RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780390|ref|YP_003064803.1| nucleoside diphosphate kinase
[Candidatus Liberibacter asiaticus str. psy62]
(140 letters)
>gnl|CDD|144066 pfam00334, NDK, Nucleoside diphosphate kinase.
Length = 135
Score = 200 bits (510), Expect = 1e-52
Identities = 67/135 (49%), Positives = 91/135 (67%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+T +IKPDAV+R LIG I+ E G +VA K + R+QAE+ Y HK +PFFP L
Sbjct: 1 ERTLVIIKPDAVQRGLIGEIISRFEKKGFKIVALKMLQLTREQAEEHYAEHKGKPFFPGL 60
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLK 123
V+ M SGPV VL+GE A++ RE+MG T+P +A GTIR + +SIG N++HGSDS +
Sbjct: 61 VEFMTSGPVVAMVLEGENAVAVVRELMGATNPAEAAPGTIRGDFAVSIGRNAVHGSDSPE 120
Query: 124 TALEEISYWFARNEI 138
+A EI+ +F EI
Sbjct: 121 SAEREIALFFPEEEI 135
>gnl|CDD|58528 cd04413, NDPk_I, Nucleoside diphosphate kinase Group I
(NDPk_I)-like: NDP kinase domains are present in a large
family of structurally and functionally conserved
proteins from bacteria to humans that generally catalyze
the transfer of gamma-phosphates of a nucleoside
triphosphate (NTP) donor onto a nucleoside diphosphate
(NDP) acceptor through a phosphohistidine intermediate.
The mammalian nm23/NDP kinase gene family can be divided
into two distinct groups. The group I genes encode
proteins that generally have highly homologous
counterparts in other organisms and possess the classic
enzymatic activity of a kinase. This group includes
vertebrate NDP kinases A-D (Nm23- H1 to -H4), and its
counterparts in bacteria, archea and other eukaryotes.
NDP kinases exist in two different quaternary
structures; all known eukaryotic enzymes are hexamers,
while some bacterial enzymes are tetramers, as in
Myxococcus. They possess the NDP kinase active site
motif (NXXH[G/A]SD) and the nine residues that are most
essential for catalysis..
Length = 130
Score = 186 bits (474), Expect = 2e-48
Identities = 64/130 (49%), Positives = 86/130 (66%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+T +IKPD V+R LIG I+ E GL +VA K + + AE+ Y HK +PFFPEL
Sbjct: 1 ERTLVIIKPDGVQRGLIGEIISRFERKGLKIVALKMLQLTEELAEEHYAEHKGKPFFPEL 60
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLK 123
V+ M SGPV VL+GE A+ R++MG T+P A GTIR + +SIG N +HGSDS++
Sbjct: 61 VEFMTSGPVVAMVLEGENAVKTVRKLMGATNPADAAPGTIRGDFALSIGRNIVHGSDSVE 120
Query: 124 TALEEISYWF 133
+A EI+ WF
Sbjct: 121 SAEREIALWF 130
>gnl|CDD|30454 COG0105, Ndk, Nucleoside diphosphate kinase [Nucleotide transport
and metabolism].
Length = 135
Score = 182 bits (464), Expect = 3e-47
Identities = 67/134 (50%), Positives = 94/134 (70%)
Query: 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
+E+T S+IKPDAVKR LIG I+ E GL +VA K ++R+ AE+ Y HK +PFF E
Sbjct: 2 MERTLSIIKPDAVKRGLIGEIISRFEKKGLKIVALKMVQLSRELAENHYAEHKGKPFFGE 61
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSL 122
LV+ + SGPV VL+GE AIS R++MG T+P A GTIR + +S+GEN +HGSDS
Sbjct: 62 LVEFITSGPVVAMVLEGENAISVVRKLMGATNPANAAPGTIRGDFALSVGENVVHGSDSP 121
Query: 123 KTALEEISYWFARN 136
++A EI+ +F+++
Sbjct: 122 ESAEREIALFFSKS 135
>gnl|CDD|73220 cd00595, NDPk, Nucleoside diphosphate kinases (NDP kinases, NDPks):
NDP kinases, responsible for the synthesis of nucleoside
triphosphates (NTPs), are involved in numerous
regulatory processes associated with proliferation,
development, and differentiation. They are vital for
DNA/RNA synthesis, cell division, macromolecular
metabolism and growth. The enzymes generate NTPs or
their deoxy derivatives by terminal (gamma)
phosphotransfer from an NTP such as ATP or GTP to any
nucleoside diphosphate (NDP) or its deoxy derivative.
