RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14616
(174 letters)
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 183 bits (466), Expect = 4e-57
Identities = 75/142 (52%), Positives = 99/142 (69%), Gaps = 20/142 (14%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAG 60
+VGQ +AR AAGV++ MIKEGKIAGRA+L+AG PGTGKTA+A+ +++ LG DTPF ++G
Sbjct: 26 LVGQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPFCPISG 85
Query: 61 SEIYSLEMNKTE---------------EETEMIEGEVVEIQI---ERPATGLGS--KVGK 100
SE+YSLEM KTE EE E+ EGEVVE++I E P +G G K GK
Sbjct: 86 SEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEIEEAENPLSGYGKTIKHGK 145
Query: 101 LTMKTTEMETSYDLGAKMIEAI 122
+T+KTT+ME + LG K+ E +
Sbjct: 146 ITLKTTKMEKTLKLGPKIYEQL 167
Score = 66.6 bits (163), Expect = 2e-13
Identities = 25/38 (65%), Positives = 31/38 (81%)
Query: 123 GTAYSSPHGIPIDLLDRMVIIPTQPYQDEEIQAILKIR 160
GT SPHGIP+DLLDR++II T+PY EEI+ IL+IR
Sbjct: 320 GTDIISPHGIPLDLLDRLLIITTEPYTREEIKQILEIR 357
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 162 bits (412), Expect = 2e-48
Identities = 65/142 (45%), Positives = 89/142 (62%), Gaps = 20/142 (14%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAG 60
+VGQ +AR AAGV++ MIK+GK+AGR IL+ G PGTGKTA+AMG+A+ LG D PF +++G
Sbjct: 41 LVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISG 100
Query: 61 SEIYSLEMNKTE---------------EETEMIEGEVVEIQIERPATGLGS-----KVGK 100
SEIYSLE+ KTE E E+ EGEVVE++I R L
Sbjct: 101 SEIYSLEVKKTEALTQALRRAIGVRIKETREVYEGEVVELEIRRARNPLNPYGKVPSGAI 160
Query: 101 LTMKTTEMETSYDLGAKMIEAI 122
+T+KT + E + LG ++ E +
Sbjct: 161 ITLKTKDEEKTLRLGPEIAEQL 182
Score = 64.7 bits (158), Expect = 8e-13
Identities = 24/38 (63%), Positives = 31/38 (81%)
Query: 123 GTAYSSPHGIPIDLLDRMVIIPTQPYQDEEIQAILKIR 160
GT SPHGIP+DLLDR++II T+PY EEI+ I++IR
Sbjct: 336 GTDIESPHGIPLDLLDRLLIISTRPYSREEIREIIRIR 373
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 45.4 bits (108), Expect = 5e-06
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 29 LLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
LL G+PG GKTAI GLA + + ++IYSL+M
Sbjct: 206 LLVGEPGVGKTAIVEGLALRIAEGKVPERLKNAKIYSLDM 245
>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 = 41.0 bits (96), Expect = 5e-05
Identities = 28/130 (21%), Positives = 47/130 (36%), Gaps = 13/130 (10%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALG-PDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVV 83
+ +LL G PGTGKT +A +A L P PF + S++ + ++
Sbjct: 19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFE 78
Query: 84 EIQIERPAT---------GLGSKVGKLTMKTTEMETSYDLGAKMIEAIG-TAYSSPHGIP 133
+ +P G++ L + T + D + IG T +
Sbjct: 79 LAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRV--IGATNRPLLGDLD 136
Query: 134 IDLLDRMVII 143
L DR+ I
Sbjct: 137 RALYDRLDIR 146
>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 = 40.7 bits (96), Expect = 6e-05
Identities = 18/36 (50%), Positives = 25/36 (69%), Gaps = 2/36 (5%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEI 63
+LL G PGTGKT +A +A+ LG PF ++GSE+
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELG--APFIEISGSEL 34
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 41.5 bits (98), Expect = 8e-05
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 29 LLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
+L G+PG GKTAI GLAQ + S+ IYSL++
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDL 234
Score = 26.5 bits (59), Expect = 9.0
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 27 AILLAGQPGTGKTAIAMGLAQAL-GPDTPFTSMAGSEIYSLE 67
+ L G G GKT +A LA+AL G + + SE Y +
Sbjct: 523 SFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSE-YMEK 563
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 41.0 bits (96), Expect = 1e-04
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 1 MVGQLQARRAAGVVLGMIKE----GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFT 56
++GQ +A+R +++ ++ G A + +L G PGTGKT +A LA P
Sbjct: 123 VIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA--KVPLL 180
Query: 57 SMAGSEI 63
+ +E+
Sbjct: 181 LVKATEL 187
>gnl|CDD|236093 PRK07773, PRK07773, replicative DNA helicase; Validated.
Length = 886
Score = 40.1 bits (94), Expect = 3e-04
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGE 81
G+ I++A +P GKT + A+ I+SLEM+K + ++ E
Sbjct: 217 GQLIIVAARPSMGKTTFGLDFARNCA----IRHRLAVAIFSLEMSKEQLVMRLLSAE 269
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 38.5 bits (90), Expect = 5e-04
Identities = 14/26 (53%), Positives = 20/26 (76%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALG 50
GR +L+ G PG+GK+ +A GLA+ LG
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLG 26
>gnl|CDD|235898 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated.
Length = 342
Score = 37.4 bits (87), Expect = 0.002
Identities = 15/28 (53%), Positives = 17/28 (60%)
Query: 27 AILLAGQPGTGKTAIAMGLAQALGPDTP 54
A+LL GQ G GK A LAQ L +TP
Sbjct: 23 ALLLHGQAGIGKLDFAQHLAQGLLCETP 50
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 37.3 bits (87), Expect = 0.002
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSE 62
+LL G PGTGKT +A +A PF S++GSE
Sbjct: 219 VLLVGPPGTGKTLLAKAIAGEAE--VPFFSISGSE 251
>gnl|CDD|223382 COG0305, DnaB, Replicative DNA helicase [DNA replication,
recombination, and repair].
Length = 435
Score = 37.2 bits (87), Expect = 0.002
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVVEIQI 87
I++A +PG GKTA+A+ +A D I+SLEM++ E+ + I+
Sbjct: 199 IIVAARPGMGKTALALNIALNAAADGRKPVA----IFSLEMSE-EQLVMRLLSSESGIES 253
Query: 88 ERPATG 93
+ TG
Sbjct: 254 SKLRTG 259
>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 = 36.7 bits (86), Expect = 0.002
Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 2 VGQLQARRAAGVVLGMIKEGKIA---GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSM 58
GQ QA+RA +IA G +L+ G PG+GKT +A L L P T ++
Sbjct: 6 KGQEQAKRAL----------EIAAAGGHNLLMIGPPGSGKTMLAKRLPGILPPLTEQEAL 55
Query: 59 AGSEIYSL 66
+ I+S+
Sbjct: 56 EVTAIHSV 63
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
HflB(FtsH) is a pleiotropic protein required for correct
cell division in bacteria. It has ATP-dependent zinc
metalloprotease activity. It was formerly designated
cell division protein FtsH [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 37.3 bits (87), Expect = 0.003
Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 5/48 (10%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
KI + +LL G PGTGKT +A +A G PF S++GS+ +EM
Sbjct: 85 AKIP-KGVLLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSDF--VEM 127
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 37.1 bits (86), Expect = 0.003
Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 2/45 (4%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTE 72
+LL G PGTGKT +A A AL + F S+ GSE+ S + ++E
Sbjct: 279 VLLYGPPGTGKTLLA--KAVALESRSRFISVKGSELLSKWVGESE 321
Score = 27.9 bits (62), Expect = 3.5
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMI 78
+ +LL G PGTGKT +A LA F S+ G EI S + ++E +
Sbjct: 19 KGVLLHGPPGTGKTLLARALAN---EGAEFLSINGPEILSKYVGESELRLREL 68
>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 = 35.7 bits (83), Expect = 0.003
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 23 IAGRAILLAGQPGTGKTAIAMGLAQALGPDTPF 55
G LLAG PGTGK+ +A+ LA A+ PF
Sbjct: 31 PRGGLTLLAGAPGTGKSTLALDLAAAVATGRPF 63
>gnl|CDD|233080 TIGR00665, DnaB, replicative DNA helicase. This model describes
the helicase DnaB, a homohexameric protein required for
DNA replication. The homohexamer can form a ring around
a single strand of DNA near a replication fork. An
intein of > 400 residues is found at a conserved
location in DnaB of Synechocystis PCC6803, Rhodothermus
marinus (both experimentally confirmed), and
Mycobacterium tuberculosis. The intein removes itself by
a self-splicing reaction. The seed alignment contains
inteins so that the model built from the seed alignment
will model a low cost at common intein insertion sites
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 434
Score = 36.6 bits (86), Expect = 0.004
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 8/47 (17%)
Query: 28 ILLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEMNKTE 72
I+LA +P GKTA A+ +A+ A+ P +SLEM+ +
Sbjct: 198 IILAARPSMGKTAFALNIAENAAIKEGKP------VAFFSLEMSAEQ 238
>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 = 35.8 bits (82), Expect = 0.004
Identities = 19/70 (27%), Positives = 26/70 (37%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVVE 84
G IL+ G PG+GKT +A LA+ LGP E E+ + +
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 85 IQIERPATGL 94
R L
Sbjct: 62 SGELRLRLAL 71
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 36.6 bits (85), Expect = 0.004
Identities = 16/29 (55%), Positives = 19/29 (65%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQALGPD 52
AG +LL G PG GKT +A LA+ALG
Sbjct: 42 AGGHVLLEGPPGVGKTLLARALARALGLP 70
>gnl|CDD|238484 cd00984, DnaB_C, DnaB helicase C terminal domain. The hexameric
helicase DnaB unwinds the DNA duplex at the chromosome
replication fork. Although the mechanism by which DnaB
both couples ATP hydrolysis to translocation along DNA
and denatures the duplex is unknown, a change in the
quaternary structure of the protein involving
dimerization of the N-terminal domain has been observed
and may occur during the enzymatic cycle. This
C-terminal domain contains an ATP-binding site and is
therefore probably the site of ATP hydrolysis.
