RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4109
(77 letters)
>2gs9_A Hypothetical protein TT1324; methyl transferase, structural
genomics, NPPSFA, national PR protein structural and
functional analyses; HET: SAH; 2.60A {Thermus
thermophilus}
Length = 211
Score = 31.7 bits (72), Expect = 0.011
Identities = 11/44 (25%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 10 VARDREVEGDLVLSDLGQGVPFRAGAFDGAISISALQWLCNADK 53
V R R E V + G+ +PF +FD + + L+++ + ++
Sbjct: 71 VGRRRAPEATWVRAW-GEALPFPGESFDVVLLFTTLEFVEDVER 113
>3ege_A Putative methyltransferase from antibiotic biosyn pathway;
YP_324569.1, putative methyltransferase from antibiotic
BIOS pathway; 2.40A {Anabaena variabilis atcc 29413}
Length = 261
Score = 28.7 bits (64), Expect = 0.11
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 30 PFRAGAFDGAISISALQWLCNADK 53
+ DG ISI A+ + +K
Sbjct: 89 ALPDKSVDGVISILAIHHFSHLEK 112
>3bkw_A MLL3908 protein, S-adenosylmethionine dependent methyltransferase;
NP_104914.1; HET: MSE; 1.60A {Mesorhizobium loti}
Length = 243
Score = 28.2 bits (63), Expect = 0.21
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 30 PFRAGAFDGAISISALQWLCNADKT 54
+FD A S AL ++ + +
Sbjct: 102 HLPQDSFDLAYSSLALHYVEDVARL 126
>1vlm_A SAM-dependent methyltransferase; possible histamine
methyltransferase, structural genomics, JCSG, protein
struc initiative, PSI; 2.20A {Thermotoga maritima} SCOP:
c.66.1.41
Length = 219
Score = 27.5 bits (61), Expect = 0.32
Identities = 8/45 (17%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 10 VARDREVEGDLVLSDLGQGVPFRAGAFDGAISISALQWLCNADKT 54
+AR R V ++ + +P + +FD A+ ++ + ++ + ++
Sbjct: 80 IARKRGVF--VLKGTA-ENLPLKDESFDFALMVTTICFVDDPERA 121
>3cgg_A SAM-dependent methyltransferase; NP_600671.1, methyltransferase
domain, structural genomics; HET: NHE CIT; 2.00A
{Corynebacterium glutamicum atcc 13032}
Length = 195
Score = 27.1 bits (60), Expect = 0.42
Identities = 9/43 (20%), Positives = 13/43 (30%), Gaps = 1/43 (2%)
Query: 10 VARDREVEGDLVLSDLGQGVPFRAGAFDGAISISALQWLCNAD 52
A+ E V+ DL FD +S + D
Sbjct: 83 YAKQDFPEARWVVGDL-SVDQISETDFDLIVSAGNVMGFLAED 124
>2p8j_A S-adenosylmethionine-dependent methyltransferase; NP_349143.1; HET:
PGE GOL; 2.00A {Clostridium acetobutylicum}
Length = 209
Score = 27.2 bits (60), Expect = 0.43
Identities = 4/24 (16%), Positives = 8/24 (33%)
Query: 30 PFRAGAFDGAISISALQWLCNADK 53
PF+ + S + + D
Sbjct: 84 PFKDESMSFVYSYGTIFHMRKNDV 107
>3ujc_A Phosphoethanolamine N-methyltransferase; parasite; HET: PC; 1.19A
{Plasmodium falciparum} PDB: 3uj9_A* 3uj6_A* 3uj7_A*
3uj8_A* 3uja_A 3ujb_A* 4fgz_A* 3ujd_A*
Length = 266
Score = 26.3 bits (58), Expect = 0.97
Identities = 13/67 (19%), Positives = 21/67 (31%), Gaps = 11/67 (16%)
Query: 9 NVARDREVEGDLVLSDLG--QGVPFRAGAFDGAISISALQWLCNADKTSHNPAKRLYKFF 66
N+A +R + ++ + F FD S A+ L K K F
Sbjct: 92 NMANERVSGNNKIIFEANDILTKEFPENNFDLIYSRDAILAL-------SLENKN--KLF 142
Query: 67 SSLFACL 73
+ L
Sbjct: 143 QKCYKWL 149
