RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16321
(102 letters)
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 176 bits (449), Expect = 2e-55
Identities = 72/81 (88%), Positives = 78/81 (96%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ QIQEIKE+VELPLTHPE Y+++GIKPPKGVILYGPPGTGKTLLAKAVAN+TSATF
Sbjct: 186 GGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATF 245
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
LRVVGSELIQKYLGDGPKLVR
Sbjct: 246 LRVVGSELIQKYLGDGPKLVR 266
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 172 bits (439), Expect = 4e-54
Identities = 63/81 (77%), Positives = 73/81 (90%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G LD QIQEI+E VELPL +PE +EE+GI PPKGV+LYGPPGTGKTLLAKAVANQT ATF
Sbjct: 154 GGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATF 213
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+RVVGSEL+QKY+G+G +LVR
Sbjct: 214 IRVVGSELVQKYIGEGARLVR 234
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 163 bits (415), Expect = 1e-50
Identities = 57/81 (70%), Positives = 75/81 (92%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ QI+E++E+VELPL PE +EE+GI+PPKGV+LYGPPGTGKTLLAKAVA++T+ATF
Sbjct: 134 GGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF 193
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+RVVGSEL+QK++G+G +LVR
Sbjct: 194 IRVVGSELVQKFIGEGARLVR 214
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 150 bits (380), Expect = 2e-45
Identities = 59/81 (72%), Positives = 74/81 (91%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G LD+Q QEI+E+VELPLT PE YE++GI PP+GV+LYGPPGTGKT+LAKAVA+ T+ATF
Sbjct: 148 GGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATF 207
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+RVVGSE +QKYLG+GP++VR
Sbjct: 208 IRVVGSEFVQKYLGEGPRMVR 228
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 140 bits (354), Expect = 5e-42
Identities = 59/81 (72%), Positives = 76/81 (93%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ QI+EI+E+VELPL HPE +EE+GI+PPKGV+LYGPPGTGKTLLAKAVA++T+ATF
Sbjct: 125 GGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF 184
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+RVVGSEL++KY+G+G +LVR
Sbjct: 185 IRVVGSELVRKYIGEGARLVR 205
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 112 bits (283), Expect = 8e-31
Identities = 44/86 (51%), Positives = 64/86 (74%)
Query: 7 ALKKRGSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
L G L+ +E+KE++E PL PE + ++G++PPKGV+LYGPPGTGKTLLAKAVA +
Sbjct: 240 TLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE 299
Query: 67 TSATFLRVVGSELIQKYLGDGPKLVR 92
+ + F+ V GSEL+ K++G+ K +R
Sbjct: 300 SRSRFISVKGSELLSKWVGESEKNIR 325
Score = 61.8 bits (150), Expect = 1e-12
Identities = 37/70 (52%), Positives = 52/70 (74%), Gaps = 1/70 (1%)
Query: 26 ELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLG 85
ELPL PE ++++GI+PPKGV+L+GPPGTGKTLLA+A+AN A FL + G E++ KY+G
Sbjct: 1 ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALAN-EGAEFLSINGPEILSKYVG 59
Query: 86 DGPKLVRVAL 95
+ +R
Sbjct: 60 ESELRLRELF 69
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 107 bits (268), Expect = 9e-29
Identities = 46/92 (50%), Positives = 62/92 (67%), Gaps = 10/92 (10%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVAN------ 65
G L QI++I+++VELP HPE Y E G+KPPKGV+LYGPPG GKTL+AKAVAN
Sbjct: 185 GGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSLAARI 244
Query: 66 ----QTSATFLRVVGSELIQKYLGDGPKLVRV 93
+ FL + G EL+ KY+G+ + +R+
Sbjct: 245 GAEGGGKSYFLNIKGPELLNKYVGETERQIRL 276
>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 = 101 bits (254), Expect = 1e-26
Identities = 45/81 (55%), Positives = 61/81 (75%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L ++I+E VELP+ HPE +E +GI+PPKGV+LYGPPGTGKTLLAKAVAN+ A F
Sbjct: 181 GGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF 240
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ + G E++ KY G+ + +R
Sbjct: 241 ISINGPEIMSKYYGESEERLR 261
Score = 101 bits (252), Expect = 2e-26
Identities = 46/81 (56%), Positives = 64/81 (79%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ QE++E+VE PL HPE +E+MGI+PPKGV+L+GPPGTGKTLLAKAVA ++ A F
Sbjct: 456 GGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF 515
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ V G E++ K++G+ K +R
Sbjct: 516 IAVRGPEILSKWVGESEKAIR 536
>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 = 88.9 bits (221), Expect = 4e-22
Identities = 34/74 (45%), Positives = 49/74 (66%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E+ E V+ L +P + ++G K PKGV+L GPPGTGKTLLAKAVA + F + GS+
Sbjct: 65 EELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSD 123
Query: 79 LIQKYLGDGPKLVR 92
++ ++G G VR
Sbjct: 124 FVEMFVGVGASRVR 137
>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 = 78.8 bits (195), Expect = 2e-20
Identities = 27/47 (57%), Positives = 36/47 (76%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVR 92
++LYGPPGTGKT LAKAVA + A F+ + GSEL+ KY+G+ K +R
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLR 47
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 80.1 bits (198), Expect = 5e-19
Identities = 35/74 (47%), Positives = 47/74 (63%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E +E V L PE + +G K PKGV+L GPPGTGKTLLAKA+A + F + GSE
Sbjct: 193 EEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSE 251
Query: 79 LIQKYLGDGPKLVR 92
++ ++G G VR
Sbjct: 252 FVEMFVGVGAARVR 265
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 77.7 bits (192), Expect = 3e-18
Identities = 36/78 (46%), Positives = 51/78 (65%), Gaps = 1/78 (1%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
D +E+ E V+ L +P+ Y+ +G K PKGV+L GPPGTGKTLLAKAVA + F +
Sbjct: 156 DEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSI 214
Query: 75 VGSELIQKYLGDGPKLVR 92
GS+ ++ ++G G VR
Sbjct: 215 SGSDFVEMFVGVGASRVR 232
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 68.5 bits (167), Expect = 6e-15
Identities = 33/74 (44%), Positives = 49/74 (66%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E+ E VE L P ++++G K PKGV++ GPPGTGKTLLAKA+A + F + GS+
Sbjct: 162 EEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSD 220
Query: 79 LIQKYLGDGPKLVR 92
++ ++G G VR
Sbjct: 221 FVEMFVGVGASRVR 234
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 67.5 bits (165), Expect = 9e-15
Identities = 31/74 (41%), Positives = 45/74 (60%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E K L + + E E G PK V+ YGPPGTGKT++AKA+AN+ L V +E
Sbjct: 127 EEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATE 186
Query: 79 LIQKYLGDGPKLVR 92
LI +++GDG + +
Sbjct: 187 LIGEHVGDGARRIH 200
>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 = 56.4 bits (136), Expect = 2e-11
Identities = 23/50 (46%), Positives = 33/50 (66%), Gaps = 3/50 (6%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQT---SATFLRVVGSELIQKYLGDG 87
PPK ++LYGPPGTGKT LA+A+AN+ A FL + S+L++ +
Sbjct: 17 PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAE 66
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 49.3 bits (119), Expect = 3e-08
Identities = 16/29 (55%), Positives = 21/29 (72%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
+IL+GPPGTGKT LA+ +A T A F +
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEAL 67
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 46.1 bits (110), Expect = 3e-07
Identities = 17/25 (68%), Positives = 20/25 (80%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVAN 65
KP K ++LYGPPG GKT LA A+AN
Sbjct: 37 KPKKALLLYGPPGVGKTSLAHALAN 61
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 46.1 bits (110), Expect = 4e-07
Identities = 16/29 (55%), Positives = 22/29 (75%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
+IL+GPPGTGKT LA+ +A T+A F +
Sbjct: 51 MILWGPPGTGKTTLARLIAGTTNAAFEAL 79
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 45.8 bits (109), Expect = 5e-07
Identities = 17/26 (65%), Positives = 19/26 (73%)
Query: 47 ILYGPPGTGKTLLAKAVANQTSATFL 72
ILYGPPG GKT LA+ +AN T A F
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFS 81
>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 = 44.3 bits (104), Expect = 7e-07