Length = 242
Score = 36.4 bits (85), Expect = 0.004
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTE 72
I++A +P GKTA A+ +A+ + + +SLEM+K +
Sbjct: 16 IIIAARPSMGKTAFALNIAENIAKKQGKPVL----FFSLEMSKEQ 56
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of
several bacterial zeta toxin proteins. Zeta toxin is
thought to be part of a postregulational killing system
in bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 35.3 bits (82), Expect = 0.006
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPD 52
A+LL GQPG GKT +A L + LG
Sbjct: 13 VAVLLGGQPGAGKTELARALLEELGGG 39
>gnl|CDD|217733 pfam03796, DnaB_C, DnaB-like helicase C terminal domain. The
hexameric helicase DnaB unwinds the DNA duplex at the
Escherichia coli chromosome replication fork. Although
the mechanism by which DnaB both couples ATP hydrolysis
to translocation along DNA and denatures the duplex is
unknown, a change in the quaternary structure of the
protein involving dimerisation of the N-terminal domain
has been observed and may occur during the enzymatic
cycle. This C-terminal domain contains an ATP-binding
site and is therefore probably the site of ATP
hydrolysis.
Length = 260
Score = 35.6 bits (83), Expect = 0.006
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 8/45 (17%)
Query: 28 ILLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEMNK 70
I++A +P GKTA A+ +A+ AL P +SLEM+
Sbjct: 22 IIIAARPSMGKTAFALNIARNIALRQGKP------VLFFSLEMSA 60
>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 = 34.6 bits (80), Expect = 0.007
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 10/64 (15%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSE-------IYSLEMNKTEEETEMIEG 80
+LL G PGTGK+ +A LA AL F + + ++ ++G
Sbjct: 2 VLLVGPPGTGKSELAERLAAALSNRPVFY-VQLTRDTTEEDLKGRRNID--PGGASWVDG 58
Query: 81 EVVE 84
+V
Sbjct: 59 PLVR 62
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 35.8 bits (83), Expect = 0.007
Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
KI + +LL G PGTGKT +A A A PF S++GS+ +EM
Sbjct: 180 AKI-PKGVLLVGPPGTGKTLLAK--AVAGEAGVPFFSISGSD--FVEM 222
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. This model
describes the N-terminal half of the delta' subunit of
DNA polymerase III. Delta' is homologous to the gamma
and tau subunits, which form an outgroup for
phylogenetic comparison. The gamma/tau branch of the
tree is much more tighly conserved than the delta'
branch, and some members of that branch score more
highly against this model than some proteins
classisified as delta'. The noise cutoff is set to
detect weakly scoring delta' subunits rather than to
exclude gamma/tau subunits. At position 126-127 of the
seed alignment, this family lacks the HM motif of
gamma/tau; at 132 it has a near-invariant A vs. an
invariant F in gamma/tau [DNA metabolism, DNA
replication, recombination, and repair].
Length = 188
Score = 35.3 bits (82), Expect = 0.007
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 15 LGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
+++G++A A L AG G GK +A+ LA+AL
Sbjct: 5 KRALEKGRLAH-AYLFAGPEGVGKELLALALAKAL 38
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 35.4 bits (82), Expect = 0.009
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 16 GMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPF 55
++K+G+I +L + PGTGKT +A L +G + F
Sbjct: 35 SIVKKGRIP-NMLLHSPSPGTGKTTVAKALCNEVGAEVLF 73
>gnl|CDD|216999 pfam02367, UPF0079, Uncharacterized P-loop hydrolase UPF0079.
This uncharacterized family contains a P-loop.
Length = 123
Score = 34.2 bits (79), Expect = 0.010
Identities = 17/34 (50%), Positives = 19/34 (55%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTS 57
AG +LL+G G GKT GLAQ LG TS
Sbjct: 14 AGDVVLLSGDLGAGKTTFVRGLAQGLGITGNVTS 47
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 35.3 bits (81), Expect = 0.011
Identities = 23/59 (38%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVVE 84
+ +LL G PGTGKT +A +A G F S+ G EI S ++EE I E E
Sbjct: 213 KGVLLYGPPGTGKTLLAKAVANEAGAY--FISINGPEIMSKYYGESEERLREIFKEAEE 269
Score = 31.8 bits (72), Expect = 0.16
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMI 78
+ +LL G PGTGKT +A +A G + F ++ G EI S + ++E+ I
Sbjct: 488 KGVLLFGPPGTGKTLLAKAVATESGAN--FIAVRGPEILSKWVGESEKAIREI 538
>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 = 35.3 bits (82), Expect = 0.013
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 30 LAGQPGTGKTAIAMGLAQ-ALGPDTPFTSMAGSEIYSLEM 68
L G+PG GKTAI GLAQ + D P S+ + +L+M
Sbjct: 199 LIGEPGVGKTAIVEGLAQRIVNGDVP-ESLKNKRLLALDM 237
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau
subunit. A translational frameshift leads to early
termination and a truncated protein subunit gamma,
about 1/3 shorter than tau and present in roughly equal
amounts. This frameshift mechanism is not necessarily
universal for species with DNA polymerase III but
appears conserved in the exterme thermophile Thermus
thermophilis [DNA metabolism, DNA replication,
recombination, and repair].
Length = 355
Score = 34.8 bits (81), Expect = 0.013
Identities = 18/32 (56%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
IK G+IA A L +G GTGKT+IA A+AL
Sbjct: 30 IKNGRIAH-AYLFSGPRGTGKTSIARIFAKAL 60
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 34.8 bits (81), Expect = 0.014
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMA 59
K+ G + L G PG GKT++ +A+ALG F ++
Sbjct: 346 KKLKGPILCLVGPPGVGKTSLGKSIAKALG--RKFVRIS 382
Score = 31.8 bits (73), Expect = 0.18
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 108 METSYDLGAKMIEAIGTAYSSPHGIPIDLLDRMVIIPTQPYQDEEIQAILKIRLVK 163
+E YDL M I TA +S IP LLDRM +I Y ++E I K L+
Sbjct: 458 LEVPYDLSKVMF--IATA-NSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIP 510
>gnl|CDD|180232 PRK05748, PRK05748, replicative DNA helicase; Provisional.
Length = 448
Score = 34.2 bits (79), Expect = 0.022
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
I++A +P GKTA A+ +AQ + T I+SLEM
Sbjct: 206 IIVAARPSVGKTAFALNIAQNVATKTDKNVA----IFSLEM 242
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 34.4 bits (79), Expect = 0.022
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
+VGQ ++ ++ +K+ I+ A + AG GTGKT +A LA++L
Sbjct: 16 VVGQDHVKKL---IINALKKNSIS-HAYIFAGPRGTGKTTVARILAKSL 60
>gnl|CDD|181676 PRK09165, PRK09165, replicative DNA helicase; Provisional.
Length = 497
Score = 34.1 bits (79), Expect = 0.028
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 10/51 (19%)
Query: 28 ILLAGQPGTGKTA----IAMGLAQALGPD-----TPFTSMAGS-EIYSLEM 68
I+LAG+P GKTA IA A+A + + G +SLEM
Sbjct: 220 IILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEM 270
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 34.0 bits (79), Expect = 0.029
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 28 ILLAGQPGTGKTAIAMGLA-QALGPDTPFTSMAGSE 62
+LL G PGTGKT +A +A + + F + GSE
Sbjct: 168 VLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSE 200
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 33.7 bits (78), Expect = 0.035
Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 19 KEGKIAGRAILLAGQPGTGKTAIAMGLA 46
+GK +A+LL G PG GKT++A LA
Sbjct: 34 LKGKPK-KALLLYGPPGVGKTSLAHALA 60
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 33.4 bits (77), Expect = 0.035
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 24 AGRAIL-LAGQPGTGKTAIAMGLAQALGPD 52
R I+ +AG PG GK+ +A L L D
Sbjct: 31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD 60
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.8 bits (77), Expect = 0.036
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALG 50
G+ ILL G PG GKT++ LA+ G
Sbjct: 1543 GKPILLEGSPGVGKTSLITALARKTG 1568
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 32.4 bits (74), Expect = 0.038
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
IL+ G PG+GKT +A LA+ LG
Sbjct: 1 ILITGTPGSGKTTLAKELAERLG 23
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 33.0 bits (76), Expect = 0.038
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 14/64 (21%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPF----------TSMAGSEIYSL--EMNKTEEET 75
I+L G G GK+ I LA+AL PF T M+ +EI+ E ET
Sbjct: 5 IVLIGFMGAGKSTIGRALAKALNL--PFIDTDQEIEKRTGMSIAEIFEEEGEEGFRRLET 62
Query: 76 EMIE 79
E+++
Sbjct: 63 EVLK 66
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 33.5 bits (78), Expect = 0.042
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 18 IKEGKIAGRAI--------LLAGQPGTGKTAIAMGLAQALG 50
+ GK R I +L G PGTGKT +A +A A
Sbjct: 21 LGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD 61
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 32.5 bits (75), Expect = 0.044
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 9/46 (19%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG---------PDTPFTSMAGSEIY 64
+LL G PG KT +A LA++LG PD + + G+E+Y
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRIQFTPDLLPSDITGTEVY 47
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 33.4 bits (77), Expect = 0.053
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 8/41 (19%)
Query: 18 IKEGKIAGRAI--------LLAGQPGTGKTAIAMGLAQALG 50
+ EGK RA+ +L G PGTGKT +A +A
Sbjct: 33 LGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTN 73
>gnl|CDD|236828 PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit;
Provisional.
Length = 758
Score = 33.3 bits (76), Expect = 0.054
Identities = 21/44 (47%), Positives = 25/44 (56%), Gaps = 8/44 (18%)
Query: 29 LLAGQPGTGKTAIAMGLA----QALGPDTPFTSMAGSEIYSLEM 68
LL G+ G GKTAIA GLA Q P+ MA IYSL++
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGDVPEV----MADCTIYSLDI 250
Score = 26.7 bits (59), Expect = 7.2
Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 16 GMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALG 50
G+ E K G + L AG G GKT + + L++ALG
Sbjct: 480 GLGHEHKPVG-SFLFAGPTGVGKTEVTVQLSKALG 513
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 32.7 bits (75), Expect = 0.075
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQ 47
+L G+PG GKTAIA GLAQ
Sbjct: 201 NNPILIGEPGVGKTAIAEGLAQ 222
>gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated.
Length = 325
Score = 32.5 bits (74), Expect = 0.086
Identities = 16/28 (57%), Positives = 18/28 (64%)
Query: 27 AILLAGQPGTGKTAIAMGLAQALGPDTP 54
A L AG+ G GKTA A AQAL +TP
Sbjct: 23 AWLFAGKKGIGKTAFARFAAQALLCETP 50
>gnl|CDD|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated.
