RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1913
(535 letters)
>3mw9_A GDH 1, glutamate dehydrogenase 1; allostery, inhibition,
oxidoreducta; HET: GLU GTP NAD; 2.40A {Bos taurus} PDB:
3mvo_A* 3mvq_A* 3qmu_A* 3etd_A* 3ete_A* 3etg_A* 1l1f_A
1nr1_A 1nr7_A 1nqt_A 1hwx_A* 1hwy_A* 1hwz_A*
Length = 501
Score = 604 bits (1558), Expect = 0.0
Identities = 236/499 (47%), Positives = 331/499 (66%), Gaps = 6/499 (1%)
Query: 38 DKENPGFFESVEYYFHRAVQNLIPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEI 97
+++P FF+ VE +F R + + ++ R+ ++ I+ +++ + +L +
Sbjct: 3 REDDPNFFKMVEGFFDRGASIVEDKLVEDLKTRETEEQKRNRV-RSILRIIKPCNHVLSL 61
Query: 98 QFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVP 157
FP RRD G +E+I+ YR H H++P KGGIRY+ DV+ DEVKALA+LMTYK + +VP
Sbjct: 62 SFPIRRDDGSWEVIEGYRAQHSQHRTPCKGGIRYSTDVSVDEVKALASLMTYKCAVVDVP 121
Query: 158 FGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYD 217
FGGAK G++I+P Y + ELE+ITR+F +EL KK ++GPG+DVPAPD +T REMSW D
Sbjct: 122 FGGAKAGVKINPKNYTDNELEKITRRFTMELAKKGFIGPGVDVPAPDMSTGEREMSWIAD 181
Query: 218 AYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPC 277
YA T+G +INA VTGKP+ GGI GR SATGRGVF E +N YM +G+ P
Sbjct: 182 TYASTIGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPG 241
Query: 278 MENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKG 337
+KT++VQGFGNVG H+ RY R AKC+ + E D +I G I+ K+L +K+ G
Sbjct: 242 FGDKTFVVQGFGNVGLHSMRYLHRFGAKCITVGESDGSIWNPDG--IDPKELEDFKLQHG 299
Query: 338 TIKGYPGTKSAPTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAHAM 397
TI G+P K I+ DIL+PAA EK + KSNA +V+AKII E ANGP TP A +
Sbjct: 300 TILGFPKAKIYEGSILEVDCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKI 359
Query: 398 LLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSIDTSLSD 457
L++N+++IPD++ NAGGVTVSYFEWL N++H S GR++F Y+++ + LL S+ SL
Sbjct: 360 FLERNIMVIPDLYLNAGGVTVSYFEWLNNLNHVSYGRLTFKYERDSNYHLLMSVQESLER 419
Query: 458 TFNKK---IRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLDLRN 514
F K I I +A ++DRIS A+EKDIV S L ++M+R+ R I+ A K + LDLR
Sbjct: 420 KFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYTMERSARQIMRTAMKYNLGLDLRT 479
Query: 515 AAYCSALFKIFKTYEEAGL 533
AAY +A+ K+F+ Y EAG+
Sbjct: 480 AAYVNAIEKVFRVYNEAGV 498
>1gtm_A Glutamate dehydrogenase; oxidoreductase, NAD, NADP; 2.20A
{Pyrococcus furiosus} SCOP: c.2.1.7 c.58.1.1 PDB: 1bvu_A
1euz_A
Length = 419
Score = 498 bits (1284), Expect = e-174
Identities = 147/494 (29%), Positives = 232/494 (46%), Gaps = 84/494 (17%)
Query: 42 PGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQFP 100
+E V RA Q + I E + ++ ++E+ P
Sbjct: 3 ADPYEIVIKQLERAAQYMEISE--------------------EALEFLKRPQRIVEVTIP 42
Query: 101 FRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPFGG 160
D G ++ +R H + PTKGGIR+ + VKALAA MT+K + ++P+GG
Sbjct: 43 VEMDDGSVKVFTGFRVQHNWARGPTKGGIRWHPEETLSTVKALAAWMTWKTAVMDLPYGG 102
Query: 161 AKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDAYA 220
KGGI +DP K ++RE ER+ R + + + P D+PAPD T+ + M+W D Y
Sbjct: 103 GKGGIIVDPKKLSDREKERLARGYIRAIYD--VISPYEDIPAPDVYTNPQIMAWMMDEYE 160
Query: 221 KTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCMEN 280
A G++TGKPL +GG GR AT RG E +G + ++
Sbjct: 161 TISR-RKTPAFGIITGKPLSIGGSLGRIEATARGASYTI------REAAKVLGWDT-LKG 212
Query: 281 KTYIVQGFGNVGFHAARYFRRGR-AKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKGTI 339
KT +QG+GN G++ A+ K +A+ + I G +N ++ +K G++
Sbjct: 213 KTIAIQGYGNAGYYLAKIMSEDFGMKVVAVSDSKGGIYNPDG--LNADEVLKWKNEHGSV 270
Query: 340 KGYPGTKS-APTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAHAML 398
K +PG + +++ +VD+L PAAIE+VI K NAD ++AKI+ E ANGP+TP A +L
Sbjct: 271 KDFPGATNITNEELLELEVDVLAPAAIEEVITKKNADNIKAKIVAEVANGPVTPEADEIL 330
Query: 399 LKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSIDTSLSDT 458
+K +L IPD NAGGVTVSYFEW++NI+ +
Sbjct: 331 FEKGILQIPDFLCNAGGVTVSYFEWVQNITG-----YYW--------------------- 364
Query: 459 FNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLDLRNAAYC 518
+ V+ L M +A D+ A++ + +R+AAY
Sbjct: 365 ---------------------TIEEVRERLDKKMTKAFYDVYNIAKE--KNIHMRDAAYV 401
Query: 519 SALFKIFKTYEEAG 532
A+ ++++ + G
Sbjct: 402 VAVQRVYQAMLDRG 415
>2tmg_A Protein (glutamate dehydrogenase); metabolic role, mutant,
oxidoreductase; 2.90A {Thermotoga maritima} SCOP:
c.2.1.7 c.58.1.1 PDB: 1b26_A 1b3b_A
Length = 415
Score = 495 bits (1278), Expect = e-174
Identities = 168/495 (33%), Positives = 253/495 (51%), Gaps = 87/495 (17%)
Query: 42 PGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQFP 100
+E F+RA + + + +++ +L ++FP
Sbjct: 3 KSLYEMAVEQFNRAASLMDLES--------------------DLAEVLRRPKRVLIVEFP 42
Query: 101 FRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPFGG 160
R D G E+ YR H + P KGGIRY DV DEVKALA MT+K + N+PFGG
Sbjct: 43 VRMDDGHVEVFTGYRVQHNVARGPAKGGIRYHPDVTLDEVKALAFWMTWKTAVMNLPFGG 102
Query: 161 AKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDAYA 220
KGG+R+DP K + RELER++R+F E+ + +GP D+PAPD NT+A ++W+ D Y
Sbjct: 103 GKGGVRVDPKKLSRRELERLSRRFFREI--QVIIGPYNDIPAPDVNTNADVIAWYMDEYE 160
Query: 221 KTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCMEN 280
+G LG+VTGKP+ LGG +GRE ATGRGV A M +G++P +
