RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16285
(97 letters)
>gnl|CDD|221912 pfam13086, AAA_11, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 220
Score = 55.1 bits (133), Expect = 1e-10
Identities = 30/74 (40%), Positives = 40/74 (54%), Gaps = 8/74 (10%)
Query: 20 LNTIQFEAYKAALTRE-FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSG-PILIVCY 77
LN Q EA K AL+ +IQGPPGTGKT IVE K+L G +L+
Sbjct: 2 LNDSQREAIKKALSSSDITLIQGPPGTGKTTT---IVEII---KQLLSNAPGKKVLVCAP 55
Query: 78 TNHALDQFVEGVLK 91
+N A+D +E +L+
Sbjct: 56 SNSAVDNILERLLE 69
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 45.0 bits (107), Expect = 8e-08
Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 8/63 (12%)
Query: 26 EAYKAALTRE-FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQ 84
EA +AA + ++ G PGTGKT A I+ L +L+V T A +
Sbjct: 1 EAVEAAASGRSLFVVDGGPGTGKTATAAAIIARLLAAGR-------SVLVVAPTGRAARR 53
Query: 85 FVE 87
E
Sbjct: 54 LRE 56
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative. The gene product may
represent a DNA helicase. Eukaryotic members of this
family have been characterized as binding certain
single-stranded G-rich DNA sequences (GGGGT and GGGCT).
A number of related proteins are characterized as
helicases [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 47.1 bits (112), Expect = 1e-07
Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 8/79 (10%)
Query: 20 LNTIQFEAYKAAL-TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78
LN Q EA AL +++ +I GPPGTGKT + ++ +K +L+ +
Sbjct: 158 LNESQKEAVLFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-------RVLVTAPS 210
Query: 79 NHALDQFVEGVLKYTQNTL 97
N A+D +E + Q +
Sbjct: 211 NIAVDNLLERLALCDQKIV 229
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 42.0 bits (99), Expect = 9e-06
Identities = 18/71 (25%), Positives = 23/71 (32%), Gaps = 17/71 (23%)
Query: 15 QEELGLNTIQFEAYKAALTRE-FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPIL 73
QEE +A E +I P G GKT VA + L
Sbjct: 41 QEE------ALDALVKNRRTERRGVIVLPTGAGKTVVAAEA----------IAELKRSTL 84
Query: 74 IVCYTNHALDQ 84
++ T LDQ
Sbjct: 85 VLVPTKELLDQ 95
>gnl|CDD|218292 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 100
Score = 38.7 bits (91), Expect = 4e-05
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76
+L L Q EA + L ++ +I G+GKT A ++ K K+ +L V
Sbjct: 1 KLELRPYQEEAIERLLEKKRGLIVMATGSGKTLTAAALIARLAKGKK-------KVLFVV 53
Query: 77 YTNHALDQ 84
L+Q
Sbjct: 54 PRKDLLEQ 61
>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 = 37.6 bits (88), Expect = 3e-04
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 10/58 (17%)
Query: 38 IIQGPPGTGKTYVALRIVE--GFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93
++ G PGTGKT VAL + A ++SG NH L + L
Sbjct: 5 LVTGGPGTGKTVVALNLFAELSDSDLGRTAVFLSG--------NHPLVLVLYEALAGD 54
>gnl|CDD|222258 pfam13604, AAA_30, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. There is a Walker A and
Walker B.
Length = 195
Score = 36.4 bits (85), Expect = 6e-04
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 19 GLNTIQFEAYKAALT--REFAIIQGPPGTGKTYV--ALRIV 55
L+ Q EA + LT A++QGP GTGKT A R
Sbjct: 1 TLSAEQREAVRHVLTSGDRVAVVQGPAGTGKTTSLKAAREA 41
>gnl|CDD|224120 COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA
replication, recombination, and repair].
Length = 654
Score = 36.7 bits (85), Expect = 7e-04
Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 6/63 (9%)
Query: 25 FEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQ 84
+A E +I+ P GTGKT L + AR ++I T +Q
Sbjct: 25 EAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAY------AREEGKKVIISTRTKALQEQ 78
Query: 85 FVE 87
+E
Sbjct: 79 LLE 81
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 35.5 bits (82), Expect = 0.001
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 6/78 (7%)
Query: 20 LNTIQFEAYKAALTREF-AIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78
L Q EA +A L+ I+ P G+GKT AL + L R G +L++ T
Sbjct: 9 LRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPAL-----EALKRGKGGRVLVLVPT 63
Query: 79 NHALDQFVEGVLKYTQNT 96
+Q+ E + K +
Sbjct: 64 RELAEQWAEELKKLGPSL 81
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 35.5 bits (82), Expect = 0.002
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKEL 64
GL+ Q +A A+ + I+ G PGTGKT + I+E + L
Sbjct: 322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGL 368
>gnl|CDD|236783 PRK10875, recD, exonuclease V subunit alpha; Provisional.
Length = 615
Score = 34.9 bits (81), Expect = 0.003
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 31 ALTREFAIIQGPPGTGKT 48
ALTR ++I G PGTGKT
Sbjct: 164 ALTRRISVISGGPGTGKT 181
>gnl|CDD|233417 TIGR01447, recD, exodeoxyribonuclease V, alpha subunit. This
family describes the exodeoxyribonuclease V alpha
subunit, RecD. RecD is part of a RecBCD complex. A
related family in the Gram-positive bacteria separates
in a phylogenetic tree, has an additional N-terminal
extension of about 200 residues, and is not supported as
a member of a RecBCD complex by neighboring genes. The
related family is consequently described by a different
model [DNA metabolism, DNA replication, recombination,
and repair].
Length = 586
Score = 34.7 bits (80), Expect = 0.004
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 9 DLSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIV 55
+L + E+ Q A AL F++I G PGTGKT R++
Sbjct: 139 NLFPLLNEQ----NWQKVAVALALKSNFSLITGGPGTGKTTTVARLL 181
>gnl|CDD|233914 TIGR02538, type_IV_pilB, type IV-A pilus assembly ATPase PilB.
This model describes a protein of type IV pilus
biogenesis designated PilB in Pseudomonas aeruginosa but
PilF in Neisseria gonorrhoeae; the more common usage,
reflected here, is PilB. This protein is an ATPase
involved in protein export for pilin assembly and is
closely related to GspE (TIGR02533) of type II
secretion, also called the main terminal branch of the
general secretion pathway. Note that type IV pilus
systems are often divided into type IV-A and IV-B, with
the latter group including bundle-forming pilus,
mannose-sensitive hemagglutinin, etc. Members of this
family are found in type IV-A systems [Cell envelope,
Surface structures, Protein fate, Protein and peptide
secretion and trafficking].
Length = 564
Score = 34.2 bits (79), Expect = 0.005
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 4 ILDAYDLSANVQEELGLNTIQFEAYKAALTREFAII--QGPPGTGKT---YVALRI 54
ILD+ ++ ++LG Q + A+ + ++ GP G+GKT Y AL I
Sbjct: 285 ILDSSAAQLDI-DKLGFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNI 339
>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 = 33.3 bits (77), Expect = 0.006
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 10/35 (28%)
Query: 41 GPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
GPPGTGKT +A K +A+ + P + +
Sbjct: 5 GPPGTGKTTLA----------KAVAKELGAPFIEI 29
>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 = 33.3 bits (76), Expect = 0.007
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 10/44 (22%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHA 81
++ GPPGTGKT +A + +A + P Y N +
Sbjct: 23 LLYGPPGTGKTTLA----------RAIANELFRPGAPFLYLNAS 56
>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 = 33.0 bits (76), Expect = 0.008
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 21 NTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNK 62
IQ +A A L+ + ++Q P G+GKT L I++ L K
Sbjct: 1 TPIQAQAIPAILSGKDVLVQAPTGSGKTLAFLLPILQALLPKK 43
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 31.9 bits (72), Expect = 0.018
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 10/36 (27%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPIL 73
+I GPPG+GK+ +A K+LA + P++
Sbjct: 3 LITGPPGSGKSTLA----------KKLAEKLGIPVI 28
>gnl|CDD|181459 PRK08533, PRK08533, flagellar accessory protein FlaH; Reviewed.
Length = 230
Score = 32.3 bits (74), Expect = 0.020
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
+I+G TGK+ ++ R+ GFL+N Y+S
Sbjct: 28 LIEGDESTGKSILSQRLAYGFLQNGYSVSYVS 59
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 31.9 bits (73), Expect = 0.033
Identities = 14/32 (43%), Positives = 17/32 (53%), Gaps = 8/32 (25%)
Query: 41 GPPGTGKTYV----ALRIVEG----FLKNKEL 64
G PG GKT + A RIV G LK+K +
Sbjct: 198 GEPGVGKTAIVEGLAQRIVNGDVPESLKDKRI 229
>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 = 31.1 bits (71), Expect = 0.036
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 38 IIQGPPGTGKTYVALRI 54
++ GPPGTGK+ +A R+
Sbjct: 3 LLVGPPGTGKSELAERL 19
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 31.6 bits (71), Expect = 0.038
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88
I+QGPPG GKT+VA R+ K R ++ + +++ + F++G
Sbjct: 198 ILQGPPGVGKTFVARRLAYLLTGEKAPQRVN----MVQFHQSYSYEDFIQG 244
>gnl|CDD|168630 PRK06620, PRK06620, hypothetical protein; Validated.
