RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5266
(180 letters)
>2gcg_A Glyoxylate reductase/hydroxypyruvate reductase; NAD(P) rossmann
fold, formate/glycerate dehydrogenase substr binding
domain, oxidoreductase; HET: NDP; 2.20A {Homo sapiens}
PDB: 2wwr_A 2h1s_A 2q50_A
Length = 330
Score = 139 bits (353), Expect = 5e-41
Identities = 44/82 (53%), Positives = 54/82 (65%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
AQSDFI V C+LT TE L + F MK TA+ IN SRG +++Q+ L + L KI A
Sbjct: 209 AQSDFIVVACSLTPATEGLCNKDFFQKMKETAVFINISRGDVVNQDDLYQALASGKIAAA 268
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV PEPLP +HPL+ L NC
Sbjct: 269 GLDVTSPEPLPTNHPLLTLKNC 290
>2cuk_A Glycerate dehydrogenase/glyoxylate reductase; structural genomics,
riken structur genomics/proteomics initiative, RSGI,
NPPSFA; HET: NHE; 2.00A {Thermus thermophilus}
Length = 311
Score = 132 bits (334), Expect = 2e-38
Identities = 40/82 (48%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
++D + + LT +T +L+ R++ MK AIL+NT+RG L+D EALVE LR + GA
Sbjct: 192 KEADVVSLHTPLTPETHRLLNRERLFAMKRGAILLNTARGALVDTEALVEALR-GHLFGA 250
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV PEPLP HPL L N
Sbjct: 251 GLDVTDPEPLPPGHPLYALPNA 272
>1qp8_A Formate dehydrogenase; oxidoreductase; HET: NDP; 2.80A {Pyrobaculum
aerophilum} SCOP: c.2.1.4 c.23.12.1
Length = 303
Score = 131 bits (331), Expect = 5e-38
Identities = 17/83 (20%), Positives = 32/83 (38%), Gaps = 1/83 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
++ L K T L+ + +LM A+ +N R +LD++ ++ L+++
Sbjct: 173 REARAAVCALPLNKHTRGLVKYQHLALMAEDAVFVNVGRAEVLDRDGVLRILKERPQFIF 232
Query: 109 GLDVMI-PEPLPADHPLVQLDNC 130
DV D L N
Sbjct: 233 ASDVWWGRNDFAKDAEFFSLPNV 255
>2dbq_A Glyoxylate reductase; D-3-phosphoglycerate dehydrogenase, ST
genomics, NPPSFA; HET: NAP; 1.70A {Pyrococcus
horikoshii} PDB: 2dbr_A* 2dbz_A*
Length = 334
Score = 131 bits (333), Expect = 7e-38
Identities = 37/82 (45%), Positives = 52/82 (63%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+SDF+ + LT++T LI ++ LMK TAILIN +RG ++D ALV+ L++ I GA
Sbjct: 203 RESDFVVLAVPLTRETYHLINEERLKLMKKTAILINIARGKVVDTNALVKALKEGWIAGA 262
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV EP + L +LDN
Sbjct: 263 GLDVFEEEPYY-NEELFKLDNV 283
>1gdh_A D-glycerate dehydrogenase; oxidoreductase(CHOH (D)-NAD(P)+ (A));
2.40A {Hyphomicrobium methylovorum} SCOP: c.2.1.4
c.23.12.1
Length = 320
Score = 129 bits (328), Expect = 2e-37
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+ S F + T +T + + AI++NT+RG L+D E +V L ++ A
Sbjct: 201 SVSQFFSLNAPSTPETRYFFNKATIKSLPQGAIVVNTARGDLVDNELVVAALEAGRLAYA 260
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
G DV EP + L N
Sbjct: 261 GFDVFAGEP-NINEGYYDLPNT 281
>3evt_A Phosphoglycerate dehydrogenase; structural genomics, PSI-2, protein
structure initiative; 2.20A {Lactobacillus plantarum}
Length = 324
Score = 129 bits (326), Expect = 5e-37
Identities = 33/82 (40%), Positives = 42/82 (51%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
A ++FI LT T L + F K +LIN RG +D AL+ L ++ A
