RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16526
(422 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 = 93.4 bits (232), Expect = 8e-21
Identities = 29/132 (21%), Positives = 51/132 (38%), Gaps = 6/132 (4%)
Query: 288 FIDLLFDQLRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDE 347
F + LR + +++ + GD +EP+LG+ Q + L + V ++ SAA V
Sbjct: 123 FDSGDPELLRHFKELAADRLEVVAGDKSEPDLGLDQPMWRRLAETVDLIVDSAAMVNAFP 182
Query: 348 ALKLSVTINMLGTKRLVELCHEMTHLEALIHVSTAYCNCDREEVREIIYSPPYDPQKIIE 407
+L N+ GT L+ + L+ +VSTA E ++I
Sbjct: 183 YHEL-FGPNVAGTAELIRIALTT-KLKPFTYVSTADVGAAIEPSA----FTEDADIRVIS 236
Query: 408 TMEWMDDSLVNT 419
+D
Sbjct: 237 PTRTVDGGWAGG 248
Score = 69.6 bits (170), Expect = 5e-13
Identities = 18/137 (13%), Positives = 47/137 (34%), Gaps = 21/137 (15%)
Query: 5 ESGNLPVAIVRPSIVISSVNEPVAGWVDNYNGPTGIIAAA--------GKGFFRTMLCHE 56
+ LPVA+ R ++++ + AG ++ + T ++ + + +
Sbjct: 265 DLCALPVAVFRCGMILA--DTSYAGQLNMSDWVTRMVLSLMATGIAPRSFYEPDSEGNRQ 322
Query: 57 NKVADLVPVDIVINLMICAAWKTAVKYKNSNGAQGITVYNCCTGQRNPISWKQFVNYSFE 116
D +PV V + + A + G Y+ + I ++ +
Sbjct: 323 RAHFDGLPVTFVAEAIAVLGARVA-----GSSLAGFATYHVMNPHDDGIGLDEY----VD 373
Query: 117 SMRQN--PLSHITWYPD 131
+ + P+ I + +
Sbjct: 374 WLIEAGYPIRRIDDFAE 390
>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 = 46.6 bits (110), Expect = 1e-05
Identities = 64/406 (15%), Positives = 114/406 (28%), Gaps = 173/406 (42%)
Query: 27 VAGWVDNYNGPTGIIAAAGKGFFRTMLCHENKVADLVPVDI-VINLMICAAWKTAVKYKN 85
+ W++N P+ K + + +P+ +I ++ A + K
Sbjct: 215 ILEWLEN---PS---NTPDKDYLLS-----------IPISCPLIGVIQLAHYVVTAKLLG 257
Query: 86 SNGAQGITVYNCCTGQRNPI----------SWKQFVNYSFESMRQNPLSHITWYPDGQCR 135
+ + TG + SW+ F +++ L I G R
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV--LFFI-----G-VR 309
Query: 136 SN---PISNAMCVFLLHRLPAHVLDLFSLLTGKK-P-FMVRIQNKLDKAAKCLEYFSTQE 190
P ++ LP +L+ SL + P M+ I N L +
Sbjct: 310 CYEAYPNTS---------LPPSILED-SLENNEGVPSPMLSISN-LTQEQ---------- 348
Query: 191 WRFLDDNVRELNASLSLEDRRVFSFDVTEIDWPKYIA--NYVLGIRTFIFKEQASSLPQA 248
+ D V + N+ L ++V I+ N G + + S PQ+
Sbjct: 349 ---VQDYVNKTNSHLP-AGKQV------------EISLVN---GAKNLVV----SGPPQS 385
Query: 249 RKRLYKMLWIHRLSKLLMILLVWRLLMLRSSVARSSWHLFIDLLFDQLRQERSNELAKIK 308
LY L+ L LR + A S DQ R S K
Sbjct: 386 ---LY------GLN-----------LTLRKAKAPSG--------LDQSRIPFSER----K 413
Query: 309 PILGD----ITEPELGISQNDQKILKQNVSVVFHS---------------AATVKFD-EA 348
+ + P FHS V F+ +
Sbjct: 414 LKFSNRFLPVASP-------------------FHSHLLVPASDLINKDLVKNNVSFNAKD 454
Query: 349 LKLSV--TINMLG----------TKRLVE-LCHEMTHLEALIHVST 381
+++ V T + G ++R+V+ + E
Sbjct: 455 IQIPVYDTFD--GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKA 498
Score = 43.5 bits (102), Expect = 1e-04
Identities = 23/134 (17%), Positives = 38/134 (28%), Gaps = 55/134 (41%)