Length = 214
Score = 31.4 bits (71), Expect = 0.046
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 10/50 (20%)
Query: 2 SSILDAYDLSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA 51
SS AY++ N Q G+N YK L +I+GP +GKTY+
Sbjct: 22 SSNDQAYNIIKNWQCGFGVN-----PYKFTL-----LIKGPSSSGKTYLT 61
>gnl|CDD|190347 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic
protein and predicted ATPase that is induced by
phosphate starvation.
Length = 205
Score = 30.9 bits (71), Expect = 0.052
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 24 QFEAYKAALTREFAIIQGPPGTGKTYVAL 52
Q +A + GP GTGKTY+A+
Sbjct: 9 QKRYVEAIRKNDIVFGIGPAGTGKTYLAV 37
>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 = 30.7 bits (70), Expect = 0.058
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 35 EFAIIQGPPGTGKTYVAL 52
++ G PGTGK+ +AL
Sbjct: 34 GLTLLAGAPGTGKSTLAL 51
>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 = 30.8 bits (69), Expect = 0.063
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILI 74
E +I GPPG+GKT +A + Y+ G ++
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDIL 42
>gnl|CDD|236694 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 31.1 bits (71), Expect = 0.066
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 16 EELGLNTIQFEAYKAALTREFAII--QGPPGTGKT---YVALR 53
E LG+ Q ++ AL + +I GP G+GKT Y AL+
Sbjct: 198 ETLGMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQ 240
>gnl|CDD|225429 COG2874, FlaH, Predicted ATPases involved in biogenesis of
archaeal flagella [Cell motility and secretion /
Intracellular trafficking and secretion].
Length = 235
Score = 30.7 bits (70), Expect = 0.068
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKN 61
+I+G GTGK+ ++ R GFL N
Sbjct: 32 LIEGDNGTGKSVLSQRFAYGFLMN 55
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of
this protein are LonB, a paralog of the ATP-dependent
protease La (LonA, TIGR00763). LonB proteins are found
strictly, and almost universally, in endospore-forming
bacteria. This protease was shown, in Bacillus subtilis,
to be expressed specifically in the forespore, during
sporulation, under control of sigma(F). The lonB gene,
despite location immediately upstream of lonA, was shown
to be monocistronic. LonB appears able to act on
sigma(H) for post-translation control, but lonB mutation
did not produce an obvious sporulation defect under the
conditions tested. Note that additional paralogs of LonA
and LonB occur in the Clostridium lineage and this model
selects only one per species as the protein that
corresponds to LonB in B. subtilis [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Cellular processes, Sporulation and germination].
Length = 531
Score = 30.5 bits (69), Expect = 0.097
Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 26 EAYKAAL---TREFAIIQGPPGTGKTYVALRIVEGFLKNK 62
+A KAAL + II GPPG GKT A ++E KN
Sbjct: 75 KALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNP 114
>gnl|CDD|224697 COG1783, XtmB, Phage terminase large subunit [General function
prediction only].
Length = 414
Score = 30.5 bits (69), Expect = 0.10
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 21 NTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNK 62
+ I FEAY +++ I +G G+ K+Y AL+ +E L
Sbjct: 11 DPIIFEAYVFFWNQKYFIAKGGRGSSKSYATALKNIEKLLSEP 53
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 30.2 bits (68), Expect = 0.13
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 10/38 (26%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
++ GPPGTGKT +A K +A + V
Sbjct: 280 LLYGPPGTGKTLLA----------KAVALESRSRFISV 307
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 30.0 bits (68), Expect = 0.13
Identities = 11/19 (57%), Positives = 14/19 (73%), Gaps = 1/19 (5%)
Query: 37 AIIQGPPGTGKTYVALRIV 55
I+ GPPG GKT +A RI+
Sbjct: 55 LILYGPPGVGKTTLA-RII 72
>gnl|CDD|224533 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 179
Score = 29.6 bits (67), Expect = 0.14
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I G PG GKT + L+I E
Sbjct: 9 FITGRPGVGKTTLVLKIAE 27
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 30.1 bits (68), Expect = 0.14
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 10/51 (19%)
Query: 25 FEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
A A L +++GPPG GKT +A + LAR + P + +
Sbjct: 34 ELALLALLAGGHVLLEGPPGVGKTLLA----------RALARALGLPFVRI 74
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 29.6 bits (67), Expect = 0.15
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 5/39 (12%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76
++ P G+GKT AL + L + + G +L++
Sbjct: 4 LLAAPTGSGKTLAALLPILELLDSLK-----GGQVLVLA 37
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 30.0 bits (68), Expect = 0.15
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 10 LSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARY 67
L + +EL N Q K L+ E +I P G+GKT +A L I+ L+ Y
Sbjct: 24 LKGDGIDEL-FNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVY 81
>gnl|CDD|226482 COG3973, COG3973, Superfamily I DNA and RNA helicases [General
function prediction only].
Length = 747
Score = 29.8 bits (67), Expect = 0.16
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 9 DLSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYM 68
D+ +Q+E I+FE K ++QG G+GKT +AL V +L
Sbjct: 208 DIVETIQKEQN-EIIRFEKNKIL------VVQGAAGSGKTTIALHRV-AYLLYGYRGPLQ 259
Query: 69 SGPILIV 75
+ P+L++
Sbjct: 260 AKPVLVL 266
>gnl|CDD|236523 PRK09452, potA, putrescine/spermidine ABC transporter ATPase
protein; Reviewed.
Length = 375
Score = 29.9 bits (68), Expect = 0.16
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGF 58
EF + GP G GKT V LR++ GF
Sbjct: 41 EFLTLLGPSGCGKTTV-LRLIAGF 63
>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 = 29.6 bits (67), Expect = 0.22
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 11/42 (26%)
Query: 24 QFEAYKAA-----LTREFAI------IQGPPGTGKTYVALRI 54
Q +A +AA + +E I I GPPGTGKT +A+ I
Sbjct: 29 QEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAI 70
>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 = 29.3 bits (66), Expect = 0.23
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I GPPG+GKT VA + E
Sbjct: 4 TISGPPGSGKTTVAKILAE 22
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 29.1 bits (66), Expect = 0.23
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 39 IQGPPGTGKTYVALRIVE 56
I GPPG GKT + L+I E
Sbjct: 5 ITGPPGVGKTTLVLKIAE 22
>gnl|CDD|226617 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 29.2 bits (66), Expect = 0.24
Identities = 22/83 (26%), Positives = 32/83 (38%), Gaps = 14/83 (16%)
Query: 5 LDAYDLSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKEL 64
L+A +LS E + + F E I GP G GKT + LRI+ G L
Sbjct: 3 LEAENLSCERGERTLFSDLSF----TLNAGEALQITGPNGAGKTTL-LRILAG------L 51
Query: 65 ARYMSGPILIVCYTNHALDQFVE 87
R +G + + + E
Sbjct: 52 LRPDAGEVY---WQGEPIQNVRE 71
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 29.0 bits (66), Expect = 0.25
Identities = 10/19 (52%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 37 AIIQGPPGTGKTYVALRIV 55
+I GPPGTGKT ++ V
Sbjct: 58 VLIYGPPGTGKT-TTVKKV 75
>gnl|CDD|181541 PRK08727, PRK08727, hypothetical protein; Validated.
Length = 233
Score = 29.0 bits (65), Expect = 0.28
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 24 QFEAYKAALTREFAIIQGPPGTGKTYVAL 52
Q +A A + ++ + GP GTGKT++AL
Sbjct: 31 QLQALAAGQSSDWLYLSGPAGTGKTHLAL 59
>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional.
Length = 367
Score = 29.2 bits (66), Expect = 0.29
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 31 ALTREFAIIQGPPGTGKTYVALRIVEGFLKN 61
R F I++G PGTGK+ + +I E FL+
Sbjct: 28 GANRIF-ILKGGPGTGKSTLMKKIGEEFLEK 57
>gnl|CDD|234478 TIGR04121, DEXH_lig_assoc, DEXH box helicase, DNA
ligase-associated. Members of this protein family are
DEAD/DEAH box helicases found associated with a
bacterial ATP-dependent DNA ligase, part of a four-gene
system that occurs in about 12 % of prokaryotic
reference genomes. The actual motif in this family is
DE[VILW]H.
Length = 803
Score = 29.1 bits (66), Expect = 0.30
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 24 QFEAYKAALTREFAIIQGPPGTGKTY 49
Q E + AAL ++ P G+GKT
Sbjct: 18 QLEMWAAALEGRSGLLIAPTGSGKTL 43
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 28.7 bits (65), Expect = 0.32
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I GPPG GKT + +++E
Sbjct: 3 FITGPPGVGKTTLVKKVIE 21
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 28.7 bits (64), Expect = 0.33
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 34 REFAIIQGPPGTGKTYVAL 52
+E + GPPGTGKT++A+
Sbjct: 98 KENVVFLGPPGTGKTHLAI 116
>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
replication, recombination, and repair / Transcription /
Translation, ribosomal structure and biogenesis].
