RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6661
(172 letters)
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 132 bits (333), Expect = 1e-39
Identities = 55/165 (33%), Positives = 95/165 (57%), Gaps = 4/165 (2%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDEDKLL 67
I ITGTPG GK+T+C+ + + + I++N++A+EN Y +YDE + +D DKL
Sbjct: 1 MLIAITGTPGVGKTTVCKLLREL--GYKVIELNELAKENGLYTEYDELRKSVIVDVDKLR 58
Query: 68 DELEPRVQGGGKIIDYHSAEMFPERWIDQVYVLSADNTTLYDRLVEKGQSGKKLQDNLQC 127
LE ++ G I+D H + + P+ D V VL AD LY+RL +G S +K+ +N++
Sbjct: 59 KRLEELLREGSGIVDSHLSHLLPD--CDLVVVLRADPEVLYERLKGRGYSEEKILENVEA 116
Query: 128 EIFQTILEEARDSYKEDIVVSLPSNTHDDMSSNVTSIIQFVKQWK 172
EI IL EA + ++ I V + + ++++ + II ++ +
Sbjct: 117 EILDVILIEAVERFEAVIEVDTTNRSPEEVAEEIIDIIGGGRKKR 161
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 88.7 bits (220), Expect = 3e-23
Identities = 54/132 (40%), Positives = 76/132 (57%), Gaps = 14/132 (10%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDE--QYECPELDED--- 64
ILITGTPG+GK+TL +E+ + + +A+EN L+ DE E LDED
Sbjct: 1 ILITGTPGSGKTTLAKELAE----RLGDVLRDLAKENGLVLELDEEITDESKRLDEDKLA 56
Query: 65 KLLDELE----PRVQGGGKIIDYHSAEMFPERWIDQVYV-LSADNTTLYDRLVEKGQSGK 119
KLLD+LE +G IID H AE+ ER+ D V+V L AD L +RL ++G S +
Sbjct: 57 KLLDKLEKIIEELAEGENVIIDGHLAELELERFKDLVFVVLRADPEELLERLKKRGYSEE 116
Query: 120 KLQDNLQCEIFQ 131
K+ +N + EI +
Sbjct: 117 KISENDEAEILK 128
>gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional.
Length = 180
Score = 66.7 bits (163), Expect = 2e-14
Identities = 46/163 (28%), Positives = 86/163 (52%), Gaps = 7/163 (4%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDEDKLLDE 69
I ITGTPG GK+T+ + + ++ E++D+ + A + + D++ E +D DKL
Sbjct: 3 IAITGTPGVGKTTVSKLLAEKL-GYEYVDLTEFALKKGIGEEKDDEME---IDFDKLAYF 58
Query: 70 LEPRVQGGGKIIDYHSAEMFPERWIDQVYVLSADNTTLYDRLVEKGQSGKKLQDNLQCEI 129
+E + ++D H + + P +D V VL A + +RL E+G S KK+ +N++ E+
Sbjct: 59 IEEEFKEKNVVLDGHLSHLLP---VDYVIVLRAHPKIIKERLKERGYSKKKILENVEAEL 115
Query: 130 FQTILEEARDSYKEDIVVSLPSNTHDDMSSNVTSIIQFVKQWK 172
L EA + ++ I V T +++ + +I+ K+ K
Sbjct: 116 VDVCLCEALEEKEKVIEVDTTGKTPEEVVEEILELIKSGKKRK 158
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 59.2 bits (143), Expect = 4e-12
Identities = 27/114 (23%), Positives = 51/114 (44%), Gaps = 8/114 (7%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDEDKLLDE 69
ILITG PG+GKSTL +++ ++ + I ++ + RE D + + ++D + L +
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLG-IPVISLDDLLREEGLAELDDGELDDIDIDLELLEEI 60
Query: 70 LEPRVQGGGKIIDYHSAEMFPERW------IDQVYVLSADNTTLYDRLVEKGQS 117
L+ + +ID R + L A L R +++G+
Sbjct: 61 LDELAK-QEWVIDGVRESTLELRLEEADLVVFLDLPLPACRFRLLKRRLQRGRG 113
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 38.0 bits (89), Expect = 4e-04
Identities = 18/110 (16%), Positives = 41/110 (37%), Gaps = 9/110 (8%)
Query: 5 RTKPNILITGTPGTGKSTLCEEVVKQ--CDSLEWIDVNKIARENQFYLKYDEQ--YECPE 60
R ++TG G+GK+TL + +Q + +++ + K
Sbjct: 2 RGAGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSG 61
Query: 61 LDEDKLLDELEPRVQGGGK---IIDYHSAEMFPERWIDQVYVLSADNTTL 107
+LL+ + ++ G+ IID A+ ++++ L +
Sbjct: 62 GTTAELLEAILDALKRRGRPLLIID--EAQHLSLEALEELRDLYDLSEKG 109
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 38.3 bits (89), Expect = 5e-04
Identities = 23/100 (23%), Positives = 36/100 (36%), Gaps = 10/100 (10%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDE-- 63
P++L+TG GTGK++L E+++ A N Y L E
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLVAAG--KCDQAERNPPY------AFSQALRELL 74
Query: 64 DKLLDELEPRVQGGGKIIDYHSAEMFPERWIDQVYVLSAD 103
+LL EL + + + E D V +L
Sbjct: 75 RQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERL 114
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase
fold. The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons,
ATPase subunits of proteases, helicases, or
nucleic-acid stimulated ATPases. The AAA+ proteins
contain several distinct features in addition to the
conserved alpha-beta-alpha core domain structure and
the Walker A and B motifs of the P-loop NTPases.
Length = 151
Score = 37.9 bits (88), Expect = 6e-04
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 5 RTKPNILITGTPGTGKSTLCEEVVKQC 31
N+L+ G PGTGK+TL + +
Sbjct: 17 PPPKNLLLYGPPGTGKTTLARAIANEL 43
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 36.0 bits (84), Expect = 0.002
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCD 32
+L+ G PGTGK+TL + V K+
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELG 23
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 36.0 bits (84), Expect = 0.003
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 9 NILITGTPGTGKSTLCEEVVKQCDSLEWI 37
I ITG PG GK+TL ++V++ S
Sbjct: 1 RIFITGPPGVGKTTLVKKVIELLKSEGVK 29
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 35.6 bits (83), Expect = 0.004
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 10 ILITGTPGTGKSTLCEE 26
I+ITG P TGK+TL E
Sbjct: 2 IVITGGPSTGKTTLLEA 18
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only
detects a fraction of this vast family. The poorly
conserved N-terminal helix is missing from the
alignment.
Length = 148
Score = 35.4 bits (81), Expect = 0.006
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVKQCD 32
ILI G PG+GK+TL + ++
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELG 27
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 35.3 bits (82), Expect = 0.006
Identities = 41/176 (23%), Positives = 75/176 (42%), Gaps = 17/176 (9%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKI--AREN----QFYLKYDEQYECP 59
NI++ G G GKST+ + K + L +ID ++ R + + + E+
Sbjct: 1 RNMNIVLIGFMGAGKSTIGRALAKALN-LPFIDTDQEIEKRTGMSIAEIFEEEGEEGFR- 58
Query: 60 ELDEDKLLDELEPRVQ----GGGKIIDYHSAEMFPERWIDQVYVLSADNTTLYDRLVEKG 115
L+ + L + LE GGG ++ + + +R I V L A TLY+RL
Sbjct: 59 RLETEVLKELLEEDNAVIATGGGAVLSEENRNLLKKRGI--VVYLDAPFETLYERLQRD- 115
Query: 116 QSGKKLQDNLQCEIFQTILEEARDSYKEDIVVSLPSNTHDDMSSNVTSIIQFVKQW 171
+ LQ E + +LEE + Y+E + ++ + V I++ ++
Sbjct: 116 RKRPLLQTEDPREELEELLEERQPLYREVADFIIDTDDRSE--EVVEEILEALEGS 169
>gnl|CDD|217424 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 126
Score = 33.9 bits (78), Expect = 0.012
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQC 31
P +L+ G +GK+TL +++
Sbjct: 1 PIVLVVGPKDSGKTTLIRKLLNYL 24
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and
related GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 34.6 bits (80), Expect = 0.016
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 12 ITGTPGTGKSTLCEEVVKQ 30
ITG PG GKSTL E + ++
Sbjct: 56 ITGVPGAGKSTLIEALGRE 74
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is one
of the Kai proteins among which direct protein-protein
association may be a critical process in the generation
of circadian rhythms in cyanobacteria.
Length = 231
Score = 34.1 bits (79), Expect = 0.018
Identities = 18/93 (19%), Positives = 31/93 (33%), Gaps = 31/93 (33%)
Query: 9 NILITGTPGTGKSTLC------------------------EEVVKQCDSLEWIDVNKIAR 44
+LITG PGTGK+ E++ + S W D+ K+
Sbjct: 21 VVLITGGPGTGKTIFGLQFLYNGALEYGEPGVYVTLEEPPEDLRENAKSFGW-DLEKLEE 79
Query: 45 ENQFYL------KYDEQYECPELDEDKLLDELE 71
E + + D ++L++ L
Sbjct: 80 EGKLAIIDASTSGIGIAEVKGRFDLEELIERLR 112
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is a
important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 33.7 bits (78), Expect = 0.021
Identities = 37/164 (22%), Positives = 68/164 (41%), Gaps = 26/164 (15%)
Query: 9 NILITGTPGTGKSTLCEEVVKQCDSLEWIDVNK-IARE-----NQFYLKYDEQY--ECPE 60
NI++ G G GK+T+ + K L ++D+++ I + + + + E+ E E
Sbjct: 1 NIVLIGMMGAGKTTVGRLLAKAL-GLPFVDLDELIEQRAGMSIPEIFAEEGEEGFREL-E 58
Query: 61 LDEDKLLDELEPRV--QGGGKIIDYHSAEMFPER----WIDQVYVLSADNTTLYDRLVEK 114
+ LL E V GGG ++ + + E W+D A L +RL
Sbjct: 59 REVLLLLLTKENAVIATGGGAVLREENRRLLLENGIVVWLD------ASPEELLERLARD 112
Query: 115 GQSGKKLQDNLQCEIFQTILEEARDSYKE--DIVVSLPSNTHDD 156
LQD + + +LEE Y+E D+ + + ++
Sbjct: 113 KTRP-LLQDEDPERL-RELLEEREPLYREVADLTIDTDELSPEE 154
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family
includes the NTP binding domain of F1 and V1 H+ATPases,
DnaB and related helicases as well as bacterial RecA
and related eukaryotic and archaeal recombinases. This
group also includes bacterial conjugation proteins and
related DNA transfer proteins involved in type II and
type IV secretion.
