RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 048011
(104 letters)
>3ay3_A NAD-dependent epimerase/dehydratase; glucuronic acid
dehydrogeanse, oxidoreductase; 2.10A {Chromohalobacter
salexigens}
Length = 267
Score = 27.3 bits (61), Expect = 0.94
Identities = 4/12 (33%), Positives = 7/12 (58%)
Query: 69 GGSGFIGSQVTE 80
G +G +GS +
Sbjct: 9 GAAGGVGSAIRP 20
>3rft_A Uronate dehydrogenase; apoenzyme, rossmann fold, NAD binding,
oxidoreductase; 1.90A {Agrobacterium tumefaciens} PDB:
3rfv_A* 3rfx_A*
Length = 267
Score = 26.9 bits (60), Expect = 1.1
Identities = 4/12 (33%), Positives = 7/12 (58%)
Query: 69 GGSGFIGSQVTE 80
G +G +G + E
Sbjct: 10 GAAGQLGRVMRE 21
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 27.1 bits (60), Expect = 1.1
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 75 GSQVTELSVIVGWVRET--MG 93
+Q+T I+GW R T M
Sbjct: 660 ANQLTVCGAIIGWTRGTGLMS 680
>3ruf_A WBGU; rossmann fold, UDP-hexose 4-epimerase, isomerase; HET: NAD
UDP; 2.00A {Plesiomonas shigelloides} PDB: 3ru9_A*
3rud_A* 3rue_A* 3rua_A* 3ruh_A* 3ruc_A* 3ru7_A* 3lu1_A*
Length = 351
Score = 26.4 bits (59), Expect = 2.0
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
G +GFIGS + E
Sbjct: 32 GVAGFIGSNLLE 43
>3ajr_A NDP-sugar epimerase; L-threonine dehydrogenase, L-3-
hydroxynorvaline, oxidoreductase; HET: NAD; 1.77A
{Thermoplasma volcanium} PDB: 3a9w_A* 3a4v_A* 3a1n_A*
Length = 317
Score = 26.1 bits (58), Expect = 2.1
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 69 GGSGFIGSQVTE 80
G SG IG+++
Sbjct: 6 GSSGQIGTELVP 17
>3m2p_A UDP-N-acetylglucosamine 4-epimerase; SGXNY, 11155J, isomerase,
structural genomics, PSI-2, protein structure
initiative; HET: UDP; 2.95A {Bacillus cereus}
Length = 311
Score = 26.0 bits (58), Expect = 2.1
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
GG+GF+G V E
Sbjct: 9 GGTGFLGQYVVE 20
>2q1s_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NADH complex, sugar binding protein; HET: NAI;
1.50A {Bordetella bronchiseptica} PDB: 2pzj_A* 2q1t_A*
2q1u_A*
Length = 377
Score = 26.1 bits (58), Expect = 2.2
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 69 GGSGFIGSQVTE 80
GG+GF+GS + +
Sbjct: 39 GGAGFVGSNLVK 50
>3eo5_A Resuscitation-promoting factor RPFB; cell adhesion, crystal; 1.83A
{Mycobacterium tuberculosis} PDB: 1xsf_A
Length = 171
Score = 26.2 bits (57), Expect = 2.2
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 15 WGAWRGCRNRIGL 27
WGAW C R G
Sbjct: 158 WGAWPVCAARAGA 170
>3vps_A TUNA, NAD-dependent epimerase/dehydratase; tunicamycins,
biosynthesis, EXO-glycal, rossman transferase; HET: UD1
NAD; 1.90A {Streptomyces chartreusis}
Length = 321
Score = 26.0 bits (58), Expect = 2.2
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 69 GGSGFIGSQVTE 80
GG+GFIG +
Sbjct: 14 GGAGFIGGHLAR 25
>1sb8_A WBPP; epimerase, 4-epimerase, UDP-galnac, UDP-GLCNAC, SDR, G SYK,
UDP, N-acetylglucosamine, N- acetylgalactosamine,
UDP-GLC, isomerase; HET: NAD UD2; 2.10A {Pseudomonas
aeruginosa} SCOP: c.2.1.2 PDB: 1sb9_A*
Length = 352
Score = 26.1 bits (58), Expect = 2.2
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
G +GFIGS + E
Sbjct: 34 GVAGFIGSNLLE 45
>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 = 26.4 bits (57), Expect = 2.2
Identities = 11/54 (20%), Positives = 16/54 (29%), Gaps = 10/54 (18%)
Query: 51 ILAIK--LNFDDPLEGTRLHGGSGFIGSQVTELSVIVGWVRETMGPLLVCFMPF 102
L ++ L P + + G G G L V + C M F