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
P + +++ GPPG+GKT LA+A+A + V+
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVI 34
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 41.5 bits (98), Expect = 1e-05
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 35 YEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
+EEM K G++L+G GTGKT LA +AN+ + V+
Sbjct: 107 FEEMK-KENVGLLLWGSVGTGKTYLAACIANELIEKGVPVI 146
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 41.5 bits (98), Expect = 2e-05
Identities = 17/38 (44%), Positives = 23/38 (60%)
Query: 36 EEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLR 73
G+ P+G++L G GTGK+L AKA+AN LR
Sbjct: 252 SNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLR 289
>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 = 41.4 bits (97), Expect = 2e-05
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 15/84 (17%)
Query: 17 QIQEIKESVELPLTHPEYYEEMGIKPP---KGVILYGPPGTGKTLLAKAVANQTSA-TFL 72
Q+ +K S + L E G+ ++ GPPGTGKT +A+ VA L
Sbjct: 287 QVAALKSSTAMALAR----AERGLPVAQTSNHMLFAGPPGTGKTTIARVVAKIYCGLGVL 342
Query: 73 R------VVGSELIQKYLGD-GPK 89
R V ++LI +Y+G+ K
Sbjct: 343 RKPLVREVSRADLIGQYIGESEAK 366
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 40.9 bits (96), Expect = 2e-05
Identities = 16/29 (55%), Positives = 21/29 (72%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
V+L GPPG GKTLLA+A+A F+R+
Sbjct: 46 VLLEGPPGVGKTLLARALARALGLPFVRI 74
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 39.7 bits (94), Expect = 6e-05
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQK 82
V+LYGPPG GKT LA +AN+ +R+ ++K
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVN-IRITSGPALEK 89
>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 = 39.5 bits (93), Expect = 7e-05
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQ 66
P V +YG GTGKT + K V +
Sbjct: 39 RPSNVFIYGKTGTGKTAVTKYVMKE 63
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 38.3 bits (90), Expect = 8e-05
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
V+L G PG KTLLA+ +A F R+
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRI 30
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 39.2 bits (92), Expect = 1e-04
Identities = 17/32 (53%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 47 ILYGP-PGTGKTLLAKAVANQTSATFLRVVGS 77
+L+ P PGTGKT +AKA+ N+ A L V GS
Sbjct: 46 LLHSPSPGTGKTTVAKALCNEVGAEVLFVNGS 77
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 39.1 bits (92), Expect = 1e-04
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 44 KGVI--LYGPPGTGKTLLAKAVANQTSATFLRV 74
KG I L GPPG GKT L K++A F+R+
Sbjct: 349 KGPILCLVGPPGVGKTSLGKSIAKALGRKFVRI 381
>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 = 38.0 bits (89), Expect = 1e-04
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 9/67 (13%)
Query: 45 GVILYGPPGTGKTLLAKAVANQTS-ATFLRVVGS------ELIQKYL--GDGPKLVRVAL 95
GV+L GPPGTGK+ LA+ +A S V + +L + G V L
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVDGPL 60
Query: 96 VPEVRNG 102
V R G
Sbjct: 61 VRAAREG 67
>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815). This
family consists of several bacterial proteins of unknown
function.
Length = 248
Score = 38.6 bits (91), Expect = 1e-04
Identities = 19/47 (40%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVR 92
V+L+G GTGK+ L KA+ N+ + LR++ E+ + LGD P +V
Sbjct: 56 VLLWGARGTGKSSLVKALLNEYADQGLRLI--EVDKDDLGDLPDIVD 100
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 38.2 bits (89), Expect = 2e-04
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQT-----SATFLRVVGSELIQK 82
+ ++L GPPG GKT LA A+ N+ S F+ +L+ K
Sbjct: 105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA--PDLLSK 147
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit
[DNA replication, recombination, and repair].
Length = 332
Score = 37.5 bits (88), Expect = 3e-04
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
V+L+GPPG GKT LA +AN
Sbjct: 55 VLLFGPPGLGKTTLAHIIAN 74
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 37.2 bits (87), Expect = 4e-04
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 43 PKGVILY-GPPGTGKTLLAKAVANQ---TSATFLRVVGSELIQKYL 84
P G L+ GP G GKT LAKA+A +R+ SE ++++
Sbjct: 2 PIGSFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHS 47
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 37.6 bits (87), Expect = 5e-04
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPK 89
+ + P +G+++ G GTG++ L K +A + F+ V + K+L + PK
Sbjct: 1624 RLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITV----FLNKFLDNKPK 1672
>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 = 36.7 bits (86), Expect = 6e-04
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATF 71
V+LYGPPG GKT LA +AN+
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMGVNI 78
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 36.6 bits (85), Expect = 7e-04
Identities = 16/38 (42%), Positives = 25/38 (65%), Gaps = 2/38 (5%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSAT--FLRVVGSEL 79
+G+++ GPPGTGKT LA +A + F+ + GSE+
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI 103
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 35.7 bits (82), Expect = 8e-04
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
+++ GPPG+GK+ LAK +A + +
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPVI 28
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 36.3 bits (85), Expect = 8e-04
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 46 VILYGPPGTGKTLLAKA 62
+++ GPPG+GKT+LAK
Sbjct: 25 LLMIGPPGSGKTMLAKR 41
>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 = 35.3 bits (82), Expect = 8e-04
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
+ LYGPPG GK+ LAK +A
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLG 27
>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 = 36.0 bits (83), Expect = 9e-04
Identities = 13/51 (25%), Positives = 19/51 (37%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKY 83
+ P V+L GP GTGKT L + + + +E Y
Sbjct: 14 DALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPY 64
>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 = 36.1 bits (84), Expect = 0.001
Identities = 16/38 (42%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ--TSATFLRVVGSEL 79
+ V++ GPPGTGKT LA A++ + F + GSE+
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEV 88
>gnl|CDD|225327 COG2607, COG2607, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 287
Score = 35.8 bits (83), Expect = 0.001
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLV 91
P V+L+G GTGK+ L KA+ N+ + LR+V E+ ++ L P LV
Sbjct: 83 LPANNVLLWGARGTGKSSLVKALLNEYADEGLRLV--EVDKEDLATLPDLV 131
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 34.9 bits (81), Expect = 0.002
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
+L G G+GKT L + +A Q
Sbjct: 7 GVLTGESGSGKTTLLRRLARQ 27
>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 = 35.4 bits (82), Expect = 0.002
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
V YGP TGKT LA+A+A+
Sbjct: 116 VWFYGPASTGKTNLAQAIAH 135
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 35.4 bits (82), Expect = 0.002
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQ 66
P +I+YGP GTGKT K V +
Sbjct: 42 PSNIIIYGPTGTGKTATVKFVMEE 65
>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 = 34.9 bits (81), Expect = 0.003
Identities = 14/36 (38%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 45 GVILYGPPGTGKTLLA-----KAVANQTSATFLRVV 75
++L GPPG GKT LA +A S F R
Sbjct: 49 NLLLLGPPGVGKTHLACALGHQACRAGYSVLFTRTP 84
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit.
All proteins in this family for which functions are
known are 5'-3' DNA helicases that, as part of a
complex with RuvA homologs serve as a 5'-3' Holliday
junction helicase. RuvA specifically binds Holliday
junctions as a sandwich of two tetramers and maintains
the configuration of the junction. It forms a complex
with two hexameric rings of RuvB, the subunit that
contains helicase activity. The complex drives
ATP-dependent branch migration of the Holliday junction
recombination intermediate. The endonuclease RuvC
resolves junctions [DNA metabolism, DNA replication,
recombination, and repair].