Sbjct: 190 ATANFIVNALPLTPTTHHLFSTELFQQTKQQPMLINIGRGPAVDTTALMTALDHHQLSMA 249
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
LDV PEPLP DHPL Q D+
Sbjct: 250 ALDVTEPEPLPTDHPLWQRDDV 271
>3gg9_A D-3-phosphoglycerate dehydrogenase oxidoreductase; structural
genomics, PSI-2, P structure initiative; 1.90A
{Ralstonia solanacearum}
Length = 352
Score = 127 bits (322), Expect = 3e-36
Identities = 29/82 (35%), Positives = 46/82 (56%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
QSD + V L +T +I + MKPTA+ +NTSR L+++ +V L + G A
Sbjct: 214 EQSDVLSVHLRLNDETRSIITVADLTRMKPTALFVNTSRAELVEENGMVTALNRGRPGMA 273
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
+DV EP+ H L++++NC
Sbjct: 274 AIDVFETEPILQGHTLLRMENC 295
>4g2n_A D-isomer specific 2-hydroxyacid dehydrogenase, Na; structural
genomics, protein structure initiative, nysgrc, P
biology; 1.70A {Polaromonas SP}
Length = 345
Score = 126 bits (319), Expect = 7e-36
Identities = 26/82 (31%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
SD + + + + + + + A++IN SRG L++ +AL+E LR K + A
Sbjct: 226 GASDIFLIAAPGRPELKGFLDHDRIAKIPEGAVVINISRGDLINDDALIEALRSKHLFAA 285
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV EP D LDN
Sbjct: 286 GLDVFANEP-AIDPRYRSLDNI 306
>4e5n_A Thermostable phosphite dehydrogenase; D-2-hydroxyacid
dehydrogenase, oxidoreductase; HET: NAD; 1.70A
{Pseudomonas stutzeri} PDB: 4e5k_A* 4ebf_A* 4e5p_A*
4e5m_A*
Length = 330
Score = 124 bits (313), Expect = 4e-35
Identities = 28/89 (31%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
A SDFI + L DT L+ + +L++P A+L+N RG ++D+ A++ L ++GG
Sbjct: 199 ASSDFILLALPLNADTLHLVNAELLALVRPGALLVNPCRGSVVDEAAVLAALERGQLGGY 258
Query: 109 GLDVMIPE-------PLPADHPLVQLDNC 130
DV E P D L+ N
Sbjct: 259 AADVFEMEDWARADRPQQIDPALLAHPNT 287
>2nac_A NAD-dependent formate dehydrogenase;
oxidoreductase(aldehyde(D),NAD+(A)); 1.80A {Pseudomonas
SP} SCOP: c.2.1.4 c.23.12.1 PDB: 2nad_A* 2go1_A 2gug_A*
2gsd_A* 3fn4_A
Length = 393
Score = 125 bits (316), Expect = 5e-35
Identities = 26/81 (32%), Positives = 41/81 (50%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
D + + C L +TE +I + L K A ++NT+RG L D++A+ L ++ G
Sbjct: 246 PVCDVVTLNCPLHPETEHMINDETLKLFKRGAYIVNTARGKLCDRDAVARALESGRLAGY 305
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
DV P+P P DHP +
Sbjct: 306 AGDVWFPQPAPKDHPWRTMPY 326
>1wwk_A Phosphoglycerate dehydrogenase; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, oxidoreductase; HET: NAD; 1.90A {Pyrococcus
horikoshii}
Length = 307
Score = 118 bits (298), Expect = 5e-33
Identities = 41/81 (50%), Positives = 53/81 (65%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+SD + + L + T LI ++ LMK TAILINTSRG ++D ALV+ L++ I GA
Sbjct: 195 KESDVVTIHVPLVESTYHLINEERLKLMKKTAILINTSRGPVVDTNALVKALKEGWIAGA 254
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
GLDV EPLP DHPL + DN
Sbjct: 255 GLDVFEEEPLPKDHPLTKFDN 275
>3jtm_A Formate dehydrogenase, mitochondrial; mitochondrion, NAD,
oxidoreductase, T peptide; 1.30A {Arabidopsis thaliana}
PDB: 3n7u_A* 3naq_A
Length = 351
