RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7885
(79 letters)
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 80.7 bits (199), Expect = 7e-20
Identities = 28/62 (45%), Positives = 40/62 (64%), Gaps = 1/62 (1%)
Query: 17 YSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNIDDQKYDDYHSTVD 76
PGRVN+IGEHIDYC YSV PMA+EQ++L+A + + L L N + Y D+ ++ +
Sbjct: 58 VRAPGRVNIIGEHIDYCGYSVLPMAVEQDVLIAVEPVKTYALQLANTNP-LYPDFSTSAN 116
Query: 77 TF 78
Sbjct: 117 NI 118
>3v2u_C Protein GAL3; rossmann fold, GHMP superfamily, transcription
regulation, transcription; HET: GLA ATP; 2.10A
{Saccharomyces cerevisiae} PDB: 3v5r_A 2aj4_A*
Length = 520
Score = 70.2 bits (171), Expect = 4e-16
Identities = 23/52 (44%), Positives = 34/52 (65%), Gaps = 2/52 (3%)
Query: 17 YSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLY--NIDDQ 66
PGRVNLIGEHIDYC +SV P+A++ ++L A K + + ++ N D +
Sbjct: 42 ARSPGRVNLIGEHIDYCDFSVLPLAIDVDMLCAVKILDEKNPSITLTNADPK 93
>1wuu_A Galactokinase; galactosemia, GHMP superfamily, transferase; HET:
GLA ANP; 2.50A {Homo sapiens} SCOP: d.14.1.5 d.58.26.7
Length = 399
Score = 64.0 bits (156), Expect = 5e-14
Identities = 21/49 (42%), Positives = 29/49 (59%)
Query: 17 YSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNIDD 65
S PGRVNLIGEH DY + V PMALE ++ ++G ++L +
Sbjct: 39 VSAPGRVNLIGEHTDYNQGLVLPMALELMTVLVGSPRKDGLVSLLTTSE 87
>2cz9_A Probable galactokinase; structural genomics, NPPSFA, national
project protein structural and functional analyses;
1.50A {Pyrococcus horikoshii} PDB: 2dei_A* 2dej_A*
1s4e_A*
Length = 350
Score = 61.5 bits (150), Expect = 3e-13
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 16 RYSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNIDDQK 67
+ PGRVNLIGEH DY V PMA+ + + ++G++ LY+ +
Sbjct: 3 KVKSPGRVNLIGEHTDYTYGYVMPMAINLYTKIEAE--KHGEVILYSEHFGE 52
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 59.4 bits (144), Expect = 2e-12
Identities = 19/68 (27%), Positives = 31/68 (45%)
Query: 9 GEHIDYCRYSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNIDDQKY 68
G+ + + PGR+NLIGEH DY V P ++ + E+ + LY+ + K
Sbjct: 43 GDTKEVEYFFSPGRINLIGEHTDYNGGYVFPASITIGTTGLARLREDKKVKLYSENFPKL 102
Query: 69 DDYHSTVD 76
+D
Sbjct: 103 GVIEFDLD 110
>1kkh_A Mevalonate kinase; mixed beta sheet, phosphate-binding loop,
beta-alpha-beta, transferase; 2.40A {Methanocaldococcus
jannaschii} SCOP: d.14.1.5 d.58.26.3 PDB: 1vis_A
Length = 317
Score = 51.9 bits (125), Expect = 1e-09
Identities = 12/47 (25%), Positives = 19/47 (40%)
Query: 18 SVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNID 64
P +V L GEH Y MA++ + K + ++ L D
Sbjct: 9 ETPSKVILFGEHAVVYGYRAISMAIDLTSTIEIKETQEDEIILNLND 55
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid
parasite, transferase; 1.75A {Leishmania major} PDB:
2hfu_A*
Length = 332
Score = 46.7 bits (111), Expect = 7e-08
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 2/54 (3%)
Query: 16 RYSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNIDDQKYD 69
+ G+V L GEH + + + N + +DDQ+
Sbjct: 15 KNIGYGKVILFGEHFVVHGAEAIVAGISEYTECRLE--INPGVPGLQVDDQRPA 66
>1kvk_A MK, mevalonate kinase; RMK, ATP, GHMP, transferase; HET: ATP;
2.40A {Rattus norvegicus} SCOP: d.14.1.5 d.58.26.3 PDB:
2r42_A* 2r3v_A
Length = 395
Score = 45.6 bits (107), Expect = 1e-07
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 18 SVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNID 64
S PG+V L GEH +AL + + NG ++L +