Length = 305
Score = 35.0 bits (81), Expect = 0.003
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQK 82
++LYGPPG GKT LA +AN+ L++ ++K
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMG-VNLKITSGPALEK 68
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 34.9 bits (81), Expect = 0.003
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVAN 65
K + ++ YG GTGKT L+ +A
Sbjct: 181 KNNENLLFYGNTGTGKTFLSNCIAK 205
>gnl|CDD|225713 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 34.3 bits (79), Expect = 0.004
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKL 90
K V + G +GK+ L +AN + T G E + ++LG L
Sbjct: 9 KTVAILGGESSGKSTLVNKLANIFNTTSAWEYGREYVFEHLGGDEAL 55
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 34.6 bits (80), Expect = 0.004
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 44 KGVIL--YGPPGTGKTLLAKAVANQTSATFLRV 74
KG IL GPPG GKT L K++A + F+R
Sbjct: 346 KGPILCLVGPPGVGKTSLGKSIAKALNRKFVRF 378
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 34.6 bits (80), Expect = 0.005
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
V++ G PGTGK++LAKA+A
Sbjct: 53 VMMIGSPGTGKSMLAKAMA 71
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is
a important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 33.7 bits (78), Expect = 0.005
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
++L G G GKT + + +A F+
Sbjct: 2 IVLIGMMGAGKTTVGRLLAKALGLPFV 28
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 34.2 bits (79), Expect = 0.006
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATF--LRVVGSE 78
+ +YG G GKT L +A+ N+ A RVV
Sbjct: 116 LFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT 150
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 33.7 bits (78), Expect = 0.006
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDG 87
+++ G P TGKT L +A+A + G E I++ L DG
Sbjct: 2 IVITGGPSTGKTTLLEALAARGYPVVPE-YGREYIEEQLADG 42
>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 = 34.0 bits (78), Expect = 0.007
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 43 PKGVILYGPPGTGKTLLAKAV 63
P+ VI+YGPPG GKT A+ V
Sbjct: 86 PQHVIIYGPPGVGKTAAARLV 106
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 33.6 bits (78), Expect = 0.009
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
++L GP G+GKTLLA QT A L V
Sbjct: 111 ILLIGPTGSGKTLLA-----QTLARILDV 134
>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 = 33.2 bits (76), Expect = 0.009
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 9/57 (15%)
Query: 44 KGVI--LYGPPGTGKTLLAKAVANQTSATFLRVV-------GSELIQKYLGDGPKLV 91
+G I +YGPPG+GKT + +A + +VV E ++ D P+
Sbjct: 11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRPERA 67
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a
wide variety of presumed phage proteins.
Length = 201
Score = 33.0 bits (76), Expect = 0.011
Identities = 12/16 (75%), Positives = 14/16 (87%)
Query: 46 VILYGPPGTGKTLLAK 61
V++YGPPG GKT LAK
Sbjct: 6 VLIYGPPGIGKTSLAK 21
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 33.3 bits (77), Expect = 0.011
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ 66
KG+ LYG G GK+ L A+AN+
Sbjct: 157 KGLYLYGDFGVGKSYLLAAIANE 179
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 32.9 bits (76), Expect = 0.013
Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 44 KGVI--LYGPPGTGKTLLAKAVANQTSATFLRVV 75
+G I +YGPPG+GKT + +A + + +V+
Sbjct: 22 RGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVI 55
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 33.0 bits (75), Expect = 0.016
Identities = 15/35 (42%), Positives = 21/35 (60%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
K ++L G PG GKT L A+A +T +R+ SE
Sbjct: 1544 KPILLEGSPGVGKTSLITALARKTGKKLIRINLSE 1578
Score = 30.0 bits (67), Expect = 0.19
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 9/66 (13%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSEL--IQKYLG------DGPKLVRV-ALV 96
+++ GP +GKT + +A +T F+R+ E +Q+Y+G DG + LV
Sbjct: 891 LLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVLV 950
Query: 97 PEVRNG 102
+R G
Sbjct: 951 EALRRG 956
>gnl|CDD|233448 TIGR01526, nadR_NMN_Atrans, nicotinamide-nucleotide
adenylyltransferase, NadR type. The NadR protein of E.
coli and closely related bacteria is both enzyme and
regulatory protein. The first 60 or so amino acids,
N-terminal to the region covered by this model, is a
DNA-binding helix-turn-helix domain (pfam01381)
responsible for repressing the nadAB genes of NAD de
novo biosynthesis. The NadR homologs in Mycobacterium
tuberculosis, Haemophilus influenzae, and others appear
to lack the repressor domain. NadR has recently been
shown to act as an enzyme of the salvage pathway of NAD
biosynthesis, nicotinamide-nucleotide
adenylyltransferase; members of this family are presumed
to share this activity. E. coli NadR has also been found
to regulate the import of its substrate, nicotinamide
ribonucleotide, but it is not known if the other members
of this model share that activity.
Length = 325
Score = 32.9 bits (75), Expect = 0.017
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKL 90
K V + G TGK+ L +A + T E +++ LG L
Sbjct: 163 KTVAILGGESTGKSTLVNKLAAVFNTTSAWEYAREYVEEKLGGDEAL 209
>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 = 32.4 bits (74), Expect = 0.019
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 7/49 (14%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATFLRVV-------GSELIQKYLGDGPK 89
+YGPPGTGKT +A +A +T+ +V SE ++ GD P+
Sbjct: 24 VYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERFRQIAGDRPE 72
>gnl|CDD|132613 TIGR03574, selen_PSTK, L-seryl-tRNA(Sec) kinase, archaeal.
Members of this protein are L-seryl-tRNA(Sec) kinase.
This enzyme is part of a two-step pathway in Eukaryota
and Archaea for performing selenocysteine biosynthesis
by changing serine misacylated on selenocysteine-tRNA
to selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents archaeal proteins with
this activity [Protein synthesis, tRNA aminoacylation].
Length = 249
Score = 32.5 bits (74), Expect = 0.020
Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV--VGSELIQKYL 84
+IL G PG GK+ +K +A + S + V +G++LI++
Sbjct: 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLIRESF 42
>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 = 32.5 bits (74), Expect = 0.022
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 43 PKGVILYGPPGTGKTLLAKAV 63
P+ +ILYGPPG GKT A+
Sbjct: 175 PQHIILYGPPGVGKTTAARLA 195
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 32.5 bits (75), Expect = 0.023
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV 75
V++YGPPGTGKT K V + ++VV
Sbjct: 58 VLIYGPPGTGKTTTVKKVFEELEEIAVKVV 87
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 32.3 bits (74), Expect = 0.024
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKY 83
KP + GP G GKT LAK +A + LR SE ++K+
Sbjct: 481 KPVGSFLFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEKH 523
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 32.0 bits (73), Expect = 0.024
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVR 92
+ V++ G PG+GK+ LA+ +A A LR S++I+K L P+ R
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLGAIRLR---SDVIRKRLFGVPEETR 47
>gnl|CDD|220642 pfam10236, DAP3, Mitochondrial ribosomal death-associated protein
3. This is a family of conserved proteins which were
originally described as death-associated-protein-3
(DAP-3). The proteins carry a P-loop DNA-binding motif,
and induce apoptosis. DAP3 has been shown to be a
pro-apoptotic factor in the mitochondrial matrix and to
be crucial for mitochondrial biogenesis and so has also
been designated as MRP-S29 (mitochondrial ribosomal
protein subunit 29).