Query: 3 QNESGNLPVAI--VRPSIVISSVN-EPVAGWVD-------------NYNGPTGIIAAAGK 46
++E G + + P V +S + E + V+ NYN AAG
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAG- 1857
Query: 47 GFFRTMLCHENKVADLVPVDIVINLMICAAWKTAVKYKNSNGAQGITVYNCCTGQRNPIS 106
DL +D V N++ N Q I +
Sbjct: 1858 --------------DLRALDTVTNVL------------NFIKLQKIDI------------ 1879
Query: 107 WKQFVNYSFESMRQ 120
+ + S E +
Sbjct: 1880 IELQKSLSLEEVEG 1893
Score = 30.8 bits (69), Expect = 1.3
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 5/34 (14%)
Query: 176 LDKAAKCLEYFSTQEWRFLDDNVRELNASLSLED 209
LD L + Q+ +D + EL SLSLE+
Sbjct: 1862 LDTVTNVLNFIKLQK---ID--IIELQKSLSLEE 1890
Score = 28.9 bits (64), Expect = 4.4
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 16/63 (25%)
Query: 2 LQNESGNLPVAIVRPSIVISSVNEPVAGWVD-NYNGPTGII-----AAAGKGFFRTMLCH 55
L+ SG++ IV I+ V W T I+ A+G G +L H
Sbjct: 468 LRVLSGSISERIVD-CIIRLPVK-----WETTTQFKATHILDFGPGGASGLG----VLTH 517
Query: 56 ENK 58
NK
Sbjct: 518 RNK 520
>2x4g_A Nucleoside-diphosphate-sugar epimerase; isomerase; 2.65A
{Pseudomonas aeruginosa}
Length = 342
Score = 45.0 bits (107), Expect = 2e-05
Identities = 9/81 (11%), Positives = 26/81 (32%), Gaps = 14/81 (17%)
Query: 306 KIKPILGDITEPELGISQNDQKILK---QNVSVVFHSAATVKFDEAL-KLSVTINMLGTK 361
+ + + ++ + L+ + + V SA + V + T
Sbjct: 57 EPECRVAEMLDHAG---------LERALRGLDGVIFSAGYYPSRPRRWQEEVASALGQTN 107
Query: 362 RLVELCHEMTHLEALIHVSTA 382
C + + +++V +A
Sbjct: 108 PFYAACLQA-RVPRILYVGSA 127
Score = 43.1 bits (102), Expect = 1e-04
Identities = 25/163 (15%), Positives = 46/163 (28%), Gaps = 42/163 (25%)
Query: 9 LPVAIVRPSIVISSVNEPVAGWVDNYNGPTGIIAAAGKGFFRTMLCHENKVADLVPVDIV 68
LPV I P +V+ G +D +I A G G + +++
Sbjct: 174 LPVVIGIPGMVL--------GELDIGPTTGRVITAIGNGEMTHYV---AGQRNVIDAAEA 222
Query: 69 INLMICAAWKTAVKYKNSNGAQGITVYNCCTGQRNPISWKQFVNYSFESMRQNPLSHITW 128
++ A G G Y TG + E + Q +
Sbjct: 223 GRGLLMAL---------ERGRIGER-YL-LTGH--NLEMADLTRRIAELLGQPAPQPM-- 267
Query: 129 YPDGQCRSNPISNAMCVFLLHRLPAHVLDLFSLLTGKKPFMVR 171
++ A + A + L ++G+ P +
Sbjct: 268 ---------SMAMARAL-------ATLGRLRYRVSGQLPLLDE 294
>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 = 43.9 bits (104), Expect = 6e-05
Identities = 23/116 (19%), Positives = 35/116 (30%), Gaps = 21/116 (18%)
Query: 310 ILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALK---LSVTINMLGTKRLVEL 366
IT+ L L+ VFH A ++ N L T +L E
Sbjct: 83 SETSITDDAL------LASLQDEYDYVFHLATYHGNQSSIHDPLADHENNTLTTLKLYER 136
Query: 367 CHEMTHLEALIHVSTAYCNCDREEVREIIYSPPYDPQKIIETMEWMDDSLVNTLTP 422
L+ +++ + I +D K T E SL N +P
Sbjct: 137 LKHFKRLKKVVYSAAG----------CSIAEKTFDDAK--ATEETDIVSLHNNDSP 180
>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 = 41.6 bits (98), Expect = 3e-04
Identities = 15/92 (16%), Positives = 28/92 (30%), Gaps = 12/92 (13%)
