (1171), Expect = e-128, Method: Compositional matrix adjust.
Identities = 231/529 (43%), Positives = 316/529 (59%), Gaps = 38/529 (7%)
Query: 52 GYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVA 111
G L +PR NKG AFT +ER L+GLLPP + +Q +Q + ++++ PL+KY+
Sbjct: 25 GKPLXLNPRTNKGXAFTLQERQXLGLQGLLPPKIETQDIQALRFHRNLKKXTSPLEKYIY 84
Query: 112 MMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKIL 171
+ ++ERNE+LFY++L D++E L P+VYTPTVG AC +YG IFRRP+GL+IS+ ++G +
Sbjct: 85 IXGIQERNEKLFYRILQDDIESLXPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVR 144
Query: 172 EVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRP--------- 222
++ NWPE ++ +VVTDGERILGLGDLG G GIPVGKL LYTA GIRP
Sbjct: 145 SIVDNWPENHVKAVVVTDGERILGLGDLGVYGXGIPVGKLCLYTACAGIRPDRCLPVCID 204
Query: 223 -----------------------SAEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFE 259
+ +Y +L+DEF A+ YG LIQFEDF NHNAF
Sbjct: 205 VGTDNIALLKDPFYXGLYQKRDRTQQYDDLIDEFXKAITDRYGRNTLIQFEDFGNHNAFR 264
Query: 260 LLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIA 319
L KY + FNDDIQ ++EH+ LFLGAGEA GIA LI
Sbjct: 265 FLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIV 324
Query: 320 LEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAH---EHEPVNNLLDAVK 376
+ + +E +KKI D GL+V RK + +++P+ H E P + DAV
Sbjct: 325 XSXVENGLSE-QEAQKKIWXFDKYGLLVKGRKAKIDSYQEPFTHSAPESIP-DTFEDAVN 382
Query: 377 VIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAI 436
++KP+ +IG +G GR FT +VI A AS NE+P+I ALSNPT+Q+ECTAEEAYT ++GR +
Sbjct: 383 ILKPSTIIGVAGAGRLFTPDVIRAXASINERPVIFALSNPTAQAECTAEEAYTLTEGRCL 442
Query: 437 FASGSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQV 495
FASGSPF P + +G+VF PGQ NN YIFPG L +++ + D + L A++AL Q+
Sbjct: 443 FASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQL 502
Query: 496 TEENFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVK 544
T+E +G +YPP +NI+ Y A R P P++ K
Sbjct: 503 TDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKXAFRYPEPEDKAK 551
>pdb|1QR6|A Chain A, Human Mitochondrial Nad(P)-Dependent Malic Enzyme
pdb|1QR6|B Chain B, Human Mitochondrial Nad(P)-Dependent Malic Enzyme
Length = 584
Score = 455 bits (1171), Expect = e-128, Method: Compositional matrix adjust.
Identities = 231/529 (43%), Positives = 316/529 (59%), Gaps = 38/529 (7%)
Query: 52 GYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVA 111
G L +PR NKG AFT +ER L+GLLPP + +Q +Q + ++++ PL+KY+
Sbjct: 25 GKPLXLNPRTNKGXAFTLQERQXLGLQGLLPPKIETQDIQALRFHRNLKKXTSPLEKYIY 84
Query: 112 MMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKIL 171
+ ++ERNE+LFY++L D++E L P+VYTPTVG AC +YG IFRRP+GL+IS+ ++G +
Sbjct: 85 IXGIQERNEKLFYRILQDDIESLXPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVR 144
Query: 172 EVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRP--------- 222
++ NWPE ++ +VVTDGERILGLGDLG G GIPVGKL LYTA GIRP
Sbjct: 145 SIVDNWPENHVKAVVVTDGERILGLGDLGVYGXGIPVGKLCLYTACAGIRPDRCLPVCID 204
Query: 223 -----------------------SAEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFE 259
+ +Y +L+DEF A+ YG LIQFEDF NHNAF
Sbjct: 205 VGTDNIALLKDPFYXGLYQKRDRTQQYDDLIDEFXKAITDRYGRNTLIQFEDFGNHNAFR 264
Query: 260 LLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIA 319
L KY + FNDDIQ ++EH+ LFLGAGEA GIA LI
Sbjct: 265 FLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIV 324
Query: 320 LEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAH---EHEPVNNLLDAVK 376
+ + +E +KKI D GL+V RK + +++P+ H E P + DAV
Sbjct: 325 XSXVENGLSE-QEAQKKIWXFDKYGLLVKGRKAKIDSYQEPFTHSAPESIP-DTFEDAVN 382
Query: 377 VIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAI 436
++KP+ +IG +G GR FT +VI A AS NE+P+I ALSNPT+Q+ECTAEEAYT ++GR +
Sbjct: 383 ILKPSTIIGVAGAGRLFTPDVIRAXASINERPVIFALSNPTAQAECTAEEAYTLTEGRCL 442
Query: 437 FASGSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQV 495
FASGSPF P + +G+VF PGQ NN YIFPG L +++ + D + L A++AL Q+
Sbjct: 443 FASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQL 502
Query: 496 TEENFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVK 544
T+E +G +YPP +NI+ Y A R P P++ K
Sbjct: 503 TDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKXAFRYPEPEDKAK 551
>pdb|1GZ4|A Chain A, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ4|B Chain B, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ4|C Chain C, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ4|D Chain D, Molecular Mechanism Of The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
Length = 551
Score = 455 bits (1170), Expect = e-128, Method: Compositional matrix adjust.
