RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy705
(232 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 = 105 bits (264), Expect = 1e-26
Identities = 46/239 (19%), Positives = 75/239 (31%), Gaps = 30/239 (12%)
Query: 2 FERLRKECPAQLSRLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAASLKLEAELKEN 61
E LR RL ++ GD + +LG+ L E V ++ + AA + E
Sbjct: 128 PELLRHFKELAADRLEVVAGDKSEPDLGLDQPMWRRLAETVDLIVDSAAMVNAF-PYHEL 186
Query: 62 VAANTRGTQRLLDIALKMKKLVAFIHFSTAFCHPDQKVLEEKLYPSPVSPHDIMRAMEWM 121
N GT L+ IAL KL F + STA V A
Sbjct: 187 FGPNVAGTAELIRIALTT-KLKPFTYVSTAD----------------VGAAIEPSAFTED 229
Query: 122 DDETIKQLTPKILGPHPNSYTFTKRLTETLVDEY--KTKLPVVIVRPSIVLPSFQEPVPG 179
D + T + G Y +K E L+ E LPV + R ++ G
Sbjct: 230 ADIRVISPTRTVDGGWAGGYGTSKWAGEVLLREANDLCALPVAVFRCGMI--LADTSYAG 287
Query: 180 WVDSLNGPVGVLVAS--------GKGVVRSMMCGAEFVAEVVPVDIAINGVILAAYNRD 230
++ + ++++ S + +PV + +
Sbjct: 288 QLNMSDWVTRMVLSLMATGIAPRSFYEPDSEGNRQRAHFDGLPVTFVAEAIAVLGARVA 346
>2x4g_A Nucleoside-diphosphate-sugar epimerase; isomerase; 2.65A
{Pseudomonas aeruginosa}
Length = 342
Score = 59.2 bits (144), Expect = 1e-10
Identities = 35/222 (15%), Positives = 59/222 (26%), Gaps = 58/222 (26%)
Query: 15 RLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAASLKLEAELKEN-VAANTRGTQRLL 73
++L + L + V A + VA+ T
Sbjct: 57 EPECRVAEMLDH------AGLERALRGLDGVIFSAGYYPSRPRRWQEEVASALGQTNPFY 110
Query: 74 DIALKM--KKLVAFIHFSTA---FCHPDQKVLEEKLYPSPVSPHDIMRAMEWMDDETIKQ 128
L+ +++ + +A HP E L+ +
Sbjct: 111 AACLQARVPRIL---YVGSAYAMPRHPQGLPGHEGLFYDSLPSG---------------- 151
Query: 129 LTPKILGPHPNSYTFTKRLTETLVDEY-KTKLPVVIVRPSIVL-PSFQEPVPG--WVDSL 184
+SY K + E + LPVVI P +VL P G
Sbjct: 152 ---------KSSYVLCKWALDEQAREQARNGLPVVIGIPGMVLGELDIGPTTGRVITAIG 202
Query: 185 NGPVGVLVASGKGVVRSMMCGAEFVAEVVPVDIAINGVILAA 226
NG + VA + V+ A G+++A
Sbjct: 203 NGEMTHYVAGQRNVID--------------AAEAGRGLLMAL 230
>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 = 48.5 bits (116), Expect = 6e-07
Identities = 30/167 (17%), Positives = 52/167 (31%), Gaps = 42/167 (25%)
Query: 11 AQLSRLHIIEGDILQANLGIKDSDLLM-LQEEVSVVFNGAA------SLKLEAELKENVA 63
+ E I D LL LQ+E VF+ A S+ + +
Sbjct: 75 PDHPAVRFSETSI-------TDDALLASLQDEYDYVFHLATYHGNQSSIH---DPLADHE 124
Query: 64 ANTRGTQRLLDIALKMKKLVAFIHFSTAFCHPDQKVLEEKLYPSPVSPHDIMRAMEWMDD 123
NT T +L + K+L ++ + + E+ + +
Sbjct: 125 NNTLTTLKLYERLKHFKRLKKVVYSAAGCS-----IAEKTFDDAKATEE----------- 168
Query: 124 ETIKQLTPKILGPHPNS-YTFTKRLTETLVDEY-KT-KLPVVIVRPS 167
T + + +S Y+ +K E Y K +LP V R
Sbjct: 169 ------TDIVSLHNNDSPYSMSKIFGEFYSVYYHKQHQLPTVRARFQ 209