Score = 118 bits (299), Expect = 7e-33
Identities = 23/81 (28%), Positives = 44/81 (54%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+ D I + LT+ T + ++ +K +++N +RG +++++A+V+ + IGG
Sbjct: 219 PKCDVIVINMPLTEKTRGMFNKELIGKLKKGVLIVNNARGAIMERQAVVDAVESGHIGGY 278
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
DV P+P P DHP + N
Sbjct: 279 SGDVWDPQPAPKDHPWRYMPN 299
>3gvx_A Glycerate dehydrogenase related protein; NYSGXRC, PSI-II, 11143J,
structural genomics, protein structure initiative; 2.20A
{Thermoplasma acidophilum}
Length = 290
Score = 117 bits (296), Expect = 8e-33
Identities = 17/82 (20%), Positives = 36/82 (43%), Gaps = 3/82 (3%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
QSDF+ + LT T ++ + + + ++N +R ++ + ++ FL+++
Sbjct: 172 RQSDFVLIAIPLTDKTRGMVNSRLLANARKNLTIVNVARADVVSKPDMIGFLKERSDVWY 231
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
DV EP + L N
Sbjct: 232 LSDVWWNEPEITETN---LRNA 250
>1mx3_A CTBP1, C-terminal binding protein 1; nuclear protein,
phosphorylation, transcriptional corepresso
transcription repressor; HET: NAD; 1.95A {Homo sapiens}
SCOP: c.2.1.4 c.23.12.1 PDB: 1hku_A* 1hl3_A* 2hu2_A*
3ga0_A 2ome_A*
Length = 347
Score = 118 bits (298), Expect = 9e-33
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
SD + + C L + LI M+ A L+NT+RGGL+D++AL + L++ +I GA
Sbjct: 222 FHSDCVTLHCGLNEHNHHLINDFTVKQMRQGAFLVNTARGGLVDEKALAQALKEGRIRGA 281
Query: 109 GLDVMIPEPLP-ADHPLVQLDNC 130
LDV EP + PL N
Sbjct: 282 ALDVHESEPFSFSQGPLKDAPNL 304
>2j6i_A Formate dehydrogenase; oxidoreductase, D-specific-2- hydroxy acid
dehydrogenase, cofactor regenerator, yeast, CBFDH; HET:
PG4; 1.55A {Candida boidinii} PDB: 2fss_A
Length = 364
Score = 118 bits (299), Expect = 1e-32
Identities = 29/81 (35%), Positives = 42/81 (51%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
AQ+D + V L T+ LI ++ S K A L+NT+RG + E + L ++ G
Sbjct: 220 AQADIVTVNAPLHAGTKGLINKELLSKFKKGAWLVNTARGAICVAEDVAAALESGQLRGY 279
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
G DV P+P P DHP + N
Sbjct: 280 GGDVWFPQPAPKDHPWRDMRN 300
>2w2k_A D-mandelate dehydrogenase; 2-hydroxyacid dehydrogenase,
oxidoreductase; 1.85A {Rhodotorula graminis} PDB:
2w2l_A* 2w2l_D* 2w2k_B
Length = 348
Score = 116 bits (294), Expect = 4e-32
Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+SD + V+ K T LI F+ MKP + ++NT+RG ++ Q+AL+ L+ K+ A
Sbjct: 219 RRSDCVSVSVPYMKLTHHLIDEAFFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSA 278
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV EP L+++ +
Sbjct: 279 GLDVHEFEP-QVSKELIEMKHV 299
>2d0i_A Dehydrogenase; structural genomics, NPPSFA, national project
protein structural and functional analyses; 1.95A
{Pyrococcus horikoshii}
Length = 333
Score = 113 bits (285), Expect = 5e-31
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 1/81 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+SD + + LT+DT +I ++ ++ L+N RG L+D++A+ E ++ K+ G
Sbjct: 199 EKSDIVILALPLTRDTYHIINEERVKKLE-GKYLVNIGRGALVDEKAVTEAIKQGKLKGY 257
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