Identities = 231/529 (43%), Positives = 316/529 (59%), Gaps = 38/529 (7%)
Query: 52 GYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVA 111
G L +PR NKG AFT +ER L+GLLPP + +Q +Q + ++++ PL+KY+
Sbjct: 3 GKPLXLNPRTNKGXAFTLQERQXLGLQGLLPPKIETQDIQALRFHRNLKKXTSPLEKYIY 62
Query: 112 MMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKIL 171
+ ++ERNE+LFY++L D++E L P+VYTPTVG AC +YG IFRRP+GL+IS+ ++G +
Sbjct: 63 IXGIQERNEKLFYRILQDDIESLXPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVR 122
Query: 172 EVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRP--------- 222
++ NWPE ++ +VVTDGERILGLGDLG G GIPVGKL LYTA GIRP
Sbjct: 123 SIVDNWPENHVKAVVVTDGERILGLGDLGVYGXGIPVGKLCLYTACAGIRPDRCLPVCID 182
Query: 223 -----------------------SAEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFE 259
+ +Y +L+DEF A+ YG LIQFEDF NHNAF
Sbjct: 183 VGTDNIALLKDPFYXGLYQKRDRTQQYDDLIDEFXKAITDRYGRNTLIQFEDFGNHNAFR 242
Query: 260 LLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIA 319
L KY + FNDDIQ ++EH+ LFLGAGEA GIA LI
Sbjct: 243 FLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIV 302
Query: 320 LEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAH---EHEPVNNLLDAVK 376
+ + +E +KKI D GL+V RK + +++P+ H E P + DAV
Sbjct: 303 XSXVENGLSE-QEAQKKIWXFDKYGLLVKGRKAKIDSYQEPFTHSAPESIP-DTFEDAVN 360
Query: 377 VIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAI 436
++KP+ +IG +G GR FT +VI A AS NE+P+I ALSNPT+Q+ECTAEEAYT ++GR +
Sbjct: 361 ILKPSTIIGVAGAGRLFTPDVIRAXASINERPVIFALSNPTAQAECTAEEAYTLTEGRCL 420
Query: 437 FASGSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQV 495
FASGSPF P + +G+VF PGQ NN YIFPG L +++ + D + L A++AL Q+
Sbjct: 421 FASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQL 480
Query: 496 TEENFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVK 544
T+E +G +YPP +NI+ Y A R P P++ K
Sbjct: 481 TDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKXAFRYPEPEDKAK 529
>pdb|1DO8|A Chain A, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1DO8|B Chain B, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1DO8|C Chain C, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1DO8|D Chain D, Crystal Structure Of A Closed Form Of Human Mitochondrial
Nad(P)+-Dependent Malic Enzyme
pdb|1PJ4|A Chain A, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ4|B Chain B, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ4|C Chain C, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ4|D Chain D, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Atp, Mn++, And Allosteric Activator Fumarate.
pdb|1PJ2|A Chain A, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ2|B Chain B, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ2|C Chain C, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ2|D Chain D, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Malate, Cofactor Nadh, Mn++, And Allosteric Activator
Fumarate
pdb|1PJ3|A Chain A, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate.
pdb|1PJ3|B Chain B, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate.
pdb|1PJ3|C Chain C, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate.
pdb|1PJ3|D Chain D, Crystal Structure Of Human Mitochondrial Nad(P)+-Dependent
Malic Enzyme In A Pentary Complex With Natural Substrate
Pyruvate, Cofactor Nad+, Mn++, And Allosteric Activator
Fumarate
Length = 564
Score = 455 bits (1170), Expect = e-128, Method: Compositional matrix adjust.
