RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17241
(93 letters)
>4dqv_A Probable peptide synthetase NRP (peptide synthase; GXXGXXG motif,
rossmann fold, short chain dehydrogenase/REDU family,
reductase; 2.30A {Mycobacterium tuberculosis}
Length = 478
Score = 80.7 bits (199), Expect = 1e-19
Identities = 18/77 (23%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 11 FDKLKQEQPGFLSKVTIICGDCSKKKLGISDENLKLLQTNVNVIFHTAAIVNFEASLAQA 70
+ L+ + ++ ++ GD S+ LG+ + L V++I +AA+VN +
Sbjct: 128 PELLRHFKELAADRLEVVAGDKSEPDLGLDQPMWRRLAETVDLIVDSAAMVNAF-PYHEL 186
Query: 71 VLSNVCATKEFLELATS 87
NV T E + +A +
Sbjct: 187 FGPNVAGTAELIRIALT 203
>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 = 34.3 bits (79), Expect = 0.002
Identities = 21/83 (25%), Positives = 32/83 (38%), Gaps = 16/83 (19%)
Query: 10 IFDKLKQEQPGFLS-KVTIICGDCSKKKLGISDENL--KLLQTNVNVIFHTAAIVNFEAS 66
+ D + E P S V D +S KL++ +VIFH AAIV+ EA
Sbjct: 50 LIDVFQPEAPAGFSGAVDARAAD-------LSAPGEAEKLVEARPDVIFHLAAIVSGEAE 102
Query: 67 ----LAQAVLSNVCATKEFLELA 85
+ N+ T+ +
Sbjct: 103 LDFDKGYRI--NLDGTRYLFDAI 123
>2x4g_A Nucleoside-diphosphate-sugar epimerase; isomerase; 2.65A
{Pseudomonas aeruginosa}
Length = 342
Score = 31.5 bits (72), Expect = 0.020
Identities = 6/68 (8%), Positives = 17/68 (25%), Gaps = 9/68 (13%)
Query: 24 KVTIICGDCSKKKLGISD-ENLKLLQTNVNVIFHTAAIVNFEASLAQAVLS-NVCATKEF 81
+ + + D L+ ++ + +A Q ++ + T F
Sbjct: 57 EPECRVAE-------MLDHAGLERALRGLDGVIFSAGYYPSRPRRWQEEVASALGQTNPF 109
Query: 82 LELATSFG 89
Sbjct: 110 YAACLQAR 117
>3nzo_A UDP-N-acetylglucosamine 4,6-dehydratase; structural genomics,
PSI-2, protein structure initiative, MI center for
structural genomics, MCSG, NAD; HET: MSE NAD; 2.10A
{Vibrio fischeri} PDB: 3pvz_A*
Length = 399
Score = 31.2 bits (71), Expect = 0.028
Identities = 9/83 (10%), Positives = 23/83 (27%), Gaps = 13/83 (15%)
Query: 14 LKQEQPGFLSKVTIICGDCSKKKLGISDENLKLL--QTNVNVIFHTAA-----IVNFEAS 66
++ D S E + + + + +A +
Sbjct: 80 IRSSFGYINGDFQTFALDIG------SIEYDAFIKADGQYDYVLNLSALKHVRSEKDPFT 133
Query: 67 LAQAVLSNVCATKEFLELATSFG 89
L + + NV T + ++ + G
Sbjct: 134 LMRMIDVNVFNTDKTIQQSIDAG 156
>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 = 31.0 bits (71), Expect = 0.029
Identities = 9/61 (14%), Positives = 18/61 (29%), Gaps = 8/61 (13%)
Query: 25 VTIICGDCSKKKLGISDENLKLLQTNVNVIFHTAAIVNFEASLAQAVLSNVCATKEFLEL 84
D + E+L +V+ + H AA + + N T+ +
Sbjct: 44 YEYRVSD-------YTLEDLINQLNDVDAVVHLAATRGSQGKI-SEFHDNEILTQNLYDA 95
Query: 85 A 85
Sbjct: 96 C 96
>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 = 29.5 bits (66), Expect = 0.12
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 39 ISDENLKLLQTNVNVIFHTAAIVNFEASLAQAVLSNVCATKEFLELA 85
+E L+ + I H A + E + L NV L++
Sbjct: 35 TKEEELESALLKADFIVHLAGVNRPEHD-KEFSLGNVSYLDHVLDIL 80
>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 = 29.0 bits (66), Expect = 0.15
Identities = 12/69 (17%), Positives = 22/69 (31%), Gaps = 10/69 (14%)
Query: 24 KVTIICGDCSKKKLGISDENLKLLQTNVNVIFHTAAIVNFEASLAQAVLS---NVCATKE 80
++ D ++ +++K ++H AA + NV AT
Sbjct: 44 AARLVKAD-------LAADDIKDYLKGAEEVWHIAANPDVRIGAENPDEIYRNNVLATYR 96
Query: 81 FLELATSFG 89
LE G
Sbjct: 97 LLEAMRKAG 105
>3sxp_A ADP-L-glycero-D-mannoheptose-6-epimerase; rossman fold, NAD
binding, isomerase; HET: NAD; 2.55A {Helicobacter
pylori}
Length = 362
Score = 28.8 bits (65), Expect = 0.22
Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 14/71 (19%)
Query: 24 KVTIICGDCSKKKLGISDENL--KLLQTNVNVIFHTAAIVNFEASLAQAVLS---NVCAT 78
K +I D I++ +L + + + +FH AA+ + ++ L N A
Sbjct: 69 KGEVIAAD-------INNPLDLRRLEKLHFDYLFHQAAVSD--TTMLNQELVMKTNYQAF 119
Query: 79 KEFLELATSFG 89
LE+A S
Sbjct: 120 LNLLEIARSKK 130
>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 = 28.4 bits (64), Expect = 0.23
Identities = 9/41 (21%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 50 NVNVIFHTAAIVNFEASLAQAVLS-NVCATKEFLELATSFG 89
+V IFH A + + ++ N +KE L