Length = 274
Score = 32.2 bits (74), Expect = 0.027
Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 41 KPPKGVILYGPPGTGKT-LLAKAVA 64
K +L G G+GK+ LLA+A+A
Sbjct: 21 KKVVRFVLTGERGSGKSVLLAQAMA 45
>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 = 31.8 bits (73), Expect = 0.029
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVG 76
++ GP GTGKT KA A RV+G
Sbjct: 21 AVVQGPAGTGKTTSLKAAREAWEAAGYRVIG 51
>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 = 31.8 bits (73), Expect = 0.029
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLR 73
+++ G G+GK+ + KA+A + A F+
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFID 29
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 32.0 bits (73), Expect = 0.033
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
IKP + ++ G PG+G + L K +A+ T F V
Sbjct: 84 IKPGELTVVLGRPGSGCSTLLKTIASNTDG-FHIGVEGV 121
>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 = 32.1 bits (73), Expect = 0.034
Identities = 10/16 (62%), Positives = 15/16 (93%)
Query: 46 VILYGPPGTGKTLLAK 61
++L+GPPG+GKT+LA
Sbjct: 214 LLLFGPPGSGKTMLAS 229
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 31.4 bits (72), Expect = 0.035
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLG 85
++L G G GK+ + +A+A + F+ + I+K G
Sbjct: 1 RNMNIVLIGFMGAGKSTIGRALAKALNLPFIDT--DQEIEKRTG 42
>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 = 31.7 bits (73), Expect = 0.035
Identities = 12/19 (63%), Positives = 12/19 (63%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
V GP GTGKT LA A A
Sbjct: 22 VFGIGPAGTGKTYLAVAAA 40
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of
several bacterial zeta toxin proteins. Zeta toxin is
thought to be part of a postregulational killing system
in bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 31.5 bits (72), Expect = 0.036
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSAT-FLRVVGSEL 79
P V+L G PG GKT LA+A+ + +R+ EL
Sbjct: 12 PVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDEL 49
>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 = 31.6 bits (72), Expect = 0.038
Identities = 18/84 (21%), Positives = 37/84 (44%), Gaps = 23/84 (27%)
Query: 22 KESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKT-----LLAKAVANQTSATFLRVVG 76
+E+++ L+ + ++ GPPGTGKT ++ + ++N L
Sbjct: 7 REAIKKALSSSDIT-----------LIQGPPGTGKTTTIVEIIKQLLSNAPGKKVLVCAP 55
Query: 77 S-----ELIQKYLGD--GPKLVRV 93
S ++++ L G K+VR+
Sbjct: 56 SNSAVDNILERLLEQKFGLKIVRI 79
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (PDR) is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds
including 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 = 202
Score = 31.5 bits (72), Expect = 0.039
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGS 77
+KP + V++ G PG+G + L KA+AN+T + V G
Sbjct: 30 VKPGEMVLVLGRPGSGCSTLLKALANRTE-GNVSVEGD 66
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 31.9 bits (73), Expect = 0.039
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVA 64
++P + +++ G G GKT L +A+A
Sbjct: 413 NFEVRPGERLLITGESGAGKTSLLRALA 440
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 31.2 bits (71), Expect = 0.043
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 47 ILYGPPGTGKTLLAKAVANQTSATFL 72
+L G G+GK+ +A A+A++ A F+
Sbjct: 2 VLMGVAGSGKSTIASALAHRLGAKFI 27
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 31.8 bits (73), Expect = 0.043
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 44 KGVILYGPPGTGKTLLAK 61
++L GPPGTGKT+LA
Sbjct: 199 HNLLLVGPPGTGKTMLAS 216
>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 = 30.9 bits (71), Expect = 0.048
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
GP G+GK+ +AK +A + +L
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 31.7 bits (72), Expect = 0.051
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVG 76
IKP + +L GPP +GKT L A+A + + L+V G
Sbjct: 188 IKPSRMTLLLGPPSSGKTTLLLALAGKLDPS-LKVSG 223
>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 = 31.1 bits (71), Expect = 0.053
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 39 GIKPPKGV-ILYGPPGTGKTLLAKAVA 64
G+ P G+ +L G PGTGK+ LA +A
Sbjct: 28 GLLPRGGLTLLAGAPGTGKSTLALDLA 54
>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 = 31.4 bits (71), Expect = 0.055
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVA 64
K + V+L G PG GK++LAKA+A
Sbjct: 34 AKQKRNVLLIGEPGVGKSMLAKAMA 58
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 31.0 bits (70), Expect = 0.058
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
V+ GPPGTGKT LA +
Sbjct: 101 VVFLGPPGTGKTHLAIGLG 119
>gnl|CDD|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit.
This model represents the ATPase subunit of HslVU,
while the proteasome-related peptidase subunit is HslV.
Residues 54-61 of the model contain a P-loop
ATP-binding motif. Cys-287 of E. coli (position 308 in
the seed alignment), studied in MEDLINE:98389714, is
Ser in other members of the seed alignment [Protein
fate, Protein folding and stabilization].
Length = 441
Score = 31.3 bits (71), Expect = 0.058
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
PK +++ GP G GKT +A+ +A +A F++V
Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 78
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 31.5 bits (71), Expect = 0.059
Identities = 19/47 (40%), Positives = 28/47 (59%), Gaps = 10/47 (21%)
Query: 46 VILYGPPGTGKTLLAKAV-------ANQ---TSATFLRVVGSELIQK 82
++L GPPGTGKT+LA + +N+ SA L +V +E +QK
Sbjct: 213 LLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQK 259
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 31.3 bits (71), Expect = 0.060
Identities = 26/103 (25%), Positives = 50/103 (48%), Gaps = 17/103 (16%)
Query: 6 KALKKRGSLDVQIQEIKESVELPLTHPEYYEEMGIK---------PPKGVILY--GPPGT 54
+ L++ G V+ +++ VE L E EE+ + PP+ + + G G
Sbjct: 208 RDLRRSGDRVVRRDQLRRKVEALLLE-EAGEEVARRYRLLRSIRRPPRPLHVLIGGVSGV 266
Query: 55 GKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVALVP 97
GK++LA A+A + T R+V ++ +++ L +V L+P
Sbjct: 267 GKSVLASALAYRLGIT--RIVSTDAVREVL---RAMVSKDLLP 304
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 31.0 bits (71), Expect = 0.061
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
++L GP G+GKTLLA QT A L V
Sbjct: 100 ILLIGPTGSGKTLLA-----QTLAKILNV 123
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins
in this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 30.9 bits (70), Expect = 0.062
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 46 VILYGPPGTGKTLLAKAVANQTS 68
+ + GPPG+GKT +AK +A + S
Sbjct: 3 ITISGPPGSGKTTVAKILAEKLS 25
>gnl|CDD|224402 COG1485, COG1485, Predicted ATPase [General function prediction
only].
Length = 367
Score = 31.1 bits (71), Expect = 0.065
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 42 PPKGVILYGPPGTGKTLL 59
P +G+ L+G G GKT+L
Sbjct: 64 PVRGLYLWGGVGRGKTML 81
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 30.9 bits (70), Expect = 0.074
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 47 ILYGPPGTGKTLLAKAVANQTSATFLRVV 75
++ P G GKT++A + + L +V
Sbjct: 59 VIVLPTGAGKTVVAAEAIAELKRSTLVLV 87
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 30.5 bits (69), Expect = 0.074
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSA 69
+++ G PG+GKT LAK +A +
Sbjct: 1 ILITGTPGSGKTTLAKELAERLGD 24
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 30.7 bits (70), Expect = 0.082
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ 66
+++ GPPG GK+ LAK +A +
Sbjct: 1 MRILILGPPGAGKSTLAKKLAKK 23
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 30.9 bits (70), Expect = 0.082
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
V L GP GTGKT LA VA +
Sbjct: 24 VHLRGPAGTGKTTLAMHVARK 44
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 30.8 bits (69), Expect = 0.097
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 44 KGVILYGPPGTGKTLLAKAVA 64
K +IL GPPG GKT +A+ +A
Sbjct: 195 KNIILQGPPGVGKTFVARRLA 215
>gnl|CDD|180750 PRK06921, PRK06921, hypothetical protein; Provisional.
Length = 266
Score = 30.5 bits (69), Expect = 0.10
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVAN 65
Q IK++ E + + + +E++ + L G PG+GKT L A AN
Sbjct: 93 QAIKDAYECAVEYVKDFEKIQESRKNSIALLGQPGSGKTHLLTAAAN 139
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 30.5 bits (69), Expect = 0.11
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 42 PPKGVIL-YGPPGTGKTLLAKAVANQ 66
P V+L GPPGTGKT+ A +
Sbjct: 21 PRGSVVLITGPPGTGKTIFALQFLYE 46
>gnl|CDD|105560 PRK12339, PRK12339, 2-phosphoglycerate kinase; Provisional.