Length = 329
Score = 32.2 bits (74), Expect = 0.095
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 17 MIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
I + +++ A L G GTGK A A+ LA++L
Sbjct: 21 SIAKNRLS-HAYLFEGAKGTGKKATALWLAKSL 52
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 32.2 bits (74), Expect = 0.10
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALG 50
+ I++AG +GKTA+A+ LA+ LG
Sbjct: 4 KLIVIAGPTASGKTALAIALAKRLG 28
>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 = 31.8 bits (73), Expect = 0.11
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 25 GRAILLAGQPGTGKTAIAM 43
GR +L+ G PGTGKT +
Sbjct: 19 GRVVLITGGPGTGKTIFGL 37
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 31.1 bits (70), Expect = 0.11
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
IL+ G PG+GK+ +A LA+ LG
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLG 24
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit
[DNA replication, recombination, and repair].
Length = 332
Score = 32.1 bits (74), Expect = 0.12
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 2 VGQLQARRAAGVVLGMIKEGKIAGRA---ILLAGQPGTGKTAIAMGLAQALG 50
+GQ + + + IK K G A +LL G PG GKT +A +A LG
Sbjct: 29 IGQEKVKEQLQI---FIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELG 77
>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 31.4 bits (72), Expect = 0.13
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTS 57
AG +LL+G G GKT + G+A+ LG D S
Sbjct: 24 AGDVVLLSGDLGAGKTTLVRGIAKGLGVDGNVKS 57
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 32.3 bits (74), Expect = 0.13
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALG 50
GK+ G + L G PG GKT++ +A+AL
Sbjct: 343 GKMKGPILCLVGPPGVGKTSLGKSIAKALN 372
Score = 31.9 bits (73), Expect = 0.15
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 132 IPIDLLDRMVIIPTQPYQDEEIQAILKIRLVKNERNE 168
IP LLDRM +I Y +EE I K L+ +
Sbjct: 476 IPRPLLDRMEVIELSGYTEEEKLEIAKKYLIPKALED 512
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 31.9 bits (72), Expect = 0.14
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAG 60
++GQ Q +R + G +LL G PGTGKT +A + L + ++
Sbjct: 193 VIGQEQGKRGLEITAA-------GGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALES 245
Query: 61 SEIYSL 66
+ I SL
Sbjct: 246 AAILSL 251
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 31.8 bits (72), Expect = 0.15
Identities = 45/179 (25%), Positives = 69/179 (38%), Gaps = 33/179 (18%)
Query: 22 KIAGRAILLAGQPGTGKTAIAMGLAQALGPD--------------------TPFTSMAGS 61
KI G + L G PG GKT++ +A+A G T SM G
Sbjct: 346 KIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSMPGK 405
Query: 62 EIYSLEMNKTEEETEMIEGEVVEIQIER---PATGLGSKVG---KLTMKTTEMETSYDLG 115
I + + +++ E+ ++ + PA+ L + + +E YDL
Sbjct: 406 LIQKMAKVGVKNPLFLLD-EIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLS 464
Query: 116 AKMIEAIGTAYSSPHGIPIDLLDRMVIIPTQPYQDEEIQAILKIRLVKN--ERNEIYNH 172
M A S+ IP LLDRM +I Y ++E I K L+ ERN +
Sbjct: 465 DVMF----VATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKG 519
>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 = 30.9 bits (70), Expect = 0.18
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 6/68 (8%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG-----PDTPFTSMAGSEIYSL-EMNKTEEETEMIEGE 81
I ++G PG+GKT +A LA+ L F +A L E EE I+ +
Sbjct: 3 ITISGPPGSGKTTVAKILAEKLSLKLISAGDIFRELAAKMGLDLIEFLNYAEENPEIDKK 62
Query: 82 VVEIQIER 89
+ E
Sbjct: 63 IDRRIHEI 70
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 31.0 bits (71), Expect = 0.18
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
L G G GKT +A LA+ L
Sbjct: 6 FLFLGPTGVGKTELAKALAELLF 28
>gnl|CDD|129254 TIGR00150, T6A_YjeE, tRNA threonylcarbamoyl adenosine
modification protein YjeE. This protein family belongs
to a four-gene system responsible for the
threonylcarbamoyl adenosine (t6A) tRNA modification.
Members of this family have a conserved
nucleotide-binding motif GXXGXGKT and a
nucleotide-binding fold. Member protein YjeE of
Haemophilus influenzae (HI0065) was shown to have
(weak) ATPase activity [Protein synthesis, tRNA and
rRNA base modification].
Length = 133
Score = 30.5 bits (69), Expect = 0.19
Identities = 15/33 (45%), Positives = 17/33 (51%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTS 57
G +LL G G GKT + GL Q LG TS
Sbjct: 22 GTVVLLKGDLGAGKTTLVQGLLQGLGIQGNVTS 54
>gnl|CDD|180177 PRK05636, PRK05636, replicative DNA helicase; Provisional.
Length = 505
Score = 31.7 bits (72), Expect = 0.19
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTE 72
G+ I++A +PG GK+ +A+ ++ S+ I+SLEM+K+E
Sbjct: 264 GGQMIIVAARPGVGKSTLALDFMRSASIKHNKASV----IFSLEMSKSE 308
>gnl|CDD|136040 PRK06763, PRK06763, F0F1 ATP synthase subunit alpha; Validated.
Length = 213
Score = 31.0 bits (70), Expect = 0.20
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 9/46 (19%)
Query: 45 LAQALGPDTPFTSMAGSEIYSLEMNKT-----EEETEMIEGEVVEI 85
LA ALG +++G+ + LE+ K E IEG VVE+
Sbjct: 8 LAGALG----IAALSGTNLPGLEITKASAASIESNFSTIEGRVVEV 49
>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 484
Score = 31.5 bits (71), Expect = 0.21
Identities = 28/76 (36%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 10 AAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMN 69
A G + +K GKI G A + G G GKT IA LA+ L + P G+E + E
Sbjct: 26 AIGALQNALKSGKI-GHAYIFFGPRGVGKTTIARILAKRLNCENPI----GNEPCN-ECT 79
Query: 70 KTEEETEMIEGEVVEI 85
E T+ I +V+EI
Sbjct: 80 SCLEITKGISSDVLEI 95
>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 = 30.7 bits (70), Expect = 0.21
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
I++ G G+GK+ + LA+ LG
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLG 24
>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 = 30.1 bits (68), Expect = 0.23
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
I++ G+ G GKT +A LA AL
Sbjct: 2 IVVTGKGGVGKTTLAANLAAAL 23
>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated.
Length = 328
Score = 31.2 bits (71), Expect = 0.24
Identities = 16/32 (50%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 23 IAGR-----AILLAGQPGTGKTAIAMGLAQAL 49
+AGR A LL G G GK A+A LA AL
Sbjct: 15 LAGRGRHPHAYLLHGPAGIGKRALAERLAAAL 46
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 30.9 bits (70), Expect = 0.26
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQALG 50
+G + L G GTGKT +AM +A+
Sbjct: 20 SGYPVHLRGPAGTGKTTLAMHVARKRD 46
>gnl|CDD|181547 PRK08760, PRK08760, replicative DNA helicase; Provisional.
Length = 476
Score = 31.0 bits (70), Expect = 0.28
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVVEIQI 87
I+LA +P GKT A+ +A+ S G ++S+EM+ ++ +I I
Sbjct: 232 IILAARPAMGKTTFALNIAEYAA----IKSKKGVAVFSMEMSASQLAMRLISSN-GRINA 286
Query: 88 ERPATG 93
+R TG
Sbjct: 287 QRLRTG 292
>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 = 30.7 bits (70), Expect = 0.29
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
I+L G P +GK+ A LA+ L
Sbjct: 2 IILTGLPSSGKSTRAKELAKYL 23
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 30.9 bits (70), Expect = 0.29
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSE 62
R +LL G PGTGKT +A +A F + GSE
Sbjct: 180 RGVLLYGPPGTGKTMLAKAVAHH--TTATFIRVVGSE 214
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 30.4 bits (69), Expect = 0.32
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG-----PDTPFTSMAGSEIYSL-EMNKTEEETEMIEGE 81
I ++G PG+GKT +A LA+ LG T F MA SL E ++ EE I+ E
Sbjct: 3 ITISGLPGSGKTTVARELAEHLGLKLVSAGTIFREMARERGMSLEEFSRYAEEDPEIDKE 62
Query: 82 VVEIQIER 89
+ Q E
Sbjct: 63 IDRRQKEL 70
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 31.0 bits (70), Expect = 0.32
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 29 LLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
+L G+PG GKTAI GLAQ + + G + +L+M
Sbjct: 203 VLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM 242
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 30.7 bits (70), Expect = 0.35
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 29 LLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEMN 69
+L G+ G GKTA+ GLA A G D P ++ + SL++
Sbjct: 212 ILTGEAGVGKTAVVEGLALRIAAG-DVP-PALRNVRLLSLDLG 252
Score = 28.4 bits (64), Expect = 2.6
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 136 LLDRMVIIPTQPYQDEEIQAILKIRL 161
L RM +IP P D+ + AI++++L
Sbjct: 755 FLGRMTVIPYLPLDDDVLAAIVRLKL 780
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 30.6 bits (70), Expect = 0.36
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
+L AG PGTGKT A+ LA+ L
Sbjct: 41 LLFAGPPGTGKTTAALALAREL 62
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 30.5 bits (69), Expect = 0.38
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL---GPDTPFTSMA 59
++L G PG GKT +A+ + L G F +
Sbjct: 108 LVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP 142
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate
transferase; Reviewed.
Length = 307
Score = 30.5 bits (70), Expect = 0.39
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALG 50
+ I++ G +GKTA+A+ LA+ L
Sbjct: 5 KVIVIVGPTASGKTALAIELAKRLN 29
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 30.6 bits (70), Expect = 0.40
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAM 43
G GR L++G GTGKT A+
Sbjct: 27 GLPKGRPTLVSGTAGTGKTLFAL 49
>gnl|CDD|235537 PRK05632, PRK05632, phosphate acetyltransferase; Reviewed.
Length = 684
Score = 30.5 bits (70), Expect = 0.40
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 26 RAILLAG-QPGTGKTAIAMGLAQAL 49
R+I LA G G T++++GL +AL
Sbjct: 3 RSIYLAPTGTGVGLTSVSLGLMRAL 27
>gnl|CDD|219178 pfam06792, UPF0261, Uncharacterized protein family (UPF0261).
