RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6888
(69 letters)
>3e5r_O PP38, glyceraldehyde-3-phosphate dehydrogenase, cytosolic; GAPDH,
RICE, oxidoreductase, cytoplasm, glycolysis, NAD; HET:
NAD; 2.30A {Oryza sativa subsp} PDB: 3e6a_O
Length = 337
Score = 73.0 bits (180), Expect = 2e-17
Identities = 26/32 (81%), Positives = 28/32 (87%)
Query: 33 AHLAGGAKKVIISAPSADAPMFVCGVNLDKFE 64
AHL GGAKKV+ISAPS DAPMFVCGVN DK+
Sbjct: 112 AHLKGGAKKVVISAPSKDAPMFVCGVNEDKYT 143
>3h9e_O Glyceraldehyde-3-phosphate dehydrogenase, testis-; oxidoreductase,
structural genomics, structural genomics CON SGC,
glycolysis, NAD; HET: NAD; 1.72A {Homo sapiens} PDB:
3pfw_O* 2vyn_D* 2vyv_D*
Length = 346
Score = 72.6 bits (179), Expect = 2e-17
Identities = 18/32 (56%), Positives = 25/32 (78%)
Query: 33 AHLAGGAKKVIISAPSADAPMFVCGVNLDKFE 64
H++ GA++V+ISAPS DAPMFV GVN + +
Sbjct: 113 DHISAGAQRVVISAPSPDAPMFVMGVNENDYN 144
>3pym_A GAPDH 3, glyceraldehyde-3-phosphate dehydrogenase 3; NAD(P)-binding
rossmann-fold domain, alpha and beta protein,
oxidoreductase; HET: NAD; 2.00A {Saccharomyces
cerevisiae} PDB: 2i5p_O*
Length = 332
Score = 72.6 bits (179), Expect = 2e-17
Identities = 19/32 (59%), Positives = 25/32 (78%)
Query: 33 AHLAGGAKKVIISAPSADAPMFVCGVNLDKFE 64
H+ GAKKV+I+APS+ APMFV GVN +K+
Sbjct: 108 KHIDAGAKKVVITAPSSTAPMFVMGVNEEKYT 139
>1u8f_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase, liver; rossmann
fold, oxidoreductase, mammalian GAPDH; HET: NAD; 1.75A
{Homo sapiens} SCOP: c.2.1.3 d.81.1.1 PDB: 1znq_O*
1j0x_O* 3gpd_R* 1dss_G* 1crw_G* 1szj_G* 1ihx_A* 1ihy_A*
1gpd_G* 4gpd_1
Length = 335
Score = 71.9 bits (177), Expect = 4e-17
Identities = 25/32 (78%), Positives = 29/32 (90%)
Query: 33 AHLAGGAKKVIISAPSADAPMFVCGVNLDKFE 64
AHL GGAK+VIISAPSADAPMFV GVN +K++
Sbjct: 110 AHLQGGAKRVIISAPSADAPMFVMGVNHEKYD 141
>3cps_A Glyceraldehyde 3-phosphate dehydrogenase; GAPDH, glycolysis,
malaria, structural genomics; HET: NAD; 1.90A
{Cryptosporidium parvum iowa II} PDB: 1vsv_A* 1vsu_A*
3chz_A 3cie_A* 3cif_A* 3sth_A*
Length = 354
Score = 68.7 bits (169), Expect = 6e-16
Identities = 20/33 (60%), Positives = 24/33 (72%), Gaps = 1/33 (3%)
Query: 33 AHLAGGAKKVIISAPSAD-APMFVCGVNLDKFE 64
HL GGAKKVIISAP D PM+V GVN +++
Sbjct: 124 LHLKGGAKKVIISAPPKDNVPMYVMGVNNTEYD 156
>1gad_O D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase
(aldehyde(D)-NAD+(A)); HET: NAD; 1.80A {Escherichia
coli} SCOP: c.2.1.3 d.81.1.1 PDB: 1dc4_A* 1dc3_A 1dc6_A*
1dc5_A* 1s7c_A* 1gae_O* 2vyn_A* 2vyv_A*
Length = 330
Score = 68.7 bits (169), Expect = 6e-16
Identities = 17/32 (53%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSAD-APMFVCGVNLDKF 63
H+ GAKKV+++ PS D PMFV G N DK+
Sbjct: 107 KHITAGAKKVVMTGPSKDNTPMFVKGANFDKY 138
>2b4r_O Glyceraldehyde-3-phosphate dehydrogenase; SGPP, structural
genomics, PSI, structural genomi pathogenic protozoa
consortium; HET: NAD AES; 2.25A {Plasmodium falciparum}