Length = 165
Score = 33.6 bits (77), Expect = 0.024
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 9 NILITGTPGTGKSTLCEEVVKQCDS 33
IL+ G G+GK+TL ++ +
Sbjct: 1 LILVFGPTGSGKTTLALQLALNIAT 25
>gnl|CDD|220739 pfam10412, TrwB_AAD_bind, Type IV secretion-system coupling
protein DNA-binding domain. The plasmid conjugative
coupling protein TrwB forms hexamers from six
structurally very similar protomers. This hexamer
contains a central channel running from the cytosolic
pole (made up by the AADs) to the membrane pole ending
at the transmembrane pore shaped by 12 transmembrane
helices, rendering an overall mushroom-like structure.
The TrwB_AAD (all-alpha domain) domain appears to be
the DNA-binding domain of the structure. TrwB, a basic
integral inner-membrane nucleoside-triphosphate-binding
protein, is the structural prototype for the type IV
secretion system coupling proteins, a family of
proteins essential for macromolecular transport between
cells and export.
Length = 386
Score = 33.7 bits (78), Expect = 0.031
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 9 NILITGTPGTGKSTLCEEVVKQC 31
+ILI GT GTGK+ E++ Q
Sbjct: 17 HILIVGTTGTGKTQALRELLDQI 39
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 33.0 bits (76), Expect = 0.035
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 9 NILITGTPGTGKSTLCEEVVKQC 31
ILI G PG GKSTL +++ K+
Sbjct: 2 RILILGPPGAGKSTLAKKLAKKL 24
>gnl|CDD|239388 cd03114, ArgK-like, The function of this protein family is
unkown. The protein sequences are similar to the ArgK
protein in E. coli. ArgK protein is a membrane ATPase
which is required for transporting arginine, ornithine
and lysine into the cells by the arginine and ornithine
(AO system) and lysine, arginine and ornithine (LAO)
transport systems.
Length = 148
Score = 32.7 bits (75), Expect = 0.047
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 12 ITGTPGTGKSTLCEEVVK 29
ITG PG GKSTL + ++
Sbjct: 4 ITGVPGAGKSTLIDALIT 21
>gnl|CDD|238977 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein
superfamily consisting of multiple families of enzymes
that share structural similarity and are functionally
related to the catalysis of the reversible phosphate
group transfer from nucleoside triphosphates to
nucleosides/nucleotides, nucleoside monophosphates, or
sugars. Members of this family play a wide variety of
essential roles in nucleotide metabolism, the
biosynthesis of coenzymes and aromatic compounds, as
well as the metabolism of sugar and sulfate.
Length = 69
Score = 31.2 bits (71), Expect = 0.048
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEW 36
I ITG G+GKST+ +++ +Q
Sbjct: 2 IAITGGSGSGKSTVAKKLAEQLGGRSV 28
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 32.2 bits (74), Expect = 0.059
Identities = 9/29 (31%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWID 38
I++ G G+GKST+ + + ++ + +ID
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGA-PFID 29
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 31.8 bits (73), Expect = 0.066
Identities = 17/68 (25%), Positives = 25/68 (36%), Gaps = 4/68 (5%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDEDK 65
I+ITG GK+TL + +K+ S + +N D E +L
Sbjct: 1 NNKIIVITGPRQVGKTTLLLQFLKELLSENILYINLDDPRFLRLALLDLLEEFLKLLLPG 60
Query: 66 ----LLDE 69
LDE
Sbjct: 61 KKYLFLDE 68
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily. Many of the proteins in this family
are conjugative transfer proteins.
Length = 316
Score = 32.4 bits (74), Expect = 0.077
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 8 PNILITGTPGTGKSTL 23
PN+LI G G+GKSTL
Sbjct: 2 PNMLIVGPSGSGKSTL 17
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 32.2 bits (74), Expect = 0.081
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 9 NILITGTPGTGKSTLCEEVVK 29
I ITG PG GK+TL ++ +
Sbjct: 2 KIGITGPPGVGKTTLVLKIAE 22
>gnl|CDD|223315 COG0237, CoaE, Dephospho-CoA kinase [Coenzyme metabolism].
Length = 201
Score = 32.3 bits (74), Expect = 0.089
Identities = 32/146 (21%), Positives = 55/146 (37%), Gaps = 43/146 (29%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYEC-------PELD 62
I +TG G+GKST+ +++ + ID + +AR + E + LD
Sbjct: 5 IGLTGGIGSGKSTVA-KILAELG-FPVIDADDVAR--EVVEPGGEALQEIAERFGLEILD 60
Query: 63 EDKLLD----------------ELE----PRV-QGGGKIIDYHSA-----------EMFP 90
ED LD +LE P + +ID + E
Sbjct: 61 EDGGLDRRKLREKVFNDPEARLKLEKILHPLIRAEIKVVIDGARSPYVVLEIPLLFEAGG 120
Query: 91 ERWIDQVYVLSADNTTLYDRLVEKGQ 116
E++ D+V V+ A +RL+++
Sbjct: 121 EKYFDKVIVVYAPPEIRLERLMKRDG 146
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 32.1 bits (74), Expect = 0.10
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 8 PNILITGTPGTGKST----LCEEVVKQCDSLEWIDVN 40
N+LI G PGTGK+T + EE+ + + ++ +N
Sbjct: 56 LNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN 92
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 31.9 bits (73), Expect = 0.13
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVKQ 30
NI+I G GTGK+ + V+++
Sbjct: 41 RPSNIIIYGPTGTGKTATVKFVMEE 65
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 31.4 bits (72), Expect = 0.14
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 10 ILITGTPGTGKSTLCEEVV---KQCDSLEWIDV 39
+ I G PG GKSTL E + +Q L I V
Sbjct: 36 VGIAGPPGAGKSTLAEFLEALLQQDGELPAIQV 68
>gnl|CDD|224533 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 179
Score = 31.1 bits (71), Expect = 0.17
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 9 NILITGTPGTGKSTLCEEVV 28
I ITG PG GK+TL ++
Sbjct: 7 KIFITGRPGVGKTTLVLKIA 26
>gnl|CDD|224930 COG2019, AdkA, Archaeal adenylate kinase [Nucleotide transport
and metabolism].
Length = 189
Score = 31.2 bits (71), Expect = 0.17
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 10 ILITGTPGTGKSTLCEEVVK 29
++ITG PG GK+T+ + +K
Sbjct: 7 VVITGVPGVGKTTVLKIALK 26
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an
ATPase enzyme and as a kinase, and phosphorylates
periplasmic binding proteins involved in the LAO
(lysine, arginine, ornithine)/AO transport systems.
Length = 267
Score = 31.6 bits (72), Expect = 0.17
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 12 ITGTPGTGKSTLCEEVVK 29
ITG PG GKSTL E +
Sbjct: 34 ITGVPGAGKSTLIEALGM 51
>gnl|CDD|236515 PRK09435, PRK09435, membrane ATPase/protein kinase; Provisional.
Length = 332
Score = 31.3 bits (72), Expect = 0.19
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 12 ITGTPGTGKSTLCE 25
ITG PG GKST E
Sbjct: 61 ITGVPGVGKSTFIE 74
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 31.0 bits (71), Expect = 0.19
Identities = 7/21 (33%), Positives = 16/21 (76%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
+++TG PG GK+T+ + +++
Sbjct: 5 VVVTGVPGVGKTTVLNKALEK 25
>gnl|CDD|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
is not related to archael radA any more than is to other
RecA-like NTPases. Sms has a role in recombination and
recombinational repair and is responsible for the
stabilization or processing of branched DNA molecules.
Length = 372
Score = 31.4 bits (72), Expect = 0.20
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 10 ILITGTPGTGKSTLCEEVVKQC 31
ILI G PG GKSTL +V +
Sbjct: 85 ILIGGDPGIGKSTLLLQVAARL 106
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 29.1 bits (66), Expect = 0.22
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 9 NILITGTPGTGKSTL 23
L+TG G+GKSTL
Sbjct: 23 GTLLTGPSGSGKSTL 37
>gnl|CDD|234011 TIGR02782, TrbB_P, P-type conjugative transfer ATPase TrbB. The
TrbB protein is found in the trb locus of Agrobacterium
Ti plasmids where it is involved in the type IV
secretion system for plasmid conjugative transfer. TrbB
is a homolog of the vir system VirB11 ATPase , and the
Flp pilus sytem ATPase TadA [Cellular processes,
Conjugation].
Length = 299
Score = 31.2 bits (71), Expect = 0.23
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 5 RTKPNILITGTPGTGKSTLCEEVVKQ 30
+ NIL+ G G+GK+TL ++ +
Sbjct: 130 LARKNILVVGGTGSGKTTLANALLAE 155
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the
ATP synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor
Rho.
Length = 213
Score = 30.9 bits (71), Expect = 0.24
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKI 42
I I G GTGK+ L + + + DV ++
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKA----DVVEV 46
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family
are found in a variety of single stranded RNA viruses.