Length = 403
Score = 30.6 bits (70), Expect = 0.41
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 4 QLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
AR AA +V + EGKI G ++ G G+G TA+A +AL
Sbjct: 75 AAMARGAAALVSELYDEGKIDG--VIGLG--GSGGTALATPAMRAL 116
>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 = 30.6 bits (69), Expect = 0.45
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 22 KIAGRA--ILLAGQPGTGKTAIAMGLAQAL 49
+A + +L AG PGTGKT IA +A+
Sbjct: 307 PVAQTSNHMLFAGPPGTGKTTIARVVAKIY 336
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 30.6 bits (69), Expect = 0.45
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAG 60
+ GQ A+RA + G +LL G PG+GKT +A L L P T ++
Sbjct: 194 IKGQQHAKRALEIAAA-------GGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIET 246
Query: 61 SEIYSL 66
+ I+SL
Sbjct: 247 ARIWSL 252
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 30.3 bits (69), Expect = 0.49
Identities = 15/28 (53%), Positives = 17/28 (60%), Gaps = 3/28 (10%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGL 45
I EG+ R ILLA GTGKT A+ L
Sbjct: 429 IVEGQ---REILLAMATGTGKTRTAIAL 453
>gnl|CDD|222178 pfam13500, AAA_26, AAA domain. This domain is found in a number
of proteins involved in cofactor biosynthesis such as
dethiobiotin synthase and cobyric acid synthase. This
domain contains a P-loop motif.
Length = 197
Score = 29.9 bits (68), Expect = 0.50
Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 26 RAILLAG-QPGTGKTAIAMGLAQAL 49
R I + G G GKT +++GL +AL
Sbjct: 1 RTIFVTGTDTGVGKTVVSLGLVRAL 25
>gnl|CDD|226573 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 261
Score = 30.2 bits (68), Expect = 0.50
Identities = 25/140 (17%), Positives = 43/140 (30%), Gaps = 16/140 (11%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQAL---GPDTPFTSMAGSEIY-SLEMNKTEEETEMIEGE 81
I+L G PG+GKT A LA+ L E +E
Sbjct: 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEKDYLRGILWDESLPILKEV------ 55
Query: 82 VVEIQIERPATGLGSKVGKLTMKTTEMETSYDLGAKMIEAIGTAYSSPHGI-----PIDL 136
E ++ L S + K + + Y + + + I P+D
Sbjct: 56 YRESFLKSVERLLDSAL-KNYLVIVDDTNYYKSMRRQLACEAKERKTTWCIIYLRTPLDT 114
Query: 137 LDRMVIIPTQPYQDEEIQAI 156
R +P +E ++ +
Sbjct: 115 CLRRNRERGEPIPEEVLRQL 134
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 30.4 bits (69), Expect = 0.51
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 12/59 (20%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQAL-------GPDTP-FTSMAGSEIYSLEMNKTEEETE 76
+ +LL G PG GKT IA +A +L G F ++ G E+ +NK ETE
Sbjct: 217 KGVLLYGPPGCGKTLIAKAVANSLAARIGAEGGGKSYFLNIKGPEL----LNKYVGETE 271
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 30.4 bits (68), Expect = 0.51
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSL 66
GKI + +L+ G PGTGKT +A +A PF +++GS+ +
Sbjct: 182 GKIP-KGVLMVGPPGTGKTLLAKAIAGE--AKVPFFTISGSDFVEM 224
>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 = 29.1 bits (66), Expect = 0.52
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEE 73
I L G PG GK+ +A LA+AL +YS N ++
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPK--KDSVYSR--NPDDD 42
>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 = 30.0 bits (68), Expect = 0.53
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 25 GRAILLAGQPGTGKTAIAMGLA 46
GRA++L PG+GK+ + LA
Sbjct: 108 GRALILPAPPGSGKSTLCAALA 129
>gnl|CDD|238680 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI
myosin, involved in organelle transport. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 674
Score = 30.4 bits (69), Expect = 0.54
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 22/86 (25%)
Query: 17 MIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETE 76
MI EGK ++IL++G+ G GKT L + L AG E ++E + E
Sbjct: 82 MINEGK--SQSILVSGESGAGKTETTKMLMRYLA---YMGGRAGVEGRTVE-QQVLESNP 135
Query: 77 MIE----------------GEVVEIQ 86
++E G+ VEIQ
Sbjct: 136 VLEAFGNAKTVRNNNSSRFGKFVEIQ 161
>gnl|CDD|234041 TIGR02868, CydC, thiol reductant ABC exporter, CydC subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex.
Length = 530
Score = 30.0 bits (68), Expect = 0.54
Identities = 12/46 (26%), Positives = 22/46 (47%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMN 69
G + + G G+GK+ + LA L P ++ G + SL+ +
Sbjct: 360 PGERVAILGPSGSGKSTLLATLAGLLDPLQGEVTLDGVPVSSLDQD 405
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 30.1 bits (69), Expect = 0.56
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
+LL G PG GKT +A +A +G
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMG 76
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 29.4 bits (67), Expect = 0.59
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
I ++G PG+GKT +A LA+ LG
Sbjct: 3 ITISGPPGSGKTTVARLLAEKLG 25
>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 = 29.5 bits (66), Expect = 0.59
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 24 AGRAILLAGQPGTGKTAIAMGLAQAL 49
++LL G GTGKT++ L + L
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGL 48
>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 = 28.1 bits (63), Expect = 0.63
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPF 55
I + G G+GK+ +A LA+ LG +
Sbjct: 2 IAITGGSGSGKSTVAKKLAEQLGGRSVV 29
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 29.9 bits (68), Expect = 0.66
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEI 63
+LL G PGTGKT +A +A D F + GSE+
Sbjct: 188 VLLYGPPGTGKTLLAKAVANQT--DATFIRVVGSEL 221
>gnl|CDD|184210 PRK13651, PRK13651, cobalt transporter ATP-binding subunit;
Provisional.
Length = 305
Score = 29.7 bits (67), Expect = 0.67
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVVE 84
G I + GQ G+GKT L L PDT G+ + + K +++T+ E + +
Sbjct: 33 GEFIAIIGQTGSGKTTFIEHLNALLLPDT------GTIEWIFKDEKNKKKTKEKEKVLEK 86
Query: 85 IQIERP 90
+ I++
Sbjct: 87 LVIQKT 92
>gnl|CDD|236278 PRK08506, PRK08506, replicative DNA helicase; Provisional.
Length = 472
Score = 30.0 bits (68), Expect = 0.69
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
G I++A +P GKT + + +A G +SLEM
Sbjct: 192 GDLIIIAARPSMGKTTLCLNMALKA-----LNQDKGVAFFSLEM 230
>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB
N-terminus. The RuvB protein makes up part of the
RuvABC revolvasome which catalyzes the resolution of
Holliday junctions that arise during genetic
recombination and DNA repair. Branch migration is
catalyzed by the RuvB protein that is targeted to the
Holliday junction by the structure specific RuvA
protein. This family contains the N-terminal region of
the protein.
Length = 231
Score = 29.3 bits (67), Expect = 0.75
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
+LL G PG GKT +A +A +G
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMG 75
>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 = 29.5 bits (67), Expect = 0.77
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
+ + G+ GTGKTA+ + + L
Sbjct: 43 VFIYGKTGTGKTAVTKYVMKEL 64
>gnl|CDD|179420 PRK02399, PRK02399, hypothetical protein; Provisional.
Length = 406
Score = 29.5 bits (67), Expect = 0.85
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 4 QLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
A AA V + + G +AG ++ G G+G TA+A +AL
Sbjct: 77 AAMAEGAAAFVRELYERGDVAG--VIGLG--GSGGTALATPAMRAL 118
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 29.4 bits (67), Expect = 0.86
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFT 56
ILL G G+GKT +A LA+ L D PF
Sbjct: 111 ILLIGPTGSGKTLLAQTLARIL--DVPFA 137
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 29.5 bits (67), Expect = 0.97
Identities = 26/68 (38%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 2 VGQLQARRAAGVVLGMIKEGKIA---GRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSM 58
GQ QA+RA +IA G +LL G PGTGKT +A L L P + ++
Sbjct: 182 KGQEQAKRAL----------EIAAAGGHNLLLVGPPGTGKTMLASRLPGLLPPLSIPEAL 231
Query: 59 AGSEIYSL 66
S I+SL
Sbjct: 232 EVSAIHSL 239
>gnl|CDD|180975 PRK07429, PRK07429, phosphoribulokinase; Provisional.
Length = 327
Score = 29.2 bits (66), Expect = 0.97
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 26 RAILL--AGQPGTGKTAIAMGLAQALGPD 52
R +LL AG G GKT GLA LG +
Sbjct: 7 RPVLLGVAGDSGCGKTTFLRGLADLLGEE 35
>gnl|CDD|234896 PRK01077, PRK01077, cobyrinic acid a,c-diamide synthase;
Validated.
Length = 451
Score = 29.3 bits (67), Expect = 1.00
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 15/41 (36%)
Query: 26 RAILLAGQP--GTGKTAIAMGLAQAL------------GPD 52
A+++A P G+GKT + +GL +AL GPD
Sbjct: 4 PALVIAA-PASGSGKTTVTLGLMRALRRRGLRVQPFKVGPD 43
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely
related to pfam00931.
Length = 165
Score = 28.8 bits (65), Expect = 1.0
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALG 50
R ++L G+ G+GKT + +A
Sbjct: 1 RTVILQGEAGSGKTTLLQKIALLWA 25
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 29.1 bits (66), Expect = 1.0
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFT 56
ILL G G+GKT +A LA+ L + PF
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKIL--NVPFA 126
>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 = 28.8 bits (65), Expect = 1.0
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 28 ILLAGQPGTGKTAIAMGLAQA 48
+LL G PG GKT +A L
Sbjct: 50 LLLLGPPGVGKTHLACALGHQ 70
>gnl|CDD|224710 COG1797, CobB, Cobyrinic acid a,c-diamide synthase [Coenzyme
metabolism].