>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 = 44.1 bits (105), Expect = 1e-05
Identities = 26/163 (15%), Positives = 42/163 (25%), Gaps = 58/163 (35%)
Query: 17 HIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAA------SLKLEAELKENVAANTRGTQ 70
D DL+ +V V + AA + N TQ
Sbjct: 45 EYRVSDY-------TLEDLINQLNDVDAVVHLAATRGSQGKI-------SEFHDNEILTQ 90
Query: 71 RLLDIALK--MKKLVAFIHFSTAFCHPDQKVL--EEKLYPSPVSPHDIMRAMEWMDDETI 126
L D + + ++ ST + D+ L EK P P
Sbjct: 91 NLYDACYENNISN---IVYASTISAYSDETSLPWNEKELPLPDLM--------------- 132
Query: 127 KQLTPKILGPHPNSYTFTKRLTETLVDEYKT--KLPVVIVRPS 167
Y +K E + + Y L + +R +
Sbjct: 133 --------------YGVSKLACEHIGNIYSRKKGLCIKNLRFA 161
>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 = 41.5 bits (98), Expect = 1e-04
Identities = 31/170 (18%), Positives = 52/170 (30%), Gaps = 41/170 (24%)
Query: 14 SRLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAA--SLKLEAELKENVAANTRGTQR 71
+ I D+ + + + + + +F+ A S K E + N GT
Sbjct: 39 GGIKFITLDVSNRDEIDR----AVEKYSIDAIFHLAGILSAKGEKDPALAYKVNMNGTYN 94
Query: 72 LLDIALKMKKLVAFIHFST--AFCHPDQKVLEEKLYPSPVSPHDIMRAMEWMDDETIKQL 129
+L+ A K ++ + ST F P + TI
Sbjct: 95 ILEAA-KQHRVEKVVIPSTIGVF------------GPETPKN--------KVPSITI--- 130
Query: 130 TPKILGPHPNS-YTFTKRLTETLVDEYKTK--LPVVIVRPSIVLPSFQEP 176
P + + TK E L Y K L V +R ++ EP
Sbjct: 131 ------TRPRTMFGVTKIAAELLGQYYYEKFGLDVRSLRYPGIISYKAEP 174
>3rft_A Uronate dehydrogenase; apoenzyme, rossmann fold, NAD binding,
oxidoreductase; 1.90A {Agrobacterium tumefaciens} PDB:
3rfv_A* 3rfx_A*
Length = 267
Score = 39.6 bits (93), Expect = 4e-04
Identities = 21/178 (11%), Positives = 45/178 (25%), Gaps = 50/178 (28%)
Query: 15 RLHIIEGDILQANLGIKDSDLLM-LQEEVSVVFNGAASLKLEAELKENVAANTRGTQRLL 73
++ D+ D++ + + + + + +E ++ + N G L
Sbjct: 44 NEECVQCDL-------ADANAVNAMVAGCDGIVHLGG-ISVEKPFEQILQGNIIGLYNLY 95
Query: 74 DIALK--MKKLVAFIHFSTAFC---HPDQKVLEEKLYPSPVSPHDIMRAMEWMDDETIKQ 128
+ A + + S+ +P + L + P
Sbjct: 96 EAARAHGQPR---IVFASSNHTIGYYPQTERLGPDVPARPDGL----------------- 135
Query: 129 LTPKILGPHPNSYTFTKRLTETLVDEY--KTKLPVVIVRPSIVLPSFQEP--VPGWVD 182
Y +K E L Y K +VR P + W
Sbjct: 136 ------------YGVSKCFGENLARMYFDKFGQETALVRIGSCTPEPNNYRMLSTWFS 181
>3sxp_A ADP-L-glycero-D-mannoheptose-6-epimerase; rossman fold, NAD
binding, isomerase; HET: NAD; 2.55A {Helicobacter
pylori}
Length = 362
Score = 40.0 bits (94), Expect = 4e-04
Identities = 24/156 (15%), Positives = 47/156 (30%), Gaps = 44/156 (28%)
Query: 15 RLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAA----SLKLEAELKENVAANTRGTQ 70