Query: 296 LRQERSNELAKIKPILGDITEPELGISQNDQKILKQ-NVSVVFHSAA-----TVKFDEAL 349
+R + DI E D I V + +A + K L
Sbjct: 80 IRSSFGYINGDFQTFALDIGSIEY-----DAFIKADGQYDYVLNLSALKHVRSEKDPFTL 134
Query: 350 KLSVTINMLGTKRLVELCHEMTHLEALIHVST 381
+ +N+ T + ++ + + VST
Sbjct: 135 MRMIDVNVFNTDKTIQQSIDA-GAKKYFCVST 165
>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 = 38.9 bits (91), Expect = 0.002
Identities = 23/108 (21%), Positives = 40/108 (37%), Gaps = 19/108 (17%)
Query: 269 LVWRLLMLRSSVARSSWHLFIDLLFDQLRQE-RSNELAKIKPILGDITEPELGISQNDQK 327
L RL+ S + L D + E + + D++ P +K
Sbjct: 30 LTQRLVKDGSLGGKPVEKF---TLIDVFQPEAPAGFSGAVDARAADLSAPGE-----AEK 81
Query: 328 ILKQNVSVVFHSAATV------KFDEALKLSVTINMLGTKRLVELCHE 369
+++ V+FH AA V FD+ + IN+ GT+ L +
Sbjct: 82 LVEARPDVIFHLAAIVSGEAELDFDKGYR----INLDGTRYLFDAIRI 125
>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 = 38.1 bits (89), Expect = 0.004
Identities = 19/89 (21%), Positives = 36/89 (40%), Gaps = 15/89 (16%)
Query: 300 RSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATV------KFDEALKLSV 353
+ IK I D++ + D+ + K ++ +FH A + A K
Sbjct: 34 VQRDTGGIKFITLDVSNRDEI----DRAVEKYSIDAIFHLAGILSAKGEKDPALAYK--- 86
Query: 354 TINMLGTKRLVELCHEMTHLEALIHVSTA 382
+NM GT ++E + +E ++ ST
Sbjct: 87 -VNMNGTYNILEAAKQ-HRVEKVVIPSTI 113
>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 = 36.8 bits (84), Expect = 0.017
Identities = 34/278 (12%), Positives = 75/278 (26%), Gaps = 106/278 (38%)
Query: 193 FLDDNVRELNASLSLED--RRVFSFDVTEIDWPKYIANYVLGIRTFIFKEQASSLPQARK 250
F D V + ++D + + S EID I A
Sbjct: 25 FEDAFVDNFDCK-DVQDMPKSILS--KEEID--------------HIIMS-----KDAVS 62
Query: 251 RLYKMLWIHRLSKLLMILLVWRLLMLRSSVARSSWHLFI--------DLLFDQLRQERSN 302
++ W LL + + + F+ L ++ E
Sbjct: 63 GTLRLFWT--------------LLSKQEEMVQK----FVEEVLRINYKFLMSPIKTE--- 101
Query: 303 ELAKIKPILGDITEPELGISQND-QKILKQNVS--------------------VVFHS-- 339
+ ++ + + ND Q K NVS V+
Sbjct: 102 --QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 340 -------AATVKFDEALKLS-------VTINMLGT-----KRLVELCHEMTH-LEALIHV 379
A V ++ + + + + L +L +++ +
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 380 STAY---CNCDREEVREIIYSPPYDPQKIIETMEWMDD 414
S+ + + E+R ++ S PY+ ++ + +
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLV-----LLN 252
Score = 34.8 bits (79), Expect = 0.052
Identities = 51/393 (12%), Positives = 110/393 (27%), Gaps = 139/393 (35%)
Query: 98 CTGQRNPISWKQFV------NYSF--ESMR---QNPLSHITWYPDGQCRSNPISNAMCVF 146
+ Q + ++FV NY F ++ + P Y + R + + N VF
Sbjct: 72 LSKQEEMV--QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE--QR-DRLYNDNQVF 126
Query: 147 LLHRLPAHVLDLFSLLTGKKPFMVRIQNKLDK--------------------AAKCLEYF 186
+V + +P++ +++ L + A +
