RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 035377
(66 letters)
>1zzm_A Putative deoxyribonuclease YJJV; hydrolaze, zinc, PEG, structural
genomics, PSI; HET: P33; 1.80A {Escherichia coli} SCOP:
c.1.9.12
Length = 259
Score = 60.6 bits (148), Expect = 3e-13
Identities = 14/66 (21%), Positives = 24/66 (36%)
Query: 1 MKLFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVIPC 60
+ D HCH P + +GV V E++ V ++E + +
Sbjct: 3 CRFIDTHCHFDFPPFSGDEEASLQRAAQAGVGKIIVPATEAENFARVLALAENYQPLYAA 62
Query: 61 FGVHPW 66
G+HP
Sbjct: 63 LGLHPG 68
>2y1h_A Putative deoxyribonuclease tatdn3; hydrolase; 2.50A {Homo
sapiens}
Length = 272
Score = 58.7 bits (143), Expect = 2e-12
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 1 MKLFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVI-P 59
+ L D HCHL P ++ + V+ ++ + +SER+ + P
Sbjct: 4 VGLVDCHCHLSAPDFDRDLDDVLEKAKKANVVALVAVAEHSGEFEKIMQLSERYNGFVLP 63
Query: 60 CFGVHP 65
C GVHP
Sbjct: 64 CLGVHP 69
>1xwy_A DNAse TATD, deoxyribonuclease TATD; TIM barrael, zinc ION,
structural genomics, PSI, protein structure initiative;
2.00A {Escherichia coli} SCOP: c.1.9.12
Length = 264
Score = 54.4 bits (132), Expect = 5e-11
Identities = 12/65 (18%), Positives = 28/65 (43%)
Query: 1 MKLFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVIPC 60
++FD +L + ++A ++GV + G + + + ++ ++ S
Sbjct: 3 YRMFDIGVNLTSSQFAKDRDDVVACAFDAGVNGLLITGTNLRESQQAQKLARQYSSCWST 62
Query: 61 FGVHP 65
GVHP
Sbjct: 63 AGVHP 67
>3gg7_A Uncharacterized metalloprotein; structural genomics, unknown
function, plasmid, PSI-2, protein structure initiative;
1.50A {Deinococcus radiodurans}
Length = 254
Score = 53.7 bits (130), Expect = 8e-11
Identities = 15/65 (23%), Positives = 20/65 (30%), Gaps = 4/65 (6%)
Query: 1 MKLFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVIPC 60
M L D H HL + P +A L + W ++ P V
Sbjct: 1 MSLIDFHVHLD----LYPDPVAVARACEERQLTVLSVTTTPAAWRGTLALAAGRPHVWTA 56
Query: 61 FGVHP 65
G HP
Sbjct: 57 LGFHP 61
>1j6o_A TATD-related deoxyribonuclease; structural genomics, TM0667,
JCSG, PSI, protein structure initiative, joint center
for structural genomics; 1.80A {Thermotoga maritima}
SCOP: c.1.9.12
Length = 268
Score = 53.7 bits (130), Expect = 1e-10
Identities = 15/65 (23%), Positives = 26/65 (40%)
Query: 1 MKLFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVIPC 60
+ D H HL + +I++ + + GV+ ED D+S+ +
Sbjct: 11 HHMVDTHAHLHFHQFDDDRNAVISSFEENNIEFVVNVGVNLEDSKKSLDLSKTSDRIFCS 70
Query: 61 FGVHP 65
GVHP
Sbjct: 71 VGVHP 75
>2gzx_A Putative TATD related DNAse; deoxyribonuclease, NESG, ZR237,
structural GENO PSI, protein structure initiative;
2.20A {Staphylococcus aureus subsp}
Length = 265
Score = 52.5 bits (127), Expect = 2e-10
Identities = 14/63 (22%), Positives = 24/63 (38%)
Query: 3 LFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVIPCFG 62
L D H HL D + ++I +GV V G ++ + + + + G