Length = 513
Score = 28.6 bits (64), Expect = 0.40
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 23 IQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYT 78
IQ A L + Q GTGKT L +++ LK+ E LI+ T
Sbjct: 55 IQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKY---VSALILAPT 108
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 28.9 bits (65), Expect = 0.40
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 38 IIQGPPGTGKTYVALRI 54
+I GPPGTGKT +A+ I
Sbjct: 69 LIVGPPGTGKTALAMGI 85
>gnl|CDD|236148 PRK08074, PRK08074, bifunctional ATP-dependent DNA helicase/DNA
polymerase III subunit epsilon; Validated.
Length = 928
Score = 28.8 bits (65), Expect = 0.41
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 26 EAYKAALTREFAIIQGPPGTGKT 48
E Y A E A+I+ GTGK+
Sbjct: 268 EVYTALRDSEHALIEAGTGTGKS 290
>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 = 28.5 bits (64), Expect = 0.41
Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 11/71 (15%)
Query: 24 QFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV-C--YTNH 80
Q +AY A + +I G GTGK A I + AR P + C Y+ +
Sbjct: 93 QIKAY--APSGLPVLIIGETGTGKELFARLI------HALSARRAEAPFIAFNCAAYSEN 144
Query: 81 ALDQFVEGVLK 91
+ + G K
Sbjct: 145 LQEAELFGHEK 155
>gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K. Members of
this protein family are the stage V sporulation protein
K (SpoVK), a close homolog of the Rubisco expression
protein CbbX (TIGR02880) and a members of the ATPase
family associated with various cellular activities
(pfam00004). Members are strictly limited to bacterial
endospore-forming species, but are not universal in
this group and are missing from the Clostridium group
[Cellular processes, Sporulation and germination].
Length = 261
Score = 28.5 bits (64), Expect = 0.44
Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLK 60
I +G PGTGKT VA RI+ K
Sbjct: 46 IFKGNPGTGKTTVA-RILGKLFK 67
>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 = 28.8 bits (65), Expect = 0.44
Identities = 16/32 (50%), Positives = 17/32 (53%), Gaps = 8/32 (25%)
Query: 41 GPPGTGKTYV----ALRIVEG----FLKNKEL 64
G PG GKT + A RIV G LKNK L
Sbjct: 201 GEPGVGKTAIVEGLAQRIVNGDVPESLKNKRL 232
>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 = 28.2 bits (64), Expect = 0.47
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 41 GPPGTGKTYVALRI 54
GPPG+GKT +A R+
Sbjct: 29 GPPGSGKTMLAKRL 42
>gnl|CDD|227226 COG4889, COG4889, Predicted helicase [General function prediction
only].
Length = 1518
Score = 28.6 bits (64), Expect = 0.47
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 43 PGTGKTYVALRIVEGFLKNKEL 64
GTGKT+ +L+I E + L
Sbjct: 189 CGTGKTFTSLKISEALAAARIL 210
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 28.6 bits (65), Expect = 0.48
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 13/52 (25%)
Query: 29 KAALTREFA----IIQGPPGTGKTYVALRIVEGFLKNKELA---RYMSGPIL 73
+AA R A ++ GPPG GKT +A I E+ R SGP L
Sbjct: 42 EAAKKRGEALDHVLLYGPPGLGKTTLANIIA------NEMGVNIRITSGPAL 87
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 28.0 bits (63), Expect = 0.52
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 33 TREFAIIQGPPGTGKTYVALRIVE 56
++ G G+GKT + R+
Sbjct: 3 GAGIGVLTGESGSGKTTLLRRLAR 26
>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 = 28.3 bits (63), Expect = 0.54
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 17/57 (29%)
Query: 12 ANVQEELGLNTI--QFEAYKAALTREFA---------------IIQGPPGTGKTYVA 51
A + E++GL + Q A K++ A + GPPGTGKT +A
Sbjct: 273 AELAEQIGLERVKRQVAALKSSTAMALARAERGLPVAQTSNHMLFAGPPGTGKTTIA 329
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 28.2 bits (63), Expect = 0.54
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
+I GPPGTGKT AL+ + + E Y+S
Sbjct: 23 GSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS 58
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 28.4 bits (64), Expect = 0.55
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 37 AIIQGPPGTGKTYVA 51
I+ GPPGTGKT +A
Sbjct: 51 MILWGPPGTGKTTLA 65
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 28.1 bits (63), Expect = 0.58
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 41 GPPGTGKTYVALRIVE 56
G PGTGKT VAL++ +
Sbjct: 66 GSPGTGKTTVALKMAD 81
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 28.3 bits (64), Expect = 0.58
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 41 GPPGTGKTYVA 51
GPPGTGKT +A
Sbjct: 172 GPPGTGKTLLA 182
>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional.
Length = 333
Score = 28.3 bits (63), Expect = 0.61
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I+ GPPG GK A R+V+
Sbjct: 4 ILLGPPGAGKGTQAQRLVQ 22
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 28.1 bits (63), Expect = 0.63
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I G PG+GKT VA + E
Sbjct: 4 TISGLPGSGKTTVARELAE 22
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 28.1 bits (63), Expect = 0.63
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 37 AIIQGPPGTGKTYVALRIVE 56
II GP GTGKT ++E
Sbjct: 45 IIIYGPTGTGKTATVKFVME 64
>gnl|CDD|213268 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to
the transporter as ATP is hydrolyzed.
Length = 213
Score = 28.0 bits (63), Expect = 0.64
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGF 58
EF ++ GP G GKT LR++ G
Sbjct: 27 EFVVLLGPSGCGKT-TTLRMIAGL 49
>gnl|CDD|213267 cd03300, ABC_PotA_N, ATP-binding cassette domain of the polyamine
transporter. PotA is an ABC-type transporter and the
ATPase component of the
spermidine/putrescine-preferential uptake system
consisting of PotA, -B, -C, and -D. PotA has two
domains with the N-terminal domain containing the
ATPase activity and the residues required for
homodimerization with PotA and heterdimerization with
PotB. ABC transporters are a large family of proteins
involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides, and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 232
Score = 28.0 bits (63), Expect = 0.66
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGF 58
EF + GP G GKT LR++ GF
Sbjct: 27 EFFTLLGPSGCGKT-TLLRLIAGF 49
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 28.0 bits (63), Expect = 0.68
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 29 KAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKEL 64
KAA R ++ G PGTGK+ +A + E L +EL
Sbjct: 45 KAAKQRRHVMMIGSPGTGKSMLAKAMAE-LLPKEEL 79
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 27.8 bits (62), Expect = 0.72
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 14/48 (29%)
Query: 38 IIQGPPGTGKTYVA-----------LRIVEGFLKNKELARYMSGPILI 74
I+ GPPGTGKT +A LR+V L K L GP L+
Sbjct: 221 ILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLG---DGPKLV 265
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 28.2 bits (62), Expect = 0.72
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
+ GPPGTGK+ + +V F K+ + GPI +V
Sbjct: 74 VVGPPGTGKSTLIRSLVRRF--TKQTIDEIRGPITVV 108
>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
Members of this protein family are Hda (Homologous to
DnaA). These proteins are about half the length of DnaA
and homologous over length of Hda. In the model species
Escherichia coli, the initiation of DNA replication
requires DnaA bound to ATP rather than ADP; Hda helps
facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA
metabolism, DNA replication, recombination, and
repair].
Length = 226
Score = 27.9 bits (63), Expect = 0.76
Identities = 6/31 (19%), Positives = 14/31 (45%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
+ G G+GK+++ + + A Y+
Sbjct: 43 LWGESGSGKSHLLQAACAAAEERGKSAIYLP 73
>gnl|CDD|233305 TIGR01189, ccmA, heme ABC exporter, ATP-binding protein CcmA.
This model describes the cyt c biogenesis protein
encoded by ccmA in bacteria. An exception is, an
arabidopsis protein. Quite likely this is encoded by an
organelle. Bacterial c-type cytocromes are located on
the periplasmic side of the cytoplasmic membrane.
Several gene products encoded in a locus designated as
'ccm' are implicated in the transport and assembly of
the functional cytochrome C. This cluster includes
genes: ccmA;B;C;D;E;F;G and H. The posttranslational
pathway includes the transport of heme moiety, the
secretion of the apoprotein and the covalent attachment
of the heme with the apoprotein. The proteins ccmA and
B represent an ABC transporter; ccmC and D participate
in heme transfer to ccmE, which function as a
periplasmic heme chaperone. The presence of ccmF, G and
H is suggested to be obligatory for the final
functional assembly of cytochrome c [Protein fate,
Protein and peptide secretion and trafficking,
Transport and binding proteins, Other].