Length = 451
Score = 29.1 bits (66), Expect = 1.0
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 13/40 (32%)
Query: 26 RAILLAG-QPGTGKTAIAMGLAQAL------------GPD 52
A+++AG G+GKT + +GL +AL GPD
Sbjct: 1 PAVVIAGTSSGSGKTTVTLGLMRALRRRGLKVQPFKVGPD 40
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 29.5 bits (67), Expect = 1.1
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
IK+GKI A L +G GTGKT+ A A+A+
Sbjct: 32 IKQGKI-SHAYLFSGPRGTGKTSAAKIFAKAV 62
>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 = 28.8 bits (65), Expect = 1.1
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 28 ILLAGQPGTGKTAIAM 43
LL+G PGTGKT A+
Sbjct: 2 TLLSGGPGTGKTTFAL 17
>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 = 29.2 bits (66), Expect = 1.1
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 4 QLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKT 39
QL AG + ++ + + I+++G G+GKT
Sbjct: 123 QLLELLDAGDIKEFLRLAIASRKNIIISGGTGSGKT 158
>gnl|CDD|200217 TIGR02880, cbbX_cfxQ, probable Rubsico expression protein CbbX.
Proteins in this family are now designated CbbX. Some
previously were CfxQ (carbon fixation Q). Its gene is
often found immmediately downstream of the Rubisco
large and small chain genes, and it is suggested to be
necessary for Rubisco expression. CbbX has been shown
to be necessary for photoautotrophic growth. This
protein belongs to the larger family of pfam00004,
ATPase family Associated with various cellular
Activities. Within that larger family, members of this
family are most closely related to the stage V
sporulation protein K, or SpoVK, in endospore-forming
bacteria such as Bacillus subtilis.
Length = 284
Score = 29.0 bits (65), Expect = 1.2
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 32 GQPGTGKTAIAMGLAQAL 49
G PGTGKT +A+ +AQ L
Sbjct: 65 GNPGTGKTTVALRMAQIL 82
>gnl|CDD|221968 pfam13189, Cytidylate_kin2, Cytidylate kinase-like family. This
family includes enzymes related to cytidylate kinase.
Length = 176
Score = 28.7 bits (65), Expect = 1.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
I ++ Q G+G I LA+ LG
Sbjct: 2 ITISRQFGSGGREIGKKLAEKLG 24
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit.
All proteins in this family for which functions are
known are 5'-3' DNA helicases that, as part of a
complex with RuvA homologs serve as a 5'-3' Holliday
junction helicase. RuvA specifically binds Holliday
junctions as a sandwich of two tetramers and maintains
the configuration of the junction. It forms a complex
with two hexameric rings of RuvB, the subunit that
contains helicase activity. The complex drives
ATP-dependent branch migration of the Holliday junction
recombination intermediate. The endonuclease RuvC
resolves junctions [DNA metabolism, DNA replication,
recombination, and repair].
Length = 305
Score = 28.8 bits (65), Expect = 1.2
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 2 VGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALG 50
+GQ + + + + K + A +LL G PG GKT +A +A +G
Sbjct: 7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMG 55
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 28.9 bits (65), Expect = 1.3
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 28 ILLAGQPGTGKTAIAMGLA-QALGP 51
++L+G PGTGKT + LA + LGP
Sbjct: 37 LILSGPPGTGKTTSILALAHELLGP 61
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 28.9 bits (65), Expect = 1.3
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 7/50 (14%)
Query: 4 QLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDT 53
Q +A A ++K + R +++ G GKT +A L T
Sbjct: 41 QEEALDA------LVKNRRTERRGVIVL-PTGAGKTVVAAEAIAELKRST 83
>gnl|CDD|216270 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1. This
family also contains the NS2 protein. Parvoviruses
encode two non-structural proteins, NS1 and NS2. The
mRNA for NS2 contains the coding sequence for the first
87 amino acids of NS1, then by an alternative splicing
mechanism mRNA from a different reading frame, encoding
the last 78 amino acids, makes up the full length of the
NS2 mRNA. NS1, is the major non-structural protein. It
is essential for DNA replication. It is an 83-kDa
nuclear phosphoprotein. It has DNA helicase and ATPase
activity.
Length = 271
Score = 28.8 bits (65), Expect = 1.4
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 27 AILLAGQPGTGKTAIAMGLAQALG 50
+ G TGKT +A +A A+
Sbjct: 115 TVWFYGPASTGKTNLAQAIAHAVP 138
>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 28.9 bits (65), Expect = 1.4
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
++ G+IA A L +G G GKT IA LA+AL
Sbjct: 32 LENGRIAH-AYLFSGPRGVGKTTIARILAKAL 62
>gnl|CDD|226412 COG3896, COG3896, Chloramphenicol 3-O-phosphotransferase [Defense
mechanisms].
Length = 205
Score = 28.3 bits (63), Expect = 1.5
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 19 KEGKIAGRAILLAGQPGTGKTAIAMGL 45
G GR +LL G GK++IA+
Sbjct: 17 MAGMPEGRIVLLNGGSSAGKSSIALAF 43
>gnl|CDD|180528 PRK06321, PRK06321, replicative DNA helicase; Provisional.
Length = 472
Score = 29.0 bits (65), Expect = 1.5
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEM 68
++LA +P GKTA+A+ +A+ F + I+SLEM
Sbjct: 229 MILAARPAMGKTALALNIAENFC----FQNRLPVGIFSLEM 265
>gnl|CDD|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau;
Validated.
Length = 563
Score = 29.0 bits (65), Expect = 1.5
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEM 77
I+ KIA A + +G G GKT+ A A+ L T M E S + + ++
Sbjct: 32 IESNKIA-NAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDV 90
Query: 78 IE 79
IE
Sbjct: 91 IE 92
>gnl|CDD|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit.
DNA polymerase III, delta subunit (EC 2.7.7.7) is
required for, along with delta' subunit, the assembly
of the processivity factor beta(2) onto primed DNA in
the DNA polymerase III holoenzyme-catalyzed reaction.
The delta subunit is also known as HolA.
Length = 161
Score = 28.3 bits (64), Expect = 1.6
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 17 MIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
IK+ K++ A L +G G GK +A+ A+AL
Sbjct: 12 SIKKNKLS-HAYLFSGPDGVGKLELALEFAKAL 43
>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 28.7 bits (65), Expect = 1.7
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
G + G IL+ G PG GK+ + + +A L
Sbjct: 89 GLVPGSVILIGGDPGIGKSTLLLQVAARL 117
>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 486
Score = 28.6 bits (64), Expect = 1.9
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
++GQ R ++ +K +++ A + AG GTGKT IA LA+ L
Sbjct: 18 VIGQEIVVR---ILKNAVKLQRVS-HAYIFAGPRGTGKTTIARILAKVL 62
>gnl|CDD|235153 PRK03731, aroL, shikimate kinase II; Reviewed.
Length = 171
Score = 28.0 bits (63), Expect = 2.0
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
+ L G G GKT + M LAQALG
Sbjct: 5 LFLVGARGCGKTTVGMALAQALG 27
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 28.3 bits (64), Expect = 2.1
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 26 RAILLAGQPGTGKTAIAMGLA 46
IL+AG PG GK+ A LA
Sbjct: 258 EGILIAGAPGAGKSTFAQALA 278
>gnl|CDD|236115 PRK07854, PRK07854, enoyl-CoA hydratase; Provisional.
Length = 243
Score = 28.1 bits (63), Expect = 2.3
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGP 51
RA+LL + T + A+A G+A +G
Sbjct: 148 RAMLLGAEKLTAEQALATGMANRIGT 173
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 28.2 bits (63), Expect = 2.3
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLA 46
G G +L+ G PGTGKT A+
Sbjct: 19 GLPRGSVVLITGPPGTGKTIFALQFL 44
>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 = 27.4 bits (62), Expect = 2.4
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
I L G G+GK+ IA L + L
Sbjct: 2 IWLTGLSGSGKSTIARALEEKL 23
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 27.8 bits (62), Expect = 2.4
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
+L G G+GK+ IA LA LG
Sbjct: 1 FVLMGVAGSGKSTIASALAHRLG 23
>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau;
Validated.
Length = 725
Score = 28.2 bits (63), Expect = 2.4
Identities = 16/32 (50%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
IK KI+ A L +G GTGKT++A A AL
Sbjct: 34 IKSNKIS-HAYLFSGPRGTGKTSVAKIFANAL 64
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 28.3 bits (63), Expect = 2.4
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 1 MVGQLQARRAAGVVL----GMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGP 51
M+G A++ +L G+IK ++ LL G P +GKT + + LA L P
Sbjct: 167 MLGINLAKKTKLTILKDASGIIKPSRMT----LLLGPPSSGKTTLLLALAGKLDP 217
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 28.0 bits (63), Expect = 2.5
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
IK+ R +++ G PGTGK+ +A +A+ L
Sbjct: 43 IKKAAKQRRHVMMIGSPGTGKSMLAKAMAELL 74
>gnl|CDD|238991 cd02034, CooC, The accessory protein CooC, which contains a
nucleotide-binding domain (P-loop) near the N-terminus,
participates in the maturation of the nickel center of
carbon monoxide dehydrogenase (CODH). CODH from
Rhodospirillum rubrum catalyzes the reversible
oxidation of CO to CO2. CODH contains a
nickel-iron-sulfur cluster (C-center) and an
iron-sulfur cluster (B-center). CO oxidation occurs at
the C-center. Three accessory proteins encoded by
cooCTJ genes are involved in nickel incorporation into
a nickel site. CooC functions as a nickel insertase
that mobilizes nickel to apoCODH using energy released
from ATP hydrolysis. CooC is a homodimer and has NTPase
activities. Mutation at the P-loop abolishs its
function.
Length = 116
Score = 27.2 bits (61), Expect = 2.5
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
I + G+ G GKT IA LA+ L
Sbjct: 2 IAITGKGGVGKTTIAALLARYL 23
>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4;
Provisional.
Length = 915
Score = 28.4 bits (63), Expect = 2.6
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 6/61 (9%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSE----IYSLEMNKTEEETEMIE-GEV 82
+LL G PGT K+ + + L P + +TS S S++ N+++ MI+ G V
Sbjct: 495 VLLCGDPGTAKSQL-LHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAV 553
Query: 83 V 83
V
Sbjct: 554 V 554
>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal.
Miro1 subfamily. Miro (mitochondrial Rho) proteins have
tandem GTP-binding domains separated by a linker region
containing putative calcium-binding EF hand motifs.
Genes encoding Miro-like proteins were found in several
eukaryotic organisms. This CD represents the N-terminal
GTPase domain of Miro proteins. These atypical Rho
GTPases have roles in mitochondrial homeostasis and
apoptosis. Most Rho proteins contain a lipid
modification site at the C-terminus; however, Miro is
one of few Rho subfamilies that lack this feature.