Length = 197
Score = 30.1 bits (68), Expect = 0.11
Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 10/54 (18%)
Query: 46 VILYGPPGTGKTLLAKAVANQT------SATFLRVVGSELIQKYLGDGPKLVRV 93
+ G PG GKT ++ +A S +LR E ++ Y+ D P L +
Sbjct: 6 HFIGGIPGVGKTSISGYIARHRAIDIVLSGDYLR----EFLRPYVDDEPVLAKS 55
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. This model
describes the N-terminal half of the delta' subunit of
DNA polymerase III. Delta' is homologous to the gamma
and tau subunits, which form an outgroup for
phylogenetic comparison. The gamma/tau branch of the
tree is much more tighly conserved than the delta'
branch, and some members of that branch score more
highly against this model than some proteins
classisified as delta'. The noise cutoff is set to
detect weakly scoring delta' subunits rather than to
exclude gamma/tau subunits. At position 126-127 of the
seed alignment, this family lacks the HM motif of
gamma/tau; at 132 it has a near-invariant A vs. an
invariant F in gamma/tau [DNA metabolism, DNA
replication, recombination, and repair].
Length = 188
Score = 30.3 bits (69), Expect = 0.11
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVA 64
+ + GP G GK LLA A+A
Sbjct: 12 RLAHAYLFAGPEGVGKELLALALA 35
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2;
Reviewed.
Length = 337
Score = 30.3 bits (69), Expect = 0.11
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 47 ILYGPPGTGKTLLAKAVANQT 67
++ GPPG+GKT +A+A +
Sbjct: 40 LVQGPPGSGKTAAVRALAREL 60
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 30.4 bits (69), Expect = 0.11
Identities = 18/83 (21%), Positives = 35/83 (42%), Gaps = 21/83 (25%)
Query: 4 SYKALKKRGSLDVQIQEIK---------ESVELPLTHP------EYYE------EMGIKP 42
S+ + + G+ VQ++ + + E+ P E Y E +
Sbjct: 203 SFIEIDRPGATVVQLRNYRIVIARPPFSDRWEITAVRPVVKLSLEDYGLSDKLKERLEER 262
Query: 43 PKGVILYGPPGTGKTLLAKAVAN 65
+G+++ G PG GK+ A+A+A
Sbjct: 263 AEGILIAGAPGAGKSTFAQALAE 285
>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 29.9 bits (68), Expect = 0.12
Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 13/59 (22%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVA-------NQTSATFLRVVGSELIQKYLGDGPKLV 91
+K V+L G G GKT L + +A N S TF L+++Y L
Sbjct: 22 LKAGDVVLLSGDLGAGKTTLVRGIAKGLGVDGNVKSPTF------TLVEEYEEGRLPLY 74
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form
(CCALD), the milder adult form, adrenomyeloneuropathy
(AMN), and variants without neurologic involvement
(i.e. asymptomatic).
Length = 166
Score = 29.8 bits (68), Expect = 0.13
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVA 64
IKP +++ GP GTGK+ L +A+A
Sbjct: 21 SFEIKPGDRLLITGPSGTGKSSLFRALA 48
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase
subunit [Posttranslational modification, protein
turnover, chaperones].
Length = 444
Score = 30.3 bits (69), Expect = 0.13
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
PK +++ GP G GKT +A+ +A A F++V
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLAGAPFIKV 81
>gnl|CDD|168630 PRK06620, PRK06620, hypothetical protein; Validated.
Length = 214
Score = 29.8 bits (67), Expect = 0.15
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 39 GIKPPKGVILY-GPPGTGKTLLAKAVANQTSATFLRVV--GSELIQKY 83
G+ P K +L GP +GKT L K N ++A ++ + E+++KY
Sbjct: 39 GVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIKDIFFNEEILEKY 86
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 29.8 bits (68), Expect = 0.16
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 49 YGPPGTGKTLLAKAVA 64
GPPGTGKT A A+A
Sbjct: 44 AGPPGTGKTTAALALA 59
>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 = 30.0 bits (68), Expect = 0.16
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSAT 70
V++ G GTGK L A+ + ++
Sbjct: 104 VLIIGETGTGKELFARLIHALSARR 128
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family
includes the NTP binding domain of F1 and V1 H+ATPases,
DnaB and related helicases as well as bacterial RecA
and related eukaryotic and archaeal recombinases. This
group also includes bacterial conjugation proteins and
related DNA transfer proteins involved in type II and
type IV secretion.
Length = 165
Score = 29.8 bits (67), Expect = 0.16
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV 75
++++GP G+GKT LA +A + +VV
Sbjct: 2 ILVFGPTGSGKTTLALQLALNIATKGGKVV 31
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 30.0 bits (68), Expect = 0.16
Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 15/91 (16%)
Query: 5 YKALKKRGSLDVQIQEIKESVELPLTHPEYYEEM-----------GIKPPKGVILYGPPG 53
+ LKK G V EI+E + L + E+ +K P +++ G G
Sbjct: 42 QEELKKEGIRLVTKDEIREVYQKLLE--KGDPEVAKRYLLWRRIRKMKRPLIILIGGASG 99
Query: 54 TGKTLLAKAVANQTSATFLRVVGSELIQKYL 84
GK+ +A +A + V+ ++ I++ L
Sbjct: 100 VGKSTIAGELARRLGIR--SVISTDSIREVL 128
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 29.6 bits (68), Expect = 0.17
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V++ G GTGK L A+A+
Sbjct: 25 VLITGESGTGKELFARAI 42
>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain.
Length = 285
Score = 30.0 bits (68), Expect = 0.17
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
V + G G GKT LAK + N
Sbjct: 22 VGIVGMGGVGKTTLAKQIYN 41
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 30.0 bits (68), Expect = 0.17
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVA 64
+P + GP G GKT L KA+A
Sbjct: 537 RPIASFLFSGPTGVGKTELTKALA 560
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 29.9 bits (67), Expect = 0.18
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 44 KGVIL--YGPPGTGKTLLAKAVANQTSATFLRV 74
KG IL GPPG GKT L +++A T ++R+
Sbjct: 348 KGPILCLVGPPGVGKTSLGQSIAKATGRKYVRM 380
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 29.7 bits (67), Expect = 0.18
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
+IL GPPGTGKT A+A++
Sbjct: 37 LILSGPPGTGKTTSILALAHE 57
>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 = 29.6 bits (67), Expect = 0.19
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
VIL G G+GKT L + +A
Sbjct: 3 VILQGEAGSGKTTLLQKIALL 23
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 29.8 bits (68), Expect = 0.22
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 45 GVILYGPPGTGKTLLAKAVAN 65
G+++ G PG GK+ A+A+A
Sbjct: 259 GILIAGAPGAGKSTFAQALAE 279
>gnl|CDD|178417 PLN02822, PLN02822, serine palmitoyltransferase.
Length = 481
Score = 29.7 bits (67), Expect = 0.23
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 6/80 (7%)
Query: 4 SYKALKKRGSLDVQIQEI-KESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKA 62
SYK KR + +I E+ E PL P EEM +PP +L G + K
Sbjct: 56 SYKP-PKRPLTEKEIDELCDEWTPEPL-IPPITEEMRPEPP---VLESAAGPHTIINGKD 110
Query: 63 VANQTSATFLRVVGSELIQK 82
V N SA +L ++G+E I++
Sbjct: 111 VVNFASANYLGLIGNEKIKE 130
>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 = 29.2 bits (66), Expect = 0.23
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLR 73
+++ G PG+GK+ A+ + + A L
Sbjct: 2 ILMVGLPGSGKSTFARRLLRELGAVVLS 29
>gnl|CDD|216999 pfam02367, UPF0079, Uncharacterized P-loop hydrolase UPF0079.
This uncharacterized family contains a P-loop.
