RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780629|ref|YP_003065042.1| putative deoxyribonucleotide
triphosphate pyrophosphatase [Candidatus Liberibacter asiaticus str.
psy62]
(224 letters)
>gnl|CDD|145072 pfam01725, Ham1p_like, Ham1 family. This family consists of the
HAM1 protein and hypothetical archaeal bacterial and C.
elegans proteins. HAM1 controls 6-N-hydroxylaminopurine
(HAP) sensitivity and mutagenesis in S. cerevisiae HAM1.
The HAM1 protein protects the cell from HAP, either on
the level of deoxynucleoside triphosphate or the DNA
level by a yet unidentified set of reactions.
Length = 181
Score = 204 bits (522), Expect = 2e-53
Identities = 86/208 (41%), Positives = 123/208 (59%), Gaps = 29/208 (13%)
Query: 9 IVIASHNVDKIHEMDSLIMPLGIMTTSALELNLIIPEETGNSFEENAMIKSLTAAKNAGM 68
IV A+ N K+ E+ +++ LGI I EETG++FEENA++K+ AAK G
Sbjct: 1 IVFATGNKGKLKEIKAILGDLGIEVIDLKHDP-IEVEETGDTFEENALLKAKAAAKALGK 59
Query: 69 PALSDDSGLVIDVLDGKPGIHSARWAESNTGERDFDMAMQKIENALRSKFAHDPAFRSAH 128
P L+DDSGL +D L+G PG++SAR+A++ E+ ++ ++ +E+ RSA+
Sbjct: 60 PVLADDSGLCVDALNGFPGVYSARFADTLNNEKLLEL-LEGVED------------RSAY 106
Query: 129 FISVLSLAWPDGHVENFSGKVSGIIVWPPRGQLGFGYDPIFQPNGYDRTFGEMTEEEKNG 188
F+ V++LA PDG V F G V G IV PRG+ GFGYDPIF P GY +TF EM+EEEKN
Sbjct: 107 FVCVIALADPDGKVLVFEGIVEGEIVEEPRGEGGFGYDPIFIPPGYGKTFAEMSEEEKN- 165
Query: 189 GIDSATLFSILSTDLLSHRARAFKCFVD 216
+SHR +A + +
Sbjct: 166 --------------KISHRGKALRKLKE 179
>gnl|CDD|29953 cd00515, HAM1, NTPase/HAM1. This family consists of the HAM1
protein and pyrophosphate-releasing xanthosine/ inosine
triphosphatase. HAM1 protects the cell against
mutagenesis by the base analog 6-N-hydroxylaminopurine
(HAP) in E. Coli and S. cerevisiae. A Ham1-related
protein from Methanococcus jannaschii is a novel NTPase
that has been shown to hydrolyze nonstandard nucleotides
such as XTP to XMP and ITP to IMP, but not the standard
nucleotides, in the presence of Mg or Mn ions. The
enzyme exists as a homodimer. The HAM1 protein may be
acting as an NTPase by hydrolyzing the HAP
triphosphate..
Length = 183
Score = 198 bits (504), Expect = 1e-51
Identities = 86/208 (41%), Positives = 118/208 (56%), Gaps = 26/208 (12%)
Query: 9 IVIASHNVDKIHEMDSLIMPLGIMTTSALELNLIIPEETGNSFEENAMIKSLTAAKNAGM 68
IV A+ N K+ E ++ P GI S ++ I EETG++FEENA++K+ AA+ G+
Sbjct: 1 IVFATGNKGKLKEFKEILAPFGIEVVSLKDI--IDIEETGSTFEENALLKARAAAEALGL 58
Query: 69 PALSDDSGLVIDVLDGKPGIHSARWAESNTGERDFDMAMQKIENALRSKFAHDPAFRSAH 128
P L+DDSGL +D L+G PG++SAR+A GE D +K+ L RSA+
Sbjct: 59 PVLADDSGLCVDALNGFPGVYSARFA----GEHDDAENNEKLLELLE-----GDEDRSAY 109
Query: 129 FISVLSLAWPDGHVENFSGKVSGIIVWPPRGQLGFGYDPIFQPNGYDRTFGEMTEEEKNG 188
F+ V++L PDG F G+V G IV PRG GFGYDPIF P GY +TF EM+ EEKN
Sbjct: 110 FVCVIALVDPDGEPLVFEGEVEGKIVTEPRGTGGFGYDPIFIPEGYGKTFAEMSPEEKNA 169
Query: 189 GIDSATLFSILSTDLLSHRARAFKCFVD 216
+SHR +A + +
Sbjct: 170 ---------------ISHRGKALRKLKE 182
>gnl|CDD|30476 COG0127, COG0127, Xanthosine triphosphate pyrophosphatase
[Nucleotide transport and metabolism].