Identities = 231/529 (43%), Positives = 316/529 (59%), Gaps = 38/529 (7%)
Query: 52 GYCLLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVA 111
G L +PR NKG AFT +ER L+GLLPP + +Q +Q + ++++ PL+KY+
Sbjct: 5 GKPLXLNPRTNKGXAFTLQERQXLGLQGLLPPKIETQDIQALRFHRNLKKXTSPLEKYIY 64
Query: 112 MMELEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKIL 171
+ ++ERNE+LFY++L D++E L P+VYTPTVG AC +YG IFRRP+GL+IS+ ++G +
Sbjct: 65 IXGIQERNEKLFYRILQDDIESLXPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVR 124
Query: 172 EVLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRP--------- 222
++ NWPE ++ +VVTDGERILGLGDLG G GIPVGKL LYTA GIRP
Sbjct: 125 SIVDNWPENHVKAVVVTDGERILGLGDLGVYGXGIPVGKLCLYTACAGIRPDRCLPVCID 184
Query: 223 -----------------------SAEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFE 259
+ +Y +L+DEF A+ YG LIQFEDF NHNAF
Sbjct: 185 VGTDNIALLKDPFYXGLYQKRDRTQQYDDLIDEFXKAITDRYGRNTLIQFEDFGNHNAFR 244
Query: 260 LLAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIA 319
L KY + FNDDIQ ++EH+ LFLGAGEA GIA LI
Sbjct: 245 FLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIV 304
Query: 320 LEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAH---EHEPVNNLLDAVK 376
+ + +E +KKI D GL+V RK + +++P+ H E P + DAV
Sbjct: 305 XSXVENGLSE-QEAQKKIWXFDKYGLLVKGRKAKIDSYQEPFTHSAPESIP-DTFEDAVN 362
Query: 377 VIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAI 436
++KP+ +IG +G GR FT +VI A AS NE+P+I ALSNPT+Q+ECTAEEAYT ++GR +
Sbjct: 363 ILKPSTIIGVAGAGRLFTPDVIRAXASINERPVIFALSNPTAQAECTAEEAYTLTEGRCL 422
Query: 437 FASGSPFDPFEY-NGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQV 495
FASGSPF P + +G+VF PGQ NN YIFPG L +++ + D + L A++AL Q+
Sbjct: 423 FASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQL 482
Query: 496 TEENFEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVK 544
T+E +G +YPP +NI+ Y A R P P++ K
Sbjct: 483 TDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKXAFRYPEPEDKAK 531
>pdb|1LLQ|A Chain A, Crystal Structure Of Malic Enzyme From Ascaris Suum
Complexed With Nicotinamide Adenine Dinucleotide
pdb|1LLQ|B Chain B, Crystal Structure Of Malic Enzyme From Ascaris Suum
Complexed With Nicotinamide Adenine Dinucleotide
pdb|1O0S|A Chain A, Crystal Structure Of Ascaris Suum Malic Enzyme Complexed
With Nadh
pdb|1O0S|B Chain B, Crystal Structure Of Ascaris Suum Malic Enzyme Complexed
With Nadh
Length = 605
Score = 432 bits (1112), Expect = e-121, Method: Compositional matrix adjust.
Identities = 226/536 (42%), Positives = 324/536 (60%), Gaps = 38/536 (7%)
Query: 55 LLRDPRHNKGLAFTEKERDAHYLRGLLPPAVISQQLQEKKLMNSIRQYEVPLQKYVAMME 114
LL++PR NKG+ F+ ER L GLLPPA ++Q+ Q +++ +R+ L +Y+ +
Sbjct: 42 LLKEPRLNKGMGFSLYERQYLGLHGLLPPAFMTQEQQAYRVITKLREQPNDLARYIQLDG 101
Query: 115 LEERNERLFYKLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKG--KILE 172
L++RNE+LFY+++ D+V+EL+P+VYTPTVG ACQ +G I+R+P+GLYI++ + KI +
Sbjct: 102 LQDRNEKLFYRVVCDHVKELMPIVYTPTVGLACQNFGYIYRKPKGLYITINDNSVSKIYQ 161
Query: 173 VLKNWPERSIQVIVVTDGERILGLGDLGCQGMGIPVGKLALYTALGGIRPS--------- 223
+L NW E ++ IVVTDGERILGLGDLG G+GIPVGKLALY ALGG++P
Sbjct: 162 ILSNWHEEDVRAIVVTDGERILGLGDLGAYGIGIPVGKLALYVALGGVQPKWCLPVLLDV 221
Query: 224 -----------------------AEYAELLDEFMSAVKQNYGEKVLIQFEDFANHNAFEL 260
+Y LLD FM A + YG+K LIQFEDFAN NAF L
Sbjct: 222 GTNNMDLLNDPFYIGLRHKRVRGKDYDTLLDNFMKACTKKYGQKTLIQFEDFANPNAFRL 281
Query: 261 LAKYGTTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFLFLGAGEAGTGIAELIAL 320
L KY + +FNDDIQ +++ ++LF GAG A TGIAE+I
Sbjct: 282 LDKYQDKYTMFNDDIQGTASVIVAGLLTCTRVTKKLVSQEKYLFFGAGAASTGIAEMIVH 341
Query: 321 EISKQTKAPVEETRKKICLVDSKGLIVSSRKD-SLQHFKKPWAHEHEPVNNLLDAVKVIK 379
++ + + EE +I L+D GL+ +RK+ + +H + +A + ++L+ ++ +
Sbjct: 342 QMQNEGISK-EEACNRIYLMDIDGLVTKNRKEMNPRHVQ--FAKDMPETTSILEVIRAAR 398
Query: 380 PTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSECTAEEAYTWSKGRAIFAS 439
P LIG+S V F +EVI AMA NE+P+I ALSNPTS++ECTAEEAYT++ G A++AS
Sbjct: 399 PGALIGASTVRGAFNEEVIRAMAEINERPIIFALSNPTSKAECTAEEAYTFTNGAALYAS 458
Query: 440 GSPFDPFEYNGKVFVPGQANNAYIFPGFGLGLVISGAIRVHDDMLLAASEALAKQVTEEN 499
GSPF FE NG + PGQ NNAYIFPG LG ++ V +D+ L A++ +A VTE++
Sbjct: 459 GSPFPNFELNGHTYKPGQGNNAYIFPGVALGTILFQIRHVDNDLFLLAAKKVASCVTEDS 518
Query: 500 FEKGLIYPPFSNIRXXXXXXXXXXXXXXYELGVATRLPRPQNLVKCAESCMYTPVY 555
+ G +YP IR Y+ G A P+P++L K + +Y Y
Sbjct: 519 LKVGRVYPQLKEIREISIQIAVEMAKYCYKNGTANLYPQPEDLEKYVRAQVYNTEY 574
>pdb|3NV9|A Chain A, Crystal Structure Of Entamoeba Histolytica Malic Enzyme
pdb|3NV9|B Chain B, Crystal Structure Of Entamoeba Histolytica Malic Enzyme
Length = 487
Score = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 88/331 (26%), Positives = 133/331 (40%), Gaps = 52/331 (15%)
Query: 184 VIVVTDGERILGLGDLGCQG-MGIPVGKLALYTALGGI-----------RPSAEYAELLD 231
V VV+D R+LG GD+ G +G+ GK L LGGI + + +
Sbjct: 93 VGVVSDSTRVLGDGDVTPPGGLGVMEGKALLMKYLGGIDAVPICIDSKNKEGKNDPDAVI 152
Query: 232 EFMSAVKQNYGEKVLIQFEDFANHNAFELLA--KYGTTHLVFNDDIQXXXXXXXXXXXXX 289
EF+ ++ +G I ED + N +++L + V++DD Q
Sbjct: 153 EFVQRIQHTFGA---INLEDISQPNCYKILDVLRESCDIPVWHDDQQGTASVTLAGLLNA 209
Query: 290 XXXXXXTLAEHRFLFLGAGEAGTGIAELIALEISKQTKAPVEETRKKICLVDSKGLIVSS 349
+ E R +F+GAG + T LI + KKI + DSKG + +
Sbjct: 210 LKLVKKDIHECRMVFIGAGSSNTTCLRLIVTAGADP---------KKIVMFDSKGSLHNG 260
Query: 350 RKDSLQ--HFKKPW--AHEHEPVNNLLDAVKVIKPTILIGSSGVGRTFTKEVIEAMASFN 405
R+D + F + W P A + +LI S G K E + S
Sbjct: 261 REDIKKDTRFYRKWEICETTNPSKFGSIAEACVGADVLISLSTPGPGVVKA--EWIKSMG 318
Query: 406 EKPLILALSNPTSQ---SECTAEEAYTWSKGRAIFASGSPFDPFEYNGKVFVPGQANNAY 462
EKP++ +NP + E AY + GR F P Q NN+
Sbjct: 319 EKPIVFCCANPVPEIYPYEAKEAGAYIVATGRGDF-----------------PNQVNNSV 361
Query: 463 IFPGFGLGLVISGAIRVHDDMLLAASEALAK 493
FPG G +I A ++ D+M +AAS ALA+
Sbjct: 362 GFPGILKGALIVRARKITDNMAIAASRALAE 392
>pdb|2DVM|A Chain A, Nad Complex Structure Of Ph1275 Protein From Pyrococcus
Horikoshii
pdb|2DVM|B Chain B, Nad Complex Structure Of Ph1275 Protein From Pyrococcus
Horikoshii
pdb|2DVM|C Chain C, Nad Complex Structure Of Ph1275 Protein From Pyrococcus
Horikoshii
pdb|2DVM|D Chain D, Nad Complex Structure Of Ph1275 Protein From Pyrococcus
Horikoshii
Length = 439
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 113/400 (28%), Positives = 169/400 (42%), Gaps = 57/400 (14%)
Query: 125 KLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKILEVLKNWPERSIQV 184
K+ +++ EEL + YTP V E C++ I R P +Y KG + V
Sbjct: 25 KVSLESREELT-LAYTPGVAEPCKE---IARDPGKVY-EYTSKGNL-------------V 66
Query: 185 IVVTDGERILGLGDLGCQGMGIPV--GKLALYTALGGIR--PSAEYAELLDEFMSAVKQN 240
VV+DG RILGLG++G G+PV GK L+ GG+ P + ++F+ VK
Sbjct: 67 AVVSDGSRILGLGNIGPLA-GLPVMEGKALLFKRFGGVDAFPIMIKEQEPNKFIDIVKAI 125
Query: 241 YGEKVLIQFEDFANHNAFELLAKYGTTH--LVFNDDIQXXXXXXXXXXXXXXXXXXXTLA 298
I ED A+ F +L + VF+DD Q ++
Sbjct: 126 APTFGGINLEDIASPKCFYILERLREELDIPVFHDDQQGTAAVVLAGLLNALKVVGKKIS 185
Query: 299 EHRFLFLGAGEAGTGIAELIALEISKQTKAPVE-ETRKKICLVDSKGLIVSSRKDSLQHF 357