+ +I DI + + + +F+ AA ++ + + + N +
Sbjct: 69 KGEVIAADINNPLDLRR-----LEKLHFDYLFHQAAVSDTTMLNQELVMKT---NYQAFL 120
Query: 71 RLLDIALKMKKLVAFIHFSTAFCHPDQKV-LEEKLYPSPVSPHDIMRAMEWMDDETIKQL 129
LL+IA K I+ S+A + + K SP +
Sbjct: 121 NLLEIARSKK--AKVIYASSAGVYGNTKAPNVVGKNESPENV------------------ 160
Query: 130 TPKILGPHPNSYTFTKRLTETLVDEYKTKLPVVIVR 165
Y F+K + V + V +R
Sbjct: 161 -----------YGFSKLCMDEFVLSHSNDNVQVGLR 185
>1i24_A Sulfolipid biosynthesis protein SQD1; SDR, short-chain
dehydrogenase/reductase, rossmann fold, BIO protein;
HET: NAD UPG; 1.20A {Arabidopsis thaliana} SCOP: c.2.1.2
PDB: 1i2c_A* 1i2b_A* 1qrr_A*
Length = 404
Score = 37.0 bits (86), Expect = 0.003
Identities = 23/188 (12%), Positives = 50/188 (26%), Gaps = 38/188 (20%)
Query: 3 ERLRKECPAQLSRLHIIEGDILQANLGIKDSDLL---MLQEEVSVVFNGAA------SLK 53
+R+ + + + GDI D + L E V + S+
Sbjct: 66 DRISRWKALTGKSIELYVGDIC-------DFEFLAESFKSFEPDSVVHFGEQRSAPYSMI 118
Query: 54 LEAELKENVAANTRGTQRLLDIALKMKKLVAFIHFSTA--FCHPDQKVLEEKLYPSPVSP 111
+ N GT +L + + + T + P+ + E + ++
Sbjct: 119 DRSRAVYTQHNNVIGTLNVLFAIKEFGEECHLVKLGTMGEYGTPNIDIEEGYI---TITH 175
Query: 112 HDIMRAMEWMDDETIKQLTPKILGPHPNS-YTFTKRLTETLVDEYKT--KLPVVIVRPSI 168
+ T PK +S Y +K + + + +
Sbjct: 176 ----------NGRTDTLPYPK----QASSFYHLSKVHDSHNIAFTCKAWGIRATDLNQGV 221
Query: 169 VLPSFQEP 176
V +
Sbjct: 222 VYGVKTDE 229
>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 = 34.5 bits (79), Expect = 0.020
Identities = 23/142 (16%), Positives = 41/142 (28%), Gaps = 45/142 (31%)
Query: 30 IKDSDLLMLQEEVSVVFNGAASLKLEAELKENVAANTRGTQRLLDIALKMKKLVAFIHFS 89
K+ +L + + + A + E + KE N +LDI + K I S
Sbjct: 35 TKEEELESALLKADFIVHLAGVNRPEHD-KEFSLGNVSYLDHVLDILTRNTKKP-AILLS 92
Query: 90 TAFCHPDQKVLEEKLYPSPVSPHDIMRAMEWMDDETIKQLTPKILGPHPNSYTFTKRLTE 149
++ + + +P Y +K E
Sbjct: 93 SS------------IQATQDNP-----------------------------YGESKLQGE 111
Query: 150 TLVDEY--KTKLPVVIVRPSIV 169
L+ EY + V I R +
Sbjct: 112 QLLREYAEEYGNTVYIYRWPNL 133
>2q1w_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NAD complex, sugar binding protein; HET: NAD;
2.19A {Bordetella bronchiseptica}
Length = 333
Score = 34.1 bits (79), Expect = 0.027
Identities = 19/83 (22%), Positives = 31/83 (37%), Gaps = 9/83 (10%)
Query: 11 AQLSRLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAASLKLEAELKENVAANTRGTQ 70
L +EG I L + L+ + V + AAS K + + N G
Sbjct: 63 KDHPNLTFVEGSIADHAL----VNQLIGDLQPDAVVHTAASYKDPDDWYNDTLTNCVGGS 118
Query: 71 RLLDIALKM--KKLVAFIHFSTA 91
++ A K + F++F TA
Sbjct: 119 NVVQAAKKNNVGR---FVYFQTA 138