Length = 123
Score = 29.2 bits (66), Expect = 0.23
Identities = 18/57 (31%), Positives = 22/57 (38%), Gaps = 13/57 (22%)
Query: 46 VILYGPPGTGKTLLAKAVA-------NQTSATFLRVVGSELIQKYLGDGPKLVRVAL 95
V+L G G GKT + +A N TS TF L+ Y G L L
Sbjct: 18 VLLSGDLGAGKTTFVRGLAQGLGITGNVTSPTF------TLVNVYNPGGLPLYHYDL 68
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 29.6 bits (67), Expect = 0.23
Identities = 14/23 (60%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 43 PKGVILY-GPPGTGKTLLAKAVA 64
P G L+ GP G GKT LAKA+A
Sbjct: 520 PIGSFLFLGPTGVGKTELAKALA 542
Score = 26.1 bits (58), Expect = 3.6
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 47 ILYGPPGTGKT----LLAKAVANQTSATFLRVV 75
+L G PG GKT LA+ + N L+
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDK 227
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the
ATP synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor
Rho.
Length = 213
Score = 29.3 bits (67), Expect = 0.24
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVG 76
+ ++G GTGKT+L +A A + V
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEVYV 48
>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 = 29.2 bits (66), Expect = 0.25
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 46 VILYGPPGTGKTLLA 60
+L G PGTGKT A
Sbjct: 2 TLLSGGPGTGKTTFA 16
>gnl|CDD|232941 TIGR00362, DnaA, chromosomal replication initiator protein DnaA.
DnaA is involved in DNA biosynthesis; initiation of
chromosome replication and can also be transcription
regulator. The C-terminal of the family hits the pfam
bacterial DnaA (bac_dnaA) domain family. For a review,
see Kaguni (2006) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 405
Score = 29.4 bits (67), Expect = 0.26
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 48 LYGPPGTGKTLLAKAVANQ 66
+YG G GKT L A+ N+
Sbjct: 141 IYGGVGLGKTHLLHAIGNE 159
>gnl|CDD|235032 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 29.2 bits (66), Expect = 0.31
Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 25/80 (31%)
Query: 23 ESVELPLTHPEYYEEMGIK---PP------KGVILYG-------PPGTGKTLLA-----K 61
+ LP E+YE GI+ PP G+ L G P +GKTL+A K
Sbjct: 4 AELPLPEGVIEFYEAEGIEELYPPQAEAVEAGL-LDGKNLLAAIPTASGKTLIAELAMLK 62
Query: 62 AVANQTSATF---LRVVGSE 78
A+A A + LR + SE
Sbjct: 63 AIARGGKALYIVPLRALASE 82
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 29.3 bits (66), Expect = 0.31
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 44 KGVILYGPPGTGKTLLAKAVA 64
G ++ G GT K+ LA+A+A
Sbjct: 39 GGALIAGEKGTAKSTLARALA 59
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 28.1 bits (63), Expect = 0.31
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
++ G PGTGKT A A+
Sbjct: 13 FVVDGGPGTGKTATAAAII 31
>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction [Protein fate, Protein folding and
stabilization, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 413
Score = 29.0 bits (65), Expect = 0.34
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
++L GP G+GKTLLA+ +A
Sbjct: 119 ILLIGPTGSGKTLLAQTLA 137
>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 = 28.7 bits (65), Expect = 0.35
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 2/20 (10%)
Query: 43 PKGVI--LYGPPGTGKTLLA 60
P G I ++G G+GKT L
Sbjct: 17 PTGRITEIFGEFGSGKTQLC 36
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 28.8 bits (65), Expect = 0.39
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 38 MGIKPPKGVI--LYGPPGTGKTLLAKAVANQ 66
M KP K +I + G G+GKT +AK ++ Q
Sbjct: 1 MMKKPEKVIIIGIAGGSGSGKTTVAKELSEQ 31
>gnl|CDD|224787 COG1875, COG1875, NYN ribonuclease and ATPase of PhoH family
domains [General function prediction only].
Length = 436
Score = 28.9 bits (65), Expect = 0.39
Identities = 12/19 (63%), Positives = 12/19 (63%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
V L G GTGKTLLA A
Sbjct: 248 VSLGGKAGTGKTLLALAAG 266
>gnl|CDD|169652 PRK09087, PRK09087, hypothetical protein; Validated.
Length = 226
Score = 28.9 bits (65), Expect = 0.39
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSA 69
V+L GP G+GKT LA ++ A
Sbjct: 47 VVLAGPVGSGKTHLASIWREKSDA 70
>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 = 28.8 bits (65), Expect = 0.41
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 32 PEYYEEMGIKPPKGVILYGPPGTGKTLLAKA 62
P PP V++ GPPG GK+ L ++
Sbjct: 28 PVVDRTPEEPPPLVVVVVGPPGVGKSTLIRS 58
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional.
Length = 1153
Score = 29.1 bits (65), Expect = 0.41
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATF 71
V ++G G GKT +A+A+ ++ S F
Sbjct: 210 VGIWGSSGIGKTTIARALFSRLSRQF 235
>gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein.
Length = 219
Score = 28.8 bits (65), Expect = 0.43
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATF--LRVV 75
+YG G GKT L A+ N F LRVV
Sbjct: 39 IYGGVGLGKTHLLHAIGNYALRNFPNLRVV 68
>gnl|CDD|218302 pfam04873, EIN3, Ethylene insensitive 3. Ethylene insensitive 3
(EIN3) proteins are a family of plant DNA-binding
proteins that regulate transcription in response to the
gaseous plant hormone ethylene, and are essential for
ethylene-mediated responses including the triple
response, cell growth inhibition, and accelerated
senescence.
Length = 332
Score = 28.8 bits (65), Expect = 0.44
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 7/59 (11%)
Query: 37 EMGIKPPKGVILYGPPGTG------KTLLAKAVANQTSATFLRVVGSELIQKYLGDGPK 89
E I+ PK + T K L +A N T + + SEL +YL + K
Sbjct: 158 EKAIENPKELWHGCSKDTRNDTEPYKDPL-RAEINHMQETSIEMEESELDTQYLQNTFK 215
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 28.6 bits (64), Expect = 0.45
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV--VGSELIQKYL 84
+ L+GP G+GKT L +A + + ++ V SEL ++L
Sbjct: 144 IYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHL 184
>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau;
Validated.
Length = 725
Score = 28.6 bits (64), Expect = 0.45
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 50 GPPGTGKTLLAKAVAN 65
GP GTGKT +AK AN
Sbjct: 47 GPRGTGKTSVAKIFAN 62
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 28.4 bits (64), Expect = 0.51
Identities = 11/15 (73%), Positives = 11/15 (73%)
Query: 50 GPPGTGKTLLAKAVA 64
GP GTGKT LA A A
Sbjct: 150 GPAGTGKTYLAVAKA 164
>gnl|CDD|223544 COG0468, RecA, RecA/RadA recombinase [DNA replication,
recombination, and repair].
Length = 279
Score = 28.4 bits (64), Expect = 0.52
Identities = 14/26 (53%), Positives = 18/26 (69%), Gaps = 3/26 (11%)
Query: 43 PKGVI--LYGPPGTGKTLLA-KAVAN 65
P+G I +YGP +GKT LA + VAN
Sbjct: 58 PRGRITEIYGPESSGKTTLALQLVAN 83
>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 = 28.4 bits (63), Expect = 0.57
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAKAV------ANQTSATFLRV 74
E E + I+ ++L GP G GK+ LA+ + +Q S F+ V
Sbjct: 198 EQIERVAIRSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEV 245
>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 = 28.3 bits (64), Expect = 0.57
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 17/57 (29%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVALVPEVRNG 102
+ + GPPG GKT L K V + ++V G PEVR G
Sbjct: 2 IFITGPPGVGKTTLVKKVIELLKSEGVKVGG-----------------FYTPEVREG 41
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 28.7 bits (64), Expect = 0.57
Identities = 18/45 (40%), Positives = 26/45 (57%), Gaps = 4/45 (8%)
Query: 43 PKGVILY-GPPGTGKTLLAKAVAN---QTSATFLRVVGSELIQKY 83
P G L+ GP G GKT L KA+AN + +R+ SE ++K+
Sbjct: 597 PIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKH 641
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 28.0 bits (63), Expect = 0.60
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
G G+GK+ + A+A + A F+
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFI 24
>gnl|CDD|213213 cd03246, ABCC_Protease_Secretion, ATP-binding cassette domain of
PrtD, subfamily C. This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They
export degradative enzymes by using a type I protein
secretion system and lack an N-terminal signal peptide,
but contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and
an outer membrane protein (OMP). For the HlyA
transporter complex, HlyB (ABC transporter) and HlyD
(MFP) reside in the inner membrane of E. coli. The OMP
component is TolC, which is thought to interact with
the MFP to form a continuous channel across the
periplasm from the cytoplasm to the exterior. HlyB
belongs to the family of ABC transporters, which are
ubiquitous, ATP-dependent transmembrane pumps or
channels. The spectrum of transport substrates ranges
from inorganic ions, nutrients such as amino acids,
sugars, or peptides, hydrophobic drugs, to large
polypeptides, such as HlyA.