E GAG AG ++ T+A V+ E + + LV+ K I++S D + F
Sbjct: 186 EITLALFGAGAAGFATLRIL-------TEAGVKPENVRVVELVNGKPRILTSDLDLEKLF 238
Query: 358 K-KPWAHEHEPVNNL----LDAVKVIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILA 412
+ W + N+ +A+K I G G + IE M NE ++
Sbjct: 239 PYRGWLLKKTNGENIEGGPQEALKDADVLISFTRPGPG-VIKPQWIEKM---NEDAIVFP 294
Query: 413 LSNPTSQSECTAEEAYTWSKGRAIFASGSPFDPFEYNGKVFVPGQANNAYIFPGFGLGLV 472
L+NP E EEA G I A+G + P Q NN FPG G +
Sbjct: 295 LANPVP--EILPEEAK--KAGARIVATG----------RSDYPNQINNLLGFPGIFRGAL 340
Query: 473 ISGAIRVHDDMLLAASEALAKQVTEENFEKGLIYPPFSNI 512
A + D M++AA++A+A V EE E+ +I P + I
Sbjct: 341 DVRARTITDSMIIAAAKAIASIV-EEPSEENIIPSPLNPI 379
>pdb|2A9F|A Chain A, Crystal Structure Of A Putative Malic Enzyme ((S)-
Malate:nad+ Oxidoreductase (Decarboxylating))
pdb|2A9F|B Chain B, Crystal Structure Of A Putative Malic Enzyme ((S)-
Malate:nad+ Oxidoreductase (Decarboxylating))
Length = 398
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 88/336 (26%), Positives = 130/336 (38%), Gaps = 47/336 (13%)
Query: 184 VIVVTDGERILGLGDLGCQGMGIPV--GKLALYTALGGIR--PSAEYAELLDEFMSAVKQ 239
V V++DG +LGLGD+G + +PV GK AL+ A G+ P + +E +S VK
Sbjct: 68 VAVISDGTAVLGLGDIGPEA-AMPVMEGKAALFKAFAGVDAIPIVLDTKDTEEIISIVKA 126
Query: 240 NYGEKVLIQFEDFANHNAFELLAKY-GTTHL-VFNDDIQXXXXXXXXXXXXXXXXXXXTL 297
I ED + FE+ + H+ VF+DD +L
Sbjct: 127 LAPTFGGINLEDISAPRCFEIEQRLIKECHIPVFHDDQHGTAIVVLAAIFNSLKLLKKSL 186
Query: 298 AEHRFLFLGAGEAGTGIAELIALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSL--Q 355
E + G G AG I T+ + K+ +VD G+I L
Sbjct: 187 DEVSIVVNGGGSAGLSI-----------TRKLLAAGATKVTVVDKFGIINEQEAAQLAPH 235
Query: 356 HFKKPWAHEHE-PVNNLLDAVKVIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALS 414
H E L DA++ I IG S G E I MA+ +P+I A++
Sbjct: 236 HLDIAKVTNREFKSGTLEDALE--GADIFIGVSAPG-VLKAEWISKMAA---RPVIFAMA 289
Query: 415 NPTSQ---SECTAEEAYTWSKGRAIFASGSPFDPFEYNGKVFVPGQANNAYIFPGFGLGL 471
NP + E AY GR+ F P Q NN FPG G
Sbjct: 290 NPIPEIYPDEALEAGAYIVGTGRSDF-----------------PNQINNVLAFPGIFRGA 332
Query: 472 VISGAIRVHDDMLLAASEALAKQVTEENFEKGLIYP 507
+ + A + +M +AA++ +A V ++ I P
Sbjct: 333 LDARAKTITVEMQIAAAKGIASLVPDDALSTTNIIP 368
>pdb|1WW8|A Chain A, Crystal Structure Of Malic Enzyme From Pyrococcus
Horikoshii Ot3
pdb|1WW8|B Chain B, Crystal Structure Of Malic Enzyme From Pyrococcus
Horikoshii Ot3
Length = 439
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 107/403 (26%), Positives = 160/403 (39%), Gaps = 63/403 (15%)
Query: 125 KLLIDNVEELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKILEVLKNWPERSIQV 184
K+ +++ EEL + YTP V E C++ I R P +Y KG + V
Sbjct: 25 KVSLESREELT-LAYTPGVAEPCKE---IARDPGKVY-EYTSKGNL-------------V 66
Query: 185 IVVTDGERILGLGDLG-CQGMGIPVGKLALYTALGGIR--PSAEYAELLDEFMSAVKQNY 241
VV+DG RILGLG++G G+ + GK L+ GG+ P + ++F+ VK
Sbjct: 67 AVVSDGSRILGLGNIGPLAGLPVXEGKALLFKRFGGVDAFPIXIKEQEPNKFIDIVKAIA 126
Query: 242 GEKVLIQFEDFANHNAFELLAKYGT--THLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAE 299
I ED A+ F +L + VF+DD Q ++E
Sbjct: 127 PTFGGINLEDIASPKCFYILERLREELDIPVFHDDQQGTAAVVLAGLLNALKVVGKKISE 186
Query: 300 HRFLFLGAGEAGTGIAELIALEISKQTKAPVE-ETRKKICLVDSKGLIVSSRKDSLQHFK 358
GAG AG ++ T+A V+ E + + LV+ K I++S D + F
Sbjct: 187 ITLALFGAGAAGFATLRIL-------TEAGVKPENVRVVELVNGKPRILTSDLDLEKLFP 239
Query: 359 -KPWAH--------EHEPVNNLLDAVKVIKPTILIGSSGVGRTFTKEVIEAMASFNEKPL 409
+ W E P L DA +LI + G K + + NE +