>2pzm_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NAD complex, protein-nucleotide comple binding
protein; HET: NAD UDP; 2.00A {Bordetella bronchiseptica}
PDB: 2pzl_A* 2pzk_A*
Length = 330
Score = 34.1 bits (79), Expect = 0.027
Identities = 24/104 (23%), Positives = 42/104 (40%), Gaps = 17/104 (16%)
Query: 15 RLHIIEGDILQANLGIKDSDLL---MLQEEVSVVFNGAASLKLEAELKENVAANTRGTQR 71
L +IEG + D+ LL + + V + AA+ K + E+ A N +G+
Sbjct: 66 GLSVIEGSVT-------DAGLLERAFDSFKPTHVVHSAAAYKDPDDWAEDAATNVQGSIN 118
Query: 72 LLDIALKM--KKLVAFIHFSTAFC--HPDQKVLEEKLYPSPVSP 111
+ A K K+ ++F TA C P + +P +
Sbjct: 119 VAKAASKAGVKR---LLNFQTALCYGRPATVPIPIDSPTAPFTS 159
>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 = 33.3 bits (77), Expect = 0.053
Identities = 16/108 (14%), Positives = 33/108 (30%), Gaps = 25/108 (23%)
Query: 15 RLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAASLKLEAELKENVA-------ANTR 67
+++ D+ D+ + V++ AA+ +++ N
Sbjct: 44 AARLVKADLA-------ADDIKDYLKGAEEVWHIAAN----PDVRIGAENPDEIYRNNVL 92
Query: 68 GTQRLLDIALKM--KKLVAFIHFSTAFC--HPDQKVLEEKLYPSPVSP 111
T RLL+ K + + ST+ E P+S
Sbjct: 93 ATYRLLEAMRKAGVSR---IVFTSTSTVYGEAKVIPTPEDYPTHPISL 137
>2hun_A 336AA long hypothetical DTDP-glucose 4,6-dehydrat; rossmann fold,
structural genomics, NPPSFA; HET: NAD; 2.07A {Pyrococcus
horikoshii}
Length = 336
Score = 32.1 bits (74), Expect = 0.11
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 65 NTRGTQRLLDIALKMKKLVAFIHFST 90
N GT LL+ + V F+H ST
Sbjct: 102 NVIGTYTLLESIRRENPEVRFVHVST 127
>3dhn_A NAD-dependent epimerase/dehydratase; reductase, PF01370,
Q89Z24_bactn, NESG, BTR310, structural genomics, PSI-2;
2.00A {Bacteroides thetaiotaomicron}
Length = 227
Score = 31.2 bits (71), Expect = 0.20
Identities = 16/167 (9%), Positives = 45/167 (26%), Gaps = 46/167 (27%)
Query: 10 PAQLSRLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAASLKLEAELKENVAANTRGT 69
+ L + + D+ + ++ + + V + ++ +
Sbjct: 42 KIENEHLKVKKADVSSLD------EVCEVCKGADAVISAFNPGWNNPDI---YDETIKVY 92
Query: 70 QRLLDIALKMKKLVAFIHFSTA---FCHPDQKVLEEKLYPSPVSPHDIMRAMEWMDDETI 126
++D +K + F+ A F P ++++ P
Sbjct: 93 LTIID-GVKKAGVNRFLMVGGAGSLFIAPGLRLMDSGEVP-------------------- 131
Query: 127 KQLTPKILGPHPNSYTFTKRLTETLVDEY--KTKLPVVIVRPSIVLP 171
N K L E ++ + ++ V P+ +
Sbjct: 132 -----------ENILPGVKALGEFYLNFLMKEKEIDWVFFSPAADMR 167
>2p5y_A UDP-glucose 4-epimerase; TTHA0591, structural genomics, PSI; HET:
NAD; 1.92A {Thermus thermophilus HB8} PDB: 2p5u_A*
Length = 311
Score = 31.0 bits (71), Expect = 0.27
Identities = 25/121 (20%), Positives = 42/121 (34%), Gaps = 33/121 (27%)
