RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 034834
(82 letters)
>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis,
ATP-binding, nucleotide-binding, poxvirus, transferase;
HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB:
2w0s_A*
Length = 204
Score = 39.6 bits (93), Expect = 2e-05
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 40 KAGTTLIVDCYFYSGVVFASAKGIDVEWCKA 70
+ G TLIVD Y +SGV +A+AKG + K+
Sbjct: 84 EQGITLIVDRYAFSGVAYAAAKGASMTLSKS 114
>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP,
transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP:
c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A*
1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A*
1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A*
1e9f_A*
Length = 215
Score = 33.7 bits (78), Expect = 0.003
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK-GIDVEWCKA 70
G TL+VD Y +SGV F AK ++WCK
Sbjct: 91 SQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQ 122
>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP;
1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A*
2wwi_A*
Length = 212
Score = 33.7 bits (78), Expect = 0.003
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 40 KAGTTLIVDCYFYSGVVF-ASAKGIDVEWCKA 70
G ++ D Y YSGV + + A ++ WC
Sbjct: 92 LKGIWVVCDRYAYSGVAYSSGALNLNKTWCMN 123
>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A
{Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A*
1tmk_A*
Length = 216
Score = 32.6 bits (75), Expect = 0.005
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 40 KAGTTLIVDCYFYSGVVFASAKGI---DVEWCKAHWAAG 75
G +++D Y YSGV +++AKG D++WC G
Sbjct: 85 LEGKNIVMDRYVYSGVAYSAAKGTNGMDLDWCL-QPDVG 122
>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding,
structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A
{Sulfolobus tokodaii}
Length = 213
Score = 30.7 bits (70), Expect = 0.025
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 40 KAGTTLIVDCYFYSGVVFASAKGIDVEWCKA 70
K+G +I D Y Y+ S +G+D++W K
Sbjct: 84 KSGFIVISDRYIYTAYARDSVRGVDIDWVKK 114
>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP
phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium
tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A*
1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A*
1w2h_A*
Length = 214
Score = 29.6 bits (67), Expect = 0.066
Identities = 8/44 (18%), Positives = 16/44 (36%), Gaps = 8/44 (18%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK------GIDVEWCKA--HWAAG 75
+ +I+D Y S +++A+ G W + G
Sbjct: 86 RGYDVVILDRYVASNAAYSAARLHENAAGKAAAWVQRIEFARLG 129
>3msu_A Citrate synthase; helix bundle, APHA-beta fold, csgid, center for
structural G of infectious diseases, transferase; HET:
OAA; 1.84A {Francisella tularensis}
Length = 427
Score = 25.7 bits (57), Expect = 1.6
Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 17/39 (43%)
Query: 47 VDCYFYSGVVFASAKGIDVE-------------WCKAHW 72
VD FYSG++ A GI + W + W
Sbjct: 367 VD--FYSGIIL-KAMGIPEDMFTAIFALARTSGWI-SQW 401
>1o7x_A Citrate synthase; lyase, tricarboxylic acid cycle; 2.7A {Sulfolobus
solfataricus} SCOP: a.103.1.1
Length = 377
Score = 25.9 bits (58), Expect = 1.6
Identities = 13/39 (33%), Positives = 14/39 (35%), Gaps = 17/39 (43%)
Query: 47 VDCYFYSGVVFASAKGIDVE-------------WCKAHW 72
D FYSG+VF A G V W AH
Sbjct: 312 TD--FYSGIVF-YALGFPVYMFTALFALSRTLGWL-AHI 346
>2imr_A Hypothetical protein DR_0824; zinc, NYSGXRC, PSI2, structural
genomics, protein structure initiative; 1.78A
{Deinococcus radiodurans} SCOP: b.92.1.11 c.1.9.16
Length = 420
Score = 25.1 bits (55), Expect = 3.4
Identities = 4/22 (18%), Positives = 8/22 (36%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK 61
+ G + D + V+ A
Sbjct: 143 RLGAGGVGDIVWAPEVMDALLA 164
>4dzh_A Amidohydrolase; adenosine deaminase, nysgrc, structural GENO YORK
structural genomics research consortium; 1.55A
{Xanthomonas campestris PV}
Length = 472
Score = 24.9 bits (55), Expect = 3.8
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK 61
+ GTT + + YF++ V A K
Sbjct: 130 RGGTTCVNENYFFADVQAAVYK 151
>3l96_A Citrate synthase; quaternary, hexamer, GRAM-negative bacteri
allostery, oxaloacetate, acetylcoa, NADH, allosteric