Sbjct: 9 SAPGKVILHGEHAVVHGKVALAVALNLRTFLVLRPQSNGKVSLNLPN 55
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET:
DP6; 2.50A {Streptococcus pneumoniae}
Length = 292
Score = 44.7 bits (106), Expect = 3e-07
Identities = 10/50 (20%), Positives = 15/50 (30%)
Query: 18 SVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDLNLYNIDDQK 67
++ LIGEH Y + L + + LY D
Sbjct: 9 QAHSKIILIGEHAVVYGYPAISLPLLEVEVTCKVVPAESPWRLYEEDTLS 58
Score = 36.6 bits (85), Expect = 2e-04
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 2 PGRVNLIGEHIDY 14
++ LIGEH
Sbjct: 11 HSKIILIGEHAVV 23
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 44.7 bits (106), Expect = 3e-07
Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 1/48 (2%)
Query: 18 SVPGRVNLIGEHIDYCRYSVCPMALEQ-NILVAFKCNENGDLNLYNID 64
G++ LIGEH + I V + E+G+ + D
Sbjct: 10 ESTGKIILIGEHAVTFGEPAIAVPFNAGKIKVLIEALESGNYSSIKSD 57
Score = 35.9 bits (83), Expect = 3e-04
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 2 PGRVNLIGEHIDYCRYSV 19
G++ LIGEH
Sbjct: 12 TGKIILIGEHAVTFGEPA 29
>3k85_A D-glycero-D-manno-heptose 1-phosphate kinase; bacteriodes
thetaiotaomicron, protein structure initiative II(PSI
II), nysgxrc; 2.28A {Bacteroides thetaiotaomicron}
Length = 357
Score = 36.0 bits (83), Expect = 3e-04
Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 6/64 (9%)
Query: 16 RYSVPGRVNLIGEHIDYCRYS------VCPMALEQNILVAFKCNENGDLNLYNIDDQKYD 69
R P R+ L G D YS + + + +G + + D Q
Sbjct: 5 RSKAPLRLGLAGGGSDVSPYSDIYGGLILNATINLYAYCTIEETNSGRIEINAYDAQCCK 64
Query: 70 DYHS 73
Y S
Sbjct: 65 SYLS 68
>3k17_A LIN0012 protein; protein structure initiative II(PSI II),
NYSGXRC, structural genomics, NEW YORK SGX research
center for structural genomics; HET: PGE; 2.10A
{Listeria innocua}
Length = 365
Score = 32.3 bits (73), Expect = 0.008
Identities = 8/62 (12%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 16 RYSVPGRVNLIGEHIDYCR-YSVCPMALEQNILVAFKCNENGDLNLYNIDDQKYDDYHST 74
+ +PG++ + GE+ ++ A+ + I + + +E +L + + ++
Sbjct: 8 QVKIPGKLYVAGEYAVVESGHTAILTAVNRYITLTLEDSERNELWIPHYENPVSWPIGGE 67
Query: 75 VD 76
+
Sbjct: 68 LK 69
Score = 25.8 bits (56), Expect = 1.4
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 2 PGRVNLIGEHIDY 14
PG++ + GE+
Sbjct: 12 PGKLYVAGEYAVV 24
>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 = 27.7 bits (61), Expect = 0.31
Identities = 10/42 (23%), Positives = 13/42 (30%), Gaps = 13/42 (30%)
Query: 50 FKCNENGDLNLY-------NIDD-----QK-YDDYHSTVDTF 78
F+ G+ L N DD + Y YH V
Sbjct: 146 FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL 187
Score = 27.3 bits (60), Expect = 0.43
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 17/53 (32%)
Query: 20 PGRVNLIGEHIDYCRYSVCPMALEQNILVAFKCNENGDL----NLYNIDDQKY 68
PGRV AL+ +V G L N YN+++Q+Y
Sbjct: 1814 PGRVAASF----------SQEALQY--VVERVGKRTGWLVEIVN-YNVENQQY 1853
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 26.9 bits (59), Expect = 0.69
Identities = 6/66 (9%), Positives = 19/66 (28%), Gaps = 4/66 (6%)
Query: 16 RYSVPGRVNLIGEHID-YCRYSVCPMALEQNILVAFKCNENGDLNLYNID---DQKYDDY 71
G++ GE+ + + +++ + D D + +
Sbjct: 5 AVKTCGKLYWAGEYAILEPGQLALIKDIPIYMRAEIAFSDSYRIYSDMFDFAVDLRPNPD 64
Query: 72 HSTVDT 77
+S +
Sbjct: 65 YSLIQE 70
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1
PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C*
2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C*
3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ...
