RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16743
(114 letters)
>gnl|CDD|238836 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the
phosphorylation of deoxyribonucleosides to yield
corresponding monophosphates (dNMPs). This family
consists of various deoxynucleoside kinases including
deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC
2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC
2.7.1.21) kinases. They are key enzymes in the salvage
of deoxyribonucleosides originating from extra- or
intracellular breakdown of DNA.
Length = 193
Score = 100 bits (251), Expect = 7e-28
Identities = 39/115 (33%), Positives = 62/115 (53%), Gaps = 6/115 (5%)
Query: 2 RWNFSFQHYVQLTRLQMQTKV----TDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFL 57
RW F FQ Y L+RL+ + + + ERS+ ++R +G + K E+
Sbjct: 51 RWAFPFQLYFLLSRLKQYKDALEHLSTGQGVILERSIFSDRVFAEAN-LKEGGIMKTEYD 109
Query: 58 AMSEWYDWVENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHE 112
+E +D + + DL++YL + P+T +R+ KR RPEE +PLDYL+ LHE
Sbjct: 110 LYNELFDNLIPELLP-PDLVIYLDASPETCLKRIKKRGRPEEQGIPLDYLEDLHE 163
>gnl|CDD|216657 pfam01712, dNK, Deoxynucleoside kinase. This family consists of
various deoxynucleoside kinases cytidine EC:2.7.1.74,
guanosine EC:2.7.1.113, adenosine EC:2.7.1.76 and
thymidine kinase EC:2.7.1.21 (which also phosphorylates
deoxyuridine and deoxycytosine.) These enzymes catalyze
the production of deoxynucleotide 5'-monophosphate from
a deoxynucleoside. Using ATP and yielding ADP in the
process.
Length = 146
Score = 86.6 bits (215), Expect = 4e-23
Identities = 36/106 (33%), Positives = 57/106 (53%)
Query: 7 FQHYVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSEWYDWV 66
Q Y +R + Q +V + ERS+ ++R+ F + +G +S +E+ E YD +
Sbjct: 1 LQTYFLNSRFKQQLSAARDEVVILERSIYSDRYIFAKNLYDKGTMSDEEYKTYKELYDNM 60
Query: 67 ENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHE 112
+ DLI+YL+ P+T ER+ KR R EE + LDYL+ LH
Sbjct: 61 LRQLPKRPDLIIYLKVSPETCLERIKKRGRTEEKNIELDYLELLHS 106
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport and
metabolism].
Length = 216
Score = 50.0 bits (120), Expect = 1e-08
Identities = 39/121 (32%), Positives = 59/121 (48%), Gaps = 14/121 (11%)
Query: 2 RWNFSFQHYVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFLAMSE 61
R+ F Q Y L R + K K + +RS+ + F F ++ A+G LS EF +
Sbjct: 52 RYAFLLQIYFLLNRFKKIKKALSDKNNILDRSIFEDYFLFAKLNFAKGTLSPSEF----K 107
Query: 62 WYDWVENNMDIGL-------DLIVYLRSCPKTVHERMLKRNRPEENCVP---LDYLQSLH 111
+YD + +NM L DL++YL + +T+ R+ KR RP E DYL+ LH
Sbjct: 108 YYDDLYDNMLEELPYLPGRPDLLIYLDASLETLLRRIAKRGRPFEIDNFDENKDYLKDLH 167
Query: 112 E 112
Sbjct: 168 R 168
>gnl|CDD|238988 cd02030, NDUO42, NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is
a family of proteins that are highly similar to
deoxyribonucleoside kinases (dNK). Members of this
family have been identified as one of the subunits of
NADH:Ubiquinone oxioreductase (complex I), a
multi-protein complex located in the inner mitochondrial
membrane. The main function of the complex is to
transport electrons from NADH to ubiquinone, which is
accompanied by the translocation of protons from the
mitochondrial matrix to the inter membrane space.
Length = 219
Score = 42.7 bits (101), Expect = 7e-06
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 6/85 (7%)
Query: 31 ERSLQNNRFCFVEMARAQGFLSKQEFLAMSEWYDWVENNMDIGL--DLIVYLRSCPKTVH 88
ERS ++ F F+E QG++ KQ + + + N + L L++YL V
Sbjct: 102 ERSPFSD-FVFLEAMYKQGYIRKQ---CVDHYNEVKGNTIPELLPPHLVIYLDVPVPEVQ 157
Query: 89 ERMLKRNRPEENCVPLDYLQSLHES 113
+R+ KR P E V YLQ + +
Sbjct: 158 KRIKKRGDPHEMKVTSAYLQDIENA 182
>gnl|CDD|129317 TIGR00213, GmhB_yaeD, D,D-heptose 1,7-bisphosphate phosphatase.