Sbjct: 127 A----KYNV-------SRLQPYL-KLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174
Query: 187 STQEWRFLDDNVRELNASLSLEDRRVFSFDVTEIDWPKYIANYVLGIRTFIFKEQASSLP 246
Q +D + LN V E+ Y + + +S++
Sbjct: 175 KVQ--CKMDFKIFWLNLKNCNSPE-----TVLEMLQKLL---YQIDPNWTSRSDHSSNIK 224
Query: 247 Q----ARKRLYKMLWIHRLSKLLMILL-VW------------RLLML-R-SSVARS---- 283
+ L ++L L++LL V ++L+ R V
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284
Query: 284 -SWHLFIDLLFDQLRQERSNEL-AKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAA 341
+ H+ +D L + L K L D L +
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKY-----------LDCRPQD---LPR---------- 320
Query: 342 TVKFDEALKLS-VTINMLGTKRLVELCHEMTH---------LEALIHV-STAYCNCDREE 390
E L + ++++ E + + L + ++ + E
Sbjct: 321 -----EVLTTNPRRLSIIA-----ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 391 VREI-----IYSPPYD---PQKIIETMEWMDDS 415
R++ ++ P P ++ + W D
Sbjct: 371 YRKMFDRLSVF--PPSAHIPTILLSLI-WFDVI 400
Score = 34.1 bits (77), Expect = 0.093
Identities = 27/185 (14%), Positives = 55/185 (29%), Gaps = 56/185 (30%)
Query: 130 PDGQCRSNPISNAMCVFLLHRLPAHVLDLFSLLTGKKPFMVRIQNKLDKAAK-CLEYFST 188
P +NP ++ + A D + + +KL + L
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLAT-WDNWKHVN---------CDKLTTIIESSLNVLEP 368
Query: 189 QEWRFLDDNVRELNASLSLEDRRVFSFDVTEIDWPKYIANYVLGIRTFIFKEQASSLPQA 248
E R++ LS VF +I +L +
Sbjct: 369 AE-------YRKMFDRLS-----VFPPSA-------HIPTILLSL--------------- 394
Query: 249 RKRLYKMLWIHRLSKLLMILLVWRLLMLRSSVAR--SSWHLFIDLLFDQLRQERSNELAK 306
+W + +M+++ L S V + + I ++ +L+ + NE A
Sbjct: 395 -------IWFDVIKSDVMVVVN--KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Query: 307 IKPIL 311
+ I+
Sbjct: 446 HRSIV 450
>3sxp_A ADP-L-glycero-D-mannoheptose-6-epimerase; rossman fold, NAD
binding, isomerase; HET: NAD; 2.55A {Helicobacter
pylori}
Length = 362
Score = 35.3 bits (82), Expect = 0.028
Identities = 19/90 (21%), Positives = 34/90 (37%), Gaps = 10/90 (11%)
Query: 283 SSWHLFIDLLFDQLRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAA- 341
S LF + L ++ K + I DI P +++ K + +FH AA
Sbjct: 46 RSNTLFSNNRPSSLGHFKNLIGFKGEVIAADINNPLD-----LRRLEKLHFDYLFHQAAV 100
Query: 342 --TVKFDEALKLSVTINMLGTKRLVELCHE 369
T ++ +L + N L+E+
Sbjct: 101 SDTTMLNQ--ELVMKTNYQAFLNLLEIARS 128
>2ggs_A 273AA long hypothetical DTDP-4-dehydrorhamnose reductase; alpha,
beta, oxidoreductase; HET: NDP; 1.70A {Sulfolobus
tokodaii}
Length = 273
Score = 34.9 bits (81), Expect = 0.037
Identities = 15/75 (20%), Positives = 35/75 (46%), Gaps = 11/75 (14%)
Query: 313 DITEPELGISQNDQKILKQNVSVVFHSAATVKFDEA---LKLSVTINMLGTKRLVELCHE 369
D+T+ + + I+K+ V+ ++AA D+ + + IN + +V
Sbjct: 42 DLTDFP----RLEDFIIKKRPDVIINAAAMTDVDKCEIEKEKAYKINAEAVRHIVRAGKV 97
Query: 370 MTHLEA-LIHVSTAY 383
+++ ++H+ST Y
Sbjct: 98 ---IDSYIVHISTDY 109