Length = 105
Score = 29.9 bits (68), Expect = 0.26
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ-CDSLEWIDVNKI 42
I + G PG GKSTL + + + L + +
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSV 34
>gnl|CDD|215920 pfam00437, T2SE, Type II/IV secretion system protein. This family
contains both type II and type IV pathway secretion
proteins from bacteria. VirB11 ATPase is a subunit of
the Agrobacterium tumefaciens transfer DNA (T-DNA)
transfer system, a type IV secretion pathway required
for delivery of T-DNA and effector proteins to plant
cells during infection.
Length = 273
Score = 30.7 bits (70), Expect = 0.27
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 9 NILITGTPGTGKSTL 23
NIL++G G+GK+TL
Sbjct: 131 NILVSGGTGSGKTTL 145
>gnl|CDD|236994 PRK11823, PRK11823, DNA repair protein RadA; Provisional.
Length = 446
Score = 30.8 bits (71), Expect = 0.28
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 10 ILITGTPGTGKSTL 23
+LI G PG GKSTL
Sbjct: 83 VLIGGDPGIGKSTL 96
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in
this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 30.5 bits (69), Expect = 0.32
Identities = 35/138 (25%), Positives = 56/138 (40%), Gaps = 21/138 (15%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIAREN--------QFYLKYDEQYECPEL 61
I I+G PG+GK+T+ + + ++ SL+ I I RE +L Y E E PE+
Sbjct: 3 ITISGPPGSGKTTVAKILAEKL-SLKLISAGDIFRELAAKMGLDLIEFLNYAE--ENPEI 59
Query: 62 DEDKLLDELEPRVQGGGK--IIDYHSAEMFPERWIDQVYVLSADNTTLYDRLVEKGQSGK 119
DK +D + K +++ A + D L A R+ ++ GK
Sbjct: 60 --DKKIDRRIHEIALKEKNVVLESRLAGWIVREYADVKIWLKAPLEVRARRIAKR--EGK 115
Query: 120 KLQDNLQCEIFQTILEEA 137
L +TI E
Sbjct: 116 SLTVARS----ETIEREE 129
>gnl|CDD|213965 TIGR04352, HprK_rel_A, HprK-related kinase A. A number of protein
families resemble HPr kinase (see TIGR00679) but do not
belong to that system. They include this family, which
appears instead to be the marker for a different type of
gene neighborhood, in which one of the conserved
neighboring proteins resembles (but is distinct from)
PqqD.
Length = 280
Score = 30.7 bits (70), Expect = 0.32
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 10 ILITGTPGTGKSTLC 24
+++ PG+GKSTLC
Sbjct: 111 LILPAPPGSGKSTLC 125
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 30.2 bits (69), Expect = 0.34
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 9 NILITGTPGTGKSTL 23
N+L+ G PG+GK+ L
Sbjct: 24 NLLMIGPPGSGKTML 38
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. In E. coli,
mutation of this kinase blocks phosphorylation of two
transporter system periplasmic binding proteins and
consequently inhibits those transporters. This kinase
is also found in Gram-positive bacteria, archaea, and
the roundworm C. elegans. It may have a more general,
but still unknown function. Mutations have also been
found that do not phosphorylate the periplasmic binding
proteins, yet still allow transport. The ATPase
activity of this protein seems to be necessary, however
[Transport and binding proteins, Amino acids, peptides
and amines, Regulatory functions, Protein
interactions].
Length = 300
Score = 30.5 bits (69), Expect = 0.35
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 12 ITGTPGTGKSTLCEEVVK 29
ITGTPG GKSTL E +
Sbjct: 39 ITGTPGAGKSTLLEALGM 56
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 30.7 bits (70), Expect = 0.37
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 8/44 (18%)
Query: 106 TLYDRLVEKGQSGKKLQDNLQCEIFQTILEEARDSYKEDIVVSL 149
TL D L+++G SG E+ + +L AR Y+ D + L
Sbjct: 273 TLDDLLIDEGLSGG--------EVLEELLRVARSRYRGDNLARL 308
>gnl|CDD|172457 PRK13951, PRK13951, bifunctional shikimate
kinase/3-dehydroquinate synthase; Provisional.
Length = 488
Score = 30.6 bits (69), Expect = 0.37
Identities = 27/91 (29%), Positives = 45/91 (49%), Gaps = 14/91 (15%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQ------FYLKYDEQYECPELDE 63
I + G G+GKST+ + V + D L++ID+++ + + + E+Y L E
Sbjct: 3 IFLVGMMGSGKSTIGKRVSEVLD-LQFIDMDEEIERREGRSVRRIFEEDGEEYF--RLKE 59
Query: 64 DKLLDELEPR-----VQGGGKIIDYHSAEMF 89
+LL EL R GGG +ID + E+
Sbjct: 60 KELLRELVERDNVVVATGGGVVIDPENRELL 90
>gnl|CDD|238544 cd01124, KaiC, KaiC is a circadian clock protein primarily found
in cyanobacteria KaiC is a RecA-like ATPase, having
both Walker A and Walker B motifs. A related protein is
found in archaea.
Length = 187
Score = 30.0 bits (68), Expect = 0.37
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 9 NILITGTPGTGKSTLC 24
+ L++G PGTGK+T
Sbjct: 1 STLLSGGPGTGKTTFA 16
>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 30.7 bits (70), Expect = 0.39
Identities = 11/14 (78%), Positives = 11/14 (78%)
Query: 10 ILITGTPGTGKSTL 23
ILI G PG GKSTL
Sbjct: 96 ILIGGDPGIGKSTL 109
>gnl|CDD|227922 COG5635, COG5635, Predicted NTPase (NACHT family) [Signal
transduction mechanisms].
Length = 824
Score = 30.5 bits (69), Expect = 0.47
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 1 MSSKRTKPNILITGTPGTGKSTLCEEVVKQCD 32
+ + +LI G PG+GK+T + +
Sbjct: 216 LEALEKYAKLLILGAPGSGKTTFLQRLALWLA 247
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 30.1 bits (68), Expect = 0.48
Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 30/95 (31%)
Query: 9 NILITGTPGTGKSTLC-----------------------EEVVKQCDSLEW-----IDVN 40
+LITG PGTGK+ EE+++ S W I+
Sbjct: 25 VVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEELLENARSFGWDLEVYIEKG 84
Query: 41 KIARENQFYLKYDEQYECPELDEDKLLDELEPRVQ 75
K+A + F L + + L+EL R++
Sbjct: 85 KLAILDAF-LSEKGLVS-IVVGDPLDLEELLDRIR 117
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter
reaction uses inorganic phosphate as substrate and
produces pyrophosphate. Phosphoenolpyruvate
carboxykinase (PEPCK) and the C-terminal catalytic
domain of HprK/P are structurally similar with
conserved active site residues suggesting these two
phosphotransferases have related functions. The HprK/P
N-terminal domain is structurally similar to the
N-terminal domains of the MurE and MurF amino acid
ligases.
Length = 149
Score = 29.5 bits (67), Expect = 0.56
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 10 ILITGTPGTGKSTLCEEVVKQC 31
+LITG G GKS L E++K+
Sbjct: 17 VLITGPSGIGKSELALELIKRG 38
>gnl|CDD|215947 pfam00493, MCM, MCM2/3/5 family.
Length = 327
Score = 29.8 bits (68), Expect = 0.60
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 5 RTKPNILITGTPGTGKSTL 23
R N+L+ G PGT KS L
Sbjct: 55 RGDINVLLVGDPGTAKSQL 73
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 29.6 bits (67), Expect = 0.66
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 5/25 (20%)
Query: 8 PNI-LITGTPGTGKST----LCEEV 27
PN+ L + +PGTGK+T LC EV
Sbjct: 43 PNMLLHSPSPGTGKTTVAKALCNEV 67
>gnl|CDD|130427 TIGR01360, aden_kin_iso1, adenylate kinase, isozyme 1 subfamily.
Members of this family are adenylate kinase, EC
2.7.4.3. This clade is found only in eukaryotes and
includes human adenylate kinase isozyme 1 (myokinase).
Within the adenylate kinase superfamily, this set
appears specifically closely related to a subfamily of
eukaryotic UMP-CMP kinases (TIGR01359), rather than to
the large clade of bacterial, archaeal, and eukaryotic
adenylate kinase family members in TIGR01351.
Length = 188
Score = 29.4 bits (66), Expect = 0.70
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQ 30
I I G PG+GK T CE++V++
Sbjct: 4 KIIFIVGGPGSGKGTQCEKIVEK 26
>gnl|CDD|238981 cd02023, UMPK, Uridine monophosphate kinase (UMPK, EC 2.7.1.48),
also known as uridine kinase or uridine-cytidine kinase
(UCK), catalyzes the reversible phosphoryl transfer
from ATP to uridine or cytidine to yield UMP or CMP. In
the primidine nucleotide-salvage pathway, this enzyme
combined with nucleoside diphosphate kinases further
phosphorylates UMP and CMP to form UTP and CTP. This
kinase also catalyzes the phosphorylation of several
cytotoxic ribonucleoside analogs such as
5-flurrouridine and cyclopentenyl-cytidine.
Length = 198
Score = 29.4 bits (67), Expect = 0.73
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
I I G G+GK+T+ EE+++Q
Sbjct: 2 IGIAGGSGSGKTTVAEEIIEQ 22
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 29.8 bits (68), Expect = 0.75
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 10 ILITGTPGTGKSTL 23
ILI G PG GKST
Sbjct: 260 ILIAGAPGAGKSTF 273
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 29.9 bits (68), Expect = 0.77
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 3 SKRTKPNILITGTPGTGKSTLCE 25
S+RTK N ++ G PG GK+ + E
Sbjct: 187 SRRTKNNPVLVGEPGVGKTAIVE 209
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield
adenosine diphosphates (ADP). This enzyme is required
for the biosynthesis of ADP and is essential for
homeostasis of adenosine phosphates.