DV EP+
Sbjct: 258 ATDVFEKEPVREHELFKYEWE 278
>3ba1_A HPPR, hydroxyphenylpyruvate reductase; two domain protein,
substrate binding domain, cofactor bindi domain,
oxidoreductase; 1.47A {Solenostemon scutellarioides}
PDB: 3baz_A*
Length = 333
Score = 113 bits (285), Expect = 5e-31
Identities = 31/82 (37%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+ SD + V C LT +T +I R+ + P +LIN RG +D+ LV L + ++GGA
Sbjct: 214 SNSDILVVACPLTPETTHIINREVIDALGPKGVLINIGRGPHVDEPELVSALVEGRLGGA 273
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV EP L L+N
Sbjct: 274 GLDVFEREPEV-PEKLFGLENV 294
>4dgs_A Dehydrogenase; structural genomics, PSI-biology, NEW YORK
structural genomi research consortium, nysgrc,
oxidoreductase; 2.50A {Sinorhizobium meliloti}
Length = 340
Score = 111 bits (279), Expect = 5e-30
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
SD + V A + T+ ++ + P I++N +RG ++D++AL+E L+ I GA
Sbjct: 221 RDSDVLAVCVAASAATQNIVDASLLQALGPEGIVVNVARGNVVDEDALIEALKSGTIAGA 280
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
GLDV + EP N
Sbjct: 281 GLDVFVNEPAI-RSEFHTTPNT 301
>2g76_A 3-PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase,
phosphoglycerate dehydrogenase deficiency, S metabolism,
2-hydroxyacid dehydrogenases; HET: NAD; 1.70A {Homo
sapiens}
Length = 335
Score = 110 bits (277), Expect = 1e-29
Identities = 29/81 (35%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
DFI V L T L+ F+ K ++N +RGG++D+ AL+ L+ + GA
Sbjct: 218 PLCDFITVHTPLLPSTTGLLNDNTFAQCKKGVRVVNCARGGIVDEGALLRALQSGQCAGA 277
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
LDV EP P D LV +N
Sbjct: 278 ALDVFTEEP-PRDRALVDHEN 297
>3hg7_A D-isomer specific 2-hydroxyacid dehydrogenase FAM protein;
structural genomics; 1.80A {Aeromonas salmonicida subsp}
Length = 324
Score = 109 bits (274), Expect = 2e-29
Identities = 34/82 (41%), Positives = 43/82 (52%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
AQ+D I T++T L +F KP AIL N RG +++ L+ LR K+G A
Sbjct: 193 AQADVIVSVLPATRETHHLFTASRFEHCKPGAILFNVGRGNAINEGDLLTALRTGKLGMA 252
Query: 109 GLDVMIPEPLPADHPLVQLDNC 130
LDV EPLPAD PL N
Sbjct: 253 VLDVFEQEPLPADSPLWGQPNL 274
>3pp8_A Glyoxylate/hydroxypyruvate reductase A; structural genomics, center
for structural genomics of infec diseases, csgid; 2.10A
{Salmonella enterica subsp} PDB: 3kbo_A
Length = 315
Score = 107 bits (268), Expect = 1e-28
Identities = 22/81 (27%), Positives = 36/81 (44%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
Q+ + T T +I + + A ++N +RG + + L+ L K+ GA
Sbjct: 192 NQTRVLINLLPNTAQTVGIINSELLDQLPDGAYVLNLARGVHVQEADLLAALDSGKLKGA 251
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
LDV EPLP + PL +
Sbjct: 252 MLDVFSQEPLPQESPLWRHPR 272
>2ekl_A D-3-phosphoglycerate dehydrogenase; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; HET: NAD; 1.77A {Sulfolobus tokodaii}
Length = 313
Score = 106 bits (266), Expect = 3e-28
Identities = 24/83 (28%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
SD I + ++KD + +I QF LMK I++NTSR ++ +AL+++++ K+