>1rkx_A CDP-glucose-4,6-dehydratase; SDR, lyase; HET: NAD; 1.80A {Yersinia
pseudotuberculosis} SCOP: c.2.1.2 PDB: 1wvg_A*
Length = 357
Score = 34.8 bits (80), Expect = 0.049
Identities = 20/120 (16%), Positives = 48/120 (40%), Gaps = 12/120 (10%)
Query: 292 LFDQLRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALK- 350
LF+ R ++ +GDI + + + I + +VFH AA +
Sbjct: 49 LFETARVAD-----GMQSEIGDIRDQN----KLLESIREFQPEIVFHMAAQPLVRLSYSE 99
Query: 351 --LSVTINMLGTKRLVELCHEMTHLEALIHVSTAYCNCDREEVREIIYSPPYDPQKIIET 408
+ + N++GT L+E + ++A++++++ C ++E + +
Sbjct: 100 PVETYSTNVMGTVYLLEAIRHVGGVKAVVNITSDKCYDNKEWIWGYRENEAMGGYDPYSN 159
>3sc6_A DTDP-4-dehydrorhamnose reductase; RFBD, structural genomics,
infectious diseases, bacillus anthracis STR. AMES,
rhamnose biosynthetic pathway; HET: NAP; 2.65A {Bacillus
anthracis}
Length = 287
Score = 34.4 bits (80), Expect = 0.053
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 313 DITEPELGISQNDQKILKQNVSVVFHSAATVKFDEA---LKLSVTINMLGTKRLVELCHE 369
DIT Q Q + + ++ H AA K D+A L+ IN +G + +
Sbjct: 41 DITNIS----QVQQVVQEIRPHIIIHCAAYTKVDQAEKERDLAYVINAIGARNVAVASQL 96
Query: 370 MTHLEA-LIHVSTAY 383
+ A L+++ST Y
Sbjct: 97 ---VGAKLVYISTDY 108
>1vl0_A DTDP-4-dehydrorhamnose reductase, RFBD ortholog; structural joint
center for structural genomics, JCSG, protein structu
initiative; HET: NAI UNL; 2.05A {Clostridium
acetobutylicum} SCOP: c.2.1.2
Length = 292
Score = 34.0 bits (79), Expect = 0.072
Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 11/75 (14%)
Query: 313 DITEPELGISQNDQKILKQNVSVVFHSAATVKFDEA---LKLSVTINMLGTKRLVELCHE 369
DIT ++ ++ +VV + AA D+ L+ IN +G K L +
Sbjct: 48 DITNVL----AVNKFFNEKKPNVVINCAAHTAVDKCEEQYDLAYKINAIGPKNLAAAAYS 103
Query: 370 MTHLEA-LIHVSTAY 383
+ A ++ +ST Y
Sbjct: 104 ---VGAEIVQISTDY 115
>2q1w_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NAD complex, sugar binding protein; HET: NAD;
2.19A {Bordetella bronchiseptica}
Length = 333
Score = 33.8 bits (78), Expect = 0.10
Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 5/86 (5%)
Query: 297 RQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALKLSVTIN 356
R+E + + + G I + L +Q I V H+AA+ K + N
Sbjct: 58 RREHLKDHPNLTFVEGSIADHAL----VNQLIGDLQPDAVVHTAASYKDPDDWYNDTLTN 113
Query: 357 MLGTKRLVELCHEMTHLEALIHVSTA 382
+G +V+ + ++ ++ TA
Sbjct: 114 CVGGSNVVQAAKK-NNVGRFVYFQTA 138
>3gpi_A NAD-dependent epimerase/dehydratase; structural genomics, unknown
function, PSI-2, protein structure initiative; 1.44A
{Methylobacillus flagellatus KT}
Length = 286
Score = 33.5 bits (77), Expect = 0.11
Identities = 16/98 (16%), Positives = 37/98 (37%), Gaps = 12/98 (12%)
Query: 300 RSNEL--AKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALKLSVTINM 357
RS + A ++ ++ D+T P+ I+ ++ + A ++ + +
Sbjct: 34 RSAQPMPAGVQTLIADVTRPDT-----LASIVHLRPEILVYCVAASEYSDE--HYRLSYV 86