Length = 194
Score = 29.1 bits (66), Expect = 0.81
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 9 NILITGTPGTGKSTLCEEVVK 29
IL+ G PG+GK T E + K
Sbjct: 1 RILLLGPPGSGKGTQAERLAK 21
>gnl|CDD|224410 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 29.5 bits (67), Expect = 0.88
Identities = 29/111 (26%), Positives = 44/111 (39%), Gaps = 14/111 (12%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDEDKLLDE 69
+LITG G GKS L E++K+ L D +I RE L PEL L
Sbjct: 148 VLITGPSGAGKSELALELIKRGHRLVADDAVEIFREGGNRL----VGRAPELLAGLL--- 200
Query: 70 LEPRVQGGGKI-IDYHSAE--MFPERWID-QVYVLSADNTTLYDRLVEKGQ 116
++G G I + + E+ I + + + +DRL +
Sbjct: 201 ---EIRGLGIINVMTVFGAGSVRAEKPIQLVINLELWEEEEAFDRLGLDVE 248
>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815). This
family consists of several bacterial proteins of
unknown function.
Length = 248
Score = 29.4 bits (67), Expect = 0.89
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 9 NILITGTPGTGKSTLC 24
N+L+ G GTGKS+L
Sbjct: 55 NVLLWGARGTGKSSLV 70
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a
wide variety of presumed DNA repair proteins.
Length = 154
Score = 28.8 bits (65), Expect = 0.94
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 10 ILITGTPGTGKSTLC 24
L+ G PGTGKSTL
Sbjct: 36 TLLAGAPGTGKSTLA 50
>gnl|CDD|238547 cd01127, TrwB, Bacterial conjugation protein TrwB, ATP binding
domain. TrwB is a homohexamer encoded by conjugative
plasmids in Gram-negative bacteria. TrwB also has an
all alpha domain which has been hypothesized to be
responsible for DNA binding. TrwB is a component of
Type IV secretion and is responsible for the horizontal
transfer of DNA between bacteria.
Length = 410
Score = 29.2 bits (66), Expect = 0.95
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 9 NILITGTPGTGKSTLCEEVVKQ 30
+ +I GT GTGK+T E++
Sbjct: 44 HTMIIGTTGTGKTTQIRELLAS 65
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide
variety of AAA domains including some that have lost
essential nucleotide binding residues in the P-loop.
Length = 509
Score = 29.4 bits (67), Expect = 0.96
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 9 NILITGTPGTGKSTLCEEVVKQ 30
NI + G PGTG++TL +++
Sbjct: 32 NIFVLGEPGTGRTTLVRRYLEE 53
>gnl|CDD|233369 TIGR01351, adk, adenylate kinase. Adenylate kinase (EC 2.7.4.3)
converts ATP + AMP to ADP + ADP, that is, uses ATP as a
phosphate donor for AMP. Most members of this family
are known or believed to be adenylate kinase. However,
some members accept other nucleotide triphosphates as
donors, may be unable to use ATP, and may fail to
complement adenylate kinase mutants. An example of a
nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10)
is a GTP:AMP phosphotransferase. This family is
designated subfamily rather than equivalog for this
reason [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 210
Score = 29.1 bits (66), Expect = 0.97
Identities = 6/23 (26%), Positives = 14/23 (60%)
Query: 9 NILITGTPGTGKSTLCEEVVKQC 31
+++ G PG+GK T + + ++
Sbjct: 1 RLVLLGPPGSGKGTQAKRIAEKY 23
>gnl|CDD|236022 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated.
Length = 365
Score = 29.2 bits (66), Expect = 0.97
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 11 LITGTPGTGKSTL 23
LI G G GK+TL
Sbjct: 45 LIGGPQGIGKATL 57
>gnl|CDD|224588 COG1674, FtsK, DNA segregation ATPase FtsK/SpoIIIE and related
proteins [Cell division and chromosome partitioning].
Length = 858
Score = 29.4 bits (66), Expect = 1.2
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 8 PNILITGTPGTGKSTLC 24
++LI G G+GKS
Sbjct: 531 GHLLIAGATGSGKSVAL 547
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 28.6 bits (65), Expect = 1.2
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 7 KPNILITGTPGTGKSTLCEEVVKQCDSLEWIDV 39
PNI++ G G GKST+ + K+ ++ID
Sbjct: 4 GPNIVLIGFMGAGKSTIGRLLAKRLG-YDFIDT 35
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 29.1 bits (66), Expect = 1.2
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 10 ILITGTPGTGKSTL 23
IL++G GTGK+ L
Sbjct: 276 ILVSGATGTGKTLL 289
>gnl|CDD|232966 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes
for a probable ATP-dependent protease involved in both
DNA repair and degradation of proteins, peptides,
glycopeptides. Also known as sms. Residues 11-28 of the
SEED alignment contain a putative Zn binding domain.
Residues 110-117 of the seed contain a putative ATP
binding site both documented in Haemophilus and in
Listeria monocytogenes. for E.coli see ( J. BACTERIOL.
178:5045-5048(1996)) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 454
Score = 29.0 bits (65), Expect = 1.3
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
ILI G PG GKSTL +V Q
Sbjct: 97 ILIGGDPGIGKSTLLLQVACQ 117
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This
protein contains an ATP/GTP binding P-loop motif. It is
found associated with IS21 family insertion sequences.
The function of this protein is unknown, but it may
perform a transposase function.
Length = 178
Score = 28.4 bits (64), Expect = 1.3
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 5 RTKPNILITGTPGTGKSTL 23
N+L+ G PG GK+ L
Sbjct: 45 EQAENLLLLGPPGVGKTHL 63
>gnl|CDD|226573 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 261
Score = 28.7 bits (64), Expect = 1.3
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 8/81 (9%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQCDSLEW--IDVNKIAR----ENQFYLKYDEQYECPEL 61
P I++TG PG+GK+T +E+ K+ W I + K ++ E Y E
Sbjct: 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEKDYLRGILWDESLPILKEVYR--ES 59
Query: 62 DEDKLLDELEPRVQGGGKIID 82
+ L+ ++ I+D
Sbjct: 60 FLKSVERLLDSALKNYLVIVD 80
>gnl|CDD|224677 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 28.5 bits (64), Expect = 1.3
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 7 KPNIL-ITGTPGTGKSTLCEEVVKQ 30
IL I G +GK+TL E++V++
Sbjct: 1 MMKILGIVGYKNSGKTTLIEKLVRK 25
>gnl|CDD|132060 TIGR03015, pepcterm_ATPase, putative secretion ATPase, PEP-CTERM
locus subfamily. Members of this protein are marked as
probable ATPases by the nucleotide binding P-loop motif
GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of
helicases, and extensive homology to ATPases of
MSHA-type pilus systems and to GspA proteins associated
with type II protein secretion systems [Protein fate,
Protein and peptide secretion and trafficking].
Length = 269
Score = 28.9 bits (65), Expect = 1.4
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCD 32
ILITG G GK+TL ++K+ D
Sbjct: 46 ILITGEVGAGKTTLIRNLLKRLD 68
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form
(CCALD), the milder adult form, adrenomyeloneuropathy
(AMN), and variants without neurologic involvement
(i.e. asymptomatic).
Length = 166
Score = 28.3 bits (64), Expect = 1.5
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 9 NILITGTPGTGKSTL 23
+LITG GTGKS+L
Sbjct: 29 RLLITGPSGTGKSSL 43
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 28.5 bits (64), Expect = 1.6
Identities = 9/15 (60%), Positives = 14/15 (93%)
Query: 8 PNILITGTPGTGKST 22
PN++++G PGTGK+T
Sbjct: 35 PNLILSGPPGTGKTT 49
>gnl|CDD|235498 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
Length = 176
Score = 28.1 bits (63), Expect = 1.6
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 1 MSSKRTKPNILITGTPGTGKSTLCEEVVK 29
M K I ITG G+GK+T+ + + +
Sbjct: 1 MQMKPNGYVIWITGLAGSGKTTIAKALYE 29
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 28.4 bits (64), Expect = 1.6
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 16/79 (20%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQ----------YECP 59
I I G G+GK+T+ +E+ + L V I+ ++ Y K Y+ P
Sbjct: 11 IGIAGGSGSGKTTVAKEL---SEQLGVEKVVVISLDD--YYKDQSHLPFEERNKINYDHP 65
Query: 60 E-LDEDKLLDELEPRVQGG 77
E D D L++ L+ QG
Sbjct: 66 EAFDLDLLIEHLKDLKQGK 84
>gnl|CDD|184458 PRK14021, PRK14021, bifunctional shikimate
kinase/3-dehydroquinate synthase; Provisional.
Length = 542
Score = 28.7 bits (64), Expect = 1.6
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 3 SKRTKPNILITGTPGTGKSTLCEEVVKQCDSLEWIDV-NKIARENQFYL-KYDEQYECP- 59
+P +I G G GK+ + +EV Q L + D +I RE + Y E+Y P
Sbjct: 2 KPTRRPQAVIIGMMGAGKTRVGKEVA-QMMRLPFADADVEIEREIGMSIPSYFEEYGEPA 60
Query: 60 --ELDEDKLLDELE 71
E++ D + D LE
Sbjct: 61 FREVEADVVADMLE 74
>gnl|CDD|153129 cd01351, Aconitase, Aconitase catalytic domain; Aconitase catalyzes
the reversible isomerization of citrate and isocitrate
as part of the TCA cycle. Aconitase catalytic domain.
Aconitase (aconitate hydratase) catalyzes the reversible
isomerization of citrate and isocitrate as part of the
TCA cycle. Cis-aconitate is formed as an intermediate
product during the course of the reaction. In eukaryotes
two isozymes of aconitase are known to exist: one found
in the mitochondrial matrix and the other found in the
cytoplasm. Aconitase, in its active form, contains a
4Fe-4S iron-sulfur cluster; three cysteine residues
have been shown to be ligands of the 4Fe-4S cluster.