Sbjct: 195 KNSDVISLHVTVSKDAKPIIDYPQFELMKDNVIIVNTSRAVAVNGKALLDYIKKGKVYAY 254
Query: 109 GLDVMIPEPLPADH--PLVQLDN 129
DV EP + L++ +
Sbjct: 255 ATDVFWNEPPKEEWELELLKHER 277
>2pi1_A D-lactate dehydrogenase; oxidoreductase, D-LDH, NAD, 3D-structure,
structural genomics, NPPSFA; HET: MSE NAD; 2.12A
{Aquifex aeolicus VF5} PDB: 3kb6_A*
Length = 334
Score = 105 bits (264), Expect = 8e-28
Identities = 29/97 (29%), Positives = 41/97 (42%), Gaps = 15/97 (15%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+SD I + TK+T +I ++ SLMK LINT+RG ++D +AL + K G
Sbjct: 193 KESDVISLHVPYTKETHHMINEERISLMKDGVYLINTARGKVVDTDALYRAYQRGKFSGL 252
Query: 109 GLDVM---------------IPEPLPADHPLVQLDNC 130
GLDV + L DN
Sbjct: 253 GLDVFEDEEILILKKYTEGKATDKNLKILELACKDNV 289
>1j4a_A D-LDH, D-lactate dehydrogenase; NAD-dependent dehydrogenase,
reversible interconversion of pyruvate INTO D-lactate;
1.90A {Lactobacillus delbrueckii subsp} SCOP: c.2.1.4
c.23.12.1 PDB: 1j49_A* 2dld_A*
Length = 333
Score = 104 bits (261), Expect = 2e-27
Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 13/94 (13%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
Q+D I + +I + + MK +++N SRG L+D +A++ L KI G
Sbjct: 198 KQADVISLHVPDVPANVHMINDESIAKMKQDVVIVNVSRGPLVDTDAVIRGLDSGKIFGY 257
Query: 109 GLDVMIPE-------------PLPADHPLVQLDN 129
+DV E P L+ N
Sbjct: 258 AMDVYEGEVGIFNEDWEGKEFPDARLADLIARPN 291
>1dxy_A D-2-hydroxyisocaproate dehydrogenase; D-2-hydroxycarboxylate
dehydrogenase, D-lactate dehydrogenas oxidoreductase;
HET: NAD; 1.86A {Lactobacillus casei} SCOP: c.2.1.4
c.23.12.1
Length = 333
Score = 101 bits (254), Expect = 2e-26
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
QSD I + + +I F+LMKP AI+INT+R L+D +A++ L+ K+ G
Sbjct: 196 KQSDVIDLHVPGIEQNTHIINEAAFNLMKPGAIVINTARPNLIDTQAMLSNLKSGKLAGV 255
Query: 109 GLDVMIPEPL-------------PADHPLVQLDN 129
G+D E P L+ + N
Sbjct: 256 GIDTYEYETEDLLNLAKHGSFKDPLWDELLGMPN 289
>1ygy_A PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase, serine
biosy structural genomics, PSI, protein structure
initiative; HET: TAR; 2.30A {Mycobacterium tuberculosis}
SCOP: c.2.1.4 c.23.12.1 d.58.18.1 d.81.2.2 PDB: 3dc2_A*
3ddn_A*
Length = 529
Score = 102 bits (257), Expect = 3e-26
Identities = 31/81 (38%), Positives = 46/81 (56%), Gaps = 1/81 (1%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
A++DFI V T +T LI ++ + KP I++N +RGGL+D+ AL + + + A
Sbjct: 195 ARADFISVHLPKTPETAGLIDKEALAKTKPGVIIVNAARGGLVDEAALADAITGGHVRAA 254
Query: 109 GLDVMIPEPLPADHPLVQLDN 129
GLDV EP D PL +L
Sbjct: 255 GLDVFATEP-CTDSPLFELAQ 274
>1xdw_A NAD+-dependent (R)-2-hydroxyglutarate dehydrogenase; structural
variant of the BAB rossmann fold, oxidoreductase; 1.98A
{Acidaminococcus fermentans}
Length = 331
Score = 100 bits (250), Expect = 7e-26
Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
+SD I + K+ ++ R MK AIL+N +RG L+D EA++E + K+GG
Sbjct: 197 EKSDIITIHAPYIKENGAVVTRDFLKKMKDGAILVNCARGQLVDTEAVIEAVESGKLGGY 256
Query: 109 GLDVMIPEP--LPADHPLVQLDN 129
G DV+ E D +L+N
Sbjct: 257 GCDVLDGEASVFGKDLEGQKLEN 279
>3k5p_A D-3-phosphoglycerate dehydrogenase; niaid, ssgcid, seattle