Length = 173
Score = 28.0 bits (63), Expect = 0.60
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVA 64
I+P + + + GP G+GK+ LA+ +
Sbjct: 25 IEPGESLAIIGPSGSGKSTLARLIL 49
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 28.1 bits (63), Expect = 0.61
Identities = 11/35 (31%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELI 80
+ + G PG+GKT +A+ +A L++V + I
Sbjct: 3 ITISGLPGSGKTTVARELAEHLG---LKLVSAGTI 34
>gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase
/ dimethylallyl transferase synthesises
isopentenyladensosine 5'-monophosphate, a cytokinin
that induces shoot formation on host plants infected
with the Ti plasmid.
Length = 232
Score = 28.1 bits (63), Expect = 0.61
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 47 ILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKY 83
+++G TGKT A A+A +T V+ + +Q
Sbjct: 5 LIWGATCTGKTAEAIALAKETGWP---VIVLDRVQCC 38
>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 = 28.3 bits (64), Expect = 0.64
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATFLRVV 75
L+G G+GK+ L +A +
Sbjct: 43 LWGESGSGKSHLLQAACAAAEERGKSAI 70
>gnl|CDD|136670 PRK08181, PRK08181, transposase; Validated.
Length = 269
Score = 28.0 bits (62), Expect = 0.69
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 7/42 (16%)
Query: 46 VILYGPPGTGKTLLAKA-----VANQTSATFLRVVGSELIQK 82
++L+GPPG GK+ LA A + N F R ++L+QK
Sbjct: 109 LLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT--TDLVQK 148
>gnl|CDD|237965 PRK15429, PRK15429, formate hydrogenlyase transcriptional activator
FhlA; Provisional.
Length = 686
Score = 28.3 bits (63), Expect = 0.71
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
EM + V++ G GTGK L+A+A+ N + R+V
Sbjct: 393 EMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMV 431
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 27.8 bits (63), Expect = 0.71
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 50 GPPGTGKTLLAKAVA 64
GPPG+GKT +A+ +A
Sbjct: 7 GPPGSGKTTVARLLA 21
>gnl|CDD|236926 PRK11545, gntK, gluconate kinase 1; Provisional.
Length = 163
Score = 27.8 bits (62), Expect = 0.73
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
G G+GK+ +A VA+Q A FL
Sbjct: 2 GVSGSGKSAVASEVAHQLHAAFL 24
>gnl|CDD|181235 PRK08118, PRK08118, topology modulation protein; Reviewed.
Length = 167
Score = 27.7 bits (62), Expect = 0.75
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTS 68
K +IL G G+GK+ LA+ + + +
Sbjct: 2 KKIILIGSGGSGKSTLARQLGEKLN 26
>gnl|CDD|238986 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK).
Length = 179
Score = 27.7 bits (62), Expect = 0.75
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRVVG 76
GP G+GKT AK ++NQ + V
Sbjct: 6 GPSGSGKTTFAKKLSNQLRVNGIGPVV 32
>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 = 28.0 bits (63), Expect = 0.78
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
++ G PGTGKT++A + +
Sbjct: 4 FLVTGGPGTGKTVVALNLFAE 24
>gnl|CDD|224533 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 179
Score = 27.7 bits (62), Expect = 0.80
Identities = 17/64 (26%), Positives = 23/64 (35%), Gaps = 17/64 (26%)
Query: 39 GIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVALVPE 98
IK + + G PG GKT L +A + +V G + PE
Sbjct: 1 MIKMAMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGG-----------------FITPE 43
Query: 99 VRNG 102
VR G
Sbjct: 44 VREG 47
>gnl|CDD|130679 TIGR01618, phage_P_loop, phage nucleotide-binding protein. This
model represents an uncharacterized family of proteins
from a number of phage of Gram-positive bacteria. This
protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near
its amino end. The function of this protein is unknown
[Mobile and extrachromosomal element functions,
Prophage functions].
Length = 220
Score = 27.8 bits (62), Expect = 0.84
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 33 EYYEEMGIKPPKGVIL-YGPPGTGKTLLAKAVANQT 67
++ E IK + L YG PGTGKT K + +T
Sbjct: 1 KFIEAGNIKRIPNMYLIYGKPGTGKTSTIKYLPGKT 36
>gnl|CDD|226573 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide
transport and metabolism].
Length = 261
Score = 27.9 bits (62), Expect = 0.85
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
+IL G PG+GKT AK +A
Sbjct: 4 IILTGYPGSGKTTFAKELA 22
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau
subunit. A translational frameshift leads to early
termination and a truncated protein subunit gamma,
about 1/3 shorter than tau and present in roughly equal
amounts. This frameshift mechanism is not necessarily
universal for species with DNA polymerase III but
appears conserved in the exterme thermophile Thermus
thermophilis [DNA metabolism, DNA replication,
recombination, and repair].
Length = 355
Score = 27.9 bits (63), Expect = 0.86
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 4/21 (19%)
Query: 47 ILYGPPGTGKT----LLAKAV 63
+ GP GTGKT + AKA+
Sbjct: 40 LFSGPRGTGKTSIARIFAKAL 60
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 27.8 bits (63), Expect = 0.87
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL------RVVGSELIQKY--LGDGPKLVRVA 94
GP G+GK +AK +A + +L R V ++ L D LV +A
Sbjct: 11 GPAGSGKGTVAKILAKKLGFHYLDTGAMYRAVALAALRHGVDLEDEEALVALA 63
>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 = 27.8 bits (62), Expect = 0.89
Identities = 10/32 (31%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSA--TFLRVV 75
+++ GP G+GK+ L K +A + A + V+
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLARGGRVIVI 35
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 27.8 bits (61), Expect = 0.93
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 42 PPKGVILYGPPGTGKTLLAKAV 63
PP V + GPPGTGK+ L +++
Sbjct: 68 PPFIVAVVGPPGTGKSTLIRSL 89
>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 = 27.6 bits (62), Expect = 0.93
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 46 VILYGPPGTGKTLLAKAVANQTS 68
++L GPPG+GK AK +A +
Sbjct: 2 LVLLGPPGSGKGTQAKRIAEKYG 24
>gnl|CDD|234667 PRK00149, dnaA, chromosomal replication initiation protein;
Reviewed.
Length = 401
Score = 27.8 bits (63), Expect = 0.94
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 48 LYGPPGTGKTLLAKAVANQ 66
+YG G GKT L A+ N
Sbjct: 104 IYGGVGLGKTHLLHAIGNY 122
>gnl|CDD|236347 PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated.
Length = 227
Score = 27.6 bits (62), Expect = 0.97
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 38 MGIKPPKGVILYGPPGTGKTLLAKAVANQTSAT 70
G + L+G G+G++ L +A+ S
Sbjct: 37 AGPVADRFFYLWGEAGSGRSHLLQALVADASYG 69
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 27.8 bits (62), Expect = 0.98
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 44 KGVILYGPPGTGKTLLAKAVA 64
K VIL G PGTGKT + +A+
Sbjct: 339 KVVILTGGPGTGKTTITRAII 359
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 27.6 bits (62), Expect = 0.99
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSA 69
PK +++ GP +GKT LA A+A +
Sbjct: 3 PKLIVIAGPTASGKTALAIALAKRLGG 29
>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 = 27.6 bits (62), Expect = 1.00
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 43 PKG--VILYGPPGTGKTLLAK 61
P+G V++ G PGTGKT+
Sbjct: 17 PRGRVVLITGGPGTGKTIFGL 37
>gnl|CDD|178279 PLN02674, PLN02674, adenylate kinase.