This is the Aconitase core domain, including structural
domains 1, 2 and 3, which binds the Fe-S cluster. The
aconitase family also contains the following proteins: -
Iron-responsive element binding protein (IRE-BP), a
cytosolic protein that binds to iron-responsive elements
(IREs). IREs are stem-loop structures found in the
5'UTR of ferritin, and delta aminolevulinic acid
synthase mRNAs, and in the 3'UTR of transferrin
receptor mRNA. IRE-BP also express aconitase activity. -
3-isopropylmalate dehydratase (isopropylmalate
isomerase), the enzyme that catalyzes the second step in
the biosynthesis of leucine. - Homoaconitase
(homoaconitate hydratase), an enzyme that participates
in the alpha-aminoadipate pathway of lysine
biosynthesis and that converts cis-homoaconitate into
homoisocitric acid.
Length = 389
Score = 28.6 bits (64), Expect = 1.6
Identities = 24/100 (24%), Positives = 40/100 (40%), Gaps = 6/100 (6%)
Query: 33 SLEWI-DVNKIARENQFYLKYDEQYECPELDEDKL----LDELEPRVQGGGKIIDYHSAE 87
+L+W+ + +N + +E + D++ L ELEP + G + D S
Sbjct: 202 TLKWLEATGRPLLKNLWLAFPEELLADEGAEYDQVIEIDLSELEPDISGPNRPDDAVSVS 261
Query: 88 MFPERWIDQVYVLSADNTTLYDRLVE-KGQSGKKLQDNLQ 126
IDQV + S N D L K G K+ ++
Sbjct: 262 EVEGTKIDQVLIGSCTNNRYSDMLAAAKLLKGAKVAPGVR 301
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain
only a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 28.0 bits (63), Expect = 1.7
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 10 ILITGTPGTGKSTLCEEVVKQC 31
IL+ G PG+GKST ++++
Sbjct: 2 ILMVGLPGSGKSTFARRLLREL 23
>gnl|CDD|216506 pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase.
Helicase activity for this family has been demonstrated
and NTPase activity. This helicase has multiple roles
at different stages of viral RNA replication, as
dissected by mutational analysis.
Length = 226
Score = 28.1 bits (63), Expect = 1.8
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 10 ILITGTPGTGKSTLCEEVVKQC 31
I++ G PG GKSTL ++++
Sbjct: 1 IVVHGVPGCGKSTLIRKLLRTD 22
>gnl|CDD|200328 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase.
Members of this protein family comprise a distinct
clade of putative ATPase associated with an integral
membrane complex likely to act in pilus formation,
secretion, or conjugal transfer. The association of most
members with a nearby gene for a DEAH-box helicase
suggests a role in conjugal transfer.
Length = 340
Score = 28.5 bits (64), Expect = 2.0
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 5 RTKPNILITGTPGTGKSTL 23
+ L++G G+GK+TL
Sbjct: 176 AARLAFLVSGGTGSGKTTL 194
>gnl|CDD|233417 TIGR01447, recD, exodeoxyribonuclease V, alpha subunit. This
family describes the exodeoxyribonuclease V alpha
subunit, RecD. RecD is part of a RecBCD complex. A
related family in the Gram-positive bacteria separates
in a phylogenetic tree, has an additional N-terminal
extension of about 200 residues, and is not supported as
a member of a RecBCD complex by neighboring genes. The
related family is consequently described by a different
model [DNA metabolism, DNA replication, recombination,
and repair].
Length = 586
Score = 28.6 bits (64), Expect = 2.0
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 11 LITGTPGTGKSTL 23
LITG PGTGK+T
Sbjct: 164 LITGGPGTGKTTT 176
>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional.
Length = 367
Score = 28.4 bits (64), Expect = 2.0
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 12 ITGTPGTGKSTLCEEVVKQC 31
+ G PGTGKST+ +++ K
Sbjct: 219 LKGRPGTGKSTMLKKIAKAA 238
>gnl|CDD|226986 COG4639, COG4639, Predicted kinase [General function prediction
only].
Length = 168
Score = 27.8 bits (62), Expect = 2.1
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 5/69 (7%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDE-DKLLD 68
+++ G G+GKST +E Q L D+ R E + + D L
Sbjct: 5 VVLRGASGSGKSTFAKENFLQNYVLSLDDL----RLLLGVSASKENSQKNDELVWDILYK 60
Query: 69 ELEPRVQGG 77
+LE R++ G
Sbjct: 61 QLEQRLRRG 69
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This
Pfam entry includes some of the AAA proteins not
detected by the pfam00004 model.
Length = 135
Score = 27.6 bits (62), Expect = 2.2
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 9 NILITGTPGTGKSTLCEEV 27
+L+ G PGTGKS L E +
Sbjct: 1 GVLLVGPPGTGKSELAERL 19
>gnl|CDD|216584 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE, which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block
in cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 201
Score = 27.7 bits (62), Expect = 2.3
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 8 PNILITGTPGTGKST 22
P++LI G G+GKST
Sbjct: 39 PHLLIAGATGSGKST 53
>gnl|CDD|130679 TIGR01618, phage_P_loop, phage nucleotide-binding protein. This
model represents an uncharacterized family of proteins
from a number of phage of Gram-positive bacteria. This
protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near
its amino end. The function of this protein is unknown
[Mobile and extrachromosomal element functions,
Prophage functions].
Length = 220
Score = 27.8 bits (62), Expect = 2.3
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 4 KRTKPNILITGTPGTGKSTL 23
KR LI G PGTGK++
Sbjct: 9 KRIPNMYLIYGKPGTGKTST 28
>gnl|CDD|224162 COG1241, MCM2, Predicted ATPase involved in replication control,
Cdc46/Mcm family [DNA replication, recombination, and
repair].
Length = 682
Score = 28.1 bits (63), Expect = 2.4
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 9 NILITGTPGTGKSTLCEEVVK 29
+IL+ G PGT KS L + V K
Sbjct: 321 HILLVGDPGTAKSQLLKYVAK 341
>gnl|CDD|223040 PHA03311, PHA03311, helicase-primase subunit BBLF4; Provisional.
Length = 782
Score = 28.3 bits (64), Expect = 2.4
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 11 LITGTPGTGKST 22
LITGT G GKST
Sbjct: 75 LITGTAGAGKST 86
>gnl|CDD|226691 COG4240, COG4240, Predicted kinase [General function prediction
only].
Length = 300
Score = 27.9 bits (62), Expect = 2.5
Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 10/75 (13%)
Query: 5 RTKPNIL-ITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECPELDE 63
R +P I+ I+G G+GKSTL +V+ + ++ ++ YL + ++
Sbjct: 47 RGRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDD-LYLTHADR-------- 97
Query: 64 DKLLDELEPRVQGGG 78
+L ++ P +Q G
Sbjct: 98 LRLARQVNPLLQTRG 112
>gnl|CDD|238980 cd02022, DPCK, Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24)
catalyzes the phosphorylation of dephosphocoenzyme A
(dCoA) to yield CoA, which is the final step in CoA
biosynthesis.
Length = 179
Score = 27.5 bits (62), Expect = 2.6
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARE 45
I +TG G+GKST+ + + + + ID +KIA E
Sbjct: 2 IGLTGGIGSGKSTVAKLLKEL--GIPVIDADKIAHE 35
>gnl|CDD|223998 COG1072, CoaA, Panthothenate kinase [Coenzyme metabolism].
Length = 283
Score = 28.0 bits (63), Expect = 2.7
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 10 ILITGTPGTGKSTLCE 25
I I G+ GKST
Sbjct: 85 IGIAGSVAVGKSTTAR 100
>gnl|CDD|227396 COG5064, SRP1, Karyopherin (importin) alpha [Intracellular
trafficking and secretion].
Length = 526
Score = 27.9 bits (62), Expect = 2.7
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 37 IDVNKIARENQFYLKYDEQYECPELDEDKLLDELEPRVQGGGKIIDYHSAEMFPERWIDQ 96
DV++ A + ++ E P+L + D++E ++Q K S E P I
Sbjct: 52 ADVSEEAESSFIPMEQQFYSELPQLTQQLFSDDIEQQLQAVYKFRKLLSKETSPP--IQP 109
Query: 97 V 97
V
Sbjct: 110 V 110
>gnl|CDD|129128 TIGR00017, cmk, cytidylate kinase. This family consists of
cytidylate kinase, which catalyzes the phosphorylation
of cytidine 5-monophosphate (dCMP) to cytidine 5
-diphosphate (dCDP) in the presence of ATP or GTP. UMP
and dCMP can also act as acceptors [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 217
Score = 27.8 bits (62), Expect = 2.7
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 7 KPNILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIAR 44
I I G G GKST+ + V ++ ++D + R
Sbjct: 2 AMIIAIDGPSGAGKSTVAKAVAEKLG-YAYLDSGAMYR 38
>gnl|CDD|217326 pfam03029, ATP_bind_1, Conserved hypothetical ATP binding
protein. Members of this family are found in a range
of archaea and eukaryotes and have hypothesised ATP
binding activity.
Length = 235
Score = 27.7 bits (62), Expect = 2.7
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 12 ITGTPGTGKSTLCEEVVKQCDSL 34
+ G G+GK+T + + L
Sbjct: 1 VVGPAGSGKTTFVGALSEILPLL 23
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 28.1 bits (63), Expect = 2.7
Identities = 13/33 (39%), Positives = 13/33 (39%), Gaps = 9/33 (27%)
Query: 9 NILITGTPGTGKSTLC---------EEVVKQCD 32
LI G GT KSTL EVV C
Sbjct: 40 GALIAGEKGTAKSTLARALADLLPEIEVVIGCP 72
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP
kinase. This enzyme transfers a phosphate from ATP to
GMP, yielding ADP and GDP [Purines, pyrimidines,
nucleosides, and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 27.5 bits (62), Expect = 2.7
Identities = 10/26 (38%), Positives = 19/26 (73%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLE 35
I+I+G G GKSTL + ++++ +L+
Sbjct: 3 IVISGPSGAGKSTLVKALLEEDPNLK 28
>gnl|CDD|234389 TIGR03903, TOMM_kin_cyc, TOMM system kinase/cyclase fusion protein.