Sbjct: 161 MNVGH---TVLGIVTGKPVELGGSKGREEATGRGVKVCA------GLAMDVLGIDP--KK 209
Query: 281 KTYIVQGFGNVGFHAARYFRRGR-AKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKGTI 339
T VQGFGNVG AA + +K +A+ + I +G + ++L YK GT+
Sbjct: 210 ATVAVQGFGNVGQFAALLISQELGSKVVAVSDSRGGIYNPEG--FDVEELIRYKKEHGTV 267
Query: 340 KGYPGTKS-APTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAHAML 398
YP + +++ VDILVPAA+E I NA++++AK +VE ANGP TP A +L
Sbjct: 268 VTYPKGERITNEELLELDVDILVPAALEGAIHAGNAERIKAKAVVEGANGPTTPEADEIL 327
Query: 399 LKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSIDTSLSDT 458
++ +L++PDI ANAGGVTVSYFEW++++ +
Sbjct: 328 SRRGILVVPDILANAGGVTVSYFEWVQDLQS-----FFW--------------------- 361
Query: 459 FNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLDLRNAAYC 518
+ D V+++L M+ A D+++ EK +D+R AAY
Sbjct: 362 ---------------------DLDQVRNALEKMMKGAFNDVMKVKEK--YNVDMRTAAYI 398
Query: 519 SALFKIFKTYEEAGL 533
A+ ++ ++ G+
Sbjct: 399 LAIDRVAYATKKRGI 413
>3aog_A Glutamate dehydrogenase; NAD(H), oxidoreducta; HET: GLU; 2.10A
{Thermus thermophilus HB27} PDB: 3aoe_A
Length = 440
Score = 491 bits (1266), Expect = e-171
Identities = 168/512 (32%), Positives = 244/512 (47%), Gaps = 89/512 (17%)
Query: 27 HKIPERLKDVPD---KENPGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRN 82
+ P +K P ++ G +E R V L
Sbjct: 11 SQDPNSMKSEPLSYLGKDGGPWEIFTEQVDRVVPYLGRLA-------------------- 50
Query: 83 GIIMLMQNYSSLLEIQFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKA 142
+ ++ +L + P R D G + YR HH T + P KGG+RY +V EV A
Sbjct: 51 PLAESLKRPKRVLIVDVPVRLDDGSVAYFEGYRVHHNTARGPAKGGVRYHPEVTLSEVMA 110
Query: 143 LAALMTYKNSCSNVPFGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPA 202
LA MT KN+ +P+GG KGGIR+DP K + ELER+TR++ E+ +GP D+PA
Sbjct: 111 LAGWMTIKNAAVGLPYGGGKGGIRVDPRKLSPGELERLTRRYTSEIGI--LLGPDRDIPA 168
Query: 203 PDYNTSAREMSWFYDAYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEIL 262
PD NT REM+W D Y+ +G G+VTGKP+ LGG GR ATGRGVF A
Sbjct: 169 PDVNTGEREMAWMMDTYSMNVGR---TVPGVVTGKPIALGGSLGRRDATGRGVFITA--- 222
Query: 263 VNNEEYMCEIGLEPCMENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGT 322
+IGL+ E +QGFGNVG AAR F A+ +A+ +H + + G
Sbjct: 223 ---AAAAEKIGLQV--EGARVAIQGFGNVGNAAARAFHDHGARVVAVQDHTGTVYNEAG- 276
Query: 323 EINYKDLHTYKITKGTIKGYPGTKS-APTDIMFDKVDILVPAAIEKVIRKSNADKVQAKI 381
I+ DL + G ++GYP + D V+ LVPAA+EK I + NA +++A+I
Sbjct: 277 -IDPYDLLRHVQEFGGVRGYPKAEPLPAADFWGLPVEFLVPAALEKQITEQNAWRIRARI 335
Query: 382 IVEAANGPLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDK 441
+ E ANGP TPAA +LL+K VL++PD+ ANAGGVTVSYFEW+++ + +
Sbjct: 336 VAEGANGPTTPAADDILLEKGVLVVPDVIANAGGVTVSYFEWVQDFNS-----YFW---- 386
Query: 442 EISDLLLSSIDTSLSDTFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILE 501
++ + + L ++ A + +
Sbjct: 387 --------------------------------------TEEEINARLERVLRNAFEAVWQ 408
Query: 502 YAEKSDNKLDLRNAAYCSALFKIFKTYEEAGL 533
A++ K+ LR AAY A ++ + GL
Sbjct: 409 VAQE--KKIPLRTAAYVVAATRVLEARALRGL 438
>2yfq_A Padgh, NAD-GDH, NAD-specific glutamate dehydrogenase;
oxidoreductase; 2.94A {Peptoniphilus asaccharolyticus}
Length = 421
Score = 480 bits (1239), Expect = e-168
Identities = 147/502 (29%), Positives = 223/502 (44%), Gaps = 90/502 (17%)
Query: 39 KENPGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEI 97
+ + + A + L + L++ ++EI
Sbjct: 2 TDTLNPLVAAQEKVRIACEKLGCDP--------------------AVYELLKEPQRVIEI 41
Query: 98 QFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVP 157
P + D G ++ + +R H + P+KGG+R+ +VN DEVKAL+ MT+K +P
Sbjct: 42 SIPVKMDDGTVKVFKGWRSAHSSAVGPSKGGVRFHPNVNMDEVKALSLWMTFKGGALGLP 101
Query: 158 FGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYD 217
+GG KGGI +DP++ + RELE+++R + L K Y+G ID+PAPD NT+ + MSWF D
Sbjct: 102 YGGGKGGICVDPAELSERELEQLSRGWVRGLYK--YLGDRIDIPAPDVNTNGQIMSWFVD 159
Query: 218 AYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPC 277
Y K G +G TGKP+ GG GR ATG GV E G++
Sbjct: 160 EYVKLNGER--MDIGTFTGKPVAFGGSEGRNEATGFGVAVVV------RESAKRFGIKM- 210
Query: 278 MENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDT-----AIVPDKGTEINYKDLHTY 332
E+ VQGFGNVG + R K AI E D A+ + G I++K+L Y
Sbjct: 211 -EDAKIAVQGFGNVGTFTVKNIERQGGKVCAIAEWDRNEGNYALYNENG--IDFKELLAY 267
Query: 333 KITKGTIKGYPGTKS-APTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLT 391
K T+ G+PG + + + DI+VPAA+E VI A + AK++ EAANGP T
Sbjct: 268 KEANKTLIGFPGAERITDEEFWTKEYDIIVPAALENVITGERAKTINAKLVCEAANGPTT 327
Query: 392 PAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSI 451
P +L ++ + + PDI N+GGV VSY+EW++N + +
Sbjct: 328 PEGDKVLTERGINLTPDILTNSGGVLVSYYEWVQNQY-----GYYWTEAE---------- 372
Query: 452 DTSLSDTFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLD 511
V+ M +A + + A++ +
Sbjct: 373 --------------------------------VEEKQEADMMKAIKGVFAVADE--YNVT 398
Query: 512 LRNAAYCSALFKIFKTYEEAGL 533
LR A Y A+ I + G
Sbjct: 399 LREAVYMYAIKSIDVAMKLRGW 420
>3k92_A NAD-GDH, NAD-specific glutamate dehydrogenase; ROCG,
oxidoreductase; 2.30A {Bacillus subtilis} PDB: 3k8z_A
Length = 424
Score = 474 bits (1222), Expect = e-165
Identities = 147/496 (29%), Positives = 228/496 (45%), Gaps = 85/496 (17%)