Length = 1119
Score = 24.9 bits (55), Expect = 2.9
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 40 MALEQNILVAF 50
+AL QN+LVA
Sbjct: 666 LALGQNVLVAI 676
>2x0q_A ALCC, alcaligin biosynthesis protein; adenylation, siderophores,
iron ACQU biosynthetic protein; HET: ATP; 1.96A
{Bordetella bronchiseptica} PDB: 2x0o_A* 2x0p_A*
Length = 618
Score = 25.0 bits (54), Expect = 3.0
Identities = 3/39 (7%), Positives = 14/39 (35%), Gaps = 6/39 (15%)
Query: 13 DYCRYSVPGRVNLIGEHIDYCRYSVCPMALEQNILVAFK 51
Y + ++ + + + M +N+++ +
Sbjct: 426 RYVDAYLTPLIHC------FYAHDLVFMPHGENVILVIQ 458
>3to3_A Petrobactin biosynthesis protein ASBB; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
alpha-beta structure; HET: MSE ATP; 2.38A {Bacillus
anthracis}
Length = 619
Score = 25.0 bits (54), Expect = 3.1
Identities = 3/20 (15%), Positives = 9/20 (45%)
Query: 32 YCRYSVCPMALEQNILVAFK 51
+ + + QN+++ K
Sbjct: 429 VVEHGIALESHGQNMILVHK 448
>3iib_A Peptidase M28; YP_926796.1, structural genomics, J center for
structural genomics, JCSG, protein structure INI PSI-2;
HET: PGE; 1.70A {Shewanella amazonensis SB2B}
Length = 444
Score = 24.8 bits (53), Expect = 3.3
Identities = 6/16 (37%), Positives = 8/16 (50%), Gaps = 1/16 (6%)
Query: 64 DDQKYDD-YHSTVDTF 78
D Y D +H+ DT
Sbjct: 393 DGSDYFDYHHTPNDTL 408
>3rgf_A Cyclin-dependent kinase 8; protein kinase complex,
transferase,transcription; HET: BAX; 2.20A {Homo
sapiens}
Length = 405
Score = 24.4 bits (53), Expect = 5.0
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 8/43 (18%)
Query: 44 QNILVAFKCNENGDLNL--------YNIDDQKYDDYHSTVDTF 78
NILV + E G + + +N + D V TF
Sbjct: 157 ANILVMGEGPERGRVKIADMGFARLFNSPLKPLADLDPVVVTF 199
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 0.144 0.459
Gapped
Lambda K H
0.267 0.0502 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,282,782
Number of extensions: 62298
Number of successful extensions: 135
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 26
Length of query: 79
Length of database: 6,701,793
Length adjustment: 48
Effective length of query: 31
Effective length of database: 5,361,585
Effective search space: 166209135
Effective search space used: 166209135
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: 41 (21.9 bits)
S2: 51 (24.0 bits)