Length = 198
Score = 27.7 bits (62), Expect = 0.77
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60
E + GP G GKT + LRI+ G L+
Sbjct: 27 EALQVTGPNGIGKTTL-LRILAGLLR 51
>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 = 28.0 bits (63), Expect = 0.79
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 37 AIIQGPPGTGKTYVA 51
++ GPPGTGKT +A
Sbjct: 91 VLLVGPPGTGKTLLA 105
>gnl|CDD|163592 TIGR03880, KaiC_arch_3, KaiC domain protein, AF_0351 family.
This model represents a rather narrowly distributed
archaeal protein family in which members have a single
copy of the KaiC domain. This stands in contrast to the
circadian clock protein KaiC itself, with two copies of
the domain. Members are expected to have weak ATPase
activity, by homology to the
autokinase/autophosphorylase KaiC itself.
Length = 224
Score = 27.7 bits (62), Expect = 0.79
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 36 FAIIQGPPGTGKTYVALR-IVEGFLKNKELARYMS 69
+I G GTGKT +L+ + +G LKN E A Y+S
Sbjct: 19 IVVI-GEYGTGKTTFSLQFLYQG-LKNGEKAMYIS 51
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 27.7 bits (62), Expect = 0.85
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 41 GPPGTGKTYVA 51
G GTGKTY+A
Sbjct: 121 GSVGTGKTYLA 131
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 27.9 bits (62), Expect = 0.87
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 10/45 (22%)
Query: 29 KAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPIL 73
+ +I GP G GK+ +AL ELA+ ++G I+
Sbjct: 16 SKTKKEKVIVISGPTGAGKSRLAL----------ELAKRLNGEII 50
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 27.7 bits (63), Expect = 0.87
Identities = 12/18 (66%), Positives = 15/18 (83%), Gaps = 1/18 (5%)
Query: 38 IIQGPPGTGKTYVALRIV 55
I+ GPPGTGKT +A RI+
Sbjct: 40 ILWGPPGTGKTTLA-RII 56
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 27.6 bits (62), Expect = 0.89
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 41 GPPGTGKTYVA 51
GPPGTGKT +A
Sbjct: 192 GPPGTGKTLLA 202
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 27.6 bits (61), Expect = 0.89
Identities = 11/14 (78%), Positives = 12/14 (85%)
Query: 41 GPPGTGKTYVALRI 54
GPPGTGKT +A RI
Sbjct: 217 GPPGTGKTMLASRI 230
>gnl|CDD|224118 COG1197, Mfd, Transcription-repair coupling factor (superfamily
II helicase) [DNA replication, recombination, and
repair / Transcription].
Length = 1139
Score = 27.6 bits (62), Expect = 0.92
Identities = 12/61 (19%), Positives = 19/61 (31%), Gaps = 10/61 (16%)
Query: 27 AYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFV 86
AL + ++ G G K + LA P+L+V D+
Sbjct: 2 KLPEALGGDPLLLGGLSGGAKALLI----------AALAEEKPNPVLLVTADLQEADRLA 51
Query: 87 E 87
E
Sbjct: 52 E 52
>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 = 27.6 bits (62), Expect = 0.94
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
++ GPPG+GK A R+ +
Sbjct: 3 LLLGPPGSGKGTQAERLAK 21
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 27.4 bits (61), Expect = 0.94
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 34 REFAIIQGPPGTGKTYVALRIVE 56
++ G PG+GK+ +A + E
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAE 23
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 27.5 bits (62), Expect = 0.94
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 41 GPPGTGKTYVALRIV 55
GPPGTGKT AL +
Sbjct: 45 GPPGTGKTTAALALA 59
>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 = 27.5 bits (61), Expect = 0.96
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 33 TREFAIIQGPPGTGKTYVALRIVEGFLK 60
++ GP GTGKT + ++EG L
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLV 50
>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 = 27.3 bits (61), Expect = 0.99
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNK 62
I+QG G+GKT + +I + + K
Sbjct: 4 ILQGEAGSGKTTLLQKIALLWAQGK 28
>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 = 27.4 bits (62), Expect = 1.0
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 13/52 (25%)
Query: 29 KAALTREFAI----IQGPPGTGKTYVALRIVEGFLKNKEL---ARYMSGPIL 73
+AA R A+ + GPPG GKT +A I E+ R SGP L
Sbjct: 41 EAAKKRGEALDHVLLYGPPGLGKTTLANIIA------NEMGVNIRITSGPAL 86
>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 = 27.3 bits (61), Expect = 1.0
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 38 IIQGPPGTGKTYVAL 52
++ G PGTGKT AL
Sbjct: 3 LLSGGPGTGKTTFAL 17
>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 = 27.5 bits (61), Expect = 1.1
Identities = 11/14 (78%), Positives = 12/14 (85%)
Query: 41 GPPGTGKTYVALRI 54
G PGTGKT VALR+
Sbjct: 65 GNPGTGKTTVALRM 78
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 27.3 bits (61), Expect = 1.1
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 38 IIQGPPGTGKTYVA 51
++ GPPGTGKT +A
Sbjct: 220 LLVGPPGTGKTLLA 233
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 27.1 bits (61), Expect = 1.1
Identities = 12/31 (38%), Positives = 15/31 (48%), Gaps = 10/31 (32%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
I GPPG+GKT VA + LA +
Sbjct: 5 ISGPPGSGKTTVA----------RLLAEKLG 25
>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 = 26.8 bits (60), Expect = 1.1
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKEL 64
+ GPPG GK+ +A + LK+ L
Sbjct: 2 WLYGPPGCGKSTLAKYLARALLKHLGL 28
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 27.3 bits (61), Expect = 1.1
Identities = 12/31 (38%), Positives = 13/31 (41%)
Query: 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARY 67
I G PG GKT V + E K EL
Sbjct: 3 IAITGTPGVGKTTVCKLLRELGYKVIELNEL 33
>gnl|CDD|226997 COG4650, RtcR, Sigma54-dependent transcription regulator containing
an AAA-type ATPase domain and a DNA-binding domain
[Transcription / Signal transduction mechanisms].
Length = 531
Score = 27.2 bits (60), Expect = 1.2
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 7/51 (13%)
Query: 30 AALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARY-MSGPILIV-CYT 78
A +R ++ GP G GK+++A RI E LK AR+ SG + V C T
Sbjct: 204 AIRSRAPILLNGPTGAGKSFLARRIYE--LK---QARHQFSGAFVEVNCAT 249
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 27.0 bits (60), Expect = 1.2
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 38 IIQGPPGTGKTYVA 51
+I G PG+GKT +A
Sbjct: 2 LITGTPGSGKTTLA 15
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 27.3 bits (61), Expect = 1.3
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
++ GPPG GK+ + +++ + K + GPI IV
Sbjct: 43 VVVGPPGVGKSTLIRSLIKRYTKQN--LSDIKGPITIV 78
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide
variety of AAA domains including some that have lost
essential nucleotide binding residues in the P-loop.
Length = 509
Score = 27.0 bits (61), Expect = 1.3
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 41 GPPGTGKTYVALRIVE 56
G PGTG+T + R +E
Sbjct: 37 GEPGTGRTTLVRRYLE 52
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 27.0 bits (60), Expect = 1.3
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYM 68
E ++ GPPG GKT++A+ I EL +
Sbjct: 105 GENLVLLGPPGVGKTHLAIAI------GNELLKAG 133
>gnl|CDD|234711 PRK00279, adk, adenylate kinase; Reviewed.
Length = 215
Score = 27.0 bits (61), Expect = 1.3
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I+ GPPG GK A I E
Sbjct: 4 ILLGPPGAGKGTQAKFIAE 22
>gnl|CDD|213180 cd03213, ABCG_EPDR, Eye pigment and drug resistance transporter
subfamily G of the ATP-binding cassette superfamily.
ABCG transporters are involved in eye pigment (EP)
precursor transport, regulation of lipid-trafficking
mechanisms, and pleiotropic drug resistance (DR). DR is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. Compared to other members of the
ABC transporter subfamilies, the ABCG transporter
family is composed of proteins that have an ATP-binding
cassette domain at the N-terminus and a TM
(transmembrane) domain at the C-terminus.
Length = 194
Score = 27.1 bits (61), Expect = 1.4
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 15/79 (18%)
Query: 2 SSILDAYDLSANVQEELG------LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIV 55
L +L+ V+ L + +A LT AI+ GP G GK+ + L +
Sbjct: 1 GVTLSFRNLTVTVKSSPSKSGKQLLKNVSGKAKPGELT---AIM-GPSGAGKSTL-LNAL 55
Query: 56 EGFLKNKELARYMSGPILI 74
G +SG +LI
Sbjct: 56 AGRRTGLG----VSGEVLI 70
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 27.1 bits (61), Expect = 1.4
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYM 68
I GPPG+GKT + L++ KN + Y+
Sbjct: 28 IYGPPGSGKTNICLQLAVEAAKNGKKVIYI 57
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit
[DNA replication, recombination, and repair].