Sbjct: 240 YRGWLLKKTNGENIEGGPQEALKDA------DVLISFTRPGPGVIKP--QWIEKXNEDAI 291
Query: 410 ILALSNPTSQSECTAEEAYTWSKGRAIFASGSPFDPFEYNGKVFVPGQANNAYIFPGFGL 469
+ L+NP E EEA G I A+G + P Q NN FPG
Sbjct: 292 VFPLANPVP--EILPEEAK--KAGARIVATG----------RSDYPNQINNLLGFPGIFR 337
Query: 470 GLVISGAIRVHDDMLLAASEALAKQVTEENFEKGLIYPPFSNI 512
G + A R D + A+ + EE E+ +I P + I
Sbjct: 338 GALDVRA-RTITDSXIIAAAKAIASIVEEPSEENIIPSPLNPI 379
>pdb|2HAE|A Chain A, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
pdb|2HAE|B Chain B, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
pdb|2HAE|C Chain C, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
pdb|2HAE|D Chain D, Crystal Structure Of A Putative Malic Enzyme (Malate
Oxidoreductase)
Length = 386
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 90/377 (23%), Positives = 145/377 (38%), Gaps = 62/377 (16%)
Query: 133 ELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKILEVLKNWPERSIQVIVVTDGER 192
E L ++YTP V + + + P+ Y+ + R V VV+DG
Sbjct: 28 ETLSLLYTPGVADVAR---ACAEDPEKTYV--------------YTSRWNTVAVVSDGSA 70
Query: 193 ILGLGDLGCQGMGIPV--GKLALYTALGGIRP-----SAEYAELLDEFMSAVKQNYGEKV 245
+LGLG++G G +PV GK L+ A I S E + + +++ ++G
Sbjct: 71 VLGLGNIGPYG-ALPVMEGKAFLFKAFADIDAFPICLSESEEEKIISIVKSLEPSFGG-- 127
Query: 246 LIQFEDFANHNAFELLAKYG--TTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFL 303
I ED F +L + VF+DD Q + E + +
Sbjct: 128 -INLEDIGAPKCFRILQRLSEEMNIPVFHDDQQGTAVVVSAAFLNALKLTEKKIEEVKVV 186
Query: 304 FLGAGEAGTGIAELIALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDS-LQHFKKPWA 362
G G AG I + + ++ K + VD KG++ + ++ L + A
Sbjct: 187 VNGIGAAGYNIVKFL-----------LDLGVKNVVAVDRKGILNENDPETCLNEYHLEIA 235
Query: 363 HEHEPVNNLLDAVKVIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSEC 422
P D ++ G E I+ M+ KP+I AL+NP + +
Sbjct: 236 RITNPERLSGDLETALEGADFFIGVSRGNILKPEWIKKMS---RKPVIFALANPVPEIDP 292
Query: 423 -TAEEAYTWSKGRAIFASGSPFDPFEYNGKVFVPGQANNAYIFPGFGLGLVISGAIRVHD 481
A EA G I A+ G+ P Q NN FPG G V + ++
Sbjct: 293 ELAREA-----GAFIVAT----------GRSDHPNQVNNLLAFPGIMKGAVEKRS-KITK 336
Query: 482 DMLLAASEALAKQVTEE 498
+MLL+A EA+A+ E
Sbjct: 337 NMLLSAVEAIARSCEPE 353
>pdb|1VL6|A Chain A, Crystal Structure Of Nad-Dependent Malic Enzyme (Tm0542)
From Thermotoga Maritima At 2.61 A Resolution
pdb|1VL6|B Chain B, Crystal Structure Of Nad-Dependent Malic Enzyme (Tm0542)
From Thermotoga Maritima At 2.61 A Resolution
pdb|1VL6|C Chain C, Crystal Structure Of Nad-Dependent Malic Enzyme (Tm0542)
From Thermotoga Maritima At 2.61 A Resolution
pdb|1VL6|D Chain D, Crystal Structure Of Nad-Dependent Malic Enzyme (Tm0542)
From Thermotoga Maritima At 2.61 A Resolution
Length = 388
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 88/377 (23%), Positives = 143/377 (37%), Gaps = 62/377 (16%)
Query: 133 ELLPVVYTPTVGEACQKYGSIFRRPQGLYISLKEKGKILEVLKNWPERSIQVIVVTDGER 192
E L ++YTP V + + + P+ Y+ + R V VV+DG
Sbjct: 38 ETLSLLYTPGVADVAR---ACAEDPEKTYV--------------YTSRWNTVAVVSDGSA 80
Query: 193 ILGLGDLGCQGMGIPV--GKLALYTALGGIRP-----SAEYAELLDEFMSAVKQNYGEKV 245
+LGLG++G G +PV GK L+ A I S E + + +++ ++G
Sbjct: 81 VLGLGNIGPYG-ALPVXEGKAFLFKAFADIDAFPICLSESEEEKIISIVKSLEPSFGG-- 137
Query: 246 LIQFEDFANHNAFELLAKYG--TTHLVFNDDIQXXXXXXXXXXXXXXXXXXXTLAEHRFL 303
I ED F +L + VF+DD Q + E + +
Sbjct: 138 -INLEDIGAPKCFRILQRLSEEXNIPVFHDDQQGTAVVVSAAFLNALKLTEKKIEEVKVV 196
Query: 304 FLGAGEAGTGIAELIALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDS-LQHFKKPWA 362