Sbjct: 2 LIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIG 61
Query: 63 VHP 65
HP
Sbjct: 62 WHP 64
>3rcm_A TATD family hydrolase; HET: CIT; 2.05A {Pseudomonas putida}
Length = 287
Score = 52.6 bits (127), Expect = 3e-10
Identities = 12/69 (17%), Positives = 26/69 (37%), Gaps = 4/69 (5%)
Query: 1 MKLFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSVIPC 60
M+L D +L + + ++ + +GV + G S ++ ++ +
Sbjct: 1 MQLIDIGVNLTNSSFHDQQAAIVERALEAGVTQMLLTGTSLAVSEQALELCQQLDASGAH 60
Query: 61 F----GVHP 65
GVHP
Sbjct: 61 LFATAGVHP 69
>1yix_A Deoxyribonuclease YCFH; TIM barrel, zinc ION, NEW YORK SGX center
for structural genomics, nysgxrc; 1.90A {Escherichia
coli} SCOP: c.1.9.12
Length = 265
Score = 51.4 bits (124), Expect = 6e-10
Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 3/68 (4%)
Query: 1 MKLFDAHCHLQDPR---IFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERHPSV 57
M L D+HCHL + ++A V + + ++D+ +V
Sbjct: 1 MFLVDSHCHLDGLDYESLHKDVDDVLAKAAARDVKFCLAVATTLPSYLHMRDLVGERDNV 60
Query: 58 IPCFGVHP 65
+ GVHP
Sbjct: 61 VFSCGVHP 68
>2xio_A Putative deoxyribonuclease tatdn1; hydrolase; 1.19A {Homo
sapiens}
Length = 301
Score = 46.1 bits (110), Expect = 5e-08
Identities = 16/75 (21%), Positives = 25/75 (33%), Gaps = 10/75 (13%)
Query: 1 MKLFDAHCHLQDPRIFHKA----------PQLIATTVNSGVLHFAVNGVSEEDWNLVKDM 50
MK D +L DP +I V GV F + G + +D +
Sbjct: 1 MKFIDIGINLTDPMFRGIYRGVQKHQDDLQDVIGRAVEIGVKKFMITGGNLQDSKDALHL 60
Query: 51 SERHPSVIPCFGVHP 65
++ + G HP
Sbjct: 61 AQTNGMFFSTVGCHP 75
>3ipw_A Hydrolase TATD family protein; niaid, ssgcid, seattle structural
genomics center for infect disease, dysentery, liver
abcess; 1.95A {Entamoeba histolytica hm-1}
Length = 325
Score = 42.3 bits (100), Expect = 1e-06
Identities = 10/81 (12%), Positives = 25/81 (30%), Gaps = 17/81 (20%)
Query: 1 MKLFDAHCHLQDPRIFHKA-----------PQLIATTVNSGVLHFAVNGVSEEDWNLVKD 49
+ D +L D + ++ +G+ H + D+ +
Sbjct: 26 QQFIDIGANLTDDN-YFGNYHGKHYHEEDIDVVLQRAERNGLSHIIITSGCLNDFKKAIE 84
Query: 50 MSERHPSVIPCF-----GVHP 65
+ ++ ++ GVHP
Sbjct: 85 IINKYQNLTNIKLVTTIGVHP 105
>3e2v_A 3'-5'-exonuclease; structural genomics, hydrolase, PSI-2, protein
initiative, NEW YORK SGX research center for structural
GEN nysgxrc; 1.50A {Saccharomyces cerevisiae}
Length = 401
Score = 41.2 bits (96), Expect = 3e-06
Identities = 17/81 (20%), Positives = 27/81 (33%), Gaps = 17/81 (20%)
Query: 1 MKLFDAHCHLQDPRIFHKA-----------PQLIATTVNSGVLHFAVNGVSEEDWNLVKD 49
+K +D +L DP FH +L+ V + V G S + +
Sbjct: 12 LKYYDIGLNLTDPM-FHGIYNGKQYHPADYVKLLERAAQRHVKNALVTGSSIAESQSAIE 70
Query: 50 MSERHPSVIPCF-----GVHP 65
+ + P GVHP
Sbjct: 71 LVSSVKDLSPLKLYHTIGVHP 91
>3guw_A Uncharacterized protein AF_1765; alpha-beta protein, structural
genomics, PSI-2, protein structure initiative; 3.20A
{Archaeoglobus fulgidus dsm 4304}
Length = 261
Score = 27.3 bits (61), Expect = 0.26
Identities = 11/78 (14%), Positives = 20/78 (25%), Gaps = 20/78 (25%)
Query: 3 LFDAHCHLQDPRIFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDM------------ 50
FD+H H + F + + +G+ + M
Sbjct: 2 YFDSHLHS-EGLGFSE----LVKLKENGIKEVCSLAFFPVKPKYPQTMIDVFRKLTEFEP 56
Query: 51 ---SERHPSVIPCFGVHP 65
+ P G+HP
Sbjct: 57 LRCEAAGVKMHPAVGIHP 74
>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET:
GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP:
b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*
Length = 594
Score = 26.1 bits (58), Expect = 0.78
Identities = 6/37 (16%), Positives = 9/37 (24%), Gaps = 2/37 (5%)
Query: 31 VLHFAVNGVSEEDWNLVKDMSERHPS--VIPCFGVHP 65
+ + VS D + I F V
Sbjct: 377 IKVADIGDVSRRDVVNAGIALQEDRVYGAIIAFNVKV 413
>1q1o_A Cell division control protein 24; PB1 domain, PCCR, PC motif,
OPCA motif, yeast, cell polarity, protein-protein
interaction; NMR {Saccharomyces cerevisiae} SCOP:
d.15.2.2 PDB: 2kfj_A 2kfk_B
Length = 98
Score = 24.6 bits (53), Expect = 2.2
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 40 SEEDWNLVKDM 50
S+EDWN+ K+M
Sbjct: 74 SDEDWNVAKEM 84
>3pzl_A Agmatine ureohydrolase; structural genomics, PSI-2, protein
structure initiative, NE SGX research center for
structural genomics; 2.70A {Thermoplasma volcanium GSS1}
Length = 313
Score = 24.0 bits (53), Expect = 3.7
Identities = 14/72 (19%), Positives = 23/72 (31%), Gaps = 15/72 (20%)
Query: 4 FDAHCHLQDPR---------IFHKAPQLIATTVNSGVLHFAVNGVSEEDWNLVKDMSERH 54
DAH + + +A L+ + + VS E++ +D R
Sbjct: 143 VDAHSDFRSSYMGNKYNHACVTRRALDLLGEG---RITSIGIRSVSREEF---EDPDFRK 196
Query: 55 PSVIPCFGVHPW 66
S I F V
Sbjct: 197 VSFISSFDVKKN 208
>1gkr_A Hydantoinase, non-ATP dependent L-selective hydantoinase;
hydrolase, dihydropyrimidinase, cyclic amidase; HET:
KCX; 2.60A {Arthrobacter aurescens} SCOP: b.92.1.3
c.1.9.6
Length = 458
Score = 24.1 bits (53), Expect = 4.2
Identities = 4/15 (26%), Positives = 8/15 (53%)
Query: 5 DAHCHLQDPRIFHKA 19
D H H+ D + ++
Sbjct: 58 DEHVHIIDMDLKNRY 72
>3e74_A Allantoinase; (beta/alpha)8-barrel domain, small beta-sheet
domain, hydrolase, metal-binding, purine metabolism,
zinc; HET: KCX; 2.10A {Escherichia coli}
Length = 473
Score = 23.7 bits (52), Expect = 4.6
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 5 DAHCHLQDPRIFHK 18
DAH H+ +P H
Sbjct: 77 DAHTHISEPGRSHW 90
>2fty_A Dihydropyrimidinase; alpha/beta barrel, beta-sandwich, hydrolase;
HET: KCX; 2.40A {Lachancea kluyveri} SCOP: b.92.1.3
c.1.9.6 PDB: 2fvk_A* 2fvm_A*
Length = 559
Score = 24.0 bits (52), Expect = 4.8
Identities = 5/9 (55%), Positives = 7/9 (77%)
Query: 5 DAHCHLQDP 13
DAH H+ +P
Sbjct: 59 DAHVHVDEP 67
>1gkp_A Hydantoinase; hydrolase, dihydropyrimidinase, cyclic amidase;
HET: KCX EPE; 1.29A {Thermus SP} SCOP: b.92.1.3 c.1.9.6
PDB: 1gkq_A*
Length = 458
Score = 23.7 bits (52), Expect = 5.2
Identities = 4/9 (44%), Positives = 5/9 (55%)
Query: 5 DAHCHLQDP 13
D H H+ P
Sbjct: 56 DPHVHIYLP 64