Length = 194
Score = 195 bits (498), Expect = 7e-51
Identities = 89/209 (42%), Positives = 121/209 (57%), Gaps = 25/209 (11%)
Query: 9 IVIASHNVDKIHEMDSLIMPLGIMTTSALELNLII-PEETGNSFEENAMIKSLTAAKNAG 67
IV+A+ N K+ E+ S++ P GI S EL + I EETG +FEENA++K+ AAK G
Sbjct: 4 IVLATGNKGKLRELKSILAPGGIEIESLKELGVEIEVEETGLTFEENALLKARAAAKATG 63
Query: 68 MPALSDDSGLVIDVLDGKPGIHSARWAESNTGERDFDMAMQKIENALRSKFAHDPAFRSA 127
+P ++DDSGL +D L+G PG++SAR+A GE D + +K+ L RSA
Sbjct: 64 LPVIADDSGLCVDALNGFPGVYSARFA----GEADDTIGNEKLLKLLEGV-----PDRSA 114
Query: 128 HFISVLSLAWPDGHVENFSGKVSGIIVWPPRGQLGFGYDPIFQPNGYDRTFGEMTEEEKN 187
+F+ V+ LA G F G+V G I PRG+ GFGYDPIF P GY +TF E++ EEKN
Sbjct: 115 YFVCVIVLARDGGEPIVFEGEVEGEIAREPRGEGGFGYDPIFIPEGYGKTFAELSTEEKN 174
Query: 188 GGIDSATLFSILSTDLLSHRARAFKCFVD 216
+SHRARA K +
Sbjct: 175 A---------------ISHRARALKKLKE 188
>gnl|CDD|38432 KOG3222, KOG3222, KOG3222, Inosine triphosphate pyrophosphatase
[Nucleotide transport and metabolism].
Length = 195
Score = 80.7 bits (199), Expect = 3e-16
Identities = 63/215 (29%), Positives = 98/215 (45%), Gaps = 33/215 (15%)
Query: 4 LIENNIVIASHNVDKIHEMDSLIMPLGIMTTSALELNLIIPEETGNSFEENAMIKSLTAA 63
++ I + N K+ E+ +++ + + ++L +PE G S EE A+ K AA
Sbjct: 2 VMSREINFVTGNAKKLEEVRAILGD-SFPYCTLINIDLDLPEIQG-SPEEIAIEKCKVAA 59
Query: 64 KNAGMPALSDDSGLVIDVLDGKPGIHSARWAESNTGERDFDMAMQKIENALRSKFAHDPA 123
+ P L +D+ L + L G PG + +W G + K EN
Sbjct: 60 EIVKGPVLVEDTSLCFNALGGLPGPY-IKWFLKKLGPEGLHEMLSKFEN----------- 107
Query: 124 FRSAHFISVLSLAWPDGH--VENFSGKVSGIIVWPPRGQLGFGYDPIFQPNGYDRTFGEM 181
+SA+ + A G V F+G+ G IV PPRG FG+DPIFQP+GY++T+ EM
Sbjct: 108 -KSAYALCTFGYADGRGAKPVHTFAGETEGSIV-PPRGPTDFGWDPIFQPDGYEQTYAEM 165
Query: 182 TEEEKNGGIDSATLFSILSTDLLSHRARAFKCFVD 216
++EKN +SHR RA +
Sbjct: 166 PKDEKN---------------AISHRYRALAKLKE 185
>gnl|CDD|73242 cd00985, Maf_Ham1, Maf_Ham1. Maf, a nucleotide binding protein, has
been implicated in inhibition of septum formation in
eukaryotes, bacteria and archaea. A Ham1-related protein
from Methanococcus jannaschii is a novel NTPase that has
been shown to hydrolyze nonstandard nucleotides, such as
hypoxanthine/xanthine NTP, but not standard
nucleotides..