Length = 332
Score = 27.1 bits (61), Expect = 1.4
Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 13/52 (25%)
Query: 29 KAALTREFAI----IQGPPGTGKTYVALRIVEGFLKNKELA---RYMSGPIL 73
KAA R A+ + GPPG GKT +A I EL + SGP L
Sbjct: 43 KAAKKRGEALDHVLLFGPPGLGKTTLAHIIA------NELGVNLKITSGPAL 88
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 27.2 bits (61), Expect = 1.4
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 10/36 (27%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPIL 73
+I GP +GKT +A+ LA+ + G I+
Sbjct: 7 VIAGPTASGKTALAI----------ALAKRLGGEII 32
>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 = 26.9 bits (60), Expect = 1.4
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 41 GPPGTGKTYVALRIVEGF 58
GP TGKT +A I
Sbjct: 120 GPASTGKTNLAQAIAHAV 137
>gnl|CDD|181835 PRK09415, PRK09415, RNA polymerase factor sigma C; Reviewed.
Length = 179
Score = 27.0 bits (60), Expect = 1.5
Identities = 11/34 (32%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 52 LRIVEGFLKNKELARYMSGPILIVCYTNHALDQF 85
L++V ++KNKE+A ++ I + CY + L +
Sbjct: 30 LQLVYSYVKNKEVAEDLTQEIFVKCYKS--LHTY 61
>gnl|CDD|223544 COG0468, RecA, RecA/RadA recombinase [DNA replication,
recombination, and repair].
Length = 279
Score = 26.9 bits (60), Expect = 1.5
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALD 83
I GP +GKT +AL++V K A ++ T HALD
Sbjct: 65 IYGPESSGKTTLALQLVANAQKPGGKAAFID--------TEHALD 101
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 27.0 bits (60), Expect = 1.5
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 38 IIQGPPGTGKT 48
I+ GPPGTGKT
Sbjct: 38 ILSGPPGTGKT 48
>gnl|CDD|166698 PLN03059, PLN03059, beta-galactosidase; Provisional.
Length = 840
Score = 27.3 bits (60), Expect = 1.5
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 48 TYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93
T V + EGFLK + P+L + HAL F+ G L T
Sbjct: 476 TEVHIDPDEGFLKTGQ------YPVLTIFSAGHALHVFINGQLAGT 515
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 26.9 bits (60), Expect = 1.5
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
+I GPPG GK+ +A ++ +
Sbjct: 4 LILGPPGAGKSTLAKKLAK 22
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2;
Reviewed.
Length = 337
Score = 26.9 bits (60), Expect = 1.5
Identities = 8/11 (72%), Positives = 11/11 (100%)
Query: 38 IIQGPPGTGKT 48
++QGPPG+GKT
Sbjct: 40 LVQGPPGSGKT 50
>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 = 27.1 bits (60), Expect = 1.5
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 41 GPPGTGKTYVALRI 54
GPPG+GKT +A R+
Sbjct: 218 GPPGSGKTMLASRL 231
>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 = 26.8 bits (60), Expect = 1.5
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 33 TREFAIIQGPPGTGKTYVA 51
E ++ GPPG GKT++A
Sbjct: 46 QAENLLLLGPPGVGKTHLA 64
>gnl|CDD|165476 PHA03210, PHA03210, serine/threonine kinase US3; Provisional.
Length = 501
Score = 27.0 bits (59), Expect = 1.6
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 53 RIVEGFLKN-KELARYMSGPILIVCYTNHALDQFVEGVLKYTQNT 96
R++ +K A + IL + NH +E +L+ NT
Sbjct: 194 RLIAKRVKAGSRAAIQLENEILALGRLNHENILKIEEILRSEANT 238
>gnl|CDD|218709 pfam05707, Zot, Zonular occludens toxin (Zot). This family
consists of bacterial and viral proteins which are very
similar to the Zonular occludens toxin (Zot). Zot is
elaborated by bacteriophages present in toxigenic
strains of Vibrio cholerae. Zot is a single polypeptide
chain of 44.8 kDa, with the ability to reversibly alter
intestinal epithelial tight junctions, allowing the
passage of macromolecules through mucosal barriers.
Length = 183
Score = 26.9 bits (60), Expect = 1.6
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 38 IIQGPPGTGKTYVAL 52
+I G PG+GKT A+
Sbjct: 4 LITGKPGSGKTLEAV 18
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a
wide variety of presumed phage proteins.
Length = 201
Score = 26.9 bits (60), Expect = 1.7
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 37 AIIQGPPGTGKTYVA 51
+I GPPG GKT +A
Sbjct: 6 VLIYGPPGIGKTSLA 20
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 26.8 bits (60), Expect = 1.9
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60
EF I GP G GK+ LR++ G K
Sbjct: 30 EFVAILGPSGCGKS-TLLRLIAGLEK 54
>gnl|CDD|237647 PRK14248, PRK14248, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 268
Score = 26.8 bits (59), Expect = 1.9
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 2 SSILDAYDLSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKT 48
IL+ DLS E+ +N I + K A+T A+I GP G GK+
Sbjct: 19 EHILEVKDLSIYYGEKRAVNDISMDIEKHAVT---ALI-GPSGCGKS 61
>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 = 26.3 bits (59), Expect = 2.0
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 9/40 (22%)
Query: 39 IQGPPGTGKTYVALRIVE---------GFLKNKELARYMS 69
I GP G+GK+ VA + + G ++ +E+ + S
Sbjct: 4 IDGPAGSGKSTVAKLLAKKLGLPYLDTGGIRTEEVGKLAS 43
>gnl|CDD|130254 TIGR01186, proV, glycine betaine/L-proline transport ATP binding
subunit. This model describes the glycine
betaine/L-proline ATP binding subunit in bacteria and
its equivalents in archaea. This transport system
belong to the larger ATP-Binding Cassette (ABC)
transporter superfamily. The characteristic feature of
these transporter is the obligatory coupling of ATP
hydrolysis to substrate translocation. The minimal
configuration of bacterial ABC transport system: an
ATPase or ATP binding subunit; An integral membrane
protein; a hydrophilic polypetpide, which likely
functions as substrate binding protein. Functionally,
this transport system is involved in osmoregulation.
Under conditions of stress, the organism recruits these
transport system to accumulate glycine betaine and
other solutes which offer osmo-protection. It has been
demonstrated that glycine betaine uptake is accompanied
by symport with sodium ions. The locus has been named
variously as proU or opuA. A gene library from L.lactis
functionally complements an E.coli proU mutant. The
comlementing locus is similar to a opuA locus in
B.sutlis. This clarifies the differences in
nomenclature [Transport and binding proteins, Amino
acids, peptides and amines].
Length = 363
Score = 26.7 bits (59), Expect = 2.1
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 4/31 (12%)
Query: 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKT 48
G+N K E +I G G+GK+
Sbjct: 7 KGVNDADLAIAKG----EIFVIMGLSGSGKS 33
>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 = 26.5 bits (59), Expect = 2.1
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 10/32 (31%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
I+ G P +GK+ A KELA+Y+
Sbjct: 3 ILTGLPSSGKSTRA----------KELAKYLE 24
>gnl|CDD|213266 cd03299, ABC_ModC_like, ATP-binding cassette domain similar to
the molybdate transporter. Archaeal protein closely
related to ModC. ModC is an ABC-type transporter and
the ATPase component of a molybdate transport system
that also includes the periplasmic binding protein ModA
and the membrane protein ModB. ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and
GTP-binding and hydrolyzing proteins.
Length = 235
Score = 26.5 bits (59), Expect = 2.2
Identities = 11/26 (42%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60
++ +I GP G+GK+ V L + GF+K
Sbjct: 26 DYFVILGPTGSGKS-VLLETIAGFIK 50
>gnl|CDD|233369 TIGR01351, adk, adenylate kinase. Adenylate kinase (EC 2.7.4.3)
converts ATP + AMP to ADP + ADP, that is, uses ATP as a
phosphate donor for AMP. Most members of this family
are known or believed to be adenylate kinase. However,
some members accept other nucleotide triphosphates as
donors, may be unable to use ATP, and may fail to
complement adenylate kinase mutants. An example of a
nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10)
is a GTP:AMP phosphotransferase. This family is
designated subfamily rather than equivalog for this
reason [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 210
Score = 26.4 bits (59), Expect = 2.3
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
++ GPPG+GK A RI E
Sbjct: 3 VLLGPPGSGKGTQAKRIAE 21
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain
only a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 26.1 bits (58), Expect = 2.3
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 41 GPPGTGKTYVALRIVE 56
G PG+GK+ A R++
Sbjct: 6 GLPGSGKSTFARRLLR 21
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 26.3 bits (58), Expect = 2.7
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 38 IIQGPPGTGKTYVA 51
++ GPPGTGKT +A
Sbjct: 183 LLYGPPGTGKTMLA 196
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 26.4 bits (59), Expect = 2.7
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 26 EAYKAALTREFAIIQGPPGTGKT 48
E++ ++ ++ GPPG GKT
Sbjct: 31 ESWLKGKPKKALLLYGPPGVGKT 53
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 26.0 bits (58), Expect = 2.8
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNK 62
+I GP GKT + L+ ++ L
Sbjct: 6 VITGPRQVGKTTLLLQFLKELLSEN 30
>gnl|CDD|184129 PRK13543, PRK13543, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 214
Score = 26.4 bits (58), Expect = 2.8
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 15/49 (30%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFL--------------KNKELARYMS 69
E ++QG G GKT + LR++ G L + +R+M+
Sbjct: 38 EALLVQGDNGAGKTTL-LRVLAGLLHVESGQIQIDGKTATRGDRSRFMA 85
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 26.1 bits (58), Expect = 2.9
Identities = 10/26 (38%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60
EF ++ GP G GK+ LR++ G +
Sbjct: 30 EFVVLLGPSGCGKS-TLLRMIAGLEE 54
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 26.1 bits (58), Expect = 2.9
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNK 62
I G G+GKT VA + E K
Sbjct: 13 IAGGSGSGKTTVAKELSEQLGVEK 36
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 26.1 bits (58), Expect = 3.0
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYM 68
I G G GKT++ I L N AR +
Sbjct: 117 FIYGGVGLGKTHLLQAIGNEALANGPNARVV 147
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 26.3 bits (58), Expect = 3.0
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 38 IIQGPPGTGKTYVA 51
++ GPPGTGKT +A
Sbjct: 160 LLYGPPGTGKTLLA 173
>gnl|CDD|224037 COG1112, COG1112, Superfamily I DNA and RNA helicases and helicase
subunits [DNA replication, recombination, and repair].