Length = 168
Score = 27.7 bits (62), Expect = 2.6
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPD 52
I+L G G GK+++ M L P+
Sbjct: 5 IVLIGDEGVGKSSLIMSLVSEEFPE 29
>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 = 28.3 bits (63), Expect = 2.6
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFT 56
IK+ R +LL G+PG GK+ +A +A+ L PD
Sbjct: 30 IKKAAKQKRNVLLIGEPGVGKSMLAKAMAELL-PDEELE 67
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 28.1 bits (63), Expect = 2.7
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQ 47
IL+AG PG GK+ A LA+
Sbjct: 264 EGILIAGAPGAGKSTFAQALAE 285
>gnl|CDD|168322 PRK05973, PRK05973, replicative DNA helicase; Provisional.
Length = 237
Score = 27.7 bits (62), Expect = 2.7
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 15/73 (20%)
Query: 5 LQARRAAGV----VLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLA-QALGPDTPFTSMA 59
L A+ AA + +K G + +LL +PG GKT + + LA +A+
Sbjct: 44 LAAKAAATTPAEELFSQLKPGDL----VLLGARPGHGKTLLGLELAVEAMKSGRT----- 94
Query: 60 GSEIYSLEMNKTE 72
++LE + +
Sbjct: 95 -GVFFTLEYTEQD 106
>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 = 27.5 bits (61), Expect = 2.8
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 28 ILLAGQPGTGKTAIAMGLAQ 47
IL+ G G+GKT +A+ LA
Sbjct: 2 ILVFGPTGSGKTTLALQLAL 21
>gnl|CDD|223603 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 27.6 bits (62), Expect = 2.8
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQAL 49
G I G G+GK+ IA L + L
Sbjct: 23 GAVIWFTGLSGSGKSTIANALEEKL 47
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 27.8 bits (62), Expect = 3.0
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTP 54
L+AG+ GT K+ +A LA L
Sbjct: 41 ALIAGEKGTAKSTLARALADLLPEIEV 67
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 27.7 bits (62), Expect = 3.1
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
I++ G GTGKTA + + L
Sbjct: 45 IIIYGPTGTGKTATVKFVMEEL 66
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 28.1 bits (62), Expect = 3.1
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTS 57
+VGQ RA L + G++ A L G G GKT IA LA+ L +T TS
Sbjct: 17 LVGQNHVSRALSSAL---ERGRLH-HAYLFTGTRGVGKTTIARILAKCLNCETGVTS 69
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 27.8 bits (62), Expect = 3.1
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEI 63
+ +LL G PGTGKT +A +A + F + GSE+
Sbjct: 157 KGVLLYGPPGTGKTLLAKAVAHET--NATFIRVVGSEL 192
>gnl|CDD|235907 PRK07004, PRK07004, replicative DNA helicase; Provisional.
Length = 460
Score = 28.0 bits (62), Expect = 3.2
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 15 LGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEE 74
L + G G I++AG+P GKTA +M + + + + ++S+EM T+
Sbjct: 203 LDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLP----VAVFSMEMPGTQLA 258
Query: 75 TEMIEGEVVEIQIERPATG 93
M+ G V + R TG
Sbjct: 259 MRML-GSVGRLDQHRMRTG 276
>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 576
Score = 27.8 bits (62), Expect = 3.2
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
I G++A A L G G GKT+ A LA+AL
Sbjct: 32 IDTGRVA-HAFLFTGARGVGKTSTARILAKAL 62
>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated.
Length = 586
Score = 27.8 bits (63), Expect = 3.3
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 58 MAGSEIYSLEMNKTEEETEMIEGEVVEIQIERPATGL 94
+AGS + + EE E +E E+ EI+IE G+
Sbjct: 320 LAGSPLRVVRDEDVEEVKEEVEEEIEEIRIETDEEGV 356
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 27.5 bits (61), Expect = 3.3
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 28 ILLAGQPGTGKTAIAMGLA 46
++ G PGTGKT +A+GL
Sbjct: 101 VVFLGPPGTGKTHLAIGLG 119
>gnl|CDD|223994 COG1067, LonB, Predicted ATP-dependent protease [Posttranslational
modification, protein turnover, chaperones].
Length = 647
Score = 27.7 bits (62), Expect = 3.3
Identities = 21/119 (17%), Positives = 34/119 (28%), Gaps = 9/119 (7%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVVEI 85
R ILL G+PG GK+ +A ++ L + E K E E+
Sbjct: 47 RHILLIGEPGVGKSMLAQAMSFLLPLEELEDIRVKPNPEDPERPKVETVPAGRPESFSEL 106
Query: 86 -QIERPATGLGSKVGKLTMKTTEMETSYDLGAKMIEAIGTAYSSPHGIPIDLLDRMVII 143
+ L +E L G+ + R+V+
Sbjct: 107 LGQKAEEKAEYLSYLILLALLGPIEQQIILYGYNAL--------LPGVLYAVAARIVLY 157
>gnl|CDD|238266 cd00477, FTHFS, Formyltetrahydrofolate synthetase (FTHFS)
catalyzes the ATP-dependent activation of formate ion
via its addition to the N10 position of
tetrahydrofolate. FTHFS is a highly expressed key
enzyme in both the Wood-Ljungdahl pathway of
autotrophic CO2 fixation (acetogenesis) and the glycine
synthase/reductase pathways of purinolysis. The key
physiological role of this enzyme in acetogens is to
catalyze the formylation of tetrahydrofolate, an
initial step in the reduction of carbon dioxide and
other one-carbon precursors to acetate. In purinolytic
organisms, the enzymatic reaction is reversed,
liberating formate from 10-formyltetrahydrofolate with
concurrent production of ATP.
Length = 524
Score = 27.9 bits (63), Expect = 3.4
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 35 GTGKTAIAMGLAQALG 50
G GKT +GLAQAL
Sbjct: 52 GEGKTTTTIGLAQALN 67
>gnl|CDD|218534 pfam05278, PEARLI-4, Arabidopsis phospholipase-like protein (PEARLI
4). This family contains several phospholipase-like
proteins from Arabidopsis thaliana which are homologous
to PEARLI 4.
Length = 234
Score = 27.5 bits (61), Expect = 3.6
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 67 EMNKTEEETEMIEGEVVEIQIERPATGLGSKVGKLTMKTTEMETSYD-LGAKM 118
EM K E E E EV E + + ++G+L MK +E D LG+K+
Sbjct: 173 EMEKQEAELVRKEKEVKEFR--EKVEEMAGRLGELEMKRLRLEKRLDFLGSKV 223
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 27.1 bits (61), Expect = 3.7
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALG 50
G I+L G G GK+ I LA+ LG
Sbjct: 4 GPNIVLIGFMGAGKSTIGRLLAKRLG 29
>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta), together with SR-alpha, forms the
heterodimeric signal recognition particle (SRP).
Signal recognition particle receptor, beta subunit
(SR-beta). SR-beta and SR-alpha form the heterodimeric
signal recognition particle (SRP or SR) receptor that
binds SRP to regulate protein translocation across the
ER membrane. Nascent polypeptide chains are synthesized
with an N-terminal hydrophobic signal sequence that
binds SRP54, a component of the SRP. SRP directs
targeting of the ribosome-nascent chain complex (RNC)
to the ER membrane via interaction with the SR, which
is localized to the ER membrane. The RNC is then
transferred to the protein-conducting channel, or
translocon, which facilitates polypeptide translation
across the ER membrane or integration into the ER
membrane. SR-beta is found only in eukaryotes; it is
believed to control the release of the signal sequence
from SRP54 upon binding of the ribosome to the
translocon. High expression of SR-beta has been
observed in human colon cancer, suggesting it may play
a role in the development of this type of cancer.
Length = 202
Score = 27.3 bits (61), Expect = 3.8
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSM 58
+LL G +GKTA+ L T TS+
Sbjct: 1 PTVLLLGPSDSGKTALFTKLTTGKVRST-VTSI 32
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 27.8 bits (62), Expect = 3.8
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSM 58
+ + + GTGKTA+A LA+ L P PF +
Sbjct: 19 VAIRARAGTGKTALARALAEILPPIMPFVEL 49
>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 504
Score = 27.5 bits (61), Expect = 3.8
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALG 50
+VGQ + V+L +++G++ G A L +G G GKT A +A A+
Sbjct: 16 VVGQEHVKE---VLLAALRQGRL-GHAYLFSGPRGVGKTTTARLIAMAVN 61
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 27.2 bits (61), Expect = 3.9
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 17 MIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTP 54
M K K+ I +AG G+GKT +A L++ LG +
Sbjct: 2 MKKPEKV--IIIGIAGGSGSGKTTVAKELSEQLGVEKV 37
>gnl|CDD|204242 pfam09439, SRPRB, Signal recognition particle receptor beta
subunit. The beta subunit of the signal recognition
particle receptor (SRP) is a transmembrane GTPase which
anchors the alpha subunit to the endoplasmic reticulum
membrane.
Length = 181
Score = 27.0 bits (60), Expect = 4.0
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEET 75
A+++AG +GKT++ L T TS S Y ++K T
Sbjct: 4 PAVIIAGLCDSGKTSLFTLLTTGTVKKT-VTSQEPSAAYKYMLHKGFSFT 52
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 27.6 bits (62), Expect = 4.0
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 18 IKEGKIA-GRAILLAGQPGTGKTAIAMGLAQALGPD 52
++EG+I G I + G G GKT LA + PD
Sbjct: 359 VEEGEIYDGEVIGILGPNGIGKTTFVKLLAGVIKPD 394
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 27.7 bits (62), Expect = 4.0
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPF 55
+LL G+ GTGK +A + Q PF
Sbjct: 339 VLLQGETGTGKEVLARAIHQNSEAAGPF 366
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 27.3 bits (61), Expect = 4.1
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
IL+ G G GK+ IA LA+ LG
Sbjct: 92 ILIGGASGVGKSTIAGELARRLG 114
>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 = 27.6 bits (62), Expect = 4.2
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 7/42 (16%)
Query: 14 VLGMIKEGKIAGRAILLAGQPGTGKTA----IAMGLAQALGP 51
VLG G + G IL+ G PG GK+ +A LA+ G
Sbjct: 74 VLG---GGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGK 112
>gnl|CDD|232985 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
eukaryotic family. The glutamyl-tRNA synthetases of the
eukaryotic cytosol and of the Archaea are more similar
to glutaminyl-tRNA synthetases than to bacterial
glutamyl-tRNA synthetases. This model models just the
eukaryotic cytosolic and archaeal forms of the enzyme.