>2gcg_A Glyoxylate reductase/hydroxypyruvate reductase; NAD(P) rossmann
fold, formate/glycerate dehydrogenase substr binding
domain, oxidoreductase; HET: NDP; 2.20A {Homo sapiens}
PDB: 2wwr_A 2h1s_A 2q50_A
Length = 330
Score = 26.0 bits (58), Expect = 1.1
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
MK+ A + N++R GD+V
Sbjct: 236 MKETAVFINISR-----GDVV 251
>2gwn_A Dihydroorotase; zinc-binding prote structural genomics, PSI,
protein structure initiative, MID center for structural
genomics, MCSG; HET: KCX GOL; 1.85A {Porphyromonas
gingivalis}
Length = 452
Score = 26.0 bits (58), Expect = 1.1
Identities = 8/26 (30%), Positives = 10/26 (38%), Gaps = 5/26 (19%)
Query: 37 DGAISISALQWLCNADKTSHNPAKRL 62
G SI + KT+H PA
Sbjct: 352 QGIFSIEEI-----VSKTAHIPATLF 372
>1gdh_A D-glycerate dehydrogenase; oxidoreductase(CHOH (D)-NAD(P)+ (A));
2.40A {Hyphomicrobium methylovorum} SCOP: c.2.1.4
c.23.12.1
Length = 320
Score = 26.0 bits (58), Expect = 1.2
Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
+ + A N AR GDLV
Sbjct: 228 LPQGAIVVNTAR-----GDLV 243
>3h2b_A SAM-dependent methyltransferase; alpha-beta protein, structural
genomics, PSI-2, protein structure initiative; HET: SAH;
2.00A {Corynebacterium glutamicum atcc 13032}
Length = 203
Score = 25.5 bits (56), Expect = 1.6
Identities = 4/43 (9%), Positives = 13/43 (30%), Gaps = 1/43 (2%)
Query: 10 VARDREVEGDLVLSDLGQGVPFRAGAFDGAISISALQWLCNAD 52
+AR + + + G ++ +L + +
Sbjct: 78 LARQTHPSVTFHHGTI-TDLSDSPKRWAGLLAWYSLIHMGPGE 119
>3l8d_A Methyltransferase; structural genomics, PSI, nysgrc, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 1.70A {Bacillus thuringiensis}
Length = 242
Score = 25.6 bits (56), Expect = 1.6
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 30 PFRAGAFDGAISISALQWL 48
PF F+ ++I++L+W
Sbjct: 111 PFENEQFEAIMAINSLEWT 129
>4g2n_A D-isomer specific 2-hydroxyacid dehydrogenase, Na; structural
genomics, protein structure initiative, nysgrc, P
biology; 1.70A {Polaromonas SP}
Length = 345
Score = 25.6 bits (57), Expect = 1.7
Identities = 6/21 (28%), Positives = 11/21 (52%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
+ + A N++R GDL+
Sbjct: 253 IPEGAVVINISR-----GDLI 268
>3cmg_A Putative beta-galactosidase; structural genomics, PSI-2, Pro
structure initiative, NEW YORK SGX research center for
STRU genomics, nysgxrc; 1.90A {Bacteroides fragilis}
Length = 667
Score = 25.4 bits (56), Expect = 1.8
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 25 LGQGVPFRAGAFDGAISISALQWL-CNADKTSHNP-AKRLY 63
+G + + D ++ ++ + NA + +H P A +Y
Sbjct: 297 VGNALRPQHHEED----VALMREMGVNAIRLAHYPQATYMY 333
>2yqz_A Hypothetical protein TTHA0223; RNA methyltransferase, SAM,
structural genomics, NPPSFA; HET: SAM; 1.80A {Thermus
thermophilus} PDB: 2yr0_A
Length = 263
Score = 25.7 bits (56), Expect = 1.8
Identities = 4/24 (16%), Positives = 8/24 (33%)
Query: 30 PFRAGAFDGAISISALQWLCNADK 53
P + G I + + + K
Sbjct: 99 PLPDESVHGVIVVHLWHLVPDWPK 122
>3g5l_A Putative S-adenosylmethionine dependent methyltransferase;