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGS-GKTWVALDV----CLSY---KVQCKMDF 182
>2q1w_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NAD complex, sugar binding protein; HET: NAD;
2.19A {Bordetella bronchiseptica}
Length = 333
Score = 26.1 bits (58), Expect = 2.3
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 69 GGSGFIGSQVTE 80
G G IGS + E
Sbjct: 28 GICGQIGSHIAE 39
>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein,
structural genomics, PSI-biology, protei structure
initiative; 3.10A {Escherichia coli}
Length = 666
Score = 26.0 bits (57), Expect = 2.9
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 19/77 (24%)
Query: 14 KWGAWRGCRNRIGLSVVEPWAAMVCLYFAPWVLIGLNILAIKLNFDDPLEGTRLHGGSGF 73
KW + G +++ GL+ + ++ L + D L+ H
Sbjct: 232 KWQSSGGEKSKFGLAATQ----VLQLV----------ETLREAGRLDSLQLLHFH----- 272
Query: 74 IGSQVTELSVIVGWVRE 90
+GSQ+ + I VRE
Sbjct: 273 LGSQMANIRDIATGVRE 289
>1u7g_A Probable ammonium transporter; right handed helical bundle,
transmembrane helices, ammonia membrane protein, RH
protein, transport protein; HET: MSE BOG; 1.40A
{Escherichia coli} SCOP: f.44.1.1 PDB: 1u77_A* 1u7c_A*
1xqf_A 1xqe_A 2ns1_A* 2nop_A 2nmr_A 3c1g_A 3c1i_A*
3c1h_A* 2now_A 2npe_A 2npc_A 2npd_A 2npg_A 2npj_A
2nuu_A* 3c1j_A 2npk_A
Length = 385
Score = 25.7 bits (57), Expect = 3.0
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 30 VEPWAAMVCLYFAPWV-LIGLNILAIKLNFDDPLEGTRLHGGSGFIGSQVT 79
+ A++ A L G+ +L L DDP + +HG G +G +T
Sbjct: 279 IGVGGALIIGVVAGLAGLWGVTMLKRLLRVDDPCDVFGVHGVCGIVGCIMT 329
>2yy7_A L-threonine dehydrogenase; thermolabIle, flavobacterium FRIG
KUC-1, oxidoreductase; HET: PE8 NAD MES; 2.06A
{Flavobacterium frigidimaris}
Length = 312
Score = 25.7 bits (57), Expect = 3.1
Identities = 5/12 (41%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
G G IG+++T+
Sbjct: 9 GACGQIGTELTQ 20
>3sxp_A ADP-L-glycero-D-mannoheptose-6-epimerase; rossman fold, NAD
binding, isomerase; HET: NAD; 2.55A {Helicobacter
pylori}
Length = 362
Score = 25.7 bits (57), Expect = 3.2
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
GG+GF+GS +
Sbjct: 17 GGAGFVGSNLAF 28
>2x6t_A ADP-L-glycero-D-manno-heptose-6-epimerase; isomerase,
carbohydrate metabolism, stress response; HET: NAP ADP
BMA; 2.36A {Escherichia coli} PDB: 2x86_A*
Length = 357
Score = 25.7 bits (57), Expect = 3.4
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 69 GGSGFIGSQVTE 80
GG+GFIGS + +
Sbjct: 53 GGAGFIGSNIVK 64
>3ehe_A UDP-glucose 4-epimerase (GALE-1); PSI-II, NYSGXRC, ST genomics,
protein structure initiative, NEW YORK SGX resear for
structural genomics; HET: NAD; 1.87A {Archaeoglobus
fulgidus}
Length = 313
Score = 25.6 bits (57), Expect = 3.4
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 5/22 (22%)
Query: 69 GGSGFIGSQVTEL-----SVIV 85
GG+GFIGS V + ++V
Sbjct: 8 GGAGFIGSHVVDKLSESNEIVV 29
>1eq2_A ADP-L-glycero-D-mannoheptose 6-epimerase; N-terminal domain
rossmann fold, C-terminal mixed alpha/beta domain; HET:
NAP ADQ; 2.00A {Escherichia coli} SCOP: c.2.1.2
Length = 310
Score = 25.2 bits (56), Expect = 4.2
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 69 GGSGFIGSQVTE 80
GG+GFIGS + +
Sbjct: 6 GGAGFIGSNIVK 17
>2c5a_A GDP-mannose-3', 5'-epimerase; short chain dehydratase/reductase,
GDP-gulose, GDP-galactose, keto intermediate, vitamin
C, SDR; HET: GDC NAD BTB; 1.4A {Arabidopsis thaliana}
SCOP: c.2.1.2 PDB: 2c59_A* 2c54_A* 2c5e_A*
Length = 379