Query: 358 LGTKRLVELCHEMTHLEALIHVSTA--YCNCDREEVRE 393
G + + E L+ + VS+ Y E + E
Sbjct: 87 EGLRNTLSAL-EGAPLQHVFFVSSTGVYGQEVEEWLDE 123
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 33.3 bits (76), Expect = 0.13
Identities = 24/103 (23%), Positives = 40/103 (38%), Gaps = 11/103 (10%)
Query: 278 SSVARSSWHLFIDLLFDQLRQERSNE-LAKIKPILGDITEPELGISQNDQKILKQNVSVV 336
S + + W + I L ++ +ERS L + + +L D+ I N ILK+ +
Sbjct: 252 SPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLA--HCIPANI--ILKELTFSL 307
Query: 337 FHSAATVKFDEALKLSVTINMLGT--KRLVELCHEMTHLEALI 377
+ K S+ I +RL + HLE I
Sbjct: 308 LDVE---TLNTTNKSSI-IEYSSVFDERLSLGNKAIFHLEGFI 346
>2yy7_A L-threonine dehydrogenase; thermolabIle, flavobacterium FRIG KUC-1,
oxidoreductase; HET: PE8 NAD MES; 2.06A {Flavobacterium
frigidimaris}
Length = 312
Score = 33.0 bits (76), Expect = 0.14
Identities = 7/91 (7%), Positives = 32/91 (35%), Gaps = 7/91 (7%)
Query: 294 DQLRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAA--TVKFDEALKL 351
+R+ ++ + + + + + + ++ ++ AA + ++
Sbjct: 34 SDIRKLNTDVVNSGPFEVVNALDFNQI----EHLVEVHKITDIYLMAALLSATAEKNPAF 89
Query: 352 SVTINMLGTKRLVELCHEMTHLEALIHVSTA 382
+ +NM ++ L ++ + S+
Sbjct: 90 AWDLNMNSLFHVLNLAKA-KKIKKIFWPSSI 119
>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 = 32.9 bits (76), Expect = 0.15
Identities = 16/90 (17%), Positives = 33/90 (36%), Gaps = 11/90 (12%)
Query: 293 FDQLRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALKLS 352
+ ++ + + D T +L +V V H AAT +
Sbjct: 32 LTRSIGNKAINDYEY--RVSDYTLEDL-------INQLNDVDAVVHLAATRGSQGKIS-E 81
Query: 353 VTINMLGTKRLVELCHEMTHLEALIHVSTA 382
N + T+ L + C+E ++ +++ ST
Sbjct: 82 FHDNEILTQNLYDACYE-NNISNIVYASTI 110
>2ydy_A Methionine adenosyltransferase 2 subunit beta; oxidoreductase;
2.25A {Homo sapiens} PDB: 2ydx_A
Length = 315
Score = 33.0 bits (76), Expect = 0.16
Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 11/75 (14%)
Query: 313 DITEPELGISQNDQKILKQNVSVVFHSAATVKFDEA---LKLSVTINMLGTKRLVELCHE 369
++ + I V+ H AA + D + +N+ + L +
Sbjct: 45 NLLDSN----AVHHIIHDFQPHVIVHCAAERRPDVVENQPDAASQLNVDASGNLAKEAAA 100
Query: 370 MTHLEA-LIHVSTAY 383
+ A LI++S+ Y
Sbjct: 101 ---VGAFLIYISSDY 112
>1n2s_A DTDP-4-, DTDP-glucose oxidoreductase; rossman-fold,
sugar-nucleotide-binding domain; HET: NAD; 2.00A
{Salmonella enterica subsp} SCOP: c.2.1.2 PDB: 1kc1_A*
1kc3_A* 1kbz_A*
Length = 299
Score = 32.2 bits (74), Expect = 0.28
Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 11/76 (14%)
Query: 312 GDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEA---LKLSVTINMLGTKRLVELCH 368
GD + P+ + + K V+ ++AA D+A +L+ +N + + + +
Sbjct: 38 GDFSNPK----GVAETVRKLRPDVIVNAAAHTAVDKAESEPELAQLLNATSVEAIAKAAN 93
Query: 369 EMTHLEA-LIHVSTAY 383
E A ++H ST Y