Query: 39 KENPGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEI 97
KE F S + A++ L P + LM+ +L +
Sbjct: 12 KEALNLFLSTQTIIKEALRKLGYPG--------------------DMYELMKEPQRMLTV 51
Query: 98 QFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVP 157
+ P + D+G ++ YR H PTKGG+R+ +VN ++VKAL+ MT K +N+P
Sbjct: 52 RIPVKMDNGSVKVFTGYRSQHNDAVGPTKGGVRFHPEVNEEKVKALSIWMTLKCGIANLP 111
Query: 158 FGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYD 217
+GG KGGI DP + ELER++R + + + VGP D+PAPD T+++ M+W D
Sbjct: 112 YGGGKGGIICDPRTMSFGELERLSRGYVRAISQ--IVGPTKDIPAPDVYTNSQIMAWMMD 169
Query: 218 AYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPC 277
Y++ ++ G +TGKPL LGG +GRE+AT +GV E E + + G++
Sbjct: 170 EYSRL---REFDSPGFITGKPLVLGGSQGRETATAQGVTICIE------EAVKKKGIKL- 219
Query: 278 MENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKG 337
+N I+QGFGN G A++ AK + I + + + G ++ L + + G
Sbjct: 220 -QNARIIIQGFGNAGSFLAKFMHDAGAKVIGISDANGGLYNPDG--LDIPYLLDKRDSFG 276
Query: 338 TIKGYPGTKSAPTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAHAM 397
+ +++ DILVPAAI I NA +QA I+VE ANGP T A +
Sbjct: 277 MVTNLFTDVITNEELLEKDCDILVPAAISNQITAKNAHNIQASIVVERANGPTTIDATKI 336
Query: 398 LLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSIDTSLSD 457
L ++ VL++PDI A+AGGVTVSYFEW++N + ++
Sbjct: 337 LNERGVLLVPDILASAGGVTVSYFEWVQNNQ-----GYYWSEEE---------------- 375
Query: 458 TFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLDLRNAAY 517
V L M + I + A +K+D+R AAY
Sbjct: 376 --------------------------VAEKLRSVMVSSFETIYQTAAT--HKVDMRLAAY 407
Query: 518 CSALFKIFKTYEEAGL 533
+ + K + G
Sbjct: 408 MTGIRKSAEASRFRGW 423
>1v9l_A Glutamate dehydrogenase; protein-NAD complex, oxidoreductase; HET:
NAD; 2.80A {Pyrobaculum islandicum} SCOP: c.2.1.7
c.58.1.1
Length = 421
Score = 467 bits (1204), Expect = e-162
Identities = 148/502 (29%), Positives = 223/502 (44%), Gaps = 91/502 (18%)
Query: 40 ENPGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQ 98
E GF E V Y + V+ PE ++ +L +
Sbjct: 2 ERTGFLEYVLNYVKKGVELGGFPE--------------------DFYKILSRPRRVLIVN 41
Query: 99 FPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPF 158
P R D G +E+ + YR HC P KGG+R+ +V + ALA LMT KNS + +P+
Sbjct: 42 IPVRLDGGGFEVFEGYRVQHCDVLGPYKGGVRFHPEVTLADDVALAILMTLKNSLAGLPY 101
Query: 159 GGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDA 218
GGAKG +R+DP K + RELE ++R +A + +G +D+PAPD T+A+ M+W D
Sbjct: 102 GGAKGAVRVDPKKLSQRELEELSRGYARAIAP--LIGDVVDIPAPDVGTNAQIMAWMVDE 159
Query: 219 YAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCM 278
Y+K N G+ T KP L G RE ATG GV A E ++
Sbjct: 160 YSKI---KGYNVPGVFTSKPPELWGNPVREYATGFGVAVAT------REMAKKLWGGI-- 208
Query: 279 ENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKGT 338
E KT +QG GNVG A + + AK +A+ + + +G +N + + K G
Sbjct: 209 EGKTVAIQGMGNVGRWTAYWLEKMGAKVIAVSDINGVAYRKEG--LNVELIQKNKGLTGP 266
Query: 339 I-----KGYPGTK--SAPTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLT 391
+ P I VDI VPAAIE VIR NA V+A+++VE ANGP T
Sbjct: 267 ALVELFTTKDNAEFVKNPDAIFKLDVDIFVPAAIENVIRGDNAGLVKARLVVEGANGPTT 326
Query: 392 PAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSI 451
P A +L ++ V+++PDI ANAGGV +SY EW++N+ + ++
Sbjct: 327 PEAERILYERGVVVVPDILANAGGVIMSYLEWVENLQW-----YIWDEEE---------- 371
Query: 452 DTSLSDTFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLD 511
+ L + M + + ++ +
Sbjct: 372 --------------------------------TRKRLENIMVNNVERVYKRWQR-EKGWT 398
Query: 512 LRNAAYCSALFKIFKTYEEAGL 533
+R+AA +AL +I+ + G
Sbjct: 399 MRDAAIVTALERIYNAMKIRGW 420
>3aoe_E Glutamate dehydrogenase; rossmann fold, NADH, oxidoreductase; 2.60A
{Thermus thermophilus}
Length = 419
Score = 467 bits (1204), Expect = e-162
Identities = 124/495 (25%), Positives = 205/495 (41%), Gaps = 88/495 (17%)
Query: 40 ENPGFFESVEYYFHRAVQNL-IPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQ 98
E+PG +++ + RA++ + + + + L+ +
Sbjct: 10 EDPGLWDTYLEWLERALKVAGVHP--------------------TTLEYLAHPKRLVTLS 49
Query: 99 FPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPF 158
P D G+ + Q YR H + P KGG+R V + LAA MT K + ++PF
Sbjct: 50 LPVVMDDGKVRIFQGYRVVHDIARGPAKGGVRLDPGVTLGQTAGLAAWMTLKAAVYDLPF 109
Query: 159 GGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDA 218
GGA GGI +DP + +ELER+ R++ EL+ +GP D+ PD + M+W D
Sbjct: 110 GGAAGGIAVDPKGLSPQELERLVRRYTAELVG--LIGPDSDILGPDLGADQQVMAWIMDT 167
Query: 219 YAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCM 278
Y+ T+GST G+VTGKP LGG GR+ A G G E GL+
Sbjct: 168 YSMTVGST---VPGVVTGKPHALGGSEGRDDAAGLGALLVL------EALAKRRGLDL-- 216
Query: 279 ENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKGT 338
+VQG G VG A + R + +A+ + +G ++ ++ + G+
Sbjct: 217 RGARVVVQGLGQVGAAVALHAERLGMRVVAVATSMGGMYAPEG--LDVAEVLSAYEATGS 274
Query: 339 IKGYPGTKSAPTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAHAML 398
+ ++ + ++LV AA E + A +VQA+ +VE AN L P A A L
Sbjct: 275 LPRLDLAPE---EVFGLEAEVLVLAAREGALDGDRARQVQAQAVVEVANFGLNPEAEAYL 331
Query: 399 LKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSIDTSLSDT 458
L K L++PD+ + GG+ SY EW+++++ + ++
Sbjct: 332 LGKGALVVPDLLSGGGGLLASYLEWVQDLNM-----FFWSPEE----------------- 369
Query: 459 FNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLDLRNAAYC 518