G G AG I + + ++ K + VD KG++ + ++ L + A
Sbjct: 197 VNGIGAAGYNIVKFL-----------LDLGVKNVVAVDRKGILNENDPETCLNEYHLEIA 245
Query: 363 HEHEPVNNLLDAVKVIKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILALSNPTSQSEC 422
P D ++ G E I+ + KP+I AL+NP + +
Sbjct: 246 RITNPERLSGDLETALEGADFFIGVSRGNILKPEWIKKXS---RKPVIFALANPVPEIDP 302
Query: 423 T-AEEAYTWSKGRAIFASGSPFDPFEYNGKVFVPGQANNAYIFPGFGLGLVISGAIRVHD 481
A EA G I A+ G+ P Q NN FPG G V + ++
Sbjct: 303 ELAREA-----GAFIVAT----------GRSDHPNQVNNLLAFPGIXKGAVEKRS-KITK 346
Query: 482 DMLLAASEALAKQVTEE 498
+ LL+A EA+A+ E
Sbjct: 347 NXLLSAVEAIARSCEPE 363
>pdb|2Y8N|A Chain A, Crystal Structure Of Glycyl Radical Enzyme
pdb|2Y8N|C Chain C, Crystal Structure Of Glycyl Radical Enzyme
pdb|2YAJ|A Chain A, Crystal Structure Of Glycyl Radical Enzyme With Bound
Substrate
pdb|2YAJ|C Chain C, Crystal Structure Of Glycyl Radical Enzyme With Bound
Substrate
Length = 897
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 15/85 (17%)
Query: 425 EEAYTWSKGRAIFASGSPFDPFEYNGKV-FVPGQANNAYIFPGFGLGLVISGAIRVHDDM 483
+A W G + ++ F P EYNGKV +PG A+ P G G+ G +V +
Sbjct: 493 HDARAWCLGGCLESAPGCFLPLEYNGKVTMIPGGAS-----PTCGTGVHFIGMPKV---L 544
Query: 484 LLAASEALAKQVTEENFEKGLIYPP 508
L + L K+ ++ +YPP
Sbjct: 545 ELVLTNGLDKRTGKQ------VYPP 563
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 359 KPWAHEHEPVNNLLDAVKV-IKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILA 412
+P + + + L+D +++ +K L+G++G G+TFT + +A N+ L++A
Sbjct: 37 EPQGDQPQAIAKLVDGLRLGVKHQTLLGATGTGKTFT--ISNVIAQVNKPTLVIA 89
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 359 KPWAHEHEPVNNLLDAVKV-IKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILA 412
+P + + + L+D ++ +K L+G++G G+TFT + +A N+ L++A
Sbjct: 12 EPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFT--ISNVIAQVNKPTLVIA 64
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 359 KPWAHEHEPVNNLLDAVKV-IKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILA 412
+P + + + L+D ++ +K L+G++G G+TFT + +A N+ L++A
Sbjct: 12 EPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFT--ISNVIAQVNKPTLVIA 64
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 359 KPWAHEHEPVNNLLDAVKV-IKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILA 412
+P + + + L+D ++ +K L+G++G G+TFT + +A N+ L++A
Sbjct: 12 EPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFT--ISNVIAQVNKPTLVIA 64
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 359 KPWAHEHEPVNNLLDAVKV-IKPTILIGSSGVGRTFTKEVIEAMASFNEKPLILA 412
+P + + + L+D ++ +K L+G++G G+TFT + +A N+ L++A
Sbjct: 12 EPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFT--ISNVIAQVNKPTLVIA 64
>pdb|3HQ8|A Chain A, Ccpa From G. Sulfurreducens S134pV135K VARIANT
pdb|3HQ8|B Chain B, Ccpa From G. Sulfurreducens S134pV135K VARIANT
Length = 345
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 319 ALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAHEHEPV--NNLLDAVK 376
A ++++Q K PV+ ++ D ++S D + FKK + E +PV +N+ A++
Sbjct: 120 AKDLAEQAKGPVQAPKEMNNTPDQVVKTLNSIPDYVALFKKAFPGEKDPVTFDNMAKAIE 179
Query: 377 VIKPTILIGSS 387
V + T++ S
Sbjct: 180 VFEATLITPDS 190
>pdb|3HQ6|A Chain A, Cytochrome C Peroxidase From G. Sulfurreducens, Wild Type
pdb|3HQ6|B Chain B, Cytochrome C Peroxidase From G. Sulfurreducens, Wild Type
Length = 345
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 319 ALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAHEHEPV--NNLLDAVK 376