SCOP: c.2.1.3 d.81.1.1 PDB: 2b4t_O* 1ywg_O*
Length = 345
Score = 68.0 bits (167), Expect = 1e-15
Identities = 17/33 (51%), Positives = 25/33 (75%), Gaps = 1/33 (3%)
Query: 33 AHLAGGAKKVIISAPSAD-APMFVCGVNLDKFE 64
+HL GGAKKVI+SAP D P++V G+N +++
Sbjct: 118 SHLKGGAKKVIMSAPPKDDTPIYVMGINHHQYD 150
>3ids_C GAPDH, glyceraldehyde-3-phosphate dehydrogenase, glycoso;
irreversible inhibitor, protein-ligand complex,X-RAY,
glycol NAD, oxireductase; HET: NAD; 1.80A {Trypanosoma
cruzi} PDB: 1ml3_A* 1qxs_C* 3dmt_A* 1k3t_A* 2x0n_A*
1gga_O* 1i32_A* 1a7k_A* 1i33_A* 1gyp_A* 1gyq_A*
Length = 359
Score = 67.6 bits (166), Expect = 2e-15
Identities = 17/33 (51%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 33 AHLAGGAKKVIISAP-SADAPMFVCGVNLDKFE 64
HL GGA+KV+ISAP S A V GVN ++
Sbjct: 122 GHLRGGARKVVISAPASGGAKTLVMGVNHHEYN 154
>3lvf_P GAPDH 1, glyceraldehyde-3-phosphate dehydrogenase 1;
oxidoreductase, glycolysis, rossmann fold; HET: NAD;
1.70A {Staphylococcus aureus} PDB: 3l6o_Q 3k73_Q 3lc2_O*
3lc7_O 3lc1_P* 3hq4_R* 3kv3_O* 3l4s_Q* 3k9q_Q* 3ksd_Q*
3ksz_O*
Length = 338
Score = 59.5 bits (145), Expect = 1e-12
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPS-ADAPMFVCGVNLDKF 63
AH+ GAKKV+ISAP+ D V N +
Sbjct: 110 AHIEAGAKKVLISAPATGDLKTIVFNTNHQEL 141
>3cmc_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase;
microspectrophotometry, reaction intermediate,
dehydrogenase phosphate binding site; HET: G3H NAD;
1.77A {Bacillus stearothermophilus} SCOP: c.2.1.3
d.81.1.1 PDB: 2gd1_O 1gd1_O* 1npt_O* 1nqa_O* 1nqo_O*
1nq5_O* 2dbv_O* 1dbv_O* 3dbv_O* 4dbv_O*
Length = 334
Score = 59.4 bits (145), Expect = 1e-12
Identities = 18/32 (56%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKF 63
HL GAKKVIISAP+ + V GVN DK+
Sbjct: 107 KHLEAGAKKVIISAPAKNEDITIVMGVNQDKY 138
>2ep7_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase,
structural genomics, NPPSFA; HET: NAD; 2.30A {Aquifex
aeolicus}
Length = 342
Score = 57.1 bits (139), Expect = 9e-12
Identities = 19/36 (52%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKFEWKE 67
HL GGAKKVII+AP+ + V GVN +K+ KE
Sbjct: 108 KHLQGGAKKVIITAPAKNPDITVVLGVNEEKYNPKE 143
>2d2i_A Glyceraldehyde 3-phosphate dehydrogenase; rossmann fold,
protein-NADP+ complex, oxidoreductase; HET: NAP; 2.50A
{Synechococcus SP} PDB: 2duu_A
Length = 380
Score = 56.0 bits (136), Expect = 2e-11
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 33 AHLAGGAKKVIISAPS--ADAPMFVCGVNLDKF 63
H+ GAKKV+I+AP +V GVN ++
Sbjct: 110 KHIQAGAKKVLITAPGKAEGVGTYVIGVNDSEY 142
>3b1j_A Glyceraldehyde 3-phosphate dehydrogenase (NADP+); alpha/beta fold,
oxidoreductase-protein binding complex; HET: NAD; 2.20A
{Synechococcus elongatus} PDB: 3b1k_A* 3b20_A*
Length = 339
Score = 55.2 bits (134), Expect = 3e-11
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 33 AHLAGGAKKVIISAPS--ADAPMFVCGVNLDKF 63
H+ GAKKV+I+AP +V GVN ++
Sbjct: 110 KHIQAGAKKVLITAPGKGEGVGTYVIGVNDSEY 142