In some eukaryotes, the glutamyl-tRNA synthetase is part
of a longer, multifunctional aminoacyl-tRNA ligase. In
many species, the charging of tRNA(gln) proceeds first
through misacylation with Glu and then transamidation.
For this reason, glutamyl-tRNA synthetases, including
all known archaeal enzymes (as of 2010) may act on both
tRNA(gln) and tRNA(glu) [Protein synthesis, tRNA
aminoacylation].
Length = 556
Score = 27.5 bits (61), Expect = 4.2
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 94 LGSKVGKLTMKTTEMETSYDLGAKMIEAIGTAY 126
LG K ++ ++ +ET YD K+IE +G AY
Sbjct: 155 LGVKWDEVVYQSDRIETYYDYTRKLIE-MGKAY 186
>gnl|CDD|213243 cd03276, ABC_SMC6_euk, ATP-binding cassette domain of eukaryotic
SM6 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 198
Score = 27.2 bits (61), Expect = 4.2
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 32 GQPGTGKTAIAMGLAQALGPDTPFTSMAGS 61
G G+GK+AI L LG T+ S
Sbjct: 28 GNNGSGKSAILTALTIGLGGKASDTNRGSS 57
>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 = 27.2 bits (61), Expect = 4.2
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
ILL G PG+GK A LA+ G
Sbjct: 2 ILLLGPPGSGKGTQAERLAKKYG 24
>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 = 27.2 bits (61), Expect = 4.3
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 26 RAILLA-GQPGTGKTAIAMGLA 46
+A+ L G PGTGKT +A+ L
Sbjct: 1 KAVFLVTGGPGTGKTVVALNLF 22
>gnl|CDD|223840 COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 475
Score = 27.3 bits (61), Expect = 4.4
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 25 GRAILLAGQPGT-GKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMIEGEVV 83
+ + G GT GKT LAQ L T++ G+E L E T + E +
Sbjct: 88 SGKLKVIGVTGTNGKTTTTSLLAQILKKLGKKTALIGTEGDELS-PGILEPTGLTTPEAL 146
Query: 84 EIQ 86
++Q
Sbjct: 147 DLQ 149
>gnl|CDD|132847 cd07208, Pat_hypo_Ecoli_yjju_like, Hypothetical patatin similar to
yjju protein of Escherichia coli. Patatin-like
phospholipase similar to yjju protein of Escherichia
coli. This family predominantly consists of bacterial
patatin glycoproteins, and some representatives from
eukaryotes and archaea. The patatin protein accounts
for up to 40% of the total soluble protein in potato
tubers. Patatin is a storage protein, but it also has
the enzymatic activity of a lipid acyl hydrolase,
catalyzing the cleavage of fatty acids from membrane
lipids. Members of this family have also been found in
vertebrates.
Length = 266
Score = 27.2 bits (61), Expect = 4.6
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 3/51 (5%)
Query: 68 MNKTEEETEMIEGEVVEIQIERPATGLGSKVGKLTMKTTEMETSYDLGAKM 118
N+T E +E E I KV +L ++E YDLG +
Sbjct: 218 YNETLEFIRRLEAEGKIFVIAPEKP---LKVSRLERDPEKLEALYDLGYED 265
>gnl|CDD|237193 PRK12764, PRK12764, hypothetical protein; Provisional.
Length = 500
Score = 27.4 bits (61), Expect = 4.6
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 80 GEVVEIQIERPATGLGSKVGKLTMKTTEMETSY-DLGAK 117
G+VVE++++ PA G G+L + E T + D GA+
Sbjct: 202 GDVVEVEVDAPADG-APSTGRLVTRVVEGTTPFADFGAQ 239
>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction [Protein fate, Protein folding and
stabilization, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 413
Score = 27.4 bits (61), Expect = 4.7
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFT 56
ILL G G+GKT +A LA+ L + PF
Sbjct: 119 ILLIGPTGSGKTLLAQTLARIL--NVPFA 145
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 27.3 bits (61), Expect = 4.7
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 8/35 (22%)
Query: 16 GMIKEGKIAGRAI--------LLAGQPGTGKTAIA 42
++ EG++ RAI +L G PG GKT +A
Sbjct: 35 HILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLA 69
>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras
GTPases. RGK subfamily. The RGK (Rem, Rem2, Rad,
Gem/Kir) subfamily of Ras GTPases are expressed in a
tissue-specific manner and are dynamically regulated by
transcriptional and posttranscriptional mechanisms in
response to environmental cues. RGK proteins bind to
the beta subunit of L-type calcium channels, causing
functional down-regulation of these voltage-dependent
calcium channels, and either termination of
calcium-dependent secretion or modulation of electrical
conduction and contractile function. Inhibition of
L-type calcium channels by Rem2 may provide a mechanism
for modulating calcium-triggered exocytosis in
hormone-secreting cells, and has been proposed to
influence the secretion of insulin in pancreatic beta
cells. RGK proteins also interact with and inhibit the
Rho/Rho kinase pathway to modulate remodeling of the
cytoskeleton. Two characteristics of RGK proteins cited
in the literature are N-terminal and C-terminal
extensions beyond the GTPase domain typical of Ras
superfamily members. The N-terminal extension is not
conserved among family members; the C-terminal
extension is reported to be conserved among the family
and lack the CaaX prenylation motif typical of
membrane-associated Ras proteins. However, a putative
CaaX motif has been identified in the alignment of the
C-terminal residues of this CD.
Length = 219
Score = 27.0 bits (60), Expect = 4.9
Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMI 78
++L G G GK+++A + D+ + + +G + Y ++ EE ++
Sbjct: 3 VVLLGDSGVGKSSLANIFTAGVYEDSAYEA-SGDDTYERTVSVDGEEATLV 52
>gnl|CDD|213836 TIGR03600, phage_DnaB, phage replicative helicase, DnaB family,
HK022 subfamily. Members of this family are phage (or
prophage-region) homologs of the bacterial homohexameric
replicative helicase DnaB. Some phage may rely on host
DnaB, while others encode their own verions. This model
describes the largest phage-specific clade among the
close homologs of DnaB, but there are, or course, other
DnaB homologs from phage that fall outside the scope of
this model [Mobile and extrachromosomal element
functions, Prophage functions].
Length = 420
Score = 27.4 bits (61), Expect = 5.0
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTE 72
G + G I++ +P GKT +A+ +A+ + + +SLEM+ +
Sbjct: 189 GLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVL----FFSLEMSAEQ 236
>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 = 5.1
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
I + G G+GK+ +A LA+ LG
Sbjct: 2 IAIDGPAGSGKSTVAKLLAKKLG 24
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 27.2 bits (61), Expect = 5.1
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
+++ G P TGK+ M L + L
Sbjct: 437 LVIYGPPDTGKSMFCMSLIKFLK 459
>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau;
Validated.
Length = 709
Score = 27.4 bits (60), Expect = 5.4
Identities = 20/53 (37%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDT 53
+VGQ +A L EG++ A LL G G GKT IA LA++L +
Sbjct: 18 LVGQEHVVKALQNAL---DEGRLH-HAYLLTGTRGVGKTTIARILAKSLNCEN 66
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 26.9 bits (60), Expect = 5.4
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 19 KEGKIAGRAILLAGQPGTGKTAIAMGLAQAL 49
+E K +LL G GTGKT +A +A L
Sbjct: 108 EEMKKENVGLLLWGSVGTGKTYLAACIANEL 138
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 27.0 bits (60), Expect = 5.5
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 32 GQPGTGKTAIAMGLAQAL 49
G PGTGKT +A+ +A L
Sbjct: 66 GSPGTGKTTVALKMADIL 83
>gnl|CDD|180750 PRK06921, PRK06921, hypothetical protein; Provisional.
Length = 266
Score = 27.1 bits (60), Expect = 5.6
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 28 ILLAGQPGTGKTAIAMGLAQAL 49
I L GQPG+GKT + A L
Sbjct: 120 IALLGQPGSGKTHLLTAAANEL 141
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 26.7 bits (60), Expect = 5.6
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 16 GMIKE---GKIAGRAIL-LAGQPGTGKTAIAMGLA 46
M+ E G I + G PG+GKT I + LA
Sbjct: 10 KMLDELLGGGFERGTITQIYGPPGSGKTNICLQLA 44
>gnl|CDD|227872 COG5585, COG5585, NAD+--asparagine ADP-ribosyltransferase [Signal
transduction mechanisms].
Length = 417
Score = 27.1 bits (60), Expect = 5.7
Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 6/77 (7%)
Query: 1 MVGQLQARRAAGVVLGMIKEGKIAGRAIL---LAGQPGTGKTAIAM--GLAQALGPDTPF 55
++ Q A + V++ G AG+A L G+ GT +IA+
Sbjct: 48 VINQTAALVLS-VLVAPGDIGAAAGKASKAESLLGKVGTFSKSIAVSSVENAKAIATLRT 106
Query: 56 TSMAGSEIYSLEMNKTE 72
GS++ L E
Sbjct: 107 VDNLGSKVADLRTVLRE 123
>gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 363
Score = 27.1 bits (60), Expect = 5.7
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 14 VLGMIKEGKIAGR---AILLAGQPGTGKTAIAMGLAQAL 49
++ I G GR A LL+G G GKT IA LA++L
Sbjct: 24 IVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSL 62
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 26.5 bits (59), Expect = 5.7
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 35 GTGKTAIAMGLAQALG 50
G+GK+ + LA+ LG
Sbjct: 5 GSGKSTVGSALAERLG 20
>gnl|CDD|215967 pfam00519, PPV_E1_C, Papillomavirus helicase. This protein is a
DNA helicase that is required for initiation of viral
DNA replication. This protein forms a complex with the
E2 protein pfam00508.
Length = 432
Score = 27.1 bits (61), Expect = 5.8
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
+++ G P TGK+ M L + LG
Sbjct: 265 LVIYGPPDTGKSMFCMSLIKFLG 287
>gnl|CDD|181562 PRK08840, PRK08840, replicative DNA helicase; Provisional.
Length = 464
Score = 26.9 bits (59), Expect = 5.9
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 8/43 (18%)
Query: 28 ILLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEM 68
I++A +P GKT AM L + A+ D P I+SLEM
Sbjct: 220 IIVAARPSMGKTTFAMNLCENAAMDQDKPVL------IFSLEM 256
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 27.1 bits (60), Expect = 5.9
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 18 IKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTP 54
I EG++A A L G G GKT+ A LA+A+ T
Sbjct: 32 IAEGRVA-HAYLFTGPRGVGKTSTARILAKAVNCTTN 67
>gnl|CDD|184411 PRK13946, PRK13946, shikimate kinase; Provisional.