structural genomics center for infect disease,
brucellosis; 2.15A {Brucella melitensis biovar abortus}
Length = 416
Score = 101 bits (253), Expect = 7e-26
Identities = 29/85 (34%), Positives = 42/85 (49%), Gaps = 4/85 (4%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
SD + + +K T +LI + MK A LIN +RG +D EAL + L++ + GA
Sbjct: 207 KTSDVVSLHVPSSKSTSKLITEAKLRKMKKGAFLINNARGSDVDLEALAKVLQEGHLAGA 266
Query: 109 GLDVMIPEPL----PADHPLVQLDN 129
+DV EP PL L+N
Sbjct: 267 AIDVFPVEPASNGERFSTPLQGLEN 291
>1sc6_A PGDH, D-3-phosphoglycerate dehydrogenase; allosteric regulation
phosphoglycerate dehydrogenase PGDH, oxidoreductase;
HET: NAD; 2.09A {Escherichia coli} SCOP: c.2.1.4
c.23.12.1 d.58.18.1 PDB: 1psd_A* 1yba_A* 2p9c_A* 2p9e_A*
2pa3_A* 2p9g_A*
Length = 404
Score = 99 bits (250), Expect = 2e-25
Identities = 32/85 (37%), Positives = 46/85 (54%), Gaps = 4/85 (4%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
SD + + T+ ++G K+ SLMKP ++LIN SRG ++D AL + L K + GA
Sbjct: 196 NMSDVVSLHVPENPSTKNMMGAKEISLMKPGSLLINASRGTVVDIPALADALASKHLAGA 255
Query: 109 GLDVMIPEPL----PADHPLVQLDN 129
+DV EP P PL + DN
Sbjct: 256 AIDVFPTEPATNSDPFTSPLAEFDN 280
>3oet_A Erythronate-4-phosphate dehydrogenase; structural genomics, center
for structural genomics of infec diseases, csgid; HET:
NAD; 2.36A {Salmonella enterica subsp}
Length = 381
Score = 92.3 bits (230), Expect = 9e-23
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 49 AQSDFIFVTCALTKD----TEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKK 104
++D + L KD T L +KP AILIN RG ++D AL+ L +
Sbjct: 169 QEADVLTFHTPLYKDGPYKTLHLADETLIRRLKPGAILINACRGPVVDNAALLARLNAGQ 228
Query: 105 IGGAGLDVMIPEPLPADHPLVQLDN 129
LDV EP + L++ +
Sbjct: 229 PLSVVLDVWEGEP-DLNVALLEAVD 252
>2o4c_A Erythronate-4-phosphate dehydrogenase; erythronate-4-phsphate, NAD,
tartrate, phosph oxidoreductase; HET: NAD TLA; 2.30A
{Pseudomonas aeruginosa}
Length = 380
Score = 87.4 bits (217), Expect = 6e-21
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 6/85 (7%)
Query: 49 AQSDFIFVTCALTKD----TEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKK 104
A++D I + L +D T L+ + + ++P L+N SRG ++D +AL L
Sbjct: 166 AEADVISLHTPLNRDGEHPTRHLLDEPRLAALRPGTWLVNASRGAVVDNQALRRLLEGGA 225
Query: 105 IGGAGLDVMIPEPLPADHPLVQLDN 129
LDV E P P +
Sbjct: 226 DLEVALDVWEGE--PQADPELAARC 248
>3d4o_A Dipicolinate synthase subunit A; NP_243269.1, structural GEN joint
center for structural genomics, JCSG, protein structu
initiative, PSI-2; HET: MSE TAR; 2.10A {Bacillus
halodurans}
Length = 293
Score = 38.4 bits (89), Expect = 6e-04
Identities = 8/62 (12%), Positives = 15/62 (24%), Gaps = 5/62 (8%)
Query: 49 AQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGA 108
D T ++ + M +I+ + E K +
Sbjct: 212 RDVDVCINTI-----PALVVTANVLAEMPSHTFVIDLASKPGGTDFRYAEKRGIKALLVP 266
Query: 109 GL 110
GL
Sbjct: 267 GL 268
>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 = 36.4 bits (83), Expect = 0.004
Identities = 27/163 (16%), Positives = 51/163 (31%), Gaps = 33/163 (20%)