V+ + R + AE+ LDLR A
Sbjct: 370 -------------------------VRERFETRVARVVDAVCRRAER--GGLDLRMGALA 402
Query: 519 SALFKIFKTYEEAGL 533
AL ++ + G+
Sbjct: 403 LALERLDEATRLRGV 417
>1leh_A Leucine dehydrogenase; oxidoreductase; 2.20A {Lysinibacillus
sphaericus} SCOP: c.2.1.7 c.58.1.1
Length = 364
Score = 314 bits (806), Expect = e-103
Identities = 82/445 (18%), Positives = 128/445 (28%), Gaps = 109/445 (24%)
Query: 95 LEIQFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYAL----DVNPDEVKALAALMTYK 150
Q F +D ++ H T P GG R + ++ LA MTYK
Sbjct: 11 DYEQLVFCQDEASG--LKAVIAIHDTTLGPALGGARMWTYNAEEEAIEDALRLARGMTYK 68
Query: 151 NSCSNVPFGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAR 210
N+ + + GG K I DP N ++ R +F L G + A D T+
Sbjct: 69 NAAAGLNLGGGKTVIIGDPFADKNEDMFRALGRFIQGLN-------GRYITAEDVGTTVD 121
Query: 211 EMSWFYDAYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMC 270
+M + VTG G T GV+ +
Sbjct: 122 DMDLIHQET------------DYVTGISPAFGSSGNPSPVTAYGVYRGM------KAAAK 163
Query: 271 EIGLEPCMENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLH 330
E +E VQG GNV + AK + + A+
Sbjct: 164 EAFGSDSLEGLAVSVQGLGNVAKALCKKLNTEGAKLVVTDVNKAAV-------------- 209
Query: 331 TYKITKGTIKGYPGTKS-APTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAA-NG 388
G + AP I DI P A+ V+ +++AK+I +A N
Sbjct: 210 ------SAAVAEEGADAVAPNAIYGVTCDIFAPCALGAVLNDFTIPQLKAKVIAGSADNQ 263
Query: 389 PLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLL 448
P L + ++ PD NAGGV E +GY+
Sbjct: 264 LKDPRHGKYLHELGIVYAPDYVINAGGVINVADEL-------------YGYN-------- 302
Query: 449 SSIDTSLSDTFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDN 508
R + + + I +++ +
Sbjct: 303 -----------------------RTRAMKRVDG----------IYDSIEKIFAISKR--D 327
Query: 509 KLDLRNAAYCSALFKIFKTYEEAGL 533
+ AA A +I K +
Sbjct: 328 GVPSYVAADRMAEERIAKVAKARSQ 352
>1c1d_A L-phenylalanine dehydrogenase; amino acid dehydrogenase, oxidative
deamination mechanism, oxidoreductase; HET: PHE NAD;
1.25A {Rhodococcus SP} SCOP: c.2.1.7 c.58.1.1 PDB:
1bw9_A* 1c1x_A* 1bw9_B* 1c1d_B* 1c1x_B* 1bxg_B* 1bxg_A*
Length = 355
Score = 290 bits (746), Expect = 2e-94
Identities = 80/428 (18%), Positives = 125/428 (29%), Gaps = 105/428 (24%)
Query: 112 QCYRCHHCTHKSPTKGGIRYALDVNPDE----VKALAALMTYKNSCSNVPFGGAKGGIRI 167
T P GG R A N + LA MT K + SN+P GG K I +
Sbjct: 24 HFVIRLDSTQLGPAAGGTRAAQYSNLADALTDAGKLAGAMTLKMAVSNLPMGGGKSVIAL 83
Query: 168 DPSKY--NNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDAYAKTLGS 225
++ + RI R A + G PD NT++ +M D
Sbjct: 84 PAPRHSIDPSTWARILRIHAENI--DKLSGN--YWTGPDVNTNSADMDTLNDTT------ 133
Query: 226 TNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCMENKTYIV 285
V G+ L GG T GVF A + + GL ++ T +V
Sbjct: 134 ------EFVFGRSLERGGAGSSAFTTAVGVFEAMK------ATVAHRGLGS-LDGLTVLV 180
Query: 286 QGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKGTIKGYPGT 345
QG G VG A A+ L + T
Sbjct: 181 QGLGAVGGSLASLAAEAGAQLLVADTDTERVA--------------------HAVALGHT 220
Query: 346 KSAPTDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAHA-MLLKKNVL 404
A D++ D+ P A+ VI A + ++ AAN + A + +L + +L
Sbjct: 221 AVALEDVLSTPCDVFAPCAMGGVITTEVARTLDCSVVAGAANNVIADEAASDILHARGIL 280
Query: 405 IIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEISDLLLSSIDTSLSDTFNKKIR 464
PD ANAGG + G+ + +++
Sbjct: 281 YAPDFVANAGGAIHLVGREV------------LGWSES---------------VVHERA- 312
Query: 465 IQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEKSDNKLDLRNAAYCSALFKI 524
I + + E ++ + + AA A +
Sbjct: 313 --------VAIGDTL-----------------NQVFEISDN--DGVTPDEAARTLAGRRA 345
Query: 525 FKTYEEAG 532
+
Sbjct: 346 REASTTTA 353
>1bgv_A Glutamate dehydrogenase; oxidoreductase; HET: GLU; 1.90A
{Clostridium symbiosum} SCOP: c.2.1.7 c.58.1.1 PDB:
1hrd_A 1k89_A 1aup_A 2yfh_A
Length = 449
Score = 279 bits (715), Expect = 1e-88
Identities = 114/410 (27%), Positives = 176/410 (42%), Gaps = 47/410 (11%)
Query: 39 KENPGFFESVEYYFHRAVQNLIPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQ 98
K+ E F + V+ E S+ D ++ M ++E +
Sbjct: 13 KKYAD-----EPEFVQTVE----EVLSSLG--PVVDAHPEYEEVALLERMVIPERVIEFR 61
Query: 99 FPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPF 158
P+ D+G+ + YR P KGG+R+A VN +K L +K+S + +P
Sbjct: 62 VPWEDDNGKVHVNTGYRVQFNGAIGPYKGGLRFAPSVNLSIMKFLGFEQAFKDSLTTLPM 121
Query: 159 GGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDA 218
GGAKGG DP+ ++RE+ R + F EL + ++GP IDVPA D ARE+ + Y
Sbjct: 122 GGAKGGSDFDPNGKSDREVMRFCQAFMTELYR--HIGPDIDVPAGDLGVGAREIGYMYGQ 179
Query: 219 YAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRG-VFTAAEILVNNEEYMCEIGLEPC 277
Y K G++TGK GG R ATG G V+ ++ + +
Sbjct: 180 YRKI---VGGFYNGVLTGKARSFGGSLVRPEATGYGSVYYVEAVMKHEND---------T 227
Query: 278 MENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYK---- 333
+ KT + GFGNV + AA+ AK + + D I +G I ++ Y
Sbjct: 228 LVGKTVALAGFGNVAWGAAKKLAELGAKAVTLSGPDGYIYDPEG--ITTEEKINYMLEMR 285
Query: 334 -ITKGTIKGYPGTKSA-------PTDIMFDKVDILVPAAIEKVIRKSNADKVQA---KII 382
+ ++ Y P KVDI++P A + + A K+ A K
Sbjct: 286 ASGRNKVQDYADKFGVQFFPGEKPWGQ---KVDIIMPCATQNDVDLEQAKKIVANNVKYY 342
Query: 383 VEAANGPLTPAAHAMLLKKN-VLIIPDIFANAGGVTVSYFEWLKNISHSS 431