Query: 19 IEGDILQANLGIKDSDLL---MLQEEVSVVFNGAASLKLEAELKENVA-------ANTRG 68
D+ D + + + + V + AA A +K +V N G
Sbjct: 48 FRVDLR-------DKEGVERAFREFRPTHVSHQAAQ----ASVKVSVEDPVLDFEVNLLG 96
Query: 69 TQRLLDIALK--MKKLVAFIHFSTAFC-----HPDQKVLEEKLYPSPVSPHDIM-RAMEW 120
LL+ + ++KLV F++ P+ + EE P P SP+ A E
Sbjct: 97 GLNLLEACRQYGVEKLV----FASTGGAIYGEVPEGERAEETWPPRPKSPYAASKAAFEH 152
Query: 121 M 121
Sbjct: 153 Y 153
>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 = 29.9 bits (68), Expect = 0.66
Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 15/87 (17%)
Query: 11 AQLSRLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAA------SLKL-EAELKENVA 63
+ L + GDI N + L+ + F+ A S+ + + NV
Sbjct: 47 SSLGNFEFVHGDIRNKND-VTR---LITKYMPDSCFHLAGQVAMTTSIDNPCMDFEINV- 101
Query: 64 ANTRGTQRLLDIALKMKKLVAFIHFST 90
GT LL+ + I+ ST
Sbjct: 102 ---GGTLNLLEAVRQYNSNCNIIYSST 125
>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein
synthesis; 1.98A {Coxiella burnetii}
Length = 255
Score = 29.0 bits (66), Expect = 1.2
Identities = 7/27 (25%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 3 ERLRKECPAQLSRLHIIEGDILQANLG 29
L+K+ Q + I + D LQ +
Sbjct: 65 AFLQKKYN-QQKNITIYQNDALQFDFS 90
>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 = 29.1 bits (66), Expect = 1.2
Identities = 16/105 (15%), Positives = 35/105 (33%), Gaps = 35/105 (33%)
Query: 65 NTRGTQRLLDIALKMKKLVAFIHFSTAFC--HPDQKVLEEKLYPSPVSPHDIMRAMEWMD 122
N + ++ LL L+ + + F++ S+A +E + Y P++
Sbjct: 93 NYQYSKELLHYCLERE--IPFLYASSAATYGGRTSDFIESREYEKPLNV----------- 139
Query: 123 DETIKQLTPKILGPHPNSYTFTKRLTETLVDEYKTK--LPVVIVR 165
Y ++K L + V + + +V R
Sbjct: 140 ------------------YGYSKFLFDEYVRQILPEANSQIVGFR 166
>3jrx_A Acetyl-COA carboxylase 2; BC domain, soraphen A, alternative
splicing, ATP-binding, biotin, fatty acid biosynthesis,
ligase, lipid synthesis; HET: S1A; 2.50A {Homo sapiens}
PDB: 3jrw_A*
Length = 587
Score = 28.8 bits (65), Expect = 1.8
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 97 QKVLEEKLYPSPVSPHDIMRAME 119
QK++EE P+ ++P I ME
Sbjct: 324 QKIVEEA--PATIAPLAIFEFME 344
>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 = 28.3 bits (64), Expect = 1.9
Identities = 20/119 (16%), Positives = 38/119 (31%), Gaps = 27/119 (22%)
Query: 15 RLHIIEGDILQANLGIKDSDLLMLQEEVSVVFNGAASLKLEAELKENVA-------ANTR 67
+ D+ D + VVF+ AA+ E++ + N
Sbjct: 44 SAELHVRDLK-------DYSWG-AGIKGDVVFHFAAN----PEVRLSTTEPIVHFNENVV 91
Query: 68 GTQRLLDIALKM--KKLVAFIHFSTAFC--HPDQKVLEEKLYPSPVSPHDIM-RAMEWM 121
T +L+ A + + + S++ D E+ P+S + A E M
Sbjct: 92 ATFNVLEWARQTGVRT---VVFASSSTVYGDADVIPTPEEEPYKPISVYGAAKAAGEVM 147