Length = 131
Score = 65.3 bits (159), Expect = 1e-11
Identities = 37/152 (24%), Positives = 71/152 (46%), Gaps = 36/152 (23%)
Query: 9 IVIASHNVDKIHEMDSL------IMPLGIMTTSALELNLIIPEETGNSFEENAMIKSLTA 62
+++AS + ++ E+ + ++P I T + E ++ EE A++K+
Sbjct: 1 LILASGSPRRLEELKQIGGIEFEVLPSDIDETG-------LKGEPEDTVEELALLKARAV 53
Query: 63 AKN-AGMPALSDDSGLVIDVLDGKPGIHSARWAESNTGERDFDMAMQKIENALRSKFAHD 121
A+ P ++DD+GLV+D G+PG AR+AE+ ++ +
Sbjct: 54 AERLPDAPVIADDTGLVVD---GRPGGKPARFAEAL-------EMLRGLSG--------- 94
Query: 122 PAFRSAHFISVLSLAWPDGHVENFSGKVSGII 153
R+A F++ ++L PDG + F G+ G I
Sbjct: 95 ---RTAEFVTAVALVDPDGKIITFEGETEGKI 123
>gnl|CDD|39490 KOG4289, KOG4289, KOG4289, Cadherin EGF LAG seven-pass G-type
receptor [Signal transduction mechanisms].
Length = 2531
Score = 31.9 bits (72), Expect = 0.13
Identities = 15/31 (48%), Positives = 19/31 (61%)
Query: 53 ENAMIKSLTAAKNAGMPALSDDSGLVIDVLD 83
EN+ A++ G P LS+ SGLVI VLD
Sbjct: 440 ENSEYTLRIRAQDGGRPPLSNTSGLVIQVLD 470
>gnl|CDD|145115 pfam01784, NIF3, NIF3 (NGG1p interacting factor 3). This family
contains several NIF3 (NGG1p interacting factor 3)
protein homologues. NIF3 interacts with the yeast
transcriptional coactivator NGG1p which is part of the
ADA complex, the exact function of this interaction is
unknown.
Length = 238
Score = 27.6 bits (62), Expect = 2.7
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 2 RKLIENNI-VIASH-NVDKIHE--MDSLIMPLGIMTTSALELNLIIPEE 46
KLI+NNI + ++H N+D D L LG+ LE + E
Sbjct: 82 LKLIKNNISLYSAHTNLDAAPGGVNDWLAELLGLENIEPLEPKTVSEGE 130
>gnl|CDD|32509 COG2362, DppA, D-aminopeptidase [Amino acid transport and
metabolism].
Length = 274
Score = 27.6 bits (61), Expect = 2.8
Identities = 19/101 (18%), Positives = 35/101 (34%), Gaps = 9/101 (8%)
Query: 40 NLIIPEETGNSFEENAMIKSLTAAKNAGMPA--LSDDSGLVIDVLDGKPGIHSARWAESN 97
+ I + NA A G+P +S D + + P I + E++
Sbjct: 124 RVRINGVEVGEYGLNAY-----LAGEYGVPVALVSGDDVAAREARELTPWIETVAVKEAS 178
Query: 98 TGERDFDMAMQKIENALRSKFAHDPAFRSAHFISVLSLAWP 138
+ ++ K E A+R A + ++ L A P
Sbjct: 179 SRSAAISLSPAKAEKAIREAVRA--AVQRKLSLAPLRPADP 217
>gnl|CDD|37359 KOG2148, KOG2148, KOG2148, Exocyst protein Sec3 [Intracellular
trafficking, secretion, and vesicular transport].