enzyme transferase; 1.90A {Escherichia coli} PDB:
3l97_A* 3l98_A* 3l99_A 1k3p_A 1nxe_A 1nxg_A* 1owb_A*
1owc_A 4e6y_A
Length = 426
Score = 24.6 bits (54), Expect = 5.2
Identities = 13/39 (33%), Positives = 15/39 (38%), Gaps = 17/39 (43%)
Query: 47 VDCYFYSGVVFASAKGIDVE-------------WCKAHW 72
VD FYSG++ A GI W AHW
Sbjct: 361 VD--FYSGIIL-KAMGIPSSMFTVIFAMARTVGWI-AHW 395
>3v7p_A Amidohydrolase family protein; iron binding site, enzyme functio
initiative, EFI; HET: TLA; 1.35A {Nitratiruptor SP}
Length = 427
Score = 24.5 bits (54), Expect = 5.4
Identities = 6/25 (24%), Positives = 9/25 (36%), Gaps = 1/25 (4%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK-GI 63
+ GTT I Y + A +
Sbjct: 110 QTGTTAIGAISSYGEDLQACIDSAL 134
>2yic_A 2-oxoglutarate decarboxylase; lyase; HET: TPP; 1.96A {Mycobacterium
smegmatis} PDB: 2xta_A* 2y0p_A* 2xt9_A* 2yid_A*
Length = 868
Score = 24.1 bits (53), Expect = 6.3
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 12/33 (36%)
Query: 13 MITQFISSLVRIAGRRVMETKWKATKRKAGTTL 45
+I +FISS G E KW + + L
Sbjct: 628 IIDEFISS-----G----EAKW---GQLSDVVL 648
>4dyk_A Amidohydrolase; adenosine deaminase, nysgrc, structural GENO
PSI-biology, NEW YORK structural genomics research
consorti hydrolase; 2.00A {Pseudomonas aeruginosa}
Length = 451
Score = 24.1 bits (53), Expect = 6.5
Identities = 7/22 (31%), Positives = 8/22 (36%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK 61
K G T D YFY +
Sbjct: 123 KGGITCFSDMYFYPQAICGVVH 144
>2h12_A Citrate synthase; acidophIle, acetic acid resistance, allostery,
transferase; HET: CMX; 1.85A {Acetobacter aceti}
Length = 436
Score = 24.1 bits (53), Expect = 6.7
Identities = 11/39 (28%), Positives = 14/39 (35%), Gaps = 17/39 (43%)
Query: 47 VDCYFYSGVVFASAKGIDVE-------------WCKAHW 72
VD FYSG++ A GI W + W
Sbjct: 370 VD--FYSGIIL-KAMGIPTSMFTVLFAVARTTGWV-SQW 404
>2jgd_A 2-oxoglutarate dehydrogenase E1 component; flavoprotein,
oxidoreductase, thiamine diphosphate, thiamine
pyrophosphate, adenosine monophosphate; HET: AMP; 2.6A
{Escherichia coli} PDB: 2jgd_B*
Length = 933
Score = 24.1 bits (53), Expect = 6.8
Identities = 12/33 (36%), Positives = 14/33 (42%), Gaps = 12/33 (36%)
Query: 13 MITQFISSLVRIAGRRVMETKWKATKRKAGTTL 45
+I QFISS G E KW R G +
Sbjct: 696 VIDQFISS-----G----EQKW---GRMCGLVM 716
>4f0r_A 5-methylthioadenosine/S-adenosylhomocysteine DEAM; structural
genomics, PSI-biology; HET: MSE MTA; 1.80A
{Chromobacterium violaceum} PDB: 4f0s_A*
Length = 447
Score = 24.1 bits (53), Expect = 6.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK 61
+ GTT I D YFY+ V +
Sbjct: 121 RGGTTTINDMYFYNAAVARAGL 142
>2xt6_A 2-oxoglutarate decarboxylase; lyase, KDH, KGD; HET: TPP; 2.74A
{Mycobacterium smegmatis}
Length = 1113
Score = 24.1 bits (53), Expect = 7.0
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 12/33 (36%)
Query: 13 MITQFISSLVRIAGRRVMETKWKATKRKAGTTL 45
+I +FISS G E KW + + L
Sbjct: 873 IIDEFISS-----G----EAKW---GQLSDVVL 893
>3lnp_A Amidohydrolase family protein OLEI01672_1_465; TIM barrel,
beta-fold, structural genomics, PSI-2, protein structure
initiative; HET: MSE; 2.10A {Oleispira antarctica}
Length = 468
Score = 23.7 bits (52), Expect = 7.9
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK 61
++GTT D YFY +A
Sbjct: 143 QSGTTTFADMYFYPQQSGEAAL 164
>1p1m_A Hypothetical protein TM0936; putative metal dependent hydrolase,
PSI, protein structure initiative; 1.50A {Thermotoga
maritima} SCOP: b.92.1.4 c.1.9.9 PDB: 2plm_A* 1j6p_A
Length = 406
Score = 23.7 bits (52), Expect = 9.0
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 40 KAGTTLIVDCYFYSGVVFASAK 61
+ G VD YF+ + + +
Sbjct: 105 RHGIAGFVDMYFHEEWIAKAVR 126
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
0.327 0.133 0.438
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,304,955
Number of extensions: 61146
Number of successful extensions: 145
Number of sequences better than 10.0: 1
Number of HSP's gapped: 145
Number of HSP's successfully gapped: 20
Length of query: 82
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 31
Effective length of database: 5,277,822
Effective search space: 163612482
Effective search space used: 163612482
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.3 bits)