Score = 25.0 bits (55), Expect = 5.2
Identities = 5/12 (41%), Positives = 6/12 (50%)
Query: 69 GGSGFIGSQVTE 80
G GFI S +
Sbjct: 36 GAGGFIASHIAR 47
>3oh8_A Nucleoside-diphosphate sugar epimerase (SULA FAMI; DUF1731_C,
northeast structural genomics consortium, NESG, C
PSI-biology; 2.00A {Corynebacterium glutamicum}
Length = 516
Score = 25.0 bits (55), Expect = 5.2
Identities = 4/13 (30%), Positives = 6/13 (46%)
Query: 69 GGSGFIGSQVTEL 81
G G +G +T
Sbjct: 154 GSRGLVGRALTAQ 166
>2a35_A Hypothetical protein PA4017; alpha-beta-alpha sandwich, structura
genomics, PSI, protein structure initiative; 1.50A
{Pseudomonas aeruginosa} SCOP: c.2.1.2
Length = 215
Score = 25.0 bits (55), Expect = 5.6
Identities = 3/10 (30%), Positives = 5/10 (50%)
Query: 69 GGSGFIGSQV 78
G +G G +
Sbjct: 12 GATGLTGEHL 21
>3slg_A PBGP3 protein; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, melioidosis,
glanders; 2.10A {Burkholderia pseudomallei}
Length = 372
Score = 25.1 bits (55), Expect = 5.7
Identities = 5/12 (41%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
G +GFIG +++
Sbjct: 31 GVNGFIGHHLSK 42
>3st7_A Capsular polysaccharide synthesis enzyme CAP5F; rossmann fold,
cupid domain, short-chain dehydrogenase/reduc NADPH;
2.45A {Staphylococcus aureus} PDB: 2zkl_A 3vhr_A
Length = 369
Score = 24.9 bits (54), Expect = 5.8
Identities = 4/8 (50%), Positives = 5/8 (62%)
Query: 69 GGSGFIGS 76
G GF+G
Sbjct: 7 GAKGFVGK 14
>3ko8_A NAD-dependent epimerase/dehydratase; isomerase, UDP-galactose
4-epimerase; HET: NAD; 1.80A {Pyrobaculum calidifontis}
PDB: 3icp_A* 3aw9_A*
Length = 312
Score = 24.8 bits (55), Expect = 6.4
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 69 GGSGFIGSQVTE 80
GG+GFIGS + +
Sbjct: 7 GGAGFIGSHLVD 18
>1kew_A RMLB;, DTDP-D-glucose 4,6-dehydratase; rossmann fold, lyase; HET:
TYD NAD; 1.80A {Salmonella enterica subsp} SCOP:
c.2.1.2 PDB: 1g1a_A* 1keu_A* 1bxk_A*
Length = 361
Score = 24.8 bits (55), Expect = 6.7
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 69 GGSGFIGSQV 78
GG+GFIGS V
Sbjct: 7 GGAGFIGSAV 16
>4egb_A DTDP-glucose 4,6-dehydratase; rhamnose pathway, center for
structural genomics of infectio diseases, csgid, niaid;
HET: NAD SUC; 3.00A {Bacillus anthracis}
Length = 346
Score = 24.8 bits (55), Expect = 6.9
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 69 GGSGFIGSQV 78
GG+GFIGS
Sbjct: 31 GGAGFIGSNF 40
>1orr_A CDP-tyvelose-2-epimerase; rossmann fold, short-chain
dehydrogenase/reductase, isomeras; HET: NAD CDP; 1.50A
{Salmonella typhi} SCOP: c.2.1.2
Length = 347
Score = 24.9 bits (55), Expect = 7.0
Identities = 6/8 (75%), Positives = 7/8 (87%)
Query: 69 GGSGFIGS 76
GG GF+GS
Sbjct: 8 GGCGFLGS 15
>3hd6_A Ammonium transporter RH type C; ammonia, channel, rhesus,
glycoprotein, membran structural genomics, PSI-2,
protein structure initiative; HET: BOG; 2.10A {Homo
sapiens}
Length = 490
Score = 24.8 bits (54), Expect = 7.2
Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 29 VVEPWAAMVCLYFAPWVLIG-----LNILAIKLNFDDPLEGTRLHGGSGFIG 75
++ P+ A++ + + L +L+ D LHG G IG
Sbjct: 305 MLMPYGALIIGFVCGIISTLGFVYLTPFLESRLHIQDTCGINNLHGIPGIIG 356
>2bll_A Protein YFBG; decarboxylase, short chain dehydrogenase, L-ARA4N
biosynthes methyltransferase, transferase; 2.3A
{Escherichia coli} SCOP: c.2.1.2 PDB: 1u9j_A 1z73_A
1z75_A 1z7b_A 1z74_A
Length = 345
Score = 24.7 bits (54), Expect = 7.4
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 69 GGSGFIGSQVTE 80