Length = 867
Score = 27.3 bits (60), Expect = 3.2
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 178 FGEMTEEEKNG-GIDSATLFSILSTDLLSHRARAFKCFVDN-CLRIDE 223
F MTE + D A+ S+ LL R F F+ N C +I+E
Sbjct: 586 FVIMTEHVLSAQKADPASFLSLTLGSLLVRVKRQFDRFIQNQCSQIEE 633
>gnl|CDD|176475 cd08638, DNA_pol_A_theta, DNA polymerase theta is a low-fidelity
family A enzyme implicated in translesion synthesis and
in somatic hypermutation. DNA polymerase theta is a
low-fidelity family A enzyme implicated in translesion
synthesis (TLS) and in somatic hypermutation (SHM).
DNA-dependent DNA polymerases can be classified in six
main groups based upon phylogenetic relationships with
E. coli polymerase I (classA), E. coli polymerase II
(class B), E.coli polymerase III (class C),
euryarchaaeota polymerase II (class D), human polymerase
beta (class x), E. coli UmuC/DinB and eukaryotic RAP
30/Xeroderma pigmentosum variant (class Y). Family A
polymerase functions primarily to fill DNA gaps that
arise during DNA repair, recombination and replication.
Pol theta is an exception among family A polymerases and
generates processive single base substitutions. Family A
polymerase are found primarily in organisms related to
prokaryotes and include prokaryotic DNA polymerase I
(pol I) ,mitochondrial polymerase delta, and several
bacteriphage polymerases including those from
odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is
have two functional domains located on the same
polypeptide; a 5'-3' polymerase and 5'-3' exonuclease.
Pol I uses its 5' nuclease activity to remove the
ribonucleotide portion of newly synthesized Okazaki
fragments and DNA polymerase activity to fill in the
resulting gap. Polymerase theta mostly has
amino-terminal helicase domain, a carboxy-terminal
polymerase domain and an intervening space region.
Length = 373
Score = 26.0 bits (58), Expect = 7.6
Identities = 15/53 (28%), Positives = 19/53 (35%), Gaps = 13/53 (24%)
Query: 86 PGIHSARWAESNTGER------------D-FDMAMQKIENALRSKFAHDPAFR 125
P I+S +E ER D +AM I L S + PA R
Sbjct: 267 PEINSGNSSERAQAERQAVNTVIQGSAADIMKIAMINIHEKLHSLLPNLPAGR 319
>gnl|CDD|48437 cd01902, Ntn_CGH, Choloylglycine hydrolase (CGH) is a bile
salt-modifying enzyme that hydrolyzes non-peptide
carbon-nitrogen bonds in choloylglycine and
choloyltaurine, both of which are present in bile. CGH
is present in a number of probiotic microbial organisms
that inhabit the gut. CGH has an N-terminal
nucleophilic cysteine, as do other members of the Ntn
hydrolase family to which CGH belongs..
Length = 291
Score = 25.6 bits (56), Expect = 9.9
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 70 ALSDDSG--LVIDVLDGKPGIHSARWAESNTGERDFDMAMQKIENALRSKFAHD 121
++SD +G +I+ +DGK IH + + T +D Q N +
Sbjct: 143 SISDATGDSAIIEYIDGKLVIHHGKQYQVMTNSPTYD--QQLALNKYWKQEKDI 194
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.318 0.135 0.400
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,729,282
Number of extensions: 141605
Number of successful extensions: 319
Number of sequences better than 10.0: 1
Number of HSP's gapped: 307
Number of HSP's successfully gapped: 22
Length of query: 224
Length of database: 6,263,737
Length adjustment: 90
Effective length of query: 134
Effective length of database: 4,318,927
Effective search space: 578736218
Effective search space used: 578736218
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (24.9 bits)