Length = 184
Score = 26.4 bits (59), Expect = 6.1
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALGPDTPF 55
R ++L G G GK+ + LA LG PF
Sbjct: 10 KRTVVLVGLMGAGKSTVGRRLATMLG--LPF 38
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport
and metabolism].
Length = 216
Score = 26.5 bits (59), Expect = 6.3
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDT 53
I++ G G GK+ +A LA+ LG
Sbjct: 5 MVIVIEGMIGAGKSTLAQALAEHLGFKV 32
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 27.1 bits (60), Expect = 6.3
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 3 GQLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALG 50
+ A A G K K + I+++G G GK+ +A+ LA+ L
Sbjct: 1 RRFCAATTALSGSGASKTKK--EKVIVISGPTGAGKSRLALELAKRLN 46
>gnl|CDD|235525 PRK05595, PRK05595, replicative DNA helicase; Provisional.
Length = 444
Score = 27.1 bits (60), Expect = 6.3
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 8/48 (16%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEMNK 70
G IL+A +P GKT A+ +A+ AL I+SLEM+K
Sbjct: 201 GDMILIAARPSMGKTTFALNIAEYAALREGKSVA------IFSLEMSK 242
>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 = 26.4 bits (59), Expect = 6.7
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALG 50
I+L G G GKT + LA+ALG
Sbjct: 2 IVLIGMMGAGKTTVGRLLAKALG 24
>gnl|CDD|215439 PLN02819, PLN02819, lysine-ketoglutarate reductase/saccharopine
dehydrogenase.
Length = 1042
Score = 27.1 bits (60), Expect = 6.8
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 21 GKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYS 65
GK AGRA ++ G G+ ++ LG TPF S+ S +YS
Sbjct: 138 GKYAGRAGMIDFFRGLGQRLLS------LGYSTPFLSLGSSYMYS 176
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 26.1 bits (58), Expect = 6.8
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDT 53
+L G+ G+GKT + LA+ L
Sbjct: 5 GIGVLTGESGSGKTTLLRRLARQLPNRR 32
>gnl|CDD|215947 pfam00493, MCM, MCM2/3/5 family.
Length = 327
Score = 26.7 bits (60), Expect = 7.0
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGS 61
+LL G PGT K+ + + L P +TS GS
Sbjct: 60 VLLVGDPGTAKSQL-LKYVAKLAPRAVYTSGKGS 92
>gnl|CDD|136106 PRK06904, PRK06904, replicative DNA helicase; Validated.
Length = 472
Score = 26.9 bits (59), Expect = 7.0
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 8/43 (18%)
Query: 28 ILLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEM 68
I++A +P GKT AM L + A+ + P ++SLEM
Sbjct: 224 IIVAARPSMGKTTFAMNLCENAAMASEKPVL------VFSLEM 260
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 26.4 bits (58), Expect = 7.5
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 28 ILLAGQPGTGKTAIAMGLAQALGPDTPFTSMA-GSEIYSLEMNKTEEETEMIEGEVVEIQ 86
L+ G G+GKT I + AL T + G I ++ ++E + + VEI
Sbjct: 22 TLIYGPNGSGKTTILDAIRWALYGKTSRLKKSKGRGIVKGDIEIEKDEGK--KKTYVEIT 79
Query: 87 IER 89
E
Sbjct: 80 FEN 82
>gnl|CDD|181193 PRK08006, PRK08006, replicative DNA helicase; Provisional.
Length = 471
Score = 26.9 bits (59), Expect = 7.7
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 8/43 (18%)
Query: 28 ILLAGQPGTGKTAIAMGLAQ--ALGPDTPFTSMAGSEIYSLEM 68
I++A +P GKT AM L + A+ D P I+SLEM
Sbjct: 227 IIVAARPSMGKTTFAMNLCENAAMLQDKPVL------IFSLEM 263
>gnl|CDD|224787 COG1875, COG1875, NYN ribonuclease and ATPase of PhoH family
domains [General function prediction only].
Length = 436
Score = 26.5 bits (59), Expect = 7.7
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 30 LAGQPGTGKTAIAM--GLAQAL 49
L G+ GTGKT +A+ GL Q L
Sbjct: 250 LGGKAGTGKTLLALAAGLEQVL 271
>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain.
Length = 249
Score = 26.5 bits (59), Expect = 7.8
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEM---IEGEV 82
R +++A P GKT + +A A+ + P + I L + EE T+M ++GEV
Sbjct: 18 RGLIVA-PPKAGKTTLLQSIANAITKNHPEVYL----IVLLIDERPEEVTDMQRSVKGEV 72
Query: 83 VEIQIERPA 91
+ + P
Sbjct: 73 IASTFDEPP 81
>gnl|CDD|177850 PLN02199, PLN02199, shikimate kinase.
Length = 303
Score = 26.6 bits (58), Expect = 7.9
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQALG 50
GR++ L G G+GKT + +++ LG
Sbjct: 102 GRSMYLVGMMGSGKTTVGKLMSKVLG 127
>gnl|CDD|216586 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that
catalyzes the phosphorylation of adenylylsulphate to
3'-phosphoadenylylsulfate. This domain contains an ATP
binding P-loop motif.
Length = 157
Score = 26.1 bits (58), Expect = 7.9
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 25 GRAILLAGQPGTGKTAIAMGLAQAL 49
G I G G+GK+ IA L + L
Sbjct: 2 GCTIWFTGLSGSGKSTIANALERKL 26
>gnl|CDD|235825 PRK06547, PRK06547, hypothetical protein; Provisional.
Length = 172
Score = 26.2 bits (58), Expect = 8.0
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALG 50
+L+ G+ G+GKT +A LA G
Sbjct: 16 ITVLIDGRSGSGKTTLAGALAARTG 40
>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 169
Score = 26.1 bits (58), Expect = 8.3
Identities = 6/21 (28%), Positives = 13/21 (61%)
Query: 23 IAGRAILLAGQPGTGKTAIAM 43
++G+ +L+ G+GKT +
Sbjct: 12 LSGKDVLVQAPTGSGKTLAFL 32
>gnl|CDD|234392 TIGR03908, QH_alpha, quinohemoprotein amine dehydrogenase, alpha
subunit. Quinohemoprotein amine dehydrogenase is a
three subunit enzyme with both a heme group and a
cysteine tryptophylquinone group derived by
post-translational modification of the gamma subunit.
This model describes the beta subunit. This enzyme
catalyzes oxidative deamination of primary aliphatic and
aromatic amines (PMID:10346915) [Energy metabolism,
Amino acids and amines].
Length = 510
Score = 26.7 bits (59), Expect = 8.3
Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 8/57 (14%)
Query: 4 QLQARRAAGVVLGMIKEGKIAGRAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAG 60
QA R K++GR ++ PG G M LA A D SM+
Sbjct: 174 AWQAARPQAA--------KLSGRWVVSGHLPGKGAYTGTMTLAPAGEGDRYSVSMSL 222
>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 26.6 bits (59), Expect = 8.4
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 25 GRAILLAGQPGTGKTAIA--MGLAQALGPDTPFTS 57
G +L+ G+ GTGK A + A + PF +
Sbjct: 101 GLPVLIIGETGTGKELFARLIHALSARRAEAPFIA 135
>gnl|CDD|226415 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 26.6 bits (59), Expect = 8.5
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 22 KIAGRAILLAGQPGTGKTAI 41
K G +L+AG+ G GK+A+
Sbjct: 21 KGRGEVVLVAGESGIGKSAL 40
>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is
unkown. It contains nucleotide binding site. It uses
NTP as energy source to transfer electron or ion.
Length = 179
Score = 26.1 bits (58), Expect = 9.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 30 LAGQPGTGKTAIAMGLAQALG 50
++G+ GTGKT + LA L
Sbjct: 5 ISGKGGTGKTTVTAALAALLK 25
>gnl|CDD|162030 TIGR00767, rho, transcription termination factor Rho. This RNA
helicase, the transcription termination factor Rho,
occurs in nearly all bacteria but is missing from the
Cyanobacteria, the Mollicutes (Mycoplasmas), and various
Lactobacillales including Streptococcus. It is also
missing, of course, from the Archaea, which also lack
Nus factors. Members of this family from Micrococcus
luteus, Mycobacterium tuberculosis, and related species
have a related but highly variable long, highly charged
insert near the amino end. Members of this family differ
in the specificity of RNA binding [Transcription,
Transcription factors].
Length = 415
Score = 26.6 bits (59), Expect = 9.2
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 8/70 (11%)
Query: 26 RAILLAGQPGTGKTAIAMGLAQALGPDTPFTSMAGSEIYSLEMNKTEEETEMI---EGEV 82
R +++A P GKT + +AQA+ + P + I L + EE T+M +GEV
Sbjct: 170 RGLIVA-PPKAGKTVLLQKIAQAITRNHPEVEL----IVLLIDERPEEVTDMQRSVKGEV 224
Query: 83 VEIQIERPAT 92
V + PA+
Sbjct: 225 VASTFDEPAS 234
>gnl|CDD|238997 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to
a conserved family of bacterial proteins implicated in
chromosome segregation. ParB binds to DNA sequences
adjacent to the origin of replication and localizes to
opposite cell poles shortly following the initiation of
DNA replication. ParB regulates the ParA ATPase
activity by promoting nucleotide exchange in a fashion
reminiscent of the exchange factors of eukaryotic G
proteins. ADP-bound ParA binds single-stranded DNA,
whereas the ATP-bound form dissociates ParB from its
DNA binding sites. Increasing the fraction of ParA-ADP
in the cell inhibits cell division, suggesting that
this simple nucleotide switch may regulate cytokinesis.
ParA shares sequence similarity to a conserved and
widespread family of ATPases which includes the repA
protein of the repABC operon in R. etli Sym plasmid.
This operon is involved in the plasmid replication and
partition.
Length = 104
Score = 25.2 bits (56), Expect = 9.4
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 35 GTGKTAIAMGLAQAL 49
G GKT A+ LA AL
Sbjct: 10 GVGKTTTAVNLAAAL 24
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
0.313 0.133 0.360
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,068,356
Number of extensions: 855809
Number of successful extensions: 1385
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1372
Number of HSP's successfully gapped: 307
Length of query: 174
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 84
Effective length of database: 6,945,742
Effective search space: 583442328
Effective search space used: 583442328
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: 56 (25.5 bits)