This model represents proteins of 1350 in length, in
multiple species of Burkholderia, in Acidovorax avenae
subsp. citrulli AAC00-1 and Delftia acidovorans SPH-1,
and in multiple copies in Sorangium cellulosum, in
genomic neighborhoods that include a
cyclodehydratase/docking scaffold fusion protein
(TIGR03882) and a member of the thiazole/oxazole
modified metabolite (TOMM) precursor family TIGR03795.
It has a kinase domain in the N-terminal 300 amino
acids, followed by a cyclase homology domain, followed
by regions without named domain definitions. It is a
probable bacteriocin-like metabolite biosynthesis
protein [Cellular processes, Toxin production and
resistance].
Length = 1266
Score = 28.3 bits (63), Expect = 2.8
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
IL+ G G GKS L E+V++
Sbjct: 507 ILVVGEAGIGKSRLVHELVEK 527
>gnl|CDD|238026 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines.
Length = 137
Score = 27.1 bits (61), Expect = 2.9
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDS 33
I+++G G GKSTL + ++++ D
Sbjct: 2 IVLSGPSGVGKSTLLKRLLEEFDP 25
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 27.8 bits (62), Expect = 2.9
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 9 NILITGTPGTGKSTL 23
N+++ G PG GK+ L
Sbjct: 107 NLVLLGPPGVGKTHL 121
>gnl|CDD|183711 PRK12738, kbaY, tagatose-bisphosphate aldolase; Reviewed.
Length = 286
Score = 27.7 bits (61), Expect = 2.9
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 21/71 (29%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYDEQYECP---ELDEDKL 66
+++ GTPGT K EE+ C + Y Y P LD +
Sbjct: 45 VILAGTPGTFKHIALEEIYALCSA------------------YSTTYNMPLALHLDHHES 86
Query: 67 LDELEPRVQGG 77
LD++ +V G
Sbjct: 87 LDDIRRKVHAG 97
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 28.1 bits (63), Expect = 3.0
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 10 ILITGTPGTGKSTLCEEV 27
ILI G PG GKST + +
Sbjct: 266 ILIAGAPGAGKSTFAQAL 283
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 27.9 bits (63), Expect = 3.0
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 8 PNILITGTPGTGKST 22
P++L G PGTGK+T
Sbjct: 39 PHLLFAGPPGTGKTT 53
>gnl|CDD|238985 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 = 27.1 bits (61), Expect = 3.2
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 10 ILITGTPGTGKSTLCEEV 27
I +TG G+GKST+ +
Sbjct: 2 IWLTGLSGSGKSTIARAL 19
>gnl|CDD|163589 TIGR03877, thermo_KaiC_1, KaiC domain protein, Ph0284 family.
Members of this family contain a single copy of the
KaiC domain (pfam06745) that occurs in two copies of
the circadian clock protein kinase KaiC itself. Members
occur primarily in thermophilic archaea and in
Thermotoga.
Length = 237
Score = 27.4 bits (61), Expect = 3.4
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 10 ILITGTPGTGKSTLCEE 26
+L++G PGTGKS ++
Sbjct: 24 VLLSGGPGTGKSIFSQQ 40
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 27.4 bits (61), Expect = 3.5
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCD 32
+L+ G PG+GKSTL + +
Sbjct: 4 VLVGGLPGSGKSTLARGLAELLG 26
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 27.3 bits (61), Expect = 3.5
Identities = 8/25 (32%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 14 GTPGTGKSTLCEEVVKQCDSLEWID 38
G G+GKST+ + ++ ++ID
Sbjct: 2 GVSGSGKSTVGSALAERLG-AKFID 25
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 27.5 bits (61), Expect = 3.6
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVK 29
N LI G P GK+TL ++ +
Sbjct: 136 GWLNTLIIGPPQVGKTTLLRDIAR 159
>gnl|CDD|233994 TIGR02746, TraC-F-type, type-IV secretion system protein TraC. The
protein family described here is common among the F, P
and I-like type IV secretion systems. Gene symbols
include TraC (F-type), TrbE/VirB4 (P-type) and TraU
(I-type). The protein conyains the Walker A and B motifs
and so is a putative nucleotide triphosphatase.
Length = 797
Score = 27.7 bits (62), Expect = 3.6
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 2 SSKRTKPNILITGTPGTGKSTLCEEVV 28
S T NI + G G GKS +E++
Sbjct: 425 DSDSTNYNIAVVGGSGAGKSFFMQELI 451
>gnl|CDD|219839 pfam08433, KTI12, Chromatin associated protein KTI12. This is a
family of chromatin associated proteins which interact
with the Elongator complex, a component of the
elongating form of RNA polymerase II. The Elongator
complex has histone acetyltransferase activity.
Length = 266
Score = 27.6 bits (62), Expect = 3.6
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 10 ILITGTPGTGKSTLCEEVVK 29
I++TG P +GKST +E+ K
Sbjct: 2 IILTGLPSSGKSTRAKELAK 21
>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety
of proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion.
Length = 99
Score = 26.6 bits (59), Expect = 3.7
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 10 ILITGTPGTGKSTL 23
I++TG G GK+TL
Sbjct: 2 IVVTGKGGVGKTTL 15
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a
wide variety of presumed phage proteins.
Length = 201
Score = 27.3 bits (61), Expect = 3.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 9 NILITGTPGTGKSTLC 24
+LI G PG GK++L
Sbjct: 5 KVLIYGPPGIGKTSLA 20
>gnl|CDD|235281 PRK04328, PRK04328, hypothetical protein; Provisional.
Length = 249
Score = 27.3 bits (61), Expect = 3.7
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 10 ILITGTPGTGKSTLCEE 26
+L++G PGTGKS ++
Sbjct: 26 VLLSGGPGTGKSIFSQQ 42
>gnl|CDD|177909 PLN02268, PLN02268, probable polyamine oxidase.
Length = 435
Score = 27.7 bits (62), Expect = 3.8
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 98 YVLSADNTTLYDRLVEK----GQSGKKLQDNLQCEI---FQTILEEA---RDSYKEDIVV 147
Y S DN+ LYD +E G ++ L ++ F+ ILEE RD ++ED+ +
Sbjct: 77 YRTSGDNSVLYDHDLESYALFDMDGNQVPQELVTKVGETFERILEETEKVRDEHEEDMSL 136
Query: 148 S 148
Sbjct: 137 L 137
>gnl|CDD|172360 PRK13833, PRK13833, conjugal transfer protein TrbB; Provisional.
Length = 323
Score = 27.5 bits (61), Expect = 3.8
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 9 NILITGTPGTGKSTLCEEVVKQ 30
NI+I+G G+GK+TL V+ +
Sbjct: 146 NIVISGGTGSGKTTLANAVIAE 167
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 27.7 bits (62), Expect = 3.9
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 12 ITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIA 43
I G GKSTL + + + DVN IA
Sbjct: 150 IFAGAGVGKSTLLGMIARGASA----DVNVIA 177
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6
family in eukaryotes. Several members may be found in
genome and interact with each other [DNA metabolism,
DNA replication, recombination, and repair].
Length = 365
Score = 27.6 bits (62), Expect = 4.1
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQ 30
N+ I G GTGK+ + + V+K+
Sbjct: 41 SNVFIYGKTGTGKTAVTKYVMKE 63
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 27.4 bits (61), Expect = 4.2
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 11 LITGTPGTGKSTLCEEVVKQCDSLE 35
++TG PGTGK+T+ +++ + L
Sbjct: 342 ILTGGPGTGKTTITRAIIELAEELG 366
>gnl|CDD|217188 pfam02689, Herpes_Helicase, Helicase. This family consists of
Helicases from the Herpes viruses. Helicases are
responsible for the unwinding of DNA and are essential
for replication and completion of the viral life cycle.
Length = 801
Score = 27.7 bits (62), Expect = 4.2
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 11 LITGTPGTGKST 22
LITGT G GKST
Sbjct: 63 LITGTAGAGKST 74
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 27.7 bits (62), Expect = 4.3
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 9 NILITGTPGTGKSTL 23
++++ G+PGTGKS L
Sbjct: 52 HVMMIGSPGTGKSML 66
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 27.3 bits (61), Expect = 4.4
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 10 ILITGTPGTGKSTLCEEV 27
ILI G G GKST+ E+
Sbjct: 92 ILIGGASGVGKSTIAGEL 109
>gnl|CDD|234719 PRK00300, gmk, guanylate kinase; Provisional.
Length = 205
Score = 27.0 bits (61), Expect = 4.5
Identities = 9/26 (34%), Positives = 19/26 (73%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLE 35
I+++G G GKSTL + ++++ +L+
Sbjct: 8 IVLSGPSGAGKSTLVKALLERDPNLQ 33
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 27.1 bits (61), Expect = 4.6
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 10 ILITGTPGTGKSTLCEEV 27
I I+G PG+GK+T+ +
Sbjct: 3 ITISGPPGSGKTTVARLL 20
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain
I of the ABC component of a cobalt transport family
found in bacteria, archaea, and eukaryota. The
transition metal cobalt is an essential component of
many enzymes and must be transported into cells in
appropriate amounts when needed. This ABC transport
system of the CbiMNQO family is involved in cobalt
transport in association with the cobalamin (vitamin
B12) biosynthetic pathways. Most of cobalt (Cbi)
transport systems possess a separate CbiN component,
the cobalt-binding periplasmic protein, and they are
encoded by the conserved gene cluster cbiMNQO. Both the
CbiM and CbiQ proteins are integral cytoplasmic
membrane proteins, and the CbiO protein has the linker
peptide and the Walker A and B motifs commonly found in
the ATPase components of the ABC-type transport
systems.