+E AN P T A L+++ +++ P NAGGV VS FE +N S
Sbjct: 343 IEVANMPTTNEALRFLMQQPNMVVAPSKAVNAGGVLVSGFEMSQNSERLS 392
>2bma_A Glutamate dehydrogenase (NADP+); malaria, drug design, analysis,
oligomer organization, oxidoreductase; 2.7A {Plasmodium
falciparum}
Length = 470
Score = 277 bits (710), Expect = 1e-87
Identities = 94/349 (26%), Positives = 150/349 (42%), Gaps = 28/349 (8%)
Query: 95 LEIQFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCS 154
++ + + D+G +C+R + + P KGG+R+ VN VK L +KNS +
Sbjct: 81 IQFRVCWLDDNGVQRKNRCFRVQYNSALGPYKGGLRFHPSVNLSIVKFLGFEQIFKNSLT 140
Query: 155 NVPFGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSW 214
+ GG KGG DP ++ E+ + + F EL + ++GP DVPA D RE+ +
Sbjct: 141 GLSMGGGKGGSDFDPKGKSDNEILKFCQAFMNELYR--HIGPCTDVPAGDIGVGGREIGY 198
Query: 215 FYDAYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGL 274
Y Y K + S N G +TGK + GG R ATG G+ E + + +
Sbjct: 199 LYGQYKKIVNSFN----GTLTGKNVKWGGSNLRVEATGYGLVYFV------LEVLKSLNI 248
Query: 275 EPCMENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYK- 333
+E +T +V G GNV + + K L + + + + G +++L
Sbjct: 249 P--VEKQTAVVSGSGNVALYCVQKLLHLNVKVLTLSDSNGYVYEPNG--FTHENLEFLID 304
Query: 334 ---ITKGTIKGY----PGTKSAPTDIMFD-KVDILVPAAIEKVIRKSNADKVQA---KII 382
KG IK Y K P + + + P A + + A +Q ++
Sbjct: 305 LKEEKKGRIKEYLNHSSTAKYFPNEKPWGVPCTLAFPCATQNDVDLDQAKLLQKNGCILV 364
Query: 383 VEAANGPLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSS 431
E AN P T A + N++ P ANAGGV +S E +N S
Sbjct: 365 GEGANMPSTVDAINLFKSNNIIYCPSKAANAGGVAISGLEMSQNFQFSH 413
>2yfg_A NADP-specific glutamate dehydrogenase; oxidoreductase; 2.50A
{Escherichia coli} PDB: 3sbo_A 2yfg_E
Length = 447
Score = 265 bits (680), Expect = 1e-83
Identities = 98/407 (24%), Positives = 161/407 (39%), Gaps = 44/407 (10%)
Query: 39 KENPGFFESVEYYFHRAVQNLIPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQ 98
K +P + F +AV+ E ++ F +++ R+ ++ + +++ +
Sbjct: 16 KRDPN-----QTEFAQAVR----EVMTTLWP--FLEQNPKYRQMSLLERLVEPERVIQFR 64
Query: 99 FPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPF 158
+ D + ++ + +R + P KGG+R+ VN +K L T+KN+ + +P
Sbjct: 65 VVWVDDRNQIQVNRAWRVQFSSAIGPYKGGMRFHPSVNLSILKFLGFEQTFKNALTTLPM 124
Query: 159 GGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDA 218
GG KGG DP + E+ R + EL + ++G DVPA D RE+ +
Sbjct: 125 GGGKGGSDFDPKGKSEGEVMRFCQALMTELYR--HLGADTDVPAGDIGVGGREVGFMAGM 182
Query: 219 YAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCM 278
K +T + TGK L GG R ATG G+ E + G+
Sbjct: 183 MKKLSNNTA----CVFTGKGLSFGGSLIRPEATGYGLVYFT------EAMLKRHGMG--F 230
Query: 279 ENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITK-- 336
E V G GNV +A A+ + + +V + G + L K
Sbjct: 231 EGMRVSVSGSGNVAQYAIEKAMEFGARVITASDSSGTVVDESG--FTKEKLARLIEIKAS 288
Query: 337 --GTIKGYPGTKSA-------PTDIMFDKVDILVPAAIEKVIRKSNADKVQA---KIIVE 384
G + Y P + VDI +P A + + A ++ A K + E
Sbjct: 289 RDGRVADYAKEFGLVYLEGQQPWSL---PVDIALPCATQNELDVDAAHQLIANGVKAVAE 345
Query: 385 AANGPLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSS 431
AN P T A + + VL P ANAGGV S E +N +
Sbjct: 346 GANMPTTIEATELFQQAGVLFAPGKAANAGGVATSGLEMAQNAARLG 392
>3r3j_A Glutamate dehydrogenase; rossman fold, oxidoreductase, apicoplast;
3.10A {Plasmodium falciparum}
Length = 456
Score = 265 bits (681), Expect = 1e-83
Identities = 110/443 (24%), Positives = 171/443 (38%), Gaps = 79/443 (17%)
Query: 97 IQF--PFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSCS 154
IQF P+ D GE+++ + +R + + P KGG+R+ VN +K L +KNS +
Sbjct: 68 IQFRVPWINDKGEHKMNRGFRVQYNSVLGPYKGGLRFHPAVNLSVIKFLGFEQIFKNSLT 127
Query: 155 NVPFGGAKGGIRIDPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSW 214
+P GG KGG DP + E+ + + F L + Y+GP DVPA D RE+ +
Sbjct: 128 TLPMGGGKGGSDFDPKGKSENEILKFCQSFMTNLFR--YIGPNTDVPAGDIGVGGREIGY 185
Query: 215 FYDAYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRG-VFTAAEILVNNEEYMCEIG 273
+ Y K S G++TGK + GG R ATG G V+ A +L + +
Sbjct: 186 LFGQYKKLKNSFE----GVLTGKNIKWGGSNIRAEATGYGVVYFAENVLKDLND------ 235
Query: 274 LEPCMENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYK 333
+ENK +V G GNV + A L + + + I+ G + L+
Sbjct: 236 ---NLENKKCLVSGSGNVAQYLVEKLIEKGAIVLTMSDSNGYILEPNG--FTKEQLNYIM 290
Query: 334 ITK----GTIKGY----PGTKSAPTDIMFD-KVDILVPAAIEKVIRKSNAD---KVQAKI 381
K +K Y K ++ DI P A + I +++AD + + K+
Sbjct: 291 DIKNNQRLRLKEYLKYSKTAKYFENQKPWNIPCDIAFPCATQNEINENDADLFIQNKCKM 350
Query: 382 IVEAANGPLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDK 441
IVE AN P A L + N+++ P ANAGGV VS E +N
Sbjct: 351 IVEGANMPTHIKALHKLKQNNIILCPSKAANAGGVAVSGLEMSQNSMRLQWTH------- 403
Query: 442 EISDLLLSSIDTSLSDTFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILE 501
L + M+
Sbjct: 404 ----------------------------------------QETDMKLQNIMKSIYEQCHN 423
Query: 502 YAEKSDNKLDLRNAAYCSALFKI 524
++ N+ DL A + K+
Sbjct: 424 TSKIYLNESDLVAGANIAGFLKV 446
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 65.1 bits (158), Expect = 4e-11
Identities = 85/532 (15%), Positives = 150/532 (28%), Gaps = 183/532 (34%)
Query: 38 DKENPGFFESVEYYFHRAVQNLIPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSSLLEI 97
+ G F+ V + + EF+ + L N I L +