>3glk_A Acetyl-COA carboxylase 2; ATP binding, alternative splicing,
ATP-binding, biotin, fatty acid biosynthesis, ligase,
lipid synthesis, manganese; 2.10A {Homo sapiens} PDB:
3gid_A 2hjw_A 2yl2_A
Length = 540
Score = 28.4 bits (64), Expect = 2.0
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 97 QKVLEEKLYPSPVSPHDIMRAME 119
QK++EE P+ ++P I ME
Sbjct: 308 QKIVEEA--PATIAPLAIFEFME 328
>1w96_A ACC, acetyl-coenzyme A carboxylase; ligase, obesity, diabetes,
fatty acid metabolism, structure-based drug design; HET:
S1A; 1.8A {Saccharomyces cerevisiae} SCOP: b.84.2.1
c.30.1.1 d.142.1.2 PDB: 1w93_A
Length = 554
Score = 28.4 bits (64), Expect = 2.0
Identities = 7/23 (30%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 97 QKVLEEKLYPSPVSPHDIMRAME 119
QK++EE P ++ + ME
Sbjct: 314 QKIIEEA--PVTIAKAETFHEME 334
>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 = 28.0 bits (63), Expect = 2.4
Identities = 15/105 (14%), Positives = 35/105 (33%), Gaps = 35/105 (33%)
Query: 65 NTRGTQRLLDIALKMKKLVAFIHFSTAFC--HPDQKVLEEKLYPSPVSPHDIMRAMEWMD 122
N + ++ LL L+ + + F++ S+A +E + Y P++
Sbjct: 140 NYQYSKELLHYCLERE--IPFLYASSAATYGGRTSDFIESREYEKPLNV----------- 186
Query: 123 DETIKQLTPKILGPHPNSYTFTKRLTETLVDEYKTK--LPVVIVR 165
+ ++K L + V + + +V R
Sbjct: 187 ------------------FGYSKFLFDEYVRQILPEANSQIVGFR 213
>1uuz_A IVY, inhibitor of vertebrate lysozyme; hydrolase/inhibitor,
lysozyme/inhibitor complex, IVY, type-C lysozyme
inhibitor, hydrolase; 1.8A {Pseudomonas aeruginosa}
SCOP: d.233.1.1
Length = 137
Score = 27.0 bits (59), Expect = 3.1
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 174 QEPVPGWVDSLNG---PVGVLVASGKGVVRSMMC 204
+ VP WV +G P L G+ V + C
Sbjct: 26 ESDVPKWVSDASGPSSPSTSLSLEGQPYVLANSC 59
>1qyr_A KSGA, high level kasugamycin resistance protein, S-adenosylMet;
adenosine dimethyltransferase, rRNA modification,
transferase, translation; 2.10A {Escherichia coli}
SCOP: c.66.1.24 PDB: 4adv_V 3tpz_A
Length = 252
Score = 27.5 bits (62), Expect = 3.5
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 3 ERLRKECPAQLSRLHIIEGDILQANLG 29
RL+ P +L I + D + N G
Sbjct: 57 ARLQTH-PFLGPKLTIYQQDAMTFNFG 82
>1kw3_B 2,3-dihydroxybiphenyl dioxygenase; four TIME repetitions of the
beta-alpha-beta-BETA-beta motif oxidoreductase; 1.45A
{Pseudomonas SP} SCOP: d.32.1.3 d.32.1.3 PDB: 1dhy_A
1eiq_A 1eir_A* 1eil_A 1kw6_B* 1kw8_B* 1kw9_B* 1kwb_B
1kwc_B*
Length = 292
Score = 27.3 bits (60), Expect = 4.0
Identities = 7/35 (20%), Positives = 12/35 (34%), Gaps = 3/35 (8%)