G +GFIG+ +TE
Sbjct: 7 GVNGFIGNHLTE 18
>2hrz_A AGR_C_4963P, nucleoside-diphosphate-sugar epimerase;
agrobacterium tumefa structural genomics, PSI-2,
protein structure initiative; 1.85A {Agrobacterium
tumefaciens}
Length = 342
Score = 24.7 bits (54), Expect = 7.4
Identities = 4/12 (33%), Positives = 9/12 (75%)
Query: 69 GGSGFIGSQVTE 80
G +G +G ++T+
Sbjct: 21 GAAGMVGRKLTQ 32
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_M
Length = 155
Score = 24.2 bits (53), Expect = 7.6
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 11 RCLKWGAWRGCRNRIGLSV 29
R K + RG R+ GL V
Sbjct: 115 RLKKIKSHRGLRHFWGLKV 133
>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 152
Score = 24.2 bits (53), Expect = 8.1
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 11 RCLKWGAWRGCRNRIGLSV 29
R K RG R+ G+ V
Sbjct: 113 RLKKIRNHRGLRHYWGVRV 131
>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A;
translation, ribosome, ribosomal, ribosomal R ribosomal
protein, eukaryotic ribosome, RNA-protein C; 3.00A
{Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L
3u5g_S 1s1h_M 3jyv_M* 2zkq_m
Length = 146
Score = 24.2 bits (53), Expect = 8.3
Identities = 9/19 (47%), Positives = 10/19 (52%)
Query: 11 RCLKWGAWRGCRNRIGLSV 29
R K A RG R+ GL V
Sbjct: 115 RLKKIRAHRGIRHFWGLRV 133
>2p5y_A UDP-glucose 4-epimerase; TTHA0591, structural genomics, PSI; HET:
NAD; 1.92A {Thermus thermophilus HB8} PDB: 2p5u_A*
Length = 311
Score = 24.4 bits (54), Expect = 8.5
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 69 GGSGFIGSQVTE 80
GG+GFIGS + E
Sbjct: 7 GGAGFIGSHIVE 18
>2hun_A 336AA long hypothetical DTDP-glucose 4,6-dehydrat; rossmann fold,
structural genomics, NPPSFA; HET: NAD; 2.07A
{Pyrococcus horikoshii}
Length = 336
Score = 24.4 bits (54), Expect = 8.7
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 69 GGSGFIGSQV 78
GG GFIGS
Sbjct: 10 GGMGFIGSNF 19
>2bka_A CC3, TAT-interacting protein TIP30; NADPH, PEG600, transcription;
HET: NDP PE8; 1.7A {Homo sapiens} SCOP: c.2.1.2 PDB:
2fmu_A
Length = 242
Score = 24.4 bits (53), Expect = 8.9
Identities = 4/10 (40%), Positives = 5/10 (50%)
Query: 69 GGSGFIGSQV 78
G SG G +
Sbjct: 25 GASGETGRVL 34
>1r6d_A TDP-glucose-4,6-dehydratase; rossmann fold, short-chain
dehydrogenase/reductase, lyase; HET: NAD DAU; 1.35A
{Streptomyces venezuelae} SCOP: c.2.1.2 PDB: 1r66_A*
Length = 337
Score = 24.4 bits (54), Expect = 9.2
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 69 GGSGFIGSQV 78
GG+GFIGS
Sbjct: 7 GGAGFIGSHF 16
>1oc2_A DTDP-glucose 4,6-dehydratase; lyase, NADH, rhamnose; HET: TDX
NAD; 1.5A {Streptococcus suis} SCOP: c.2.1.2 PDB:
1ker_A* 1ket_A* 1kep_A*
Length = 348
Score = 24.4 bits (54), Expect = 9.4
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 69 GGSGFIGSQV 78
GG+GFIGS
Sbjct: 11 GGAGFIGSNF 20
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
0.329 0.146 0.502
Gapped
Lambda K H
0.267 0.0825 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,639,576
Number of extensions: 83962
Number of successful extensions: 249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 249
Number of HSP's successfully gapped: 53
Length of query: 104
Length of database: 6,701,793
Length adjustment: 69
Effective length of query: 35
Effective length of database: 4,775,244
Effective search space: 167133540
Effective search space used: 167133540
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)