Length = 767
Score = 26.1 bits (57), Expect = 3.1
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 6/73 (8%)
Query: 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
+EL +L F I QGP GTGKT I+E ++ E + ++
Sbjct: 273 KELDNEQKLAVKRLLSLNDLFLIHQGPFGTGKTRSVT-ILELIIELLEN----NKLKILP 327
Query: 76 CY-TNHALDQFVE 87
+N A+D +
Sbjct: 328 TAESNAAVDNLLR 340
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 26.2 bits (58), Expect = 3.1
Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 13/68 (19%)
Query: 3 SILDAYDLSANVQEE-----LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEG 57
I + +A V ++ LGLN + + A+I G GT K+ R +
Sbjct: 9 EIRENLPFTAIVGQDPLKLALGLNAV-----DPQIGG--ALIAGEKGTAKS-TLARALAD 60
Query: 58 FLKNKELA 65
L E+
Sbjct: 61 LLPEIEVV 68
>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 = 26.0 bits (58), Expect = 3.1
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYMSG 70
I G PG GK+ + L++ K Y+SG
Sbjct: 87 IGGDPGIGKSTLLLQVAARLAKRGGKVLYVSG 118
>gnl|CDD|216004 pfam00580, UvrD-helicase, UvrD/REP helicase N-terminal domain.
The Rep family helicases are composed of four
structural domains. The Rep family function as dimers.
REP helicases catalyze ATP dependent unwinding of
double stranded DNA to single stranded DNA. Some
members have large insertions near to the
carboxy-terminus relative to other members of the
family.
Length = 267
Score = 26.1 bits (58), Expect = 3.1
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 5/62 (8%)
Query: 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTN 79
LN Q +A L ++ G G+GKT V + E IL V +TN
Sbjct: 1 LNPEQRKAV-THLGGPLLVLAGA-GSGKTRV---LTERIAYLILEGGIDPEEILAVTFTN 55
Query: 80 HA 81
A
Sbjct: 56 KA 57
>gnl|CDD|226581 COG4096, HsdR, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 875
Score = 26.2 bits (58), Expect = 3.1
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 37 AIIQGPPGTGKTYVALRIVEGFLK 60
A++ GTGKT A+ I++ +K
Sbjct: 188 ALLVMATGTGKTRTAIAIIDRLIK 211
>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 26.2 bits (58), Expect = 3.2
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 34 REFAIIQGPPGTGKTYVA 51
+ II GTG +A
Sbjct: 164 ADLLIIDSAAGTGCPVIA 181
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 25.9 bits (57), Expect = 3.3
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 41 GPPGTGKTYVA 51
GPPGTGKT +A
Sbjct: 158 GPPGTGKTMMA 168
>gnl|CDD|232966 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes
for a probable ATP-dependent protease involved in both
DNA repair and degradation of proteins, peptides,
glycopeptides. Also known as sms. Residues 11-28 of the
SEED alignment contain a putative Zn binding domain.
Residues 110-117 of the seed contain a putative ATP
binding site both documented in Haemophilus and in
Listeria monocytogenes. for E.coli see ( J. BACTERIOL.
178:5045-5048(1996)) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 454
Score = 25.9 bits (57), Expect = 3.4
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSG 70
+I G PG GK+ + L++ KN+ Y+SG
Sbjct: 98 LIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSG 130
>gnl|CDD|234468 TIGR04095, dnd_restrict_1, DNA phosphorothioation system
restriction enzyme. The DNA phosphorothioate
modification system dnd (DNA instability during
electrophoresis) recently has been shown to provide a
modification essential to a restriction system. This
protein family was detected by Partial Phylogenetic
Profiling as linked to dnd, and its members usually are
clustered with the dndABCDE genes.
Length = 451
Score = 26.1 bits (58), Expect = 3.5
Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 7/42 (16%)
Query: 44 GTGKTYVALRIVEGFL-KNKELARYMSGPILIVCYTNHALDQ 84
GTGKT AL K L +L+VC H +DQ
Sbjct: 34 GTGKTLTALAAASKLYEKIGLL------VLLVVCPYQHLVDQ 69
>gnl|CDD|225323 COG2603, COG2603, Predicted ATPase [General function prediction
only].
Length = 334
Score = 25.9 bits (57), Expect = 3.5
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELAR 66
L T +A + ++ I+ G G GKT + + + + + LA
Sbjct: 126 LRTFAIQATIKEIAQKDFILCGCTGCGKTEL-VEQLPNAIDLEGLAN 171
>gnl|CDD|216796 pfam01935, DUF87, Domain of unknown function DUF87. The function
of this prokaryotic domain is unknown. It contains
several conserved aspartates and histidines that could
be metal ligands.
Length = 218
Score = 25.8 bits (57), Expect = 3.5
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 7/46 (15%)
Query: 29 KAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILI 74
++R FAI+ G G+GK+ ++E L+ K +LI
Sbjct: 19 NKLVSRHFAIL-GSTGSGKSNTVAVLLEELLEKK------GATVLI 57
>gnl|CDD|223455 COG0378, HypB, Ni2+-binding GTPase involved in regulation of
expression and maturation of urease and hydrogenase
[Posttranslational modification, protein turnover,
chaperones / Transcription].
Length = 202
Score = 25.6 bits (57), Expect = 3.8
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 5/42 (11%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTN 79
+ GPPG+GKT + + + Y I YT
Sbjct: 17 GVGGPPGSGKTALIEKTLRALKD-----EYKIAVITGDIYTK 53
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 25.8 bits (57), Expect = 3.9
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 18/70 (25%)
Query: 5 LDAYDLSANVQEELGLNTIQFEAYKAALTREFA---IIQGPPGTGKTYVALRIVEGFLKN 61
L+ Y LS ++E L E A +I G PG GK+ A + E +
Sbjct: 246 LEDYGLSDKLKERL---------------EERAEGILIAGAPGAGKSTFAQALAEFYASQ 290
Query: 62 KELARYMSGP 71
++ + M P
Sbjct: 291 GKIVKTMESP 300
>gnl|CDD|177297 PHA00729, PHA00729, NTP-binding motif containing protein.
Length = 226
Score = 25.9 bits (57), Expect = 3.9
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 37 AIIQGPPGTGKTYVALRI 54
A+I G G+GKT AL++
Sbjct: 20 AVIFGKQGSGKTTYALKV 37
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 25.8 bits (57), Expect = 4.0
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 24 QFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNK 62
Q AL + ++ P G GKT++A ++ L+
Sbjct: 20 QLNIAAKALFKN-TLVVLPTGLGKTFIAAMVIANRLRWF 57
>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 = 26.0 bits (57), Expect = 4.1
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 38 IIQGPPGTGKTYVA 51
++ GPPGTGKT +A
Sbjct: 216 LLYGPPGTGKTLLA 229
Score = 25.6 bits (56), Expect = 4.5
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 41 GPPGTGKTYVA 51
GPPGTGKT +A
Sbjct: 494 GPPGTGKTLLA 504
>gnl|CDD|225806 COG3267, ExeA, Type II secretory pathway, component ExeA
(predicted ATPase) [Intracellular trafficking and
secretion].
Length = 269
Score = 25.8 bits (57), Expect = 4.3
Identities = 7/40 (17%), Positives = 17/40 (42%)
Query: 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPIL 73
+ + G G+GKT + ++ +++ + P L
Sbjct: 51 QGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTL 90
>gnl|CDD|238981 cd02023, UMPK, Uridine monophosphate kinase (UMPK, EC 2.7.1.48),
also known as uridine kinase or uridine-cytidine kinase
(UCK), catalyzes the reversible phosphoryl transfer
from ATP to uridine or cytidine to yield UMP or CMP. In
the primidine nucleotide-salvage pathway, this enzyme
combined with nucleoside diphosphate kinases further
phosphorylates UMP and CMP to form UTP and CTP. This
kinase also catalyzes the phosphorylation of several
cytotoxic ribonucleoside analogs such as
5-flurrouridine and cyclopentenyl-cytidine.