Length = 211
Score = 27.0 bits (61), Expect = 4.6
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 10 ILITGTPGTGKSTLC 24
+LI G G+GKSTL
Sbjct: 30 VLIVGPNGSGKSTLL 44
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 27.4 bits (61), Expect = 4.7
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 4 KRTKP-NILITGTPGTGKSTLCEEV 27
+ +P ++LI G G GKS L +
Sbjct: 251 RPPRPLHVLIGGVSGVGKSVLASAL 275
>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles
in homologous recombination, DNA repair, and the
induction of the SOS response. RecA couples ATP
hydrolysis to DNA strand exchange. While prokaryotes
have a single RecA protein, eukaryotes have multiple
RecA homologs such as Rad51, DMC1 and Rad55/57.
Archaea have the RecA-like homologs radA and radB.
Length = 226
Score = 26.8 bits (60), Expect = 5.0
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 12 ITGTPGTGKSTLCEEVVKQC 31
I G G+GK+ LC ++ +
Sbjct: 24 IFGEFGSGKTQLCLQLAVEA 43
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 26.7 bits (60), Expect = 5.0
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 9/45 (20%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWID--------VNKIAREN 46
I I G G+GKST+ + + K+ L ++D V K+A E
Sbjct: 2 IAIDGPAGSGKSTVAKLLAKKL-GLPYLDTGGIRTEEVGKLASEV 45
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 26.9 bits (60), Expect = 5.0
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARE 45
I I+G PG+GK+T+ E+ + L+ + I RE
Sbjct: 3 ITISGLPGSGKTTVARELAEHL-GLKLVSAGTIFRE 37
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 26.9 bits (60), Expect = 5.1
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
+++ G PG GKSTL ++K+
Sbjct: 42 VVVVGPPGVGKSTLIRSLIKR 62
>gnl|CDD|178435 PLN02842, PLN02842, nucleotide kinase.
Length = 505
Score = 27.1 bits (60), Expect = 5.1
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 11 LITGTPGTGKSTLCEEVVKQ 30
+I+G P +GK T CE +V +
Sbjct: 1 MISGAPASGKGTQCELIVHK 20
>gnl|CDD|237731 PRK14494, PRK14494, putative molybdopterin-guanine dinucleotide
biosynthesis protein MobB/FeS domain-containing protein
protein; Provisional.
Length = 229
Score = 26.9 bits (60), Expect = 5.5
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 10 ILITGTPGTGKSTLCEEVVK 29
I + G +GK+TL E+++K
Sbjct: 4 IGVIGFKDSGKTTLIEKILK 23
>gnl|CDD|240262 PTZ00088, PTZ00088, adenylate kinase 1; Provisional.
Length = 229
Score = 26.7 bits (59), Expect = 5.6
Identities = 14/36 (38%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARE 45
I++ G PG GK T E + K+ ++L+ I++ I RE
Sbjct: 9 IVLFGAPGVGKGTFAEILSKK-ENLKHINMGNILRE 43
>gnl|CDD|213205 cd03238, ABC_UvrA, ATP-binding cassette domain of the excision
repair protein UvrA. Nucleotide excision repair in
eubacteria is a process that repairs DNA damage by the
removal of a 12-13-mer oligonucleotide containing the
lesion. Recognition and cleavage of the damaged DNA is
a multistep ATP-dependent reaction that requires the
UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are
ATPases, with UvrA having two ATP binding sites, which
have the characteristic signature of the family of ABC
proteins, and UvrB having one ATP binding site that is
structurally related to that of helicases.
Length = 176
Score = 26.5 bits (59), Expect = 5.7
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 11 LITGTPGTGKSTLCEEVVK 29
++TG G+GKSTL E +
Sbjct: 25 VVTGVSGSGKSTLVNEGLY 43
>gnl|CDD|226124 COG3596, COG3596, Predicted GTPase [General function prediction
only].
Length = 296
Score = 27.1 bits (60), Expect = 5.7
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 8/52 (15%)
Query: 9 NILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIAR----ENQFYLKYDEQY 56
N+L+ G G GKS+L + + E +V+K+ + L YD +
Sbjct: 41 NVLLMGATGAGKSSLINALFQG----EVKEVSKVGVGTDITTRLRLSYDGEN 88
>gnl|CDD|216308 pfam01121, CoaE, Dephospho-CoA kinase. This family catalyzes the
phosphorylation of the 3'-hydroxyl group of
dephosphocoenzyme A to form Coenzyme A EC:2.7.1.24.
This enzyme uses ATP in its reaction.
Length = 179
Score = 26.5 bits (59), Expect = 5.8
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 12 ITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARE 45
+TG G+GKST+ + + +D + IAR+
Sbjct: 5 LTGGIGSGKSTVA-NLFADL-GVPIVDADVIARQ 36
>gnl|CDD|221968 pfam13189, Cytidylate_kin2, Cytidylate kinase-like family. This
family includes enzymes related to cytidylate kinase.
Length = 176
Score = 26.4 bits (59), Expect = 5.9
Identities = 9/52 (17%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 9 NILITGTPGTGKSTLCEEVVKQCDSLEWID---VNKIARENQFYLKYDEQYE 57
I I+ G+G + +++ ++ + + D +++ A+E+ + E+Y+
Sbjct: 1 IITISRQFGSGGREIGKKLAEKLG-IPYYDREILDEAAKESGISEEEFERYD 51
>gnl|CDD|217066 pfam02492, cobW, CobW/HypB/UreG, nucleotide-binding domain. This
domain is found in HypB, a hydrogenase expression /
formation protein, and UreG a urease accessory protein.
Both these proteins contain a P-loop nucleotide binding
motif. HypB has GTPase activity and is a guanine
nucleotide binding protein. It is not known whether
UreG binds GTP or some other nucleotide. Both enzymes
are involved in nickel binding. HypB can store nickel
and is required for nickel dependent hydrogenase
expression. UreG is required for functional
incorporation of the urease nickel metallocenter. GTP
hydrolysis may required by these proteins for nickel
incorporation into other nickel proteins. This family
of domains also contains P47K, a Pseudomonas
chlororaphis protein needed for nitrile hydratase
expression, and the cobW gene product, which may be
involved in cobalamin biosynthesis in Pseudomonas
denitrificans.
Length = 178
Score = 26.4 bits (59), Expect = 5.9
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQ 30
P ++TG G+GK+TL E ++++
Sbjct: 1 PVTVLTGFLGSGKTTLLEHLLEK 23
>gnl|CDD|212524 cd10000, HDAC8, Histone deacetylase 8 (HDAC8). HDAC8 is a
Zn-dependent class I histone deacetylase that catalyzes
hydrolysis of an N(6)-acetyl-lysine residue of a histone
to yield a deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. HDAC8 is found in human cytoskeleton-bound
protein fraction and insoluble cell pellets. It plays a
crucial role in intramembraneous bone formation;
germline deletion of HDAC8 is detrimental to skull bone
formation. HDAC8 is possibly associated with the smooth
muscle actin cytockeleton and may regulate the
contractive capacity of smooth muscle cells. HDAC8 is
also involved in the metabolic control of the estrogen
receptor related receptor (ERR)-alpha/peroxisome
proliferator activated receptor (PPAR) gamma coactivator
1 alpha (PGC1-alpha) transcriptional complex as well as
in the development of neuroblastoma and T-cell lymphoma.
HDAC8-selective small-molecule inhibitors could be a
therapeutic drug option for these diseases.
Length = 364
Score = 26.9 bits (60), Expect = 6.1
Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 9/61 (14%)
Query: 121 LQDNLQCEIFQTILEEARDSYKED-IVVSLPSNT--HDDM-SSNVT-----SIIQFVKQW 171
+QD +IF ++ E +++ + +V+ ++T D M + N+T +++V W
Sbjct: 222 IQDEQYLQIFTAVVPEIVAAFRPEAVVLQCGADTLAGDPMGAFNLTPVGIGKCLKYVLGW 281
Query: 172 K 172
K
Sbjct: 282 K 282
>gnl|CDD|237480 PRK13721, PRK13721, conjugal transfer ATP-binding protein TraC;
Provisional.
Length = 844
Score = 27.0 bits (60), Expect = 6.2
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 6 TKPNILITGTPGTGKSTLCEEVVKQ 30
T N+ + GT G GK+ L + +++
Sbjct: 448 TNYNMAVCGTSGAGKTGLIQPLIRS 472
>gnl|CDD|215125 PLN02200, PLN02200, adenylate kinase family protein.
Length = 234
Score = 26.8 bits (59), Expect = 6.2
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 2 SSKRTKPNI-LITGTPGTGKSTLCEEVVK 29
SSK P I + G PG+GK T CE++V+
Sbjct: 37 SSKEKTPFITFVLGGPGSGKGTQCEKIVE 65
>gnl|CDD|226415 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 27.0 bits (60), Expect = 6.4
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 10 ILITGTPGTGKSTLCEEVVK 29
+L+ G G GKS L EV K
Sbjct: 27 VLVAGESGIGKSALVNEVHK 46
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. This
model represents the AAA family ATPase, EccA, of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccA1,
EccA2, etc [Protein fate, Protein and peptide secretion
and trafficking].