Query: 110 SPHDIMRAMEWMDDETIKQLTPKILGPHPNSYTFT 144
+ D+ A + +D G H N T +
Sbjct: 216 TIDDVGYAFDRLDAAGRITSLL---GRHTNDQTLS 247
>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle
structural genomics center for infectio disease; 1.75A
{Burkholderia pseudomallei}
Length = 279
Score = 27.1 bits (61), Expect = 4.3
Identities = 7/27 (25%), Positives = 10/27 (37%), Gaps = 3/27 (11%)
Query: 3 ERLRKECPAQLSRLHIIEGDILQANLG 29
RL + L + GD L + G
Sbjct: 82 GRLEQRFG---ELLELHAGDALTFDFG 105
>1lgt_A Biphenyl-2,3-DIOL 1,2-dioxygenase; extradiol dioxygenase,
2,3-dihydroxybiphenyl, non-heme iron, anaerobic, PCB
biodegradation; HET: BP3; 1.70A {Burkholderia
xenovorans} SCOP: d.32.1.3 d.32.1.3 PDB: 1kmy_A* 1knd_A
1knf_A 1han_A* 1lkd_A*
Length = 297
Score = 27.2 bits (60), Expect = 5.1
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 110 SPHDIMRAMEWMDDETIKQLTPKILGPHPNSYTFT 144
S D+ A + +D + + T G H N + +
Sbjct: 216 SLDDVGFAFDRVDADGLITSTL---GRHTNDHMVS 247
>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 = 27.1 bits (61), Expect = 5.6
Identities = 22/84 (26%), Positives = 32/84 (38%), Gaps = 18/84 (21%)
Query: 14 SRLHIIEGDILQANLGIKDSDLLM-LQEEVSVVFNGAA------SLKLEAELKENVAANT 66
RL + GDI D+ LL V + + AA S+ + N
Sbjct: 55 PRLRFVHGDIR-------DAGLLARELRGVDAIVHFAAESHVDRSIAGASVF---TETNV 104
Query: 67 RGTQRLLDIALKMKKLVAFIHFST 90
+GTQ LL A+ + +H ST
Sbjct: 105 QGTQTLLQCAVD-AGVGRVVHVST 127
>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 = 6.5
Identities = 22/141 (15%), Positives = 44/141 (31%), Gaps = 44/141 (31%)
Query: 82 LVAFIHFSTAFCHP--DQKVLEEKLYPSPVSPHDIMRAMEWMDDETIKQLTPKILGPHPN 139
+ I FS + EK++ + +I+ EW+++ P+
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGL---NIL---EWLENP----------SNTPD 227
Query: 140 SYTFTKRLTETLVDEYKTKLPVVIVRPSIVLPSF-QEPVPGWVDSLNGPVGVLVASGKGV 198
+Y +P+ P I + V + P G
Sbjct: 228 -------------KDYLLSIPISC--PLIGVIQLAHYVVTAKLLGFT-P---------GE 262
Query: 199 VRSMMCGAEFVAEVVPVDIAI 219
+RS + GA ++ + +AI
Sbjct: 263 LRSYLKGATGHSQGLVTAVAI 283
>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 = 26.3 bits (58), Expect = 7.8
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 4/49 (8%)
Query: 134 LGPHPNSYTF---TKRLTETLVDEYKTKLPVVIVRPSIVLPSFQEPVPG 179
G +S K E V+E K + RP ++L QE PG
Sbjct: 133 KGADKSSNFLYLQVKGEVEAKVEELKFD-RYSVFRPGVLLCDRQESRPG 180
>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics,
structural genomics consortium; HET: SAM; 1.90A {Homo
sapiens} SCOP: c.66.1.24
Length = 285
Score = 26.5 bits (59), Expect = 8.3
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 3 ERLRKEC--PAQLSRLHIIEGDILQANLG 29