structural genomics, PSI-2, protein structure
initiative; 2.35A {Listeria monocytogenes str}
Length = 253
Score = 25.6 bits (56), Expect = 1.8
Identities = 5/25 (20%), Positives = 11/25 (44%)
Query: 30 PFRAGAFDGAISISALQWLCNADKT 54
A++ +S AL ++ + D
Sbjct: 103 AIEPDAYNVVLSSLALHYIASFDDI 127
>2cuk_A Glycerate dehydrogenase/glyoxylate reductase; structural genomics,
riken structur genomics/proteomics initiative, RSGI,
NPPSFA; HET: NHE; 2.00A {Thermus thermophilus}
Length = 311
Score = 25.2 bits (56), Expect = 2.1
Identities = 9/21 (42%), Positives = 10/21 (47%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
MK+ A N AR G LV
Sbjct: 219 MKRGAILLNTAR-----GALV 234
>1thg_A Lipase; hydrolase(carboxylic esterase); HET: NAG NDG; 1.80A
{Galactomyces geotrichum} SCOP: c.69.1.17
Length = 544
Score = 25.1 bits (55), Expect = 2.3
Identities = 9/66 (13%), Positives = 18/66 (27%), Gaps = 10/66 (15%)
Query: 18 GDLVLSDLGQGVPFRAGAFDGAI--SISALQWLCNADKTSHNPAKRLYKFF--------S 67
+++ G F AI S L + ++ R ++ +
Sbjct: 224 AHQLIAYGGDNTYNGKKLFHSAILQSGGPLPYHDSSSVGPDISYNRFAQYAGCDTSASAN 283
Query: 68 SLFACL 73
CL
Sbjct: 284 DTLECL 289
>3evt_A Phosphoglycerate dehydrogenase; structural genomics, PSI-2, protein
structure initiative; 2.20A {Lactobacillus plantarum}
Length = 324
Score = 24.5 bits (54), Expect = 3.5
Identities = 5/21 (23%), Positives = 7/21 (33%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
K+ N+ R G V
Sbjct: 217 TKQQPMLINIGR-----GPAV 232
>2cxh_A Probable BRIX-domain ribosomal biogenesis protein; 18S rRNA,
IMP4, U3 snoRNP, ribosomal biogenesis binding,
structural genomics, NPPSFA; 1.80A {Aeropyrum pernix}
SCOP: c.51.1.2
Length = 217
Score = 24.6 bits (53), Expect = 3.9
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 54 TSHNPAKRLYKFFSSLFACL 73
TS P+ R+ F L A +
Sbjct: 40 TSRRPSPRIRSFVKDLSATI 59
>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S
rRNA, NESG, structural genomics, PSI, protein structure
initiative; HET: SAM; 2.80A {Escherichia coli} SCOP:
c.66.1.33
Length = 269
Score = 24.5 bits (53), Expect = 3.9
Identities = 8/38 (21%), Positives = 13/38 (34%), Gaps = 1/38 (2%)
Query: 11 ARDREVEGDLVLSDLGQGVPFRAGAFDGAISISALQWL 48
A R + ++ +PF + D I I A
Sbjct: 125 AAKRYPQVTFCVASS-HRLPFSDTSMDAIIRIYAPCKA 161
>3hm7_A Allantoinase; metallo-dependent hydrolase, protein structure
initiative, PSI-2, NEW YORK structural genomix research
CON nysgxrc; 2.60A {Bacillus halodurans}
Length = 448
Score = 24.5 bits (54), Expect = 4.1
Identities = 6/31 (19%), Positives = 10/31 (32%), Gaps = 5/31 (16%)
Query: 31 FRAGAFDGAISISALQWLCNADKTSHNPAKR 61
G + ++ + S PAKR
Sbjct: 349 LTEGYHKRKMPLTQI-----VQLLSTEPAKR 374
>2p35_A Trans-aconitate 2-methyltransferase; SAM dependent methyltrans
agrobacterium tumefaciens, structural genomics, PSI-2;
HET: SAH; 1.95A {Agrobacterium tumefaciens str}
Length = 259
Score = 24.4 bits (53), Expect = 4.5
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 2/38 (5%)
Query: 11 ARDREVEGDLVLSDLGQGVPFRAGAFDGAISISALQWL 48