Length = 557
Score = 26.7 bits (59), Expect = 6.6
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
+L G PGTGK+T+ V K
Sbjct: 315 MLFAGPPGTGKTTIARVVAKI 335
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 26.8 bits (60), Expect = 6.7
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 3 SKRTKPNILITGTPGTGKSTLCE 25
S+RTK N ++ G PG GK+ + E
Sbjct: 190 SRRTKNNPVLIGEPGVGKTAIVE 212
>gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase. Function:
phosphorylation of DTMP to form DTDP in both de novo
and salvage pathways of DTTP synthesis. Catalytic
activity: ATP + thymidine 5'-phosphate = ADP +
thymidine 5'-diphosphate [Purines, pyrimidines,
nucleosides, and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 195
Score = 26.6 bits (59), Expect = 7.0
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSL 34
I+I G G GK+T + K
Sbjct: 6 IVIEGIDGAGKTTQANLLKKLLQEN 30
>gnl|CDD|227297 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 26.5 bits (59), Expect = 7.0
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 9 NILITGTPGTGKSTLCEEVVKQCDSLE 35
NILI+G G+GK+TL + DS E
Sbjct: 175 NILISGGTGSGKTTLLNALSGFIDSDE 201
>gnl|CDD|220440 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075).
This domain, found in various prokaryotic proteins
(including putative ATP/GTP binding proteins), has no
known function.
Length = 348
Score = 26.8 bits (60), Expect = 7.2
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 10 ILITGTPGTGKS 21
L+TG PGTGK+
Sbjct: 4 FLVTGGPGTGKT 15
>gnl|CDD|163593 TIGR03881, KaiC_arch_4, KaiC domain protein, PAE1156 family.
Members of this protein family are archaeal
single-domain KaiC_related proteins, homologous to the
Cyanobacterial circadian clock cycle protein KaiC, an
autokinase/autophosphorylase that has two copies of the
domain.
Length = 229
Score = 26.6 bits (59), Expect = 7.4
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 10 ILITGTPGTGKSTLC 24
+ +TG PGTGK+ C
Sbjct: 23 VAVTGEPGTGKTIFC 37
>gnl|CDD|148849 pfam07475, Hpr_kinase_C, HPr Serine kinase C-terminal domain.
This family represents the C terminal kinase domain of
Hpr Serine/threonine kinase PtsK. This kinase is the
sensor in a multicomponent phosphorelay system in
control of carbon catabolic repression in bacteria.
This kinase in unusual in that it recognises the
tertiary structure of its target and is a member of a
novel family unrelated to any previously described
protein phosphorylating enzymes. X-ray analysis of the
full-length crystalline enzyme from Staphylococcus
xylosus at a resolution of 1.95 A shows the enzyme to
consist of two clearly separated domains that are
assembled in a hexameric structure resembling a
three-bladed propeller.
Length = 171
Score = 26.2 bits (59), Expect = 7.5
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 10 ILITGTPGTGKSTLCEEVVKQ 30
+LITG G GKS E++K+
Sbjct: 21 VLITGESGIGKSETALELIKR 41
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative. The gene product may
represent a DNA helicase. Eukaryotic members of this
family have been characterized as binding certain
single-stranded G-rich DNA sequences (GGGGT and GGGCT).
A number of related proteins are characterized as
helicases [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 26.7 bits (59), Expect = 7.6
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 11 LITGTPGTGKSTLCEEVVKQ 30
LI G PGTGK+ E+++Q
Sbjct: 177 LIHGPPGTGKTRTLVELIRQ 196
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 26.5 bits (58), Expect = 7.7
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 1 MSSKRTKPNIL-ITGTPGTGKSTLCEEVVKQ 30
+ + K IL +TG G GKST + + K+
Sbjct: 38 VFLESNKQLILLLTGPSGCGKSTTVKVLSKE 68
>gnl|CDD|226425 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 26.2 bits (58), Expect = 8.1
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 6 TKPNILITGTPGTGKSTLCE 25
P ITG G+GKSTL E
Sbjct: 36 RAPITFITGENGSGKSTLLE 55
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 26.6 bits (60), Expect = 8.3
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 8 PNILITGTPGTGKSTLCE 25
++++ G PGTGK+TL
Sbjct: 37 SSMILWGPPGTGKTTLAR 54
>gnl|CDD|132613 TIGR03574, selen_PSTK, L-seryl-tRNA(Sec) kinase, archaeal.
Members of this protein are L-seryl-tRNA(Sec) kinase.
This enzyme is part of a two-step pathway in Eukaryota
and Archaea for performing selenocysteine biosynthesis
by changing serine misacylated on selenocysteine-tRNA
to selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents archaeal proteins with
this activity [Protein synthesis, tRNA aminoacylation].
Length = 249
Score = 26.3 bits (58), Expect = 8.3
Identities = 18/50 (36%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARE--NQFYLKYDEQYE 57
I++TG PG GKST +E+ K+ S + IDV + + + + + E+YE
Sbjct: 2 IILTGLPGVGKSTFSKELAKKL-SEKNIDVIILGTDLIRESFPVWKEKYE 50
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members
of this family from Pyrococcus horikoshii and
Pyrococcus abyssi each contain a predicted intein
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 608
Score = 26.7 bits (59), Expect = 8.6
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 2 SSKRTKPNILITGTPGTGKSTLCEEV 27
+ + K N+L+ G PG GKS L + +
Sbjct: 32 KAAKQKRNVLLIGEPGVGKSMLAKAM 57
>gnl|CDD|111927 pfam03086, DUF240, MG032/MG096/MG288 family 2. This family
consists entirely of mycoplasmal proteins. Their
function is unknown. Another related family, pfam03072,
also consists entirely of mycoplasmal proteins of the
MG032/MG096/MG288 family. Some proteins are included in
both families, but of course differ in the aligned
residues.
Length = 119
Score = 25.7 bits (57), Expect = 8.6
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 103 DNTTLYDRLVEKGQSGKKLQDNLQCEIFQTILEEARDSYKEDIV 146
D T + + + G L NL I Q LE A ++E+I+
Sbjct: 63 DLTHIANTAL--GDQFFDLNVNLTKSIIQLDLEAAETRFEEEIL 104
>gnl|CDD|234015 TIGR02788, VirB11, P-type DNA transfer ATPase VirB11. The VirB11
protein is found in the vir locus of Agrobacterium Ti
plasmids where it is involved in the type IV secretion
system for DNA transfer. VirB11 is believed to be an
ATPase. VirB11 is a homolog of the P-like conjugation
system TrbB protein and the Flp pilus sytem protein
TadA.
Length = 308
Score = 26.5 bits (59), Expect = 8.6
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 7 KPNILITGTPGTGKSTLCEEVVKQ 30
+ NI+I+G G+GK+T + +V +
Sbjct: 144 RKNIIISGGTGSGKTTFLKSLVDE 167
>gnl|CDD|226970 COG4619, COG4619, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 223
Score = 26.4 bits (58), Expect = 8.9
Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 5/50 (10%)
Query: 10 ILITGTPGTGKSTLCEEVVKQCDSLEWIDVNKIARENQFYLKYD-EQYEC 58
I ITG G GKSTL +K SL + E + E Y
Sbjct: 32 IAITGPSGCGKSTL----LKIVASLISPTSGTLLFEGEDVSTLKPEAYRQ 77
>gnl|CDD|234402 TIGR03928, T7_EssCb_Firm, type VII secretion protein EssC,
C-terminal domain. This model describes the C-terminal
domain, or longer subunit, of the Firmicutes type VII
secretion protein EssC. This protein (homologous to EccC
in Actinobacteria) and the WXG100 target proteins are
the only homologous parts of type VII secretion between
Firmicutes and Actinobacteria [Protein fate, Protein and
peptide secretion and trafficking].
Length = 1296
Score = 26.5 bits (59), Expect = 8.9
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 9 NILITGTPGTGKST 22
++ I G+PG GKST
Sbjct: 812 HLAIFGSPGYGKST 825
>gnl|CDD|237727 PRK14489, PRK14489, putative bifunctional molybdopterin-guanine
dinucleotide biosynthesis protein MobA/MobB;
Provisional.
Length = 366
Score = 26.3 bits (58), Expect = 8.9
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 8 PNILITGTPGTGKSTLCEEVVKQ 30
P + + G GTGK+TL E+++ +
Sbjct: 206 PLLGVVGYSGTGKTTLLEKLIPE 228
>gnl|CDD|213250 cd03283, ABC_MutS-like, ATP-binding cassette domain of MutS-like
homolog. The MutS protein initiates DNA mismatch
repair by recognizing mispaired and unpaired bases
embedded in duplex DNA and activating endo- and
exonucleases to remove the mismatch. Members of the
MutS family possess C-terminal domain with a conserved
ATPase activity that belongs to the ATP binding
cassette (ABC) superfamily. MutS homologs (MSH) have
been identified in most prokaryotic and all eukaryotic
organisms examined. Prokaryotes have two homologs
(MutS1 and MutS2), whereas seven MSH proteins (MSH1 to
MSH7) have been identified in eukaryotes. The homodimer
MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are
primarily involved in mitotic mismatch repair, whereas
MSH4-MSH5 is involved in resolution of Holliday
junctions during meiosis. All members of the MutS
family contain the highly conserved Walker A/B ATPase
domain, and many share a common mechanism of action.
MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to
form sliding clamps, and recognition of specific DNA
structures or lesions results in ADP/ATP exchange.
Length = 199
Score = 26.1 bits (58), Expect = 8.9
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 7 KPNILITGTPGTGKSTL 23
K ILITG+ +GKST
Sbjct: 25 KNGILITGSNMSGKSTF 41
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 26.5 bits (59), Expect = 9.0
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 10 ILITGTPGTGKSTL 23
+LITG G GK++L
Sbjct: 422 LLITGESGAGKTSL 435
>gnl|CDD|237498 PRK13768, PRK13768, GTPase; Provisional.
Length = 253
Score = 26.4 bits (59), Expect = 9.3
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 9 NILITGTPGTGKSTL 23
+ GT G+GK+TL
Sbjct: 4 IVFFLGTAGSGKTTL 18
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
0.314 0.133 0.387
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,673,604
Number of extensions: 790214
Number of successful extensions: 1297
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1292
Number of HSP's successfully gapped: 245
Length of query: 172
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 82
Effective length of database: 6,945,742
Effective search space: 569550844
Effective search space used: 569550844
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (24.9 bits)