This family of proteins formerly designated yaeD
resembles the histidinol phosphatase domain of the
bifunctional protein HisB. The member from E. coli has
been characterized as D,D-heptose 1,7-bisphosphate
phosphatase, GmhB, involved in inner core LPS assembly
(PMID:11751812) [Cell envelope, Biosynthesis and
degradation of surface polysaccharides and
lipopolysaccharides].
Length = 176
Score = 35.7 bits (82), Expect = 0.002
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 47 AQGFLSKQEFLAMSEWYDWVENNMDIGLDLIVYLRSCPKTVHE 89
A+G+ ++ +F ++EW DW D+ LD I Y P+ V E
Sbjct: 55 ARGYFTEAQFEQLTEWMDWSLAERDVDLDGIYYCPHHPEGVEE 97
>gnl|CDD|222997 PHA03132, PHA03132, thymidine kinase; Provisional.
Length = 580
Score = 35.9 bits (83), Expect = 0.002
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 75 DLIVYLRSCPKTVHERMLKRNRPEENCVPLDYLQSLHES 113
D+IV L+ + R+ KR R EE + L YL+ L+ +
Sbjct: 403 DVIVLLKLNSEENLRRVKKRGRKEEKGINLTYLKELNWA 441
>gnl|CDD|236354 PRK08942, PRK08942, D,D-heptose 1,7-bisphosphate phosphatase;
Validated.
Length = 181
Score = 35.6 bits (83), Expect = 0.002
Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 13/55 (23%)
Query: 47 AQGFLSKQEFLAMSEWYDWVENNMDIGLDLIVYLRSCPKTVHERMLKRNRPEENC 101
A+G ++ + A+ E DW + LD I Y CP PE+ C
Sbjct: 58 ARGLFTEAQLNALHEKMDWSLADRGGRLDGIYY---CPHH----------PEDGC 99
>gnl|CDD|221943 pfam13156, Mrr_cat_2, Restriction endonuclease. Prokaryotic
family found in type II restriction enzymes containing
the hallmark (D/E)-(D/E)XK active site. Presence of
catalytic residues implicates this region in the
enzymatic cleavage of DNA.
Length = 130
Score = 32.8 bits (75), Expect = 0.013
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 51 LSKQEFLAMSEWYDWVE----NNMDIGLDLIVYLR 81
KQE+ + + DW + + D G+DL+ LR
Sbjct: 5 TQKQEYSKVQTYADWAKEQGWDKRDTGIDLVAKLR 39
>gnl|CDD|227226 COG4889, COG4889, Predicted helicase [General function prediction
only].
Length = 1518
Score = 30.2 bits (68), Expect = 0.20
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 52 SKQEFLAMSEWYDWVE--NNMDIGLDLIVY 79
QE+ A+ W DW E D G+DL+
Sbjct: 37 MAQEYDAVWLWIDWPERGGRTDTGIDLVAR 66
>gnl|CDD|234115 TIGR03132, malonate_mdcB, triphosphoribosyl-dephospho-CoA
synthase MdcB. This protein acts in cofactor
biosynthesis, preparing the coenzyme A derivative that
becomes attached to the malonate decarboxylase acyl
carrier protein (or delta subunit). The closely related
protein CitG of citrate lyase produces the same
molecule, but the two families are nonetheless readily
separated [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 272
Score = 29.2 bits (66), Expect = 0.39
Identities = 11/25 (44%), Positives = 12/25 (48%)
Query: 23 TDKKVQLFERSLQNNRFCFVEMARA 47
TD + LF RS R F MA A
Sbjct: 34 TDMDLALFLRSAFALRPYFAAMAEA 58
>gnl|CDD|223315 COG0237, CoaE, Dephospho-CoA kinase [Coenzyme metabolism].
Length = 201
Score = 28.4 bits (64), Expect = 0.59
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 66 VENNMDIGLDLIVYLRSCPKTVHERMLKRNR 96
E + D ++ + + P+ ER++KR+
Sbjct: 116 FEAGGEKYFDKVIVVYAPPEIRLERLMKRDG 146
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 27.7 bits (62), Expect = 1.1
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 75 DLIVYLRSCPKTVHERMLKRNRPEE 99
DL+V LR+ P+ ++ER+ R EE
Sbjct: 84 DLVVVLRADPEVLYERLKGRGYSEE 108
>gnl|CDD|184889 PRK14895, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 513
Score = 27.4 bits (60), Expect = 2.1
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 7/38 (18%)
Query: 34 LQNNR--FCF-----VEMARAQGFLSKQEFLAMSEWYD 64
LQN + +CF +E R Q +KQ F+ SEW D
Sbjct: 92 LQNGKAYYCFTRQEEIERQRQQALENKQHFIFNSEWRD 129
>gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional.