L K S+L ++ GD+L+ +L
Sbjct: 64 AELHKRVQGTPVASKLQVLVGDVLKTDLP 92
>3js9_A Nucleoside diphosphate kinase family protein; niaid, ssgcid,
seattle structural genomics center for infect disease,
babesiosis; 2.50A {Babesia bovis}
Length = 156
Score = 26.0 bits (58), Expect = 8.6
Identities = 6/24 (25%), Positives = 12/24 (50%), Gaps = 4/24 (16%)
Query: 186 GPVGVLVASGKGVV---RSMMCGA 206
GPV ++ G + R+++ G
Sbjct: 76 GPVFCMIWEGPEAIKIGRNLV-GL 98
>3l7u_A Nucleoside diphosphate kinase A; ATP-binding, nucleotide-binding,
transferase, tumor suppressor; 2.10A {Homo sapiens}
Length = 172
Score = 26.1 bits (58), Expect = 8.8
Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 4/24 (16%)
Query: 186 GPVGVLVASGKGVV---RSMMCGA 206
GPV +V G VV R M+ G
Sbjct: 91 GPVVAMVWEGLNVVKTGRVML-GE 113
>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 = 26.3 bits (59), Expect = 9.0
Identities = 22/84 (26%), Positives = 34/84 (40%), Gaps = 19/84 (22%)
Query: 14 SRLHIIEGDILQANLGIKDSDLLM-LQEEVSVVFNGAA------SLKLEAELKENVAANT 66
R+ ++ GDI D++L+ L + + + AA SL + + N
Sbjct: 54 DRVELVVGDIA-------DAELVDKLAAKADAIVHYAAESHNDNSLNDPSPF---IHTNF 103
Query: 67 RGTQRLLDIALKMKKLVAFIHFST 90
GT LL+ A K F H ST
Sbjct: 104 IGTYTLLEAARKYDIR--FHHVST 125
>3b54_A NDK, NDP kinase, nucleoside diphosphate kinase; alpha/beta
sandwich, ATP-binding, magnesium, metal-B mitochondrion;
3.10A {Saccharomyces cerevisiae}
Length = 161
Score = 25.6 bits (57), Expect = 9.7
Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 4/24 (16%)
Query: 186 GPVGVLVASGKGVV---RSMMCGA 206
GP+ V GK VV R+++ GA
Sbjct: 80 GPILATVWEGKDVVRQGRTIL-GA 102
>1xiq_A Nucleoside diphosphate kinase B; protein structure initiative,
structural genomics, SGPP; 3.05A {Plasmodium falciparum}
SCOP: d.58.6.1
Length = 157
Score = 25.6 bits (57), Expect = 9.7
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 4/24 (16%)
Query: 186 GPVGVLVASGKGVV---RSMMCGA 206
GPV +V G +V R ++ G
Sbjct: 76 GPVVAMVWEGVDMVKQGRKLI-GE 98
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 0.136 0.394
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,650,846
Number of extensions: 225310
Number of successful extensions: 535
Number of sequences better than 10.0: 1
Number of HSP's gapped: 529
Number of HSP's successfully gapped: 59
Length of query: 232
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 142
Effective length of database: 4,188,903
Effective search space: 594824226
Effective search space used: 594824226
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: 56 (25.2 bits)