>2g82_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase; G3PDH, glycolysis,
oxidoreductase, NAD, rossmann fold; HET: NAD PGE; 1.65A
{Thermus aquaticus} SCOP: c.2.1.3 d.81.1.1 PDB: 1cer_O*
1vc2_A*
Length = 331
Score = 55.2 bits (134), Expect = 3e-11
Identities = 17/32 (53%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKF 63
AHL GGAKKVII+AP+ V GVN + +
Sbjct: 105 AHLEGGAKKVIITAPAKGEDITIVMGVNHEAY 136
>4dib_A GAPDH, glyceraldehyde 3-phosphate dehydrogenase; niaid, structural
genomics, national institute of allergy AN infectious
diseases; 2.55A {Bacillus anthracis}
Length = 345
Score = 55.2 bits (134), Expect = 4e-11
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKF 63
H+ GAKKVI++AP + V GVN D+
Sbjct: 110 LHVEAGAKKVILTAPGKNEDVTIVVGVNEDQL 141
>1rm4_O Glyceraldehyde 3-phosphate dehydrogenase A; rossmann fold,
GAPDH-NADP complex, oxidoreductase; HET: NDP; 2.00A
{Spinacia oleracea} SCOP: c.2.1.3 d.81.1.1 PDB: 1nbo_O*
2hki_A 2pkq_P* 1rm5_O* 1rm3_O* 2pkr_O* 1jn0_O* 3qv1_A*
3k2b_A* 3rvd_A* 2pkq_O*
Length = 337
Score = 55.2 bits (134), Expect = 4e-11
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKF 63
HL GAKKV+I+AP P +V GVN + +
Sbjct: 110 KHLQAGAKKVLITAPGKGDIPTYVVGVNEEGY 141
>1hdg_O Holo-D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase
(aldehy(D)-NAD(A)); HET: NAD; 2.50A {Thermotoga
maritima} SCOP: c.2.1.3 d.81.1.1
Length = 332
Score = 52.9 bits (128), Expect = 2e-10
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKF 63
HL GAKKVII+AP+ V G N D+
Sbjct: 108 LHLQAGAKKVIITAPAKGEDITVVIGCNEDQL 139
>3hja_A GAPDH, glyceraldehyde-3-phosphate dehydrogenase; niaid, ssgcid,
decode, UW, SBRI, LYME disease, non-hodgkin lymphomas,
cytoplasm; HET: NAD; 2.20A {Borrelia burgdorferi B31}
Length = 356
Score = 52.2 bits (126), Expect = 4e-10
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 34 HLA-GGAKKVIISAPSADA-PMFVCGVNLDKF 63
H+ GAKKVI++ P+ D V GVN
Sbjct: 131 HVNHAGAKKVILTVPAKDEIKTIVLGVNDHDI 162
>3doc_A Glyceraldehyde 3-phosphate dehydrogenase; ssgcid, structural
genomics, PSI, protein structure initiative; HET: NAD;
2.40A {Brucella melitensis biovar ABORTUS2308} PDB:
3l0d_A*
Length = 335
Score = 49.8 bits (120), Expect = 4e-09
Identities = 17/32 (53%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 33 AHLAGGAKKVIISAPSADA-PMFVCGVNLDKF 63
HL GAK+VI+SAP+ A V GVN DK
Sbjct: 110 LHLEAGAKRVIVSAPADGADLTVVYGVNNDKL 141
>2x5j_O E4PDH, D-erythrose-4-phosphate dehydrogenase; oxidoreductase,
hydride transfer, aldehyde dehydrogenase, PY
biosynthesis; 2.30A {Escherichia coli} PDB: 2xf8_A*
2x5k_O*
Length = 339
Score = 46.7 bits (112), Expect = 4e-08
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 33 AHLAGGAKKVIISAPSADA--PMFVCGVNLDKF 63
AH+A GAKKV+ S P ++ V GVN D+
Sbjct: 111 AHIAAGAKKVLFSHPGSNDLDATVVYGVNQDQL 143
>1obf_O Glyceraldehyde 3-phosphate dehydrogenase; glycolytic pathway,
oxidoreductase, free-NAD GAPDH; HET: PG4; 1.7A