Sbjct: 115 DVEAIFHEGACSSTTEWDGKYMMDNNYQYSKELLHYCLERE 155
>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 = 28.4 bits (64), Expect = 0.25
Identities = 13/67 (19%), Positives = 24/67 (35%), Gaps = 11/67 (16%)
Query: 23 SKVTIICGDCSKKKLGISD-ENLKLLQTNVNVIFHTAAIVNFEASLAQAVL---SNVCAT 78
S I GD I + ++ V+ + H AA+ + S+ + +N+
Sbjct: 81 SNFKFIQGD-------IRNLDDCNNACAGVDYVLHQAALGSVPRSINDPITSNATNIDGF 133
Query: 79 KEFLELA 85
L A
Sbjct: 134 LNMLIAA 140
>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 = 28.3 bits (64), Expect = 0.29
Identities = 9/41 (21%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 50 NVNVIFHTAAIVNFEASLAQAVLS-NVCATKEFLELATSFG 89
+V IFH A + + ++ N +KE L
Sbjct: 68 DVEAIFHEGACSSTTEWDGKYMMDNNYQYSKELLHYCLERE 108
>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 = 27.7 bits (62), Expect = 0.52
Identities = 13/66 (19%), Positives = 21/66 (31%), Gaps = 11/66 (16%)
Query: 24 KVTIICGDCSKKKLGISD-ENLKLLQTNVNVIFHTAAIVNFEASLAQAVLS---NVCATK 79
V I+D L LQ + +FH A ++S+ + N T
Sbjct: 79 AVRFSETS-------ITDDALLASLQDEYDYVFHLATYHGNQSSIHDPLADHENNTLTTL 131
Query: 80 EFLELA 85
+ E
Sbjct: 132 KLYERL 137
>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 = 26.9 bits (60), Expect = 0.79
Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 16/74 (21%)
Query: 19 PGFLSKVTIICGDCSKKKLGISDENL--KLLQTN-VNVIFHTAAIVNFEAS----LAQAV 71
+ I D +S+ + + ++ ++ IFH A I++ + LA V
Sbjct: 35 QRDTGGIKFITLD-------VSNRDEIDRAVEKYSIDAIFHLAGILSAKGEKDPALAYKV 87
Query: 72 LSNVCATKEFLELA 85
N+ T LE A
Sbjct: 88 --NMNGTYNILEAA 99
>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 = 26.9 bits (59), Expect = 0.90
Identities = 14/71 (19%), Positives = 24/71 (33%), Gaps = 14/71 (19%)
Query: 23 SKVTIICGDCSKKKLGISDENLKLL------QTNVNVIFHTAAIVNFEASLAQAVLSNVC 76
S +I + + S E L+ + +T V IVN+ Q V +
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV-----EIVNYNVENQQYVAA--- 1856
Query: 77 ATKEFLELATS 87
L+ T+
Sbjct: 1857 GDLRALDTVTN 1867
>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 = 25.7 bits (57), Expect = 2.3
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 11/67 (16%)
Query: 23 SKVTIICGDCSKKKLGISD-ENLKLLQTNVNVIFHTAAIVNFEASLAQAVL---SNVCAT 78
S+ I GD I D + + V+ + H AA+ + S+ + +N+
Sbjct: 79 SRFCFIEGD-------IRDLTTCEQVMKGVDHVLHQAALGSVPRSIVDPITTNATNITGF 131
Query: 79 KEFLELA 85
L A
Sbjct: 132 LNILHAA 138
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 25.4 bits (55), Expect = 3.4
Identities = 2/26 (7%), Positives = 8/26 (30%), Gaps = 9/26 (34%)
Query: 7 ANMIFDKLKQEQPGFLSKVTIICGDC 32
++ + + ++C C
Sbjct: 32 PKIVERFSEGD---------VVCALC 48
>3zuk_A Endopeptidase, peptidase family M13; hydrolase-inhibitor complex,
pathogenicity, phagosome matura; HET: RDF 211 PGE PG4;
2.60A {Mycobacterium tuberculosis}
Length = 699
Score = 25.1 bits (55), Expect = 5.0
Identities = 7/18 (38%), Positives = 7/18 (38%)
Query: 58 AAIVNFEASLAQAVLSNV 75
IV E LA A V
Sbjct: 236 DRIVALETKLADAHWDVV 253
>3dwb_A ECE-1, endothelin-converting enzyme 1; protein, disease mutation,
glycoprotein, hirschsprung diseas hydrolase, membrane,
metal-binding; HET: 5HD RDF; 2.38A {Homo sapiens}
Length = 670
Score = 24.3 bits (53), Expect = 9.3
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 58 AAIVNFEASLAQAVLSNV 75
I++FE +LA +
Sbjct: 205 QQILDFETALANITIPQE 222
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
0.319 0.133 0.365
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,299,616
Number of extensions: 61694
Number of successful extensions: 133
Number of sequences better than 10.0: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 22
Length of query: 93
Length of database: 6,701,793
Length adjustment: 60
Effective length of query: 33
Effective length of database: 5,026,533
Effective search space: 165875589
Effective search space used: 165875589
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 (21.8 bits)
S2: 51 (23.7 bits)