A ++++Q K PV+ + + D ++S D + FKK + E +PV +N+ A++
Sbjct: 120 AKDLAEQAKGPVQASVEMNNTPDQVVKTLNSIPDYVALFKKAFPGEKDPVTFDNMAKAIE 179
Query: 377 VIKPTILIGSS 387
V + T++ S
Sbjct: 180 VFEATLITPDS 190
>pdb|3HQ7|A Chain A, Ccpa From G. Sulfurreducens, G94kK97QR100I VARIANT
Length = 345
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 319 ALEISKQTKAPVEETRKKICLVDSKGLIVSSRKDSLQHFKKPWAHEHEPV--NNLLDAVK 376
A ++++Q K PV+ + + D ++S D + FKK + E +PV +N+ A++
Sbjct: 120 AKDLAEQAKGPVQASVEMNNTPDQVVKTLNSIPDYVALFKKAFPGEKDPVTFDNMAKAIE 179
Query: 377 VIKPTILIGSS 387
V + T++ S
Sbjct: 180 VFEATLITPDS 190
>pdb|2OQY|A Chain A, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|B Chain B, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|C Chain C, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|D Chain D, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|E Chain E, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|F Chain F, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|G Chain G, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|2OQY|H Chain H, The Crystal Structure Of Muconate Cycloisomerase From
Oceanobacillus Iheyensis
pdb|3ES7|A Chain A, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES7|B Chain B, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|A Chain A, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|B Chain B, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|C Chain C, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|D Chain D, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|E Chain E, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|F Chain F, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|G Chain G, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3ES8|H Chain H, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg And L-Malate.
pdb|3FYY|A Chain A, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg
pdb|3FYY|B Chain B, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Mg
pdb|3GD6|A Chain A, Crystal Structure Of Divergent Enolase From Oceanobacillus
Iheyensis Complexed With Phosphate
Length = 391
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 231 DEFMSAVKQNYGEKVLIQFEDFAN-------HNAFELLAKY 264
+EF+S VK+ +G +V I+ DF++ H A + L KY
Sbjct: 173 EEFLSRVKEEFGSRVRIKSYDFSHLLNWKDAHRAIKRLTKY 213
>pdb|3HPF|A Chain A, Crystal Structure Of The Mutant Y90f Of Divergent
Galactarate Dehydratase From Oceanobacillus Iheyensis
Complexed With Mg And Galactarate
pdb|3HPF|B Chain B, Crystal Structure Of The Mutant Y90f Of Divergent
Galactarate Dehydratase From Oceanobacillus Iheyensis
Complexed With Mg And Galactarate
Length = 391
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 231 DEFMSAVKQNYGEKVLIQFEDFAN-------HNAFELLAKY 264
+EF+S VK+ +G +V I+ DF++ H A + L KY
Sbjct: 173 EEFLSRVKEEFGSRVRIKSYDFSHLLNWKDAHRAIKRLTKY 213
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 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,645,663
Number of Sequences: 62578
Number of extensions: 637704
Number of successful extensions: 1652
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1586
Number of HSP's gapped (non-prelim): 37
length of query: 559
length of database: 14,973,337
effective HSP length: 104
effective length of query: 455
effective length of database: 8,465,225
effective search space: 3851677375
effective search space used: 3851677375
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: 54 (25.4 bits)