Length = 180
Score = 26.6 bits (59), Expect = 2.4
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 75 DLIVYLRSCPKTVHERMLKR 94
D ++ LR+ PK + ER+ +R
Sbjct: 81 DYVIVLRAHPKIIKERLKER 100
>gnl|CDD|240286 PTZ00139, PTZ00139, Succinate dehydrogenase [ubiquinone]
flavoprotein subunit; Provisional.
Length = 617
Score = 25.9 bits (57), Expect = 5.8
Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 74 LDLIVYLRSCPKTVHERMLKRNRP 97
LD++V+ R+ TV E +LK RP
Sbjct: 428 LDIVVFGRAAANTVME-ILKPGRP 450
>gnl|CDD|223035 PHA03294, PHA03294, envelope glycoprotein H; Provisional.
Length = 835
Score = 25.8 bits (57), Expect = 6.4
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 39 FCFVEMARAQGFLSKQEFLA 58
F FVE ARA G++S E +
Sbjct: 378 FAFVEAARASGYVSLDELID 397
>gnl|CDD|223693 COG0620, MetE, Methionine synthase II (cobalamin-independent)
[Amino acid transport and metabolism].
Length = 330
Score = 25.7 bits (57), Expect = 6.6
Identities = 7/36 (19%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 45 ARAQGFLSKQEFLAM--SEWYDWVENNMDIGLDLIV 78
+G +S++E+ + +++ + GLD++V
Sbjct: 25 KWKKGEISEEEYEEILREAIRRAIKDQEEAGLDVLV 60
>gnl|CDD|240432 PTZ00477, PTZ00477, rhoptry-associated protein; Provisional.
Length = 524
Score = 25.1 bits (55), Expect = 9.8
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 1 MRWNFSFQHYVQLTRLQMQTKVTDKKVQLFERSLQN 36
+R+ FS L L V KK+ L L++
Sbjct: 218 LRFFFSLGKRRYLNELAKDV-VGGKKLDLSHSDLKS 252
>gnl|CDD|225504 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 25.1 bits (55), Expect = 9.8
Identities = 8/33 (24%), Positives = 19/33 (57%)
Query: 8 QHYVQLTRLQMQTKVTDKKVQLFERSLQNNRFC 40
Q Y +L + + + D+ +L +++LQ ++ C
Sbjct: 181 QFYCELAQQALASSDVDRARELLKKALQADKKC 213
>gnl|CDD|233162 TIGR00871, zwf, glucose-6-phosphate 1-dehydrogenase. This enzyme
(EC 1.1.1.49) acts on glucose 6-phospate and reduces
NADP(+). An alternate name appearing in the literature
for the human enzyme, based on a slower activity with
beta-D-glucose, is glucose 1-dehydrogenase (EC
1.1.1.47), but that name more properly describes a
subfamily of the short chain dehydrogenases/reductases
family. This is a well-studied enzyme family, with
sequences available from well over 50 species. The
trusted cutoff is set above the score for the
Drosophila melanogaster CG7140 gene product, a homolog
of unknown function. G6PD homologs from the bacteria
Aquifex aeolicus and Helicobacter pylori lack several
motifs well conserved most other members, were omitted
from the seed alignment, and score well below the
trusted cutoff [Energy metabolism, Pentose phosphate
pathway].
Length = 482
Score = 25.3 bits (56), Expect = 9.8
Identities = 8/56 (14%), Positives = 21/56 (37%)
Query: 2 RWNFSFQHYVQLTRLQMQTKVTDKKVQLFERSLQNNRFCFVEMARAQGFLSKQEFL 57
R + S + + + R + T++ + + Q + + + + S E L
Sbjct: 43 RRDLSVEDFRKQVREAIIKFETEEIDEQLDDFAQRLSYVSGDYDDDESYDSLNEHL 98
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.324 0.134 0.419
Gapped
Lambda K H
0.267 0.0634 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,570,033
Number of extensions: 449859
Number of successful extensions: 544
Number of sequences better than 10.0: 1
Number of HSP's gapped: 539
Number of HSP's successfully gapped: 31
Length of query: 114
Length of database: 10,937,602
Length adjustment: 78
Effective length of query: 36
Effective length of database: 7,477,990
Effective search space: 269207640
Effective search space used: 269207640
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: 53 (24.4 bits)