Length = 198
Score = 25.6 bits (57), Expect = 4.4
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELA 65
I G G+GKT VA I+E L N ++
Sbjct: 4 IAGGSGSGKTTVAEEIIE-QLGNPKVV 29
>gnl|CDD|148114 pfam06309, Torsin, Torsin. This family consists of several
eukaryotic torsin proteins. Torsion dystonia is an
autosomal dominant movement disorder characterized by
involuntary, repetitive muscle contractions and twisted
postures. The most severe early-onset form of dystonia
has been linked to mutations in the human DYT1 (TOR1A)
gene encoding a protein termed torsinA. While causative
genetic alterations have been identified, the function
of torsin proteins and the molecular mechanism
underlying dystonia remain unknown. Phylogenetic
analysis of the torsin protein family indicates these
proteins share distant sequence similarity with the
large and diverse family of (pfam00004) proteins. It
has been suggested that torsins play a role in
effectively managing protein folding and that possible
breakdown in a neuroprotective mechanism that is, in
part, mediated by torsins may be responsible for the
neuronal dysfunction associated with dystonia.
Length = 127
Score = 25.4 bits (56), Expect = 4.7
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 23 IQFEAYKAALTREFAIIQGPPGTGKTYVALRIVE 56
+ + L F G GTGK +VA I +
Sbjct: 45 WENPKPRKPLVLSF---HGWTGTGKNFVAEIIAD 75
>gnl|CDD|140343 PTZ00322, PTZ00322,
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase;
Provisional.
Length = 664
Score = 25.6 bits (56), Expect = 4.7
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKN 61
I+ G PG GKTYVA +I F N
Sbjct: 219 IMVGLPGRGKTYVARQIQRYFQWN 242
>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 = 25.7 bits (57), Expect = 4.8
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 39 IQGPPGTGKTYVALR-IVEGFLKNKE 63
I G PGTGKT L+ + G L+ E
Sbjct: 24 ITGGPGTGKTIFGLQFLYNGALEYGE 49
>gnl|CDD|233793 TIGR02237, recomb_radB, DNA repair and recombination protein
RadB. This family consists exclusively of archaeal
RadB protein, a homolog of bacterial RecA (TIGR02012),
eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and
archaeal RadA (TIGR02236).
Length = 209
Score = 25.4 bits (56), Expect = 5.0
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 39 IQGPPGTGKTYVAL 52
I GPPG+GKT + +
Sbjct: 17 IYGPPGSGKTNICM 30
>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 = 25.7 bits (57), Expect = 5.1
Identities = 8/14 (57%), Positives = 8/14 (57%)
Query: 38 IIQGPPGTGKTYVA 51
I G GTGKT V
Sbjct: 44 FIYGKTGTGKTAVT 57
>gnl|CDD|224052 COG1127, Ttg2A, ABC-type transport system involved in resistance
to organic solvents, ATPase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 263
Score = 25.2 bits (56), Expect = 5.1
Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 36 FAIIQGPPGTGKTYVALRIVEGFLK 60
AI+ G G+GK+ LR++ G L+
Sbjct: 37 LAIL-GGSGSGKS-TLLRLILGLLR 59
>gnl|CDD|184118 PRK13531, PRK13531, regulatory ATPase RavA; Provisional.
Length = 498
Score = 25.4 bits (56), Expect = 5.1
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 30 AALTREFAIIQGPPGTGKTYVALRIVEGF 58
AAL+ E + GPPG K+ +A R+ F
Sbjct: 35 AALSGESVFLLGPPGIAKSLIARRLKFAF 63
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and
GTP-binding and hydrolyzing proteins.
Length = 157
Score = 25.3 bits (56), Expect = 5.1
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 5/52 (9%)
Query: 9 DLSANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLK 60
+LS L+ + E + GP G+GK+ + LR + G LK
Sbjct: 4 NLSFRYGGRTALDNVSLTLKAG----EIVALVGPNGSGKSTL-LRAIAGLLK 50
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 25.4 bits (57), Expect = 5.3
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 27 AYKAALTREFAIIQGPPGTGKTYVA 51
A + A T +I G GTGK A
Sbjct: 15 AKRVAPTDATVLITGESGTGKELFA 39
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 25.3 bits (56), Expect = 5.4
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 39 IQGPPGTGKTYVALRIVE 56
I GPPG GK+ +A +
Sbjct: 38 IAGPPGAGKSTLAEFLEA 55
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily. Many of the proteins in this family
are conjugative transfer proteins.
Length = 316
Score = 25.5 bits (56), Expect = 5.5
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 37 AIIQGPPGTGKTYVALRIVEGFLK 60
+I GP G+GK+ + + L
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLA 27
>gnl|CDD|238688 cd01394, radB, RadB. The archaeal protein radB shares similarity
radA, the archaeal functional homologue to the
bacterial RecA. The precise function of radB is
unclear.
Length = 218
Score = 25.1 bits (55), Expect = 5.7
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 39 IQGPPGTGKTYVALRI 54
+ GPPGTGKT +A+++
Sbjct: 24 VYGPPGTGKTNIAIQL 39
>gnl|CDD|234053 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
Members of this protein family resemble the widely
distributed ATP-dependent protease La, also called Lon
and LonA. It resembles even more closely LonB, which is
a LonA paralog found in genomes if and only if the
species is capable of endospore formation (as in
Bacillus subtilis, Clostridium tetani, and select other
members of the Firmicutes) and expressed specifically in
the forespore compartment. Members of this family are
restricted to a subset of spore-forming species, and are
very likely to participate in the program of endospore
formation. We propose the designation LonC [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 615
Score = 25.5 bits (56), Expect = 5.8
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
I+ GPPG GKT A +E
Sbjct: 179 ILYGPPGVGKTTAARLALE 197
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 25.4 bits (56), Expect = 6.0
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
+I PP GKT + +I N M
Sbjct: 136 GLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMV 168
>gnl|CDD|220758 pfam10443, RNA12, RNA12 protein. This family includes RNA12 from
S. cerevisiae. That protein contains an RRM domain.
This region is C-terminal to that and includes a P-loop
motif suggesting this region binds to NTP. The RNA12
proteins is involved in pre-rRNA maturation.
Length = 428
Score = 25.3 bits (56), Expect = 6.1
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 36 FAIIQGPPGTGKT 48
F ++QGP G+GK
Sbjct: 19 FIVVQGPRGSGKR 31
>gnl|CDD|201213 pfam00406, ADK, Adenylate kinase.
Length = 186
Score = 25.0 bits (55), Expect = 6.2
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 41 GPPGTGKTYVALRIVEGF 58
GPPG GK A RIV+ +
Sbjct: 3 GPPGAGKGTQAERIVQKY 20
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 25.3 bits (55), Expect = 6.2
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 7/42 (16%)
Query: 8 YDLSANVQEELGLNTIQFEAYKAALTREFAI-IQGPPGTGKT 48
Y ++ VQ+ LNT+ +AA F + IQGP +GKT
Sbjct: 867 YIITPFVQKNY-LNTM-----RAASLSNFPLLIQGPTSSGKT 902
>gnl|CDD|169652 PRK09087, PRK09087, hypothetical protein; Validated.
Length = 226
Score = 25.0 bits (55), Expect = 6.3
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 37 AIIQGPPGTGKTYVA 51
++ GP G+GKT++A
Sbjct: 47 VVLAGPVGSGKTHLA 61
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 25.4 bits (56), Expect = 6.5
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 38 IIQGPPGTGKT 48
++ GPPG+GKT
Sbjct: 115 LVIGPPGSGKT 125
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 25.4 bits (55), Expect = 6.5
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 38 IIQGPPGTGKTYVALRI 54
++ GPPGTGKT +A I
Sbjct: 189 LMVGPPGTGKTLLAKAI 205
>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 = 24.9 bits (55), Expect = 6.8
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 35 EFAIIQGPPGTGKTYVA 51
+ A+I G GTGKT V
Sbjct: 1 QIAVISGKGGTGKTTVT 17
Score = 24.9 bits (55), Expect = 6.9
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 35 EFAIIQGPPGTGKTYVA 51
E II GPPG G +A
Sbjct: 94 ELIIIDGPPGIGCPVIA 110
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 25.3 bits (56), Expect = 6.8
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 3/36 (8%)
Query: 16 EELGLN---TIQFEAYKAALTREFAIIQGPPGTGKT 48
++ G IQ EA AL + P GTGKT
Sbjct: 17 QDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKT 52
>gnl|CDD|213260 cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain
of the nitrate and sulfonate transporters. NrtD and
SsuB are the ATP-binding subunits of the bacterial
ABC-type nitrate and sulfonate transport systems,
respectively. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides, and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 220
Score = 25.1 bits (56), Expect = 6.8
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60
EF + GP G GK+ + LRI+ G +
Sbjct: 31 EFVALVGPSGCGKSTL-LRIIAGLER 55
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 25.2 bits (56), Expect = 6.9
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 41 GPPGTGKTYVALRIVE 56
GPPG GKT + I +
Sbjct: 357 GPPGVGKTSLGKSIAK 372
>gnl|CDD|237897 PRK15067, PRK15067, ethanolamine ammonia lyase large subunit;
Provisional.