The sequence of NDPk has been highly conserved through
evolution. There is a single histidine residue conserved
in all known NDK isozymes, which is involved in the
catalytic mechanism. The first confirmed metastasis
suppressor gene was the NDP kinase protein encoded by
the nm23 gene. Unicellular organisms generally possess
only one gene encoding NDP kinase, while most
multicellular organisms possess not only an ortholog
that provides most of the NDP kinase enzymatic activity
but also multiple divergent paralogous genes. The human
genome codes for at least nine NDP kinases and can be
classified into two groups, Groups I and II, according
to their genomic architecture and distinct enzymatic
activity. Group I isoforms (A-D) are well-conserved,
catalytically active, and share 58-88% identity between
each other, while Group II are more divergent, with only
NDPk6 shown to be active. NDP kinases exist in two
different quaternary structures; all known eukaryotic
enzymes are hexamers, while some bacterial enzymes are
tetramers, as in Myxococcus. The hexamer can be viewed
as trimer of dimers, while tetramers are dimers of
dimers, with the dimerization interface conserved..
Length = 133
Score = 138 bits (348), Expect = 7e-34
Identities = 58/133 (43%), Positives = 91/133 (68%), Gaps = 3/133 (2%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+T ++IKPDAV L+G I+ +ED G +VA K + +QAE+FY+ HK RPFFP+L
Sbjct: 1 ERTLALIKPDAVAEGLLGEIIMRIEDAGFEIVAMKELHLTEEQAEEFYVEHKGRPFFPDL 60
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALK---GTIRNKYGISIGENSIHGSD 120
VQ M SGPV +L+ + A+ + RE++G T+P+ A G++R +G + N++HGSD
Sbjct: 61 VQFMSSGPVVAMILEKDNAVGEWREMLGPTNPEIARHLAPGSLRADFGTDVLRNAVHGSD 120
Query: 121 SLKTALEEISYWF 133
S+++A EI+++F
Sbjct: 121 SVESAAREIAFFF 133
>gnl|CDD|36106 KOG0888, KOG0888, KOG0888, Nucleoside diphosphate kinase
[Nucleotide transport and metabolism].
Length = 156
Score = 131 bits (331), Expect = 6e-32
Identities = 61/140 (43%), Positives = 87/140 (62%), Gaps = 3/140 (2%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+TF +IKPD V+R LIG I+K ED G +VA K ++++ E+ Y K +PFFP L
Sbjct: 6 ERTFILIKPDGVQRGLIGEIIKRFEDKGFKIVALKLVQLSKELLEEHYSDLKSKPFFPGL 65
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALK---GTIRNKYGISIGENSIHGSD 120
V+ M SGPV VL+G+ + R ++G T+P A G+IR +G+ G NSIHGSD
Sbjct: 66 VEYMSSGPVVAMVLEGDNVVQYWRALLGPTNPAAARAAAPGSIRGDFGVDDGRNSIHGSD 125
Query: 121 SLKTALEEISYWFARNEIIG 140
S+++A EI WF E++
Sbjct: 126 SVESAEREIKLWFPEFELVV 145
>gnl|CDD|58530 cd04415, NDPk7A, Nucleoside diphosphate kinase 7 domain A (NDPk7A):
The nm23-H7 class of nucleoside diphosphate kinase
(NDPk7) consists of an N-terminal DM10 domain and two
functional catalytic NDPk modules, NDPk7A and NDPk7B.
The function of the DM10 domain, which also occurs in
multiple copies in other proteins, is unknown. NDPk7 is
predominantly expressed in testes, although appreciable
amount are also found in liver, heart, brain, ovary,
small intestine and spleen. The nm23-H7 gene is located
in or near the hereditary prostrate cancer
susceptibility locus. Nm23-H7 may be involved in the
development of colon and gastric carcinoma, the latter
possibly in a type-specific manner..