Sbjct: 94 E---TGAWVVHYSTDY 106
>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 = 31.0 bits (71), Expect = 0.59
Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 5/61 (8%)
Query: 312 GDITEPELGISQNDQKILKQNVSVVFHSAA---TVKFDEALKLSVTINMLGTKRLVELCH 368
D + E + Q +V +FH A T ++D K + N +K L+ C
Sbjct: 48 ADYMDKEDFLIQIMAGEEFGDVEAIFHEGACSSTTEWDG--KYMMDNNYQYSKELLHYCL 105
Query: 369 E 369
E
Sbjct: 106 E 106
>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 = 31.1 bits (71), Expect = 0.74
Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 5/61 (8%)
Query: 312 GDITEPELGISQNDQKILKQNVSVVFHSAA---TVKFDEALKLSVTINMLGTKRLVELCH 368
D + E + Q +V +FH A T ++D K + N +K L+ C
Sbjct: 95 ADYMDKEDFLIQIMAGEEFGDVEAIFHEGACSSTTEWDG--KYMMDNNYQYSKELLHYCL 152
Query: 369 E 369
E
Sbjct: 153 E 153
>3fst_A 5,10-methylenetetrahydrofolate reductase; TIM barrel, flavin,
amino-acid biosynthesis, FAD, flavoprotein, methionine
biosynthesis, NAD; HET: FAD MRY; 1.65A {Escherichia coli
k-12} PDB: 3fsu_A* 1zp3_A* 1zpt_A* 1zrq_A* 1zp4_A*
2fmn_A* 2fmo_A* 1b5t_A*
Length = 304
Score = 29.8 bits (68), Expect = 1.7
Identities = 10/38 (26%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 359 GTKRLVELCHEMTHLEALIHVSTAYC-NCDREEVREII 395
T +++ + T LEA H++ C + +E+R I
Sbjct: 69 RTHSIIKGIKDRTGLEAAPHLT---CIDATPDELRTIA 103
>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 = 29.5 bits (67), Expect = 2.2
Identities = 14/94 (14%), Positives = 31/94 (32%), Gaps = 10/94 (10%)
Query: 292 LFDQLRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALK- 350
L + + + K I GDI + V V H AA ++
Sbjct: 68 LDEVRSLVSEKQWSNFKFIQGDIRNLDD------CNNACAGVDYVLHQAALGSVPRSIND 121
Query: 351 --LSVTINMLGTKRLVELCHEMTHLEALIHVSTA 382
S N+ G ++ + +++ + +++
Sbjct: 122 PITSNATNIDGFLNMLIAARD-AKVQSFTYAASS 154
>1su8_A CODH 2, carbon monoxide dehydrogenase 2; nickel, cluster C,
oxidoreductase; HET: NFS; 1.10A {Carboxydothermus
hydrogenoformans} SCOP: e.26.1.2 PDB: 1su6_A* 1su7_A*
1suf_A* 2yiv_X* 3b51_X 3b52_X 3b53_X 3i39_X
Length = 636
Score = 29.6 bits (66), Expect = 2.5
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 66 DIVINLMICAAWKTAVKYKNSNGAQGITVYN-CCTGQ 101
+ V++ +I + K + GA GI V CCTG
Sbjct: 262 NPVLSDIIVSVSKEMENEARAAGATGINVVGICCTGN 298
>2dpw_A Hypothetical protein TTHA0179; transferase, structural genomics,
NPPSFA, national project O structural and functional
analyses; 2.90A {Thermus thermophilus} SCOP: c.68.1.19
Length = 232
Score = 28.3 bits (63), Expect = 4.6
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 36 GPTGIIAAAGKGFFRTMLCHENKVADLVPVD 66
P+ I+ A GK + +K LVP
Sbjct: 2 RPSAIVLAGGKEAWAERFGVGSKA--LVPYR 30
>3lij_A Calcium/calmodulin dependent protein kinase with A kinase domain
and 4 calmodulin...; transferase, calcium dependent