Sbjct: 73 EPSKVGQFDQV-------LNLCLTEFE-----NCY------LEGNDIHALAAKLLQENDT 114
Query: 98 QFPFRRDSGEYELIQCY-RCHHCTHKSPTKGGIRYAL--DVNPDEVKALAALMTYKNSCS 154
+ ELI+ Y + K AL V + L A+
Sbjct: 115 TLVKTK-----ELIKNYITARIMAKRPFDKKS-NSALFRAVGEGNAQ-LVAI-------- 159
Query: 155 NVPFGGAKGGIRIDPSKYNN--RELERITRKFALELIK----------------KNYVGP 196
FGG +G + Y R+L + +LIK +
Sbjct: 160 ---FGG-QG----NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 197 GIDV----------PAPDYNTSAREMSW---------FYDAYAKTLGSTNINALGMVTGK 237
G+++ P DY S +S Y AK LG T
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSI-PISCPLIGVIQLAHYVVTAKLLGFT----------- 259
Query: 238 PLFLGGIRGRESAT---GRGVFTAAEI-LVNNEEYMCEIGLEPCMENKTYIVQGFGNVGF 293
P G +R +G+ TA I ++ E + + +I G
Sbjct: 260 P---GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK-AITVLFFI-------GV 308
Query: 294 HAARYFRRGRAKCLAIVEHDTAIVPDKGTEINYKDLHTYKITKGTIKGYPGTKSAPTDIM 353
+ T++ P I + +++ G S P M
Sbjct: 309 RCYEAYPN------------TSLPP--------------SILEDSLENNEGVPS-P---M 338
Query: 354 FDKVDILVPAAIEKVIRKSNADKVQAKIIVEA-ANGP----LT--PAAHAMLLKKNVLII 406
+ L ++ + K+N+ K + + NG ++ P + L L +
Sbjct: 339 L-SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS----LYGLNLTL 393
Query: 407 PDIFANAGG------------VTVSYFEWLKNIS---HSSLGRMSFGYDKEISDLLLSSI 451
A +G + F L ++ HS L + D DL+ +++
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRF--L-PVASPFHSHL--LVPASDLINKDLVKNNV 448
Query: 452 DTSLSD-------TFN-KKIRIQKSAMYEDRISNATEK-----DIVQSSLTH 490
+ D TF+ +R+ ++ E + Q TH
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH 500
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 61.8 bits (149), Expect = 4e-10
Identities = 70/438 (15%), Positives = 130/438 (29%), Gaps = 111/438 (25%)
Query: 16 KKNDGSNPQSGHKIPERLKDVPDKENPGFFESVEYYFHRA------VQN--LIPEFD--- 64
N S I R+ + + +S Y VQN F+
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELR-RLLKSKPY--ENCLLVLLNVQNAKAWNAFNLSC 266
Query: 65 ---VSIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQFPFRRDSGEYELIQCYRCHHCTH 121
++ R ++ TD A I SL D + L++ C
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHI--------SLDHHSMTLTPDEVKSLLLKYLDCR--PQ 316
Query: 122 KSPTKGGIRYALDVNPDEVKALAALMTYKNSCSNVPFGGAKGGIRIDPSKYNNRE-LERI 180
P R L NP + +A + G D K+ N + L I
Sbjct: 317 DLP-----REVLTTNPRRLSIIAESI-------------RDGLATWDNWKHVNCDKLTTI 358
Query: 181 TRKF--ALE--LIKKNYVGPGI---DVPAPDYNTSAREMSWFYDAYAKTLGSTN-INALG 232
LE +K + + P T + WF + + N ++
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAHIP---TILLSLIWFDVIKSDVMVVVNKLHKYS 415
Query: 233 MVTGKP----LFLGGIRGRESATGRGVFTAAEILVNN----EEYMCEIGLEPCMENKTYI 284
+V +P + + I + +V++ + + + + P ++ Y
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ--YF 473
Query: 285 VQGFGNVGFHAAR--------YFRRG-------RAKCLAIVEHDTAIVPDKGTEIN-YKD 328
+ ++G H FR K + HD+ G+ +N +
Sbjct: 474 ---YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK----IRHDSTAWNASGSILNTLQQ 526
Query: 329 LHTYK--ITKGTIKGYPGTKSAPTDIMFDKV--DIL--VPAAIEKVIRKSNADKVQAKII 382
L YK I D ++++ IL +P E +I D ++ I
Sbjct: 527 LKFYKPYICD-------------NDPKYERLVNAILDFLPKIEENLICSKYTDLLR--IA 571
Query: 383 VEAANGPLTPAAHAMLLK 400
+ A + + AH + +
Sbjct: 572 LMAEDEAIFEEAHKQVQR 589
Score = 51.0 bits (121), Expect = 8e-07
Identities = 83/592 (14%), Positives = 164/592 (27%), Gaps = 214/592 (36%)
Query: 5 NKKKNDGSNNKKKNDGSNPQSGHKIPERLKDVPDKEN------PGFFESV---EYYFHRA 55
++ ND K N S Q K+ + L ++ +N G ++ +
Sbjct: 117 DRLYNDNQVFAKYNV-SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK 175
Query: 56 VQNLIPEFDV---SIRARKFTDEDIALRRNGIIMLMQNYSSLLEIQF--PFRRDSGEYEL 110
VQ + F + +++ + + + + + + N++S + R S + EL
Sbjct: 176 VQCKMD-FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 111 --IQCYRCHHCTHKSPTKGGIRYAL----DV-NPDEVKALA----ALMTYKNSCSNVPFG 159
+ + + L +V N A L+T + F
Sbjct: 235 RRLLKSKPY------------ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFK-QVTDF- 280
Query: 160 GAKGGIRIDPSKYNNRELERITRKF----ALELIKKNYVGPGI-DVPAPDYNTSAREMSW 214
+ + + L+ + L+ K Y+ D+P RE+
Sbjct: 281 -------LSAATTTHISLDHHSMTLTPDEVKSLLLK-YLDCRPQDLP--------REV-- 322
Query: 215 FYDAYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNN-------EE 267
+T P L I AE + + +
Sbjct: 323 -------------------LTTNPRRLSII--------------AESIRDGLATWDNWKH 349
Query: 268 YMCE---IGLEPCMEN-KTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAI------- 316
C+ +E + + + + F R L++ I
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYR----------KMFDR-----LSVFPPSAHIPTILLSL 394
Query: 317 ----VPDKGTEINYKDLHTYKITKGTIKGYPGTKSAPTDIMFDKVDILVPAAIEKVIRKS 372
V + LH Y + + K T S P I + ++
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPK--ESTISIP-SIYLE-------------LKVK 438
Query: 373 NADKVQA-KIIVEAANGP-------LTP-----------AAH--AMLLKKNVLIIPDIFA 411
++ + IV+ N P L P H + + + + +F
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 412 NAGGVTVSYFEWLKN-ISHSSLGRMSFG-----------YDKEISD------LLLSSIDT 453
+ F +L+ I H S + G Y I D L+++I
Sbjct: 499 D--------FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550
Query: 454 SLSDTFNKKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYAEK 505
F K E+ + + D+++ +L I E A K
Sbjct: 551 -----FLPK--------IEENLICSKYTDLLRIAL----MAEDEAIFEEAHK 585