Query: 33 GGS-KQVYLILVIRTRSAQSDF---IF-VTCALTKDTEQLIGRKQ---FSLMKPTAILIN 84
GS K + V + Q IF + E ++ Q + + +
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 85 TSRGGLLDQEALVEFLRDKKIGGAGLDVMIPEPLPADHPLVQLDNCGNGLLDQEALVEF- 143
S L ++ LR ++ +P + L+ L N + + +A F
Sbjct: 219 HSSNIKLRIHSIQAELR---------RLLKSKPYE--NCLLVLLN----VQNAKAWNAFN 263
Query: 144 -----L---RDKKIGGAGLDVMIPEPMPADHPLVQLDNCEIRG 178
L R K++ L + DH + L E++
Sbjct: 264 LSCKILLTTRFKQVTDF-LSAATTTHISLDHHSMTLTPDEVKS 305
Score = 35.6 bits (81), Expect = 0.007
Identities = 20/147 (13%), Positives = 47/147 (31%), Gaps = 32/147 (21%)
Query: 37 QVYLIL-VIRTRSAQSDFIFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEA 95
+ + ++ + FV L + + L+ + +P+ +
Sbjct: 63 GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS-----------MMTRM 111
Query: 96 LVEFLRDKKIGGAGLDVMIPEPLPADHPLVQLDNCGNGLLDQEALVEFLRDKKI------ 149
+E RD+ V + P ++L ++AL+E LR K
Sbjct: 112 YIEQ-RDRLYNDN--QVFAKYNVSRLQPYLKL---------RQALLE-LRPAKNVLIDGV 158
Query: 150 GGAGLDVMIPEPMPADHPLVQLDNCEI 176
G+G + + + + + +I
Sbjct: 159 LGSGKTWVALDVC-LSYKVQCKMDFKI 184
>2b78_A Hypothetical protein SMU.776; structure genomics,
methyltransferase, caries, structural genomics, unknown
function; 2.00A {Streptococcus mutans} SCOP: b.122.1.9
c.66.1.51 PDB: 3ldf_A*
Length = 385
Score = 29.1 bits (66), Expect = 0.78
Identities = 5/51 (9%), Positives = 17/51 (33%), Gaps = 1/51 (1%)
Query: 73 FSLMKPTAILINTSRGGLLDQEALVEFLRDKKIGGAGLDVMIPEPLPADHP 123
++ ++I ++ + + + G + + LP+D
Sbjct: 318 LEILSENGLIIASTNAANMTVSQFKKQIEKG-FGKQKHTYLDLQQLPSDFA 367
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 27.6 bits (61), Expect = 2.1
Identities = 11/39 (28%), Positives = 18/39 (46%)
Query: 116 EPLPADHPLVQLDNCGNGLLDQEALVEFLRDKKIGGAGL 154
PLP PL+ +D +D A+V+++R G
Sbjct: 154 PPLPLGGPLLTVDTTFPEQIDMNAIVQWVRQHLQSGTAF 192
>3n58_A Adenosylhomocysteinase; ssgcid, hydrolase, structural genomics,
seattle structural G center for infectious disease; HET:
ADN NAD; 2.39A {Brucella melitensis biovar abortus}
Length = 464
Score = 27.7 bits (62), Expect = 2.2
Identities = 16/49 (32%), Positives = 19/49 (38%), Gaps = 6/49 (12%)
Query: 54 IFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRD 102
I VT KD +I MK I+ N G D E V LR+
Sbjct: 305 IVVTTTGNKD---VITIDHMRKMKDMCIVGNI---GHFDNEIQVAALRN 347
>3gvp_A Adenosylhomocysteinase 3; protein CO-factor complex, hydrolase,
NAD, one-carbon metabolism, phosphoprotein; HET: NAD;
2.25A {Homo sapiens} PDB: 3mtg_A*
Length = 435
Score = 27.6 bits (62), Expect = 2.4
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 54 IFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRD 102
I +TC K+ ++ R+ MK + I+ N G + E V LR
Sbjct: 278 IVITCTGNKN---VVTREHLDRMKNSCIVCNM---GHSNTEIDVASLRT 320
>3h9u_A Adenosylhomocysteinase; NAD CO-factor complex, structural genomics,
SGC stockholm, S genomics consortium, SGC, hydrolase,
NAD; HET: NAD ADN PG4; 1.90A {Trypanosoma brucei} PDB:
3g1u_A* 1b3r_A* 1k0u_A* 1ky4_A* 2h5l_A* 1xwf_A* 1d4f_A*
1ky5_A* 3nj4_A* 1li4_A* 1a7a_A*
Length = 436
Score = 27.6 bits (62), Expect = 2.6