Length = 131
Score = 111 bits (279), Expect = 6e-26
Identities = 53/133 (39%), Positives = 84/133 (63%), Gaps = 5/133 (3%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
EKT ++IKPDA + IG I++ +ED G + AK ++RK+A+DFY H+ +PF+ EL
Sbjct: 1 EKTLALIKPDAYSK--IGKIIQIIEDAGFTITKAKMTKLSRKEAQDFYAEHQSKPFYNEL 58
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTD---PKKALKGTIRNKYGISIGENSIHGSD 120
VQ M SGP+ L G++AIS+ R+++G T+ + +IR +G N+ HGSD
Sbjct: 59 VQFMTSGPIVAMELVGDDAISEWRKLLGPTNSSVARSDAPNSIRALFGTDGTRNAAHGSD 118
Query: 121 SLKTALEEISYWF 133
S+ +A E+ ++F
Sbjct: 119 SVASAARELEFFF 131
>gnl|CDD|58529 cd04414, NDPk6, Nucleoside diphosphate kinase 6 (NDP kinase 6,
NDPk6, NM23-H6; NME6; Inhibitor of p53-induced
apoptosis-alpha, IPIA-alpha): The nm23-H6 gene encoding
NDPk6 is expressed mainly in mitochondria, but also
found at a lower level in most tissues. NDPk6 has all
nine residues considered crucial for enzyme structure
and activity, and has been found to have NDP kinase
activity. It may play a role in cell growth and cell
cycle progression. The nm23-H6 gene locus has been
implicated in a variety of malignant tumors..
Length = 135
Score = 103 bits (259), Expect = 1e-23
Identities = 49/137 (35%), Positives = 69/137 (50%), Gaps = 10/137 (7%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKEL-EDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
+ T ++IKPDAV L V++L G +V K + AE FY HK + F+
Sbjct: 1 QLTLALIKPDAVAHPLALEAVRQLILSNGFTIVRKKELRWTTEDAERFYAEHKGKFFYDR 60
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKG------TIRNKYGISIGENSI 116
LV M SGP + +L E AI R +MG P K + +IR YG++ N+
Sbjct: 61 LVSFMTSGPSWALILAHENAIKTWRALMG---PTKVFRARASAPDSIRGLYGLTDTRNAT 117
Query: 117 HGSDSLKTALEEISYWF 133
HGSDS +A EI+ +F
Sbjct: 118 HGSDSPASAQREIALFF 134
>gnl|CDD|58531 cd04416, NDPk_TX, NDP kinase domain of thioredoxin
domain-containing proteins (TXNDC3 and TXNDC6): Txl-2
(TXNDC6) and Sptrx-2 (TXNDC3) are fusion proteins of
Group II N-terminal thioredoxin domains followed by one
or three NDP kinase domains, respectively. Sptrx-2,
which has a tissue specific distribution in human
testis, has been considered as a member of the nm23
family (nm23-H8) and exhibits a high homology with sea
urchin IC1 (intermediate chain-1) protein, a component
of the sperm axonemal outer dynein arm complex. Txl-2 is
mainly represented in close association with
microtubules within tissues with cilia and flagella such
as seminiferous epithelium (spermatids) and lung airway
epithelium, suggesting possible role in control of
microtubule stability and maintenance..
Length = 132
Score = 97.5 bits (243), Expect = 1e-21
Identities = 46/133 (34%), Positives = 81/133 (60%), Gaps = 4/133 (3%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E T ++IKPDAV I++++++ G ++A K + +QA +FY H++ +F +L
Sbjct: 1 EYTLALIKPDAVAEK-KDEILEKIKEAGFEILAQKEMVLTEEQAREFYKEHEEEDYFEDL 59
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALK---GTIRNKYGISIGENSIHGSD 120
V+ M SGP + VL E A+ + RE+MG TDP++A + ++R ++ N++HGS
Sbjct: 60 VEFMTSGPSLILVLSKENAVEEWRELMGPTDPEEAKEEKPDSLRAQFARDHLSNAVHGSS 119
Query: 121 SLKTALEEISYWF 133
S + A +EI ++F
Sbjct: 120 SAEEAEKEIDFFF 132
>gnl|CDD|58527 cd04412, NDPk7B, Nucleoside diphosphate kinase 7 domain B (NDPk7B):
The nm23-H7 class of nucleoside diphosphate kinase
(NDPk7) consists of an N-terminal DM10 domain and two
functional catalytic NDPk modules, NDPk7A and NDPk7B.
The function of the DM10 domain, which also occurs in
multiple copies in other proteins, is unknown. NDPk7 is
predominantly expressed in testes, although appreciable
amount are also found in liver, heart, brain, ovary,
small intestine and spleen. The nm23-H7 gene is located
in or near the hereditary prostrate cancer
susceptibility locus. Nm23-H7 may be involved in the
development of colon and gastric carcinoma, the latter
possibly in a type-specific manner..