protein kinase; HET: ANP; 1.90A {Cryptosporidium parvum}
PDB: 3hzt_A* 3dxn_A 3l19_A*
Length = 494
Score = 28.5 bits (64), Expect = 5.4
Identities = 12/45 (26%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 158 LFSLLTGKKPFMVRIQNKLDKAAKCLEY-FSTQEWRFLDDNVREL 201
LF LL G PF + ++ + + +Y F + EW+ + + ++L
Sbjct: 227 LFILLAGYPPFGGQTDQEILRKVEKGKYTFDSPEWKNVSEGAKDL 271
>1cjc_A Protein (adrenodoxin reductase); flavoenzyme, MAD analysis,
electron transferase, oxidoreductase; HET: FAD; 1.70A
{Bos taurus} SCOP: c.3.1.1 c.4.1.1 PDB: 1e1k_A* 1e1l_A*
1e1m_A* 1e1n_A* 1e6e_A*
Length = 460
Score = 27.9 bits (62), Expect = 7.8
Identities = 8/18 (44%), Positives = 10/18 (55%), Gaps = 2/18 (11%)
Query: 27 VAGWVDNYNGPTGIIAAA 44
+GWV GPTG+I
Sbjct: 364 CSGWVKR--GPTGVITTT 379
>3im9_A MCAT, MCT, malonyl COA-acyl carrier protein transacylase; fatty
acid synthesis, malonyl-COA: acyl carrier protein TRAN
(MCAT), FABD; 1.46A {Staphylococcus aureus}
Length = 316
Score = 27.5 bits (62), Expect = 8.0
Identities = 20/126 (15%), Positives = 37/126 (29%), Gaps = 34/126 (26%)
Query: 299 ERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSA----ATVKFDEALKLSVT 354
+ E K LG ++++ VS FHS+ F +
Sbjct: 183 DELVEKGK-----------SLGA----KRVMPLAVSGPFHSSLMKVIEEDFSSYIN-QFE 226
Query: 355 INMLGTKRLVELCHEMTHLEALIHVSTAYCNCDREEVREIIYSPPYDPQKIIETMEWMDD 414
++ A D+E ++ + Y P + I + EW+ D
Sbjct: 227 WRDAKFP--------------VVQNVNAQGETDKEVIKSNMVKQLYSPVQFINSTEWLID 272
Query: 415 SLVNTL 420
V+
Sbjct: 273 QGVDHF 278
>3ptw_A Malonyl COA-acyl carrier protein transacylase; structural genomics,
protein structure initiative; 2.10A {Clostridium
perfringens}
Length = 336
Score = 27.5 bits (62), Expect = 8.0
Identities = 25/126 (19%), Positives = 45/126 (35%), Gaps = 35/126 (27%)
Query: 299 ERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSA----ATVKFDEALKLSVT 354
E++ E K E+G + +K VS FH + A K ++ L ++
Sbjct: 176 EKAMEFIK-----------EVGG-----RAIKLPVSAPFHCSMLQPAAEKLEDELN-KIS 218
Query: 355 INMLGTKRLVELCHEMTHLEALIHVSTAYCNCDREEVREIIYSPPYDPQKIIETMEWMDD 414
IN L ++ + + + E++ S P I +E M +
Sbjct: 219 INKLNGI--------------VMSNVKGEAYLEDDNIIELLTSQVKKPVLFINDIEKMIE 264
Query: 415 SLVNTL 420
S V+T
Sbjct: 265 SGVDTF 270
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
0.323 0.136 0.418
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: 6,555,182
Number of extensions: 390469
Number of successful extensions: 1018
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1000
Number of HSP's successfully gapped: 42
Length of query: 422
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 326
Effective length of database: 4,021,377
Effective search space: 1310968902
Effective search space used: 1310968902
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (26.8 bits)