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 54 IFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRD 102
IFVT D +I + F M+ AI+ N G D E V +L+
Sbjct: 269 IFVTTTGNDD---IITSEHFPRMRDDAIVCNI---GHFDTEIQVAWLKA 311
>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 = 26.8 bits (58), Expect = 3.1
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 136 DQEALVEFLRDKKIGGAGLDVMIPEPMPA 164
+++AL KK+ + L + + PA
Sbjct: 18 EKQAL------KKLQAS-LKLYADDSAPA 39
Score = 26.5 bits (57), Expect = 4.4
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 92 DQEALVEFLRDKKIGGAGLDVMIPEPLPA 120
+++AL KK+ + L + + PA
Sbjct: 18 EKQAL------KKLQAS-LKLYADDSAPA 39
>1e5x_A Threonine synthase; threonine biosynthesis, PLP enzyme,
S-adenosyl-methionine, allostery; 2.25A {Arabidopsis
thaliana} SCOP: c.79.1.1 PDB: 2c2b_A* 2c2g_A*
Length = 486
Score = 27.1 bits (60), Expect = 3.4
Identities = 8/58 (13%), Positives = 21/58 (36%)
Query: 108 AGLDVMIPEPLPADHPLVQLDNCGNGLLDQEALVEFLRDKKIGGAGLDVMIPEPMPAD 165
L + + + A + + +GL ++ +++ + A P + AD
Sbjct: 410 TALFKLRNQGVIAPTDRTVVVSTAHGLKFTQSKIDYHSNAIPDMACRFSNPPVDVKAD 467
>3ce6_A Adenosylhomocysteinase; protein-substrate complex, dimer of dimers,
NAD binding DOMA amino acid insertional region,
hydrolase; HET: ADN NAD; 1.60A {Mycobacterium
tuberculosis} PDB: 3dhy_A* 2zj0_A* 2ziz_A* 2zj1_A*
Length = 494
Score = 26.7 bits (59), Expect = 5.0
Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 6/48 (12%)
Query: 54 IFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLR 101
I VT KD +I + MK AIL N G D E + L
Sbjct: 332 IVVTATGNKD---IIMLEHIKAMKDHAILGNI---GHFDNEIDMAGLE 373
>3d64_A Adenosylhomocysteinase; structural genomics, ssgcid,
S-adenosyl-L-homocysteine hydro NAD, one-carbon
metabolism; HET: NAD; 2.30A {Burkholderia pseudomallei}
PDB: 3glq_A*
Length = 494
Score = 26.7 bits (59), Expect = 5.5
Identities = 14/49 (28%), Positives = 17/49 (34%), Gaps = 6/49 (12%)
Query: 54 IFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRD 102
IFVT +I M+ AI+ N G D E V R
Sbjct: 335 IFVTATGNYH---VINHDHMKAMRHNAIVCNI---GHFDSEIDVASTRQ 377
>1v8b_A Adenosylhomocysteinase; hydrolase; HET: NAD ADN; 2.40A {Plasmodium
falciparum} SCOP: c.2.1.4 c.23.12.3
Length = 479
Score = 26.3 bits (58), Expect = 6.2
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 6/51 (11%)
Query: 54 IFVTCALTKDTEQLIGRKQFSLMKPTAILINTSRGGLLDQEALVEFLRDKK 104
F+TC D +I + MK A++ N G D E V L + K
Sbjct: 315 FFITCTGNVD---VIKLEHLLKMKNNAVVGNI---GHFDDEIQVNELFNYK 359
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
0.322 0.142 0.420
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,830,640
Number of extensions: 166143
Number of successful extensions: 444
Number of sequences better than 10.0: 1
Number of HSP's gapped: 425
Number of HSP's successfully gapped: 81
Length of query: 180
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 92
Effective length of database: 4,244,745
Effective search space: 390516540
Effective search space used: 390516540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.5 bits)