Length = 134
Score = 91.0 bits (226), Expect = 1e-19
Identities = 41/132 (31%), Positives = 69/132 (52%), Gaps = 4/132 (3%)
Query: 6 TFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKD-RPFFPELV 64
T +IKP AV L+G I++++ D G + A + + R AE+F ++K P P +V
Sbjct: 3 TVCIIKPHAVSHGLLGEILQQILDEGFEITALQMFNLTRANAEEFLEVYKGVVPELPAMV 62
Query: 65 QAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALK---GTIRNKYGISIGENSIHGSDS 121
+ SGP + GE A+ RE G DP+ A + T+R +YG +N++H +D
Sbjct: 63 DELTSGPCIALEIAGENAVKTFREFCGPFDPEIAKQLRPNTLRARYGKDKVQNAVHCTDL 122
Query: 122 LKTALEEISYWF 133
+ E+ ++F
Sbjct: 123 PEDGPLELKFFF 134
>gnl|CDD|58532 cd04418, NDPk5, Nucleoside diphosphate kinase homolog 5 (NDP kinase
homolog 5, NDPk5, NM23-H5; Inhibitor of p53-induced
apoptosis-beta, IPIA-beta): In human, mRNA for NDPk5 is
almost exclusively found in testis, especially in the
flagella of spermatids and spermatozoa, in association
with axoneme microtubules, and may play a role in
spermatogenesis by increasing the ability of late-stage
spermatids to eliminate reactive oxygen species. It
belongs to the nm23 Group II genes and appears to differ
from the other human NDPks in that it lacks two
important catalytic site residues, and thus does not
appear to possess NDP kinase activity. NDPk5 confers
protection from cell death by Bax and alters the
cellular levels of several antioxidant enzymes,
including glutathione peroxidase 5 (Gpx5)..
Length = 132
Score = 86.1 bits (213), Expect = 3e-18
Identities = 51/134 (38%), Positives = 73/134 (54%), Gaps = 7/134 (5%)
Query: 4 EKTFSMIKPDAV-KRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
E+T ++IKPDAV K I I+ E G +V + ++ +Q DFY H + FFP
Sbjct: 1 ERTLAIIKPDAVHKAEEIEDIILE---SGFTIVQKRKLQLSPEQCSDFYAEHYGKMFFPH 57
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALK---GTIRNKYGISIGENSIHGS 119
LV M SGP+ VL AIS +E++G T+ KA + ++R YG N++HGS
Sbjct: 58 LVAYMSSGPIVAMVLARHNAISYWKELLGPTNSLKAKETHPDSLRAIYGTDDLRNAVHGS 117
Query: 120 DSLKTALEEISYWF 133
DS +A EI + F
Sbjct: 118 DSFSSAEREIRFMF 131
>gnl|CDD|30200 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK) catalyzes
the phosphorylation of adenosine 5'-phosphosulfate to
form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The
end-product PAPS is a biologically "activated" sulfate
form important for the assimilation of inorganic
sulfate..
Length = 149
Score = 25.8 bits (57), Expect = 4.5
Identities = 30/95 (31%), Positives = 38/95 (40%), Gaps = 24/95 (25%)
Query: 20 IGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKG 79
I + K L D GL V+AA F R+ DR E + +I G FL+V
Sbjct: 60 IAEVAKLLADAGLIVIAA-FISPYRE----------DR----EAARKIIGGGDFLEVF-- 102
Query: 80 EEAISKNREVMGDTDPK----KALKGTIRNKYGIS 110
+ EV DPK KA G I+ GI
Sbjct: 103 ---VDTPLEVCEQRDPKGLYKKARAGEIKGFTGID 134
>gnl|CDD|37592 KOG2381, KOG2381, KOG2381, Phosphatidylinositol 4-kinase [Signal
transduction mechanisms].
Length = 286
Score = 25.7 bits (56), Expect = 4.9
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 6/70 (8%)
Query: 53 IHKDRPFFPELVQAMISGPVFLQVLKGE-EAISK--NREVMGDTDPKKAL---KGTIRNK 106
++ FPEL+ G F+Q G + K + E +PK +G K
Sbjct: 6 EAIEKGIFPELLPLGSGGAYFMQDTSGWIVGVFKPKDEEPYARNNPKGTKVLQRGQCGCK 65
Query: 107 YGISIGENSI 116
+G +
Sbjct: 66 RSCLVGNSGY 75
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
0.320 0.137 0.402
Gapped
Lambda K H
0.267 0.0844 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,687,250
Number of extensions: 80089
Number of successful extensions: 208
Number of sequences better than 10.0: 1
Number of HSP's gapped: 196
Number of HSP's successfully gapped: 17
Length of query: 140
Length of database: 6,263,737
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,448,581
Effective search space: 249120536
Effective search space used: 249120536
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (23.6 bits)