{Achromobacter xylosoxidans} SCOP: c.2.1.3 d.81.1.1 PDB:
3gnq_A*
Length = 335
Score = 46.7 bits (112), Expect = 4e-08
Identities = 17/33 (51%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 33 AHLAGGAKKVIISAPSADA--PMFVCGVNLDKF 63
AH+ GGAKKVIISAP V GVN
Sbjct: 110 AHIKGGAKKVIISAPGGADVDATVVYGVNHGTL 142
>1cf2_P Protein (glyceraldehyde-3-phosphate dehydrogenase); oxydoreductase,
oxidoreductase; HET: NAP; 2.10A {Methanothermus
fervidus} SCOP: c.2.1.3 d.81.1.1
Length = 337
Score = 45.1 bits (107), Expect = 2e-07
Identities = 4/32 (12%), Positives = 9/32 (28%), Gaps = 2/32 (6%)
Query: 33 AHLAGGAKKVIISAPSADAP--MFVCGVNLDK 62
+ G K + + F N ++
Sbjct: 97 MYKEKGIKAIFQGGEKHEDIGLSFNSLSNYEE 128
>2czc_A Glyceraldehyde-3-phosphate dehydrogenase; glycolysis, NAD,
oxidoreductase, structural genomics; HET: NAD; 2.00A
{Pyrococcus horikoshii} SCOP: c.2.1.3 d.81.1.1
Length = 334
Score = 43.2 bits (102), Expect = 6e-07
Identities = 8/40 (20%), Positives = 11/40 (27%), Gaps = 2/40 (5%)
Query: 32 TAHLAGGAKKVIISAPSADAP--MFVCGVNLDKFEWKEVF 69
+ G K + AD FV N + K
Sbjct: 97 PLYEKAGVKAIFQGGEKADVAEVSFVAQANYEAALGKNYV 136
>2yyy_A Glyceraldehyde-3-phosphate dehydrogenase; glyceraldehyde
3-phosphate binding, alpha and beta proteins (A/B)
class, MJ1146; HET: NAP; 1.85A {Methanocaldococcus
jannaschii}
Length = 343
Score = 41.3 bits (97), Expect = 3e-06
Identities = 3/35 (8%), Positives = 7/35 (20%), Gaps = 3/35 (8%)
Query: 33 AHLAGGAKKVIISAPSADA---PMFVCGVNLDKFE 64
K I+ F + ++
Sbjct: 100 NIYKPHKVKAILQGGEKAKDVEDNFNALWSYNRCY 134
>1b7g_O Protein (glyceraldehyde 3-phosphate dehydrogenase; archaea,
hyperthermophIle, GAPDH, hyperthermophilic dehydrog
oxidoreductase; 2.05A {Sulfolobus solfataricus} SCOP:
c.2.1.3 d.81.1.1
Length = 340
Score = 28.2 bits (62), Expect = 0.15
Identities = 2/27 (7%), Positives = 5/27 (18%)
Query: 33 AHLAGGAKKVIISAPSADAPMFVCGVN 59
+L + A+
Sbjct: 96 IYLQLQRNAIFQGGEKAEVADISFSAL 122
>3keb_A Probable thiol peroxidase; structural genomics, APC40679, PSI-2,
Pro structure initiative; HET: MSE; 1.80A
{Chromobacterium violaceum}
Length = 224
Score = 25.2 bits (55), Expect = 1.9
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 4/47 (8%)
Query: 23 FLSVNNILQTAHLAG--GAKKVIISAPSADAPMFVCGVNLDKFEWKE 67
F+ V++ A L K+I++ S D L E +
Sbjct: 31 FMLVDDQKHDAALESFSHTPKLIVTLLSVDED--EHAGLLLLRETRR 75
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
0.328 0.141 0.415
Gapped
Lambda K H
0.267 0.0830 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 986,506
Number of extensions: 43018
Number of successful extensions: 158
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 30
Length of query: 69
Length of database: 6,701,793
Length adjustment: 39
Effective length of query: 30
Effective length of database: 5,612,874
Effective search space: 168386220
Effective search space used: 168386220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.2 bits)