Length = 461
Score = 25.2 bits (56), Expect = 6.9
Identities = 6/7 (85%), Positives = 7/7 (100%)
Query: 75 VCYTNHA 81
+CYTNHA
Sbjct: 364 ICYTNHA 370
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 24.9 bits (55), Expect = 7.1
Identities = 11/16 (68%), Positives = 12/16 (75%), Gaps = 2/16 (12%)
Query: 36 FAIIQGPPGTGKTYVA 51
F I GP GTGKTY+A
Sbjct: 147 FGI--GPAGTGKTYLA 160
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 25.4 bits (56), Expect = 7.1
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 16 EELGLNTIQFEAYKAALTR--EFA--IIQGPPGTGKTYVALRIVEGFLK 60
E L LN Q A +A L+ FA ++ G G+GKT V L + L
Sbjct: 195 EWLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA 243
>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 = 24.9 bits (55), Expect = 7.2
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 38 IIQGPPGTGKTYVALRIVE 56
++ G G+GK+ V + E
Sbjct: 3 VVMGVSGSGKSTVGKALAE 21
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 25.0 bits (55), Expect = 7.4
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 41 GPPGTGKTYVALRIVE 56
GPPGTGKT +A +
Sbjct: 190 GPPGTGKTLLAKAVAG 205
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 24.9 bits (55), Expect = 7.4
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 41 GPPGTGKTYVALRI 54
GPPGTGKT +A R+
Sbjct: 205 GPPGTGKTMLASRL 218
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 24.8 bits (55), Expect = 7.5
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 35 EFAIIQGPPGTGKT 48
EF I GP G+GK+
Sbjct: 32 EFVAIVGPSGSGKS 45
>gnl|CDD|234152 TIGR03265, PhnT2, putative 2-aminoethylphosphonate ABC
transporter, ATP-binding protein. This ABC transporter
ATP-binding protein is found in a number of genomes in
operon-like contexts strongly suggesting a substrate
specificity for 2-aminoethylphosphonate (2-AEP). The
characterized PhnSTUV system is absent in the genomes
in which this system is found. These genomes encode
systems for the catabolism of 2-AEP, making the need
for a 2-AEP-specific transporter likely [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 353
Score = 25.0 bits (55), Expect = 7.5
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 9/49 (18%)
Query: 13 NVQEELG----LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEG 57
N+++ G L I K EF + GP G GKT + LRI+ G
Sbjct: 9 NIRKRFGAFTALKDISLSVKKG----EFVCLLGPSGCGKTTL-LRIIAG 52
>gnl|CDD|131703 TIGR02655, circ_KaiC, circadian clock protein KaiC. Members of
this family are the circadian clock protein KaiC, part
of the kaiABC operon that controls circadian rhythm. It
may be universal in Cyanobacteria. Each member has two
copies of the KaiC domain (pfam06745), which is also
found in other proteins. KaiC performs
autophosphorylation and acts as its own transcriptional
repressor [Cellular processes, Other].
Length = 484
Score = 25.3 bits (55), Expect = 7.5
Identities = 15/55 (27%), Positives = 23/55 (41%)
Query: 11 SANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELA 65
S+NV+ G+ + + G GTGKT + + +E NKE A
Sbjct: 240 SSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERA 294
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 25.1 bits (55), Expect = 7.6
Identities = 12/18 (66%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 38 IIQGPPGTGKTYVALRIV 55
I GP GTGKT VA RI+
Sbjct: 40 IFAGPRGTGKTTVA-RIL 56
>gnl|CDD|236947 PRK11650, ugpC, glycerol-3-phosphate transporter ATP-binding
subunit; Provisional.
Length = 356
Score = 24.8 bits (55), Expect = 7.8
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 7/40 (17%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILI 74
EF ++ GP G GK+ + LR+V G L R SG I I
Sbjct: 31 EFIVLVGPSGCGKSTL-LRMVAG------LERITSGEIWI 63
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 25.0 bits (55), Expect = 7.9
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 41 GPPGTGKTYVAL 52
PGTGKT VA
Sbjct: 50 PSPGTGKTTVAK 61
>gnl|CDD|223288 COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA
replication, recombination, and repair].
Length = 655
Score = 25.2 bits (55), Expect = 8.0
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 15/69 (21%)
Query: 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIV----EGFLKNKELARYMSGPI 72
LN Q EA ++ G+GKT V RI G + ++ I
Sbjct: 1 SKLNPEQREA--VLHPDGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQ--------I 50
Query: 73 LIVCYTNHA 81
L + +TN A
Sbjct: 51 LAITFTNKA 59
>gnl|CDD|224000 COG1074, RecB, ATP-dependent exoDNAse (exonuclease V) beta
subunit (contains helicase and exonuclease domains)
[DNA replication, recombination, and repair].
Length = 1139
Score = 25.1 bits (55), Expect = 8.1
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 44 GTGKTYV-ALRIVEGFLKNKELARYMSGPILIVCYTNHA 81
GTGKT+V A R++ L IL+V +T A
Sbjct: 26 GTGKTFVLAERVLR-LLLEGGPLDVDE--ILVVTFTKAA 61
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 24.8 bits (54), Expect = 8.3
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 10/32 (31%)
Query: 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMS 69
+I GPP GKT LR ++AR +S
Sbjct: 141 LIIGPPQVGKT-TLLR---------DIARLLS 162
>gnl|CDD|226361 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and
metabolism].
Length = 352
Score = 24.9 bits (55), Expect = 8.5
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGF 58
EF + GP G GKT LR++ GF
Sbjct: 32 EFVTLLGPSGCGKT-TLLRMIAGF 54
>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 = 23.8 bits (52), Expect = 9.0
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 39 IQGPPGTGKTYVALRIVE 56
I G G+GK+ VA ++ E
Sbjct: 4 ITGGSGSGKSTVAKKLAE 21
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 24.7 bits (54), Expect = 9.1
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 7/34 (20%)
Query: 41 GPPGTGKTYVALRIVEGFLKNKELARYMSGPILI 74
GP G GKT V LR+V G L + G I I
Sbjct: 39 GPSGCGKTTV-LRLVAG------LEKPTEGQIFI 65
>gnl|CDD|182331 PRK10247, PRK10247, putative ABC transporter ATP-binding protein
YbbL; Provisional.
Length = 225
Score = 24.7 bits (54), Expect = 9.3
Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 35 EFAIIQGPPGTGKTYVALRIVEGFL 59
EF +I GP G GK+ + L+IV +
Sbjct: 34 EFKLITGPSGCGKSTL-LKIVASLI 57
>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles
in homologous recombination, DNA repair, and the
induction of the SOS response. RecA couples ATP
hydrolysis to DNA strand exchange. While prokaryotes
have a single RecA protein, eukaryotes have multiple
RecA homologs such as Rad51, DMC1 and Rad55/57.
Archaea have the RecA-like homologs radA and radB.
Length = 226
Score = 24.5 bits (54), Expect = 9.5
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 6/47 (12%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY--TNHALD 83
I G G+GKT + L++ +L + G V Y T A
Sbjct: 24 IFGEFGSGKTQLCLQLA----VEAQLPGELGGLEGKVVYIDTEGAFR 66
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 24.7 bits (55), Expect = 9.7
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 10/35 (28%)
Query: 41 GPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75
GP G+GKT +A + LAR + P I
Sbjct: 115 GPTGSGKTLLA----------QTLARILDVPFAIA 139
>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 = 24.8 bits (55), Expect = 9.7
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 39 IQGPPGTGKTYVALRIVEGFLKNK 62
I GPP TGK+ + +++ FL K
Sbjct: 267 IYGPPDTGKSMFCMSLIK-FLGGK 289
>gnl|CDD|184125 PRK13538, PRK13538, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 204
Score = 24.4 bits (54), Expect = 9.8
Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 39 IQGPPGTGKTYVALRIVEGF 58
I+GP G GKT + LRI+ G
Sbjct: 32 IEGPNGAGKTSL-LRILAGL 50
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members
of this family from Pyrococcus horikoshii and
Pyrococcus abyssi each contain a predicted intein
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 608
Score = 24.8 bits (54), Expect = 9.8
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 29 KAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGP 71
KAA + ++ G PG GK+ +A + E L ++EL + P
Sbjct: 32 KAAKQKRNVLLIGEPGVGKSMLAKAMAE-LLPDEELEDILVYP 73
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
0.319 0.137 0.386
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,904,953
Number of extensions: 420979
Number of successful extensions: 829
Number of sequences better than 10.0: 1
Number of HSP's gapped: 824
Number of HSP's successfully gapped: 246
Length of query: 97
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 33
Effective length of database: 8,098,946
Effective search space: 267265218
Effective search space used: 267265218
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.1 bits)