>2vr2_A Dihydropyrimidinase; hydantoinase, metal-binding, disease
mutation, dihydropyrimi amidohydrolase, nucleotide
metabolism, DPYS, dhpase, hydrolase; 2.80A {Homo
sapiens}
Length = 541
Score = 23.8 bits (52), Expect = 5.7
Identities = 5/9 (55%), Positives = 6/9 (66%)
Query: 5 DAHCHLQDP 13
D H H+Q P
Sbjct: 87 DTHTHMQFP 95
>2ffi_A 2-pyrone-4,6-dicarboxylic acid hydrolase, putativ; TIM-barrel
protein., structural genomics, PSI, protein struc
initiative; 2.61A {Pseudomonas putida} SCOP: c.1.9.15
Length = 288
Score = 23.7 bits (51), Expect = 5.8
Identities = 3/14 (21%), Positives = 6/14 (42%)
Query: 1 MKLFDAHCHLQDPR 14
+ D+H H+
Sbjct: 12 LTAIDSHAHVFSRG 25
>3dc8_A Dihydropyrimidinase; TIM-barrel, hydrolase; HET: KCX; 1.85A
{Sinorhizobium meliloti}
Length = 490
Score = 23.3 bits (51), Expect = 6.3
Identities = 5/9 (55%), Positives = 6/9 (66%)
Query: 5 DAHCHLQDP 13
D H HL+ P
Sbjct: 54 DPHTHLEMP 62
>1nfg_A D-hydantoinase; TIM barrel, hydrolase; HET: KCX; 2.70A {Ralstonia
pickettii} SCOP: b.92.1.3 c.1.9.6
Length = 457
Score = 23.6 bits (52), Expect = 6.3
Identities = 3/9 (33%), Positives = 5/9 (55%)
Query: 5 DAHCHLQDP 13
D H H++
Sbjct: 55 DVHTHVETV 63
>2ftw_A Dihydropyrimidine amidohydrolase; (beta-alpha)8-barrel,
beta-sandwich; HET: KCX; 2.05A {Dictyostelium
discoideum} SCOP: b.92.1.3 c.1.9.6
Length = 521
Score = 23.4 bits (51), Expect = 7.0
Identities = 5/9 (55%), Positives = 5/9 (55%)
Query: 5 DAHCHLQDP 13
D H H Q P
Sbjct: 64 DTHTHFQLP 72
>3sfw_A Dihydropyrimidinase; hydrolase, zinc binding; HET: KCX; 1.73A
{Brevibacillus agri} PDB: 1yny_A 1k1d_A*
Length = 461
Score = 23.3 bits (51), Expect = 7.3
Identities = 5/9 (55%), Positives = 5/9 (55%)
Query: 5 DAHCHLQDP 13
D H HL P
Sbjct: 56 DPHTHLDMP 64
>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 = 23.3 bits (51), Expect = 8.1
Identities = 4/14 (28%), Positives = 5/14 (35%)
Query: 5 DAHCHLQDPRIFHK 18
D H H +P
Sbjct: 63 DVHVHFNEPGRTEW 76
>2qee_A BH0493 protein; amidohydrolase, structural genomics, PSI-2,
protein structure initiative; 1.65A {Bacillus
halodurans c-125} PDB: 3hka_A* 2q6e_A 3hk5_A* 3hk7_A*
3hk8_A* 3hk9_A* 2q08_A* 2pnk_A*
Length = 437
Score = 23.1 bits (49), Expect = 8.7
Identities = 5/16 (31%), Positives = 6/16 (37%), Gaps = 1/16 (6%)
Query: 1 MKLFDAHCHLQDPRIF 16
+ D H HL F
Sbjct: 22 QPVTDMHTHL-FSPNF 36
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
0.325 0.138 0.470
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,036,456
Number of extensions: 45602
Number of successful extensions: 195
Number of sequences better than 10.0: 1
Number of HSP's gapped: 190
Number of HSP's successfully gapped: 29
Length of query: 66
Length of database: 6,701,793
Length adjustment: 37
Effective length of query: 29
Effective length of database: 5,668,716
Effective search space: 164392764
Effective search space used: 164392764
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)