A DR + +DL P A D + + QW+
Sbjct: 73 AADRLPNTNFGKADLATWKP--AQKADLLYANAVFQWV 108
>3fn9_A Putative beta-galactosidase; structural genomics, glycosidas
hydrolase, PSI-2, protein structure initiative; 2.70A
{Bacteroides fragilis}
Length = 692
Score = 24.3 bits (53), Expect = 4.5
Identities = 6/35 (17%), Positives = 13/35 (37%), Gaps = 5/35 (14%)
Query: 25 LGQGVPFRAGAFDGAISISALQWL-CNADKTSHNP 58
LG + FD ++A+ + + +H
Sbjct: 311 LGSALKNEHHDFD----LAAIMDVGATTVRFAHYQ 341
>2dbq_A Glyoxylate reductase; D-3-phosphoglycerate dehydrogenase, ST
genomics, NPPSFA; HET: NAP; 1.70A {Pyrococcus
horikoshii} PDB: 2dbr_A* 2dbz_A*
Length = 334
Score = 24.5 bits (54), Expect = 4.7
Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
MKK A N+AR G +V
Sbjct: 230 MKKTAILINIAR-----GKVV 245
>3hz6_A Xylulokinase; xylulose, structural genomic, chromob violaceum,
manolate, transferase, structural genomi 2; HET: ADP
XUL; 1.65A {Chromobacterium violaceum} PDB: 3kzb_A*
Length = 511
Score = 24.2 bits (53), Expect = 4.7
Identities = 8/59 (13%), Positives = 13/59 (22%), Gaps = 18/59 (30%)
Query: 25 LGQGVPFRAGAFDGA---------------ISI---SALQWLCNADKTSHNPAKRLYKF 65
G P G D + + L L D P +++
Sbjct: 231 FVSGTPVLCGLGDAGAATLGVGVLDDEDAYLHLGTTGWLARLTQTDPVGDMPVGTIFRL 289
>2avn_A Ubiquinone/menaquinone biosynthesis methyltransfe related protein;
ubiquinone/menaquinone biosynthesis
methyltransferase-relate protein; HET: SAI; 2.35A
{Thermotoga maritima} SCOP: c.66.1.41
Length = 260
Score = 24.4 bits (53), Expect = 5.0
Identities = 14/46 (30%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 9 NVARDREVEGDLVLSDLGQGVPFRAGAFDGAISIS-ALQWLCNADK 53
VAR++ V+ ++V + + +PF +GAF+ +++ L ++ N DK
Sbjct: 90 EVAREKGVK-NVVEAK-AEDLPFPSGAFEAVLALGDVLSYVENKDK 133
>3mio_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
riboflavin, ribulose-5-phosphate, FAD, FMN; 1.80A
{Mycobacterium tuberculosis} PDB: 3mgz_A 3mk5_A
Length = 206
Score = 24.0 bits (53), Expect = 5.3
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 13 DREVEGDLVL 22
DRE EGDL+
Sbjct: 27 DRENEGDLIF 36
>1g57_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
riboflavine biosynthesis, skeletal rearrangement,
antimicrobial target; 1.40A {Escherichia coli} SCOP:
d.115.1.2 PDB: 1g58_A 1iez_A 3ls6_A 3lrj_A 3lqu_A
3h07_A
Length = 217
Score = 24.1 bits (53), Expect = 5.4
Identities = 6/10 (60%), Positives = 8/10 (80%)
Query: 13 DREVEGDLVL 22
DRE EGD++
Sbjct: 36 DRENEGDMIF 45
>1tks_A 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavin
biosynthesis, 3,4-dihydroxy-2-B 4-phosphate synthase,
synthetic gene, ISO; 1.60A {Candida albicans} SCOP:
d.115.1.2 PDB: 1tku_A* 2ris_A 2riu_A*
Length = 204
Score = 24.0 bits (53), Expect = 5.5
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 13 DREVEGDLVL 22
DRE EGDL++
Sbjct: 28 DRENEGDLIM 37
>3e8s_A Putative SAM dependent methyltransferase; NP_744700.1, structural
genomics, joint center for structural genom JCSG; HET:
SAH; 2.10A {Pseudomonas putida KT2440}