Score = 46.4 bits (109), Expect = 2e-05
Identities = 75/520 (14%), Positives = 132/520 (25%), Gaps = 197/520 (37%)
Query: 34 KDVPDKENPGFFESVEYYFHRAVQNLIPEFDVSIRARKFTDEDIALRRNGIIMLMQNYSS 93
KDV D E + ++I D + L M+ +
Sbjct: 36 KDVQDMPKS-ILSKEE------IDHIIMSKDAVSGTLRLFW---TLLSKQEEMVQKFVEE 85
Query: 94 LLEIQFPFRRDSGEYELIQCYRCHHCTHKSPTKGGIRYALDVNPDEVKALAALMTYKNSC 153
+L I + F + E Q P+ Y + Y +
Sbjct: 86 VLRINYKFLMSPIKTEQRQ-----------PSMMTRMYIEQRDR----------LYND-- 122
Query: 154 SNVPFGGAKGGIRIDPSKYN-NRELERIT--RKFALELIKKNYVGPGIDVPAPDYNTSAR 210
N F +KYN +R + R+ LEL V ID
Sbjct: 123 -NQVF-----------AKYNVSRL-QPYLKLRQALLELRPAKNVL--ID----------- 156
Query: 211 EMSWFYDAYAKTLGSTNINALGMV-TGKP-LFLGGIR--GRESATGRGVF--------TA 258
G++ +GK + L + +F +
Sbjct: 157 ---------------------GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
Query: 259 AEIL--VNNEEYMCEIGLEPCMENKTYIVQGFGNVGFHAARYFR-RGRAKCLAIVEHDTA 315
+L + Y + ++ + I ++ R + + CL ++ +
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN--- 252
Query: 316 IVPDKGTEINYKDLHTYKITKGTIKGYPGTKSAPTDIMFD-KVDILVPAAIEKVIR-KSN 373
V + K F+ IL+ R K
Sbjct: 253 -VQNA------------KAWN----------------AFNLSCKILL------TTRFKQV 277
Query: 374 ADKVQA----KIIVEAANGPLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISH 429
D + A I ++ + LTP V + +L +
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPD--------EVK---SLLLK----------YL-DCRP 315
Query: 430 SSLGRMSFGYDKEISDLLLSSIDTSLSDTFNKKIRIQKSAMYE-DRISNATEKDIVQSSL 488
L R + LS I S+ D D+++ I++SSL
Sbjct: 316 QDLPREV----LTTNPRRLSIIAESIRDGLA---TWDNWKHVNCDKLTT-----IIESSL 363
Query: 489 THSMQRAGRDILEYAEKSDNKLDLRNAAYCSALF----KI 524
++LE AE L ++F I
Sbjct: 364 ---------NVLEPAEYRKMFDRL-------SVFPPSAHI 387
>2hmt_A YUAA protein; RCK, KTN, KTR, KTRA, ktrab, membrane protein, ION
transporter, symporter, transport protein; HET: NAI;
2.20A {Bacillus subtilis} SCOP: c.2.1.9 PDB: 2hms_A*
2hmu_A* 2hmv_A* 2hmw_A* 1lsu_A*
Length = 144
Score = 33.1 bits (76), Expect = 0.098
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 278 MENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIV 317
++NK + V G G G + R + LA+ + + V
Sbjct: 4 IKNKQFAVIGLGRFGGSIVKELHRMGHEVLAV-DINEEKV 42
>2qul_A D-tagatose 3-epimerase; beta/alpha barrel, isomerase; 1.79A
{Pseudomonas cichorii} PDB: 2ou4_A 2qum_A* 2qun_A*
Length = 290
Score = 31.3 bits (71), Expect = 0.69
Identities = 14/115 (12%), Positives = 35/115 (30%), Gaps = 6/115 (5%)
Query: 168 DPSKYNNRELERITRKFALELIKKNYVGPGIDVPAPDYNTSAREMSWFYDA--YAKTLGS 225
+ S REL+ + L ++ + D +PD + + LG+
Sbjct: 43 NLSDAKKRELKAVADDLGLTVMCCIGLKSEYDFASPDKSVRDAGTEYVKRLLDDCHLLGA 102
Query: 226 TNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCMEN 280
L ++ + R + + ++ + + G+ +E
Sbjct: 103 PVFAGLTFCAWPQSPPLDMKDKRPYVDRAIESVRRVI----KVAEDYGIIYALEV 153
>1lqt_A FPRA; NADP+ derivative, oxidoreductase, structural G PSI, protein
structure initiative, TB structural genomics consortium,
TBSGC; HET: FAD ODP; 1.05A {Mycobacterium tuberculosis}
SCOP: c.3.1.1 c.4.1.1 PDB: 1lqu_A* 2c7g_A*
Length = 456
Score = 31.0 bits (70), Expect = 0.98
Identities = 38/242 (15%), Positives = 67/242 (27%), Gaps = 42/242 (17%)
Query: 230 ALGMVTGKPLFLGGIRGRESATGRGVFTAAEILVNNEEYMCEIGLEPCMENKTYIVQGFG 289
A+G + + L I G + G A + + + + P + +V G G
Sbjct: 103 AVGAQSDRML---NIPGEDL---PGSIAAVDFVGWYNAHPHFEQVSPDLSGARAVVIGNG 156
Query: 290 NVGFHAARYFRRGRAKCLAIVEHDTAIVPDKGTEIN---YKDLHTYKITKGTIKGYPGTK 346
NV AR T+I + L I + I G G
Sbjct: 157 NVALDVARILLTDPDVL-------------ARTDIADHALESLRPRGIQEVVIVGRRGPL 203
Query: 347 SAP--------------TDIMFDKVDILVPAAIEKVIRKSNADKVQAKIIVEAANGPLTP 392
A D++ D ++ E K K++ A+ P
Sbjct: 204 QAAFTTLELRELADLDGVDVVIDPAELDGITD-EDAAAVGKVCKQNIKVLRGYADREPRP 262
Query: 393 AAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYDKEIS---DLLLS 449
M+ + L P V + +S S + + L++
Sbjct: 263 GHRRMVFR--FLTSPIEIKGKRKVERIVLGRNELVSDGSGRVAAKDTGEREELPAQLVVR 320
Query: 450 SI 451
S+
Sbjct: 321 SV 322
>3qbx_A Anhydro-N-acetylmuramic acid kinase; acetate and sugar kinases,
HSP70, actin superfamily, anhydro-N-actetylmuramic acid
binding; HET: AH0; 2.10A {Pseudomonas aeruginosa} PDB:
3qbw_A*
Length = 371
Score = 30.2 bits (69), Expect = 1.8
Identities = 18/59 (30%), Positives = 22/59 (37%), Gaps = 13/59 (22%)
Query: 385 AANG---PLTPAAHAMLLKKNVLIIPDIFANAGGVTVSYFEWLKNISHSSLGRMSFGYD 440
AA G PL PA H L N GG + N+S S G+ G+D
Sbjct: 134 AAGGQGAPLVPAFHQALFGD--DDTSRAVLNIGGFS--------NVSLLSPGKPVRGFD 182
>3llv_A Exopolyphosphatase-related protein; NAD(P)-binding, rossmann, PSI,
M structural genomics; 1.70A {Archaeoglobus fulgidus}
Length = 141
Score = 28.8 bits (65), Expect = 2.0
Identities = 9/38 (23%), Positives = 12/38 (31%), Gaps = 1/38 (2%)
Query: 280 NKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIV 317
YIV G G R K LA+ + +
Sbjct: 6 RYEYIVIGSEAAGVGLVRELTAAGKKVLAV-DKSKEKI 42
>3c85_A Putative glutathione-regulated potassium-efflux S protein KEFB;
TRKA domain; HET: AMP; 1.90A {Vibrio parahaemolyticus
rimd 2210633}
Length = 183
Score = 29.0 bits (65), Expect = 3.1
Identities = 7/40 (17%), Positives = 12/40 (30%)
Query: 278 MENKTYIVQGFGNVGFHAARYFRRGRAKCLAIVEHDTAIV 317
+ ++ G G +G A R K +E
Sbjct: 37 PGHAQVLILGMGRIGTGAYDELRARYGKISLGIEIREEAA 76
>3dod_A Adenosylmethionine-8-amino-7-oxononanoate aminotr;
aminotransferase, biotin biosynthesis, pyridoxal
phosphate, adenosyl-L-methionine; HET: PLP; 1.90A
{Bacillus subtilis} PDB: 3drd_A 3du4_A*
Length = 448
Score = 29.1 bits (66), Expect = 4.1
Identities = 7/33 (21%), Positives = 10/33 (30%), Gaps = 7/33 (21%)
Query: 274 LEPCMENKTYIVQGFGNVGFHAARYFRRGRAKC 306
+E +VQG + Y R C
Sbjct: 216 IES-------MVQGASGMIVMPEGYLAGVRELC 241
>3cqy_A Anhydro-N-acetylmuramic acid kinase; APC7501, SO_1313, structural
genomics, PSI-2, shewanella one MR-1, protein structure
initiative; 2.30A {Shewanella oneidensis}
Length = 370
Score = 29.1 bits (66), Expect = 4.4
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 5/35 (14%)
Query: 385 AANG---PLTPAAHAMLLKKNVLIIPDIFANAGGV 416
A G PL PA H + + N GG+
Sbjct: 140 ALGGQGAPLVPAFHQQTFAQV--GKKRVILNIGGI 172
>3kw0_A Cysteine peptidase; structural genomics, joint center for ST
genomics, JCSG, protein structure initiative, PSI-2,
hydrol; HET: LYS; 2.50A {Bacillus cereus}
Length = 214
Score = 28.2 bits (62), Expect = 5.1
Identities = 5/36 (13%), Positives = 14/36 (38%), Gaps = 2/36 (5%)
Query: 498 DILEYAEKSDNKLDLRNAAYCSALFKIFKTYEEAGL 533
I+ + + N CS + + +++ G+
Sbjct: 153 QIVARIGLGIGRHEDNNEYICSEF--VNECFKKIGV 186
>1g94_A Alpha-amylase; beta-alpha-8-barrel, 3 domain structure, hydrolase;
HET: DAF GLC; 1.74A {Pseudoalteromonas haloplanktis}
SCOP: b.71.1.1 c.1.8.1 PDB: 1g9h_A* 1l0p_A 1aqm_A*
1aqh_A* 1b0i_A 1jd7_A 1jd9_A 1kxh_A*
Length = 448
Score = 28.5 bits (63), Expect = 5.4
Identities = 22/154 (14%), Positives = 40/154 (25%), Gaps = 12/154 (7%)
Query: 203 PDYNTSAREMSWFYDAYAKTLGSTNINALGMVTGKPLFLGGIRGRESATGRGVFTAAEIL 262
D +T++ + AY L + + K + I+ + E++
Sbjct: 143 ADLDTASNYVQNTIAAYINDLQAIGVKGFRFDASKHVAASDIQSLMAKVNGSPVVFQEVI 202
Query: 263 VNNEEYMCE---IGLEPCMENKTYIVQGFGNVGFHAARYFRRGRAKCLA--------IVE 311
E + + E K G A G +
Sbjct: 203 DQGGEAVGASEYLSTGLVTEFKYSTELGNTFRNGSLAWLSNFGEGWGFMPSSSAVVFVDN 262
Query: 312 HDTA-IVPDKGTEINYKDLHTYKITKGTIKGYPG 344
HD G I ++D Y + + YP
Sbjct: 263 HDNQRGHGGAGNVITFEDGRLYDLANVFMLAYPY 296
>2qkd_A Zinc finger protein ZPR1; helical hairpins, beta helix,
anti-parrallel beta sheet, double straded anti-parallel
beta helix, metal binding protein; 2.00A {Mus musculus}
Length = 404
Score = 28.4 bits (63), Expect = 6.0
Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 7/75 (9%)
Query: 28 KIPERLKDVPDKENPGFFESVEYYFHRAVQNLIPEFDVSIRARKFTDEDIALRRNGIIML 87
+IPE ++P G +VE RA+ L + R+ + IA R + I
Sbjct: 90 RIPELDFEIPAFSQKGALTTVEGLISRAISGLEQD----QPTRRAVEGAIAERIDEFIGK 145
Query: 88 MQNYSSLLEIQFPFR 102
+++ L ++ PF
Sbjct: 146 LKD---LKQMASPFT 157
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.6 bits (60), Expect = 6.2
Identities = 8/27 (29%), Positives = 10/27 (37%), Gaps = 8/27 (29%)
Query: 122 KSPTK---GGIR-YALDVNPDEVKALA 144
K K ++ YA D ALA
Sbjct: 19 KQALKKLQASLKLYA----DDSAPALA 41
>2e7c_A Myosin-binding protein C, fast-type; IG-like domain, fast MYBP-C,
C-protein, skeletal muscle fast-isoform, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 118
Score = 27.0 bits (60), Expect = 6.5
Identities = 9/36 (25%), Positives = 18/36 (50%)
Query: 75 EDIALRRNGIIMLMQNYSSLLEIQFPFRRDSGEYEL 110
L + + + ++ ++ ++ R DSGEYEL
Sbjct: 61 GGAPLDTSRVHVRTSDFDTVFFVRQAARSDSGEYEL 96
>2f6h_X Myosin-2, type V myosin; mysoin V, cargo binding, cargo transport,
vacuole binding, secreatory vescIle binding, structural
protein; 2.25A {Saccharomyces cerevisiae}
Length = 419
Score = 28.3 bits (62), Expect = 6.7
Identities = 22/151 (14%), Positives = 46/151 (30%), Gaps = 19/151 (12%)
Query: 402 NVLIIPDIFANAGGVTVSYF-----EWLKNISHSSLGRMSFGYDKEISDLLLSSIDT--- 453
+++ + + G+ ++Y EW K + G + + + LL T
Sbjct: 246 ELIMKRNFLSWKRGLQLNYNVTRLEEWCKTHGLTD-GTECLQHLIQTAKLLQVRKYTIED 304
Query: 454 --SLSDTFN--------KKIRIQKSAMYEDRISNATEKDIVQSSLTHSMQRAGRDILEYA 503
L K I + A YE I + + + + + +
Sbjct: 305 IDILRGICYSLTPAQLQKLISQYQVADYESPIPQEILRYVADIVKKEAALSSSGNDSKGH 364
Query: 504 EKSDNKLDLRNAAYCSALFKIFKTYEEAGLE 534
E S + + F + KT + +E
Sbjct: 365 EHSSSIFITPETGPFTDPFSLIKTRKFDQVE 395
>3u9t_A MCC alpha, methylcrotonyl-COA carboxylase, alpha-subunit; biotin
carboxylase, carboxyltransferase, BT domain, BCCP DOM
ligase; 2.90A {Pseudomonas aeruginosa} PDB: 3u9s_A
Length = 675
Score = 28.0 bits (63), Expect = 8.9
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 5/34 (14%)
Query: 362 PAAIEKVIRKSNADKVQAKIIVEAANGPLTPAAH 395
AAI+ + K AK ++E A PL P H
Sbjct: 133 AAAIDAM-----GSKSAAKALMEEAGVPLVPGYH 161
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.135 0.392
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,390,302
Number of extensions: 534943
Number of successful extensions: 1484
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1383
Number of HSP's successfully gapped: 47
Length of query: 535
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 437
Effective length of database: 3,965,535
Effective search space: 1732938795
Effective search space used: 1732938795
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.8 bits)