Length = 227
Score = 24.0 bits (52), Expect = 5.5
Identities = 7/40 (17%), Positives = 11/40 (27%), Gaps = 2/40 (5%)
Query: 10 VARDREVEGDLVLS--DLGQGVPFRAGAFDGAISISALQW 47
AR + S L + +D + AL
Sbjct: 89 AARAAGAGEVHLASYAQLAEAKVPVGKDYDLICANFALLH 128
>1snn_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
riboflavin biosynthesis, isomerase; HET: 5RP; 1.55A
{Methanocaldococcus jannaschii} SCOP: d.115.1.2 PDB:
1pvy_A* 1pvw_A
Length = 227
Score = 24.2 bits (53), Expect = 5.6
Identities = 5/10 (50%), Positives = 8/10 (80%)
Query: 13 DREVEGDLVL 22
+RE E D+V+
Sbjct: 24 EREGETDMVV 33
>2w2k_A D-mandelate dehydrogenase; 2-hydroxyacid dehydrogenase,
oxidoreductase; 1.85A {Rhodotorula graminis} PDB:
2w2l_A* 2w2l_D* 2w2k_B
Length = 348
Score = 23.8 bits (52), Expect = 6.8
Identities = 6/21 (28%), Positives = 9/21 (42%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
MK + N AR G ++
Sbjct: 246 MKPGSRIVNTAR-----GPVI 261
>2gk9_A Phosphatidylinositol-4-phosphate 5-kinase, type II, gamma;
phosphoinositide, structural genomics, structural
genomics consortium, SGC, transferase; 2.80A {Homo
sapiens}
Length = 392
Score = 24.1 bits (51), Expect = 7.1
Identities = 8/31 (25%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 44 ALQWLCNADKTSHNP---AKRLYKFFSSLFA 71
++ A+ ++ +P AKR F +++FA
Sbjct: 362 TVKHGAGAEISTVHPEQYAKRFLDFITNIFA 392
>4e5n_A Thermostable phosphite dehydrogenase; D-2-hydroxyacid
dehydrogenase, oxidoreductase; HET: NAD; 1.70A
{Pseudomonas stutzeri} PDB: 4e5k_A* 4ebf_A* 4e5p_A*
4e5m_A*
Length = 330
Score = 23.7 bits (52), Expect = 7.1
Identities = 5/21 (23%), Positives = 8/21 (38%), Gaps = 5/21 (23%)
Query: 1 MKKNAFYTNVARDREVEGDLV 21
++ A N R G +V
Sbjct: 226 VRPGALLVNPCR-----GSVV 241
>3ifr_A Carbohydrate kinase, FGGY; xylulose kinase, SGX, structural GENO
11200H, transferase, PSI-2; 2.30A {Rhodospirillum
rubrum}
Length = 508
Score = 23.7 bits (52), Expect = 8.6
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 25 LGQGVPFRAGAFDGAIS 41
L G+P GA D S
Sbjct: 233 LPTGLPVYGGAADHIAS 249
>3bus_A REBM, methyltransferase; rebeccamycin synthesis; HET: SAH; 2.65A
{Lechevalieria aerocolonigenes}
Length = 273
Score = 23.6 bits (51), Expect = 9.4
Identities = 8/45 (17%), Positives = 16/45 (35%), Gaps = 11/45 (24%)
Query: 29 VPFRAGAFDGAISISALQWLCNADKTSHNPAKRLYKFFSSLFACL 73
+PF +FD ++ +L H P + + + L
Sbjct: 123 LPFEDASFDAVWALESLH---------HMPDRG--RALREMARVL 156
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
0.324 0.136 0.429
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,139,227
Number of extensions: 53393
Number of successful extensions: 205
Number of sequences better than 10.0: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 42
Length of query: 77
Length of database: 6,701,793
Length adjustment: 46
Effective length of query: 31
Effective length of database: 5,417,427
Effective search space: 167940237
Effective search space used: 167940237
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)