Length = 244
Score = 27.5 bits (61), Expect = 1.0
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 41 KPPKGVILYGPPGTGK 56
KP K +IL GPPG+GK
Sbjct: 29 KPDKRLILIGPPGSGK 44
>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
Length = 259
Score = 27.4 bits (61), Expect = 1.1
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
++L GP G GKT LA A+
Sbjct: 105 IVLLGPSGVGKTHLAIALG 123
>gnl|CDD|233571 TIGR01778, TonB-copper, TonB-dependent copper receptor. This model
represents a family of proteobacterial TonB-dependent
outer membrane receptor/transporters which bind and
translocate copper ions. Two characterized members of
this family exist, outer membrane protein C (OprC) from
Pseudomonas aeruginosa and NosA from Pseudomonas
stutzeri which is responsible for providing copper for
the copper-containing N2O reducatse [Transport and
binding proteins, Cations and iron carrying compounds,
Transport and binding proteins, Porins].
Length = 636
Score = 27.5 bits (61), Expect = 1.1
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 32 PEYYEEMG-IKPPKGVILYGPPGTGKTLL 59
PE Y+ + IK P+ V YGP G+ T+L
Sbjct: 75 PESYDSVTVIKGPQTV-EYGPGGSAGTVL 102
>gnl|CDD|226412 COG3896, COG3896, Chloramphenicol 3-O-phosphotransferase [Defense
mechanisms].
Length = 205
Score = 27.6 bits (61), Expect = 1.1
Identities = 8/39 (20%), Positives = 18/39 (46%)
Query: 36 EEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
G+ + V+L G GK+ +A A + + ++ +
Sbjct: 16 AMAGMPEGRIVLLNGGSSAGKSSIALAFQDLAAEPWMHI 54
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 27.5 bits (62), Expect = 1.1
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
V+L G G+GKT L +A+AN
Sbjct: 144 VVLGGNTGSGKTELLQALANA 164
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 27.6 bits (62), Expect = 1.1
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 43 PKGV-ILYGPPGTGKTLLAKAVANQ 66
P GV +L GP G GKT A A+A
Sbjct: 595 PLGVFLLVGPSGVGKTETALALAEL 619
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 27.8 bits (62), Expect = 1.1
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 32 PEYYEEMGIKPPKGVILYGPPGTGKTLLAK 61
P +++ ++P +++ GP GKT L K
Sbjct: 27 PRLIKKLDLRPFI-ILILGPRQVGKTTLLK 55
>gnl|CDD|225190 COG2308, COG2308, Uncharacterized conserved protein [Function
unknown].
Length = 488
Score = 27.7 bits (62), Expect = 1.2
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 26 ELPLTHPEYYEEM-GIKPPKGV 46
EL ++P + EM GI+PP G
Sbjct: 122 ELVASNPGFLREMVGIRPPGGH 143
>gnl|CDD|179433 PRK02496, adk, adenylate kinase; Provisional.
Length = 184
Score = 27.4 bits (61), Expect = 1.2
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ 66
+I GPPG GK A +A
Sbjct: 2 TRLIFLGPPGAGKGTQAVVLAEH 24
>gnl|CDD|238026 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines.
Length = 137
Score = 27.1 bits (61), Expect = 1.2
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV 75
++L GP G GK+ L K + + F V
Sbjct: 2 IVLSGPSGVGKSTLLKRLLEEFDPNFGFSV 31
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 27.2 bits (61), Expect = 1.3
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
V + GPPG GK+ LA+ +
Sbjct: 36 VGIAGPPGAGKSTLAEFLE 54
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 27.3 bits (61), Expect = 1.3
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSA 69
V+L G GTGK +LA+A+ + A
Sbjct: 339 VLLQGETGTGKEVLARAIHQNSEA 362
>gnl|CDD|134335 PRK00625, PRK00625, shikimate kinase; Provisional.
Length = 173
Score = 27.0 bits (60), Expect = 1.3
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATF 71
+ L G P GKT KA+A S F
Sbjct: 1 MQIFLCGLPTVGKTSFGKALAKFLSLPF 28
>gnl|CDD|235498 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
Length = 176
Score = 27.3 bits (61), Expect = 1.3
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 9/52 (17%)
Query: 38 MGIKPPKGVI-LYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYL-GDG 87
M +KP VI + G G+GKT +AKA+ + L++ S +I YL GD
Sbjct: 1 MQMKPNGYVIWITGLAGSGKTTIAKALYER-----LKLKYSNVI--YLDGDE 45
>gnl|CDD|184729 PRK14532, PRK14532, adenylate kinase; Provisional.
Length = 188
Score = 27.1 bits (60), Expect = 1.3
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 11/65 (16%)
Query: 46 VILYGPPGTGKTLLAKAVANQ------TSATFLRVV---GSELIQKYLG--DGPKLVRVA 94
+IL+GPP GK AK + + ++ LR GSEL Q+ G D +LV
Sbjct: 3 LILFGPPAAGKGTQAKRLVEERGMVQLSTGDMLRAAIASGSELGQRVKGIMDRGELVSDE 62
Query: 95 LVPEV 99
+V +
Sbjct: 63 IVIAL 67
>gnl|CDD|172992 PRK14526, PRK14526, adenylate kinase; Provisional.
Length = 211
Score = 27.1 bits (60), Expect = 1.3
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 45 GVILYGPPGTGKTLLAKAVANQ 66
++ GPPG+GK +AK ++N+
Sbjct: 2 KLVFLGPPGSGKGTIAKILSNE 23
>gnl|CDD|213965 TIGR04352, HprK_rel_A, HprK-related kinase A. A number of protein
families resemble HPr kinase (see TIGR00679) but do not
belong to that system. They include this family, which
appears instead to be the marker for a different type of
gene neighborhood, in which one of the conserved
neighboring proteins resembles (but is distinct from)
PqqD.
Length = 280
Score = 27.3 bits (61), Expect = 1.4
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 44 KGVILYGPPGTGKTLLAKAVA 64
+ +IL PPG+GK+ L A+A
Sbjct: 109 RALILPAPPGSGKSTLCAALA 129
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 27.2 bits (61), Expect = 1.5
Identities = 11/20 (55%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 43 PKG--VILYGPPGTGKTLLA 60
PKG ++ G GTGKTL A
Sbjct: 29 PKGRPTLVSGTAGTGKTLFA 48
>gnl|CDD|213188 cd03221, ABCF_EF-3, ATP-binding cassette domain of elongation
factor 3, subfamily F. Elongation factor 3 (EF-3) is a
cytosolic protein required by fungal ribosomes for in
vitro protein synthesis and for in vivo growth. EF-3
stimulates the binding of the EF-1: GTP: aa-tRNA
ternary complex to the ribosomal A site by facilitated
release of the deacylated tRNA from the E site. The
reaction requires ATP hydrolysis. EF-3 contains two ATP
nucleotide binding sequence (NBS) motifs. NBSI is
sufficient for the intrinsic ATPase activity. NBSII is
essential for the ribosome-stimulated functions.
Length = 144
Score = 26.6 bits (60), Expect = 1.5
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSAT 70
+ L G G GK+ L K +A +
Sbjct: 29 IGLVGRNGAGKSTLLKLIAGELEPD 53
>gnl|CDD|234011 TIGR02782, TrbB_P, P-type conjugative transfer ATPase TrbB. The
TrbB protein is found in the trb locus of Agrobacterium
Ti plasmids where it is involved in the type IV
secretion system for plasmid conjugative transfer. TrbB
is a homolog of the vir system VirB11 ATPase , and the
Flp pilus sytem ATPase TadA [Cellular processes,
Conjugation].
Length = 299
Score = 27.0 bits (60), Expect = 1.5
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFL--RVV 75
K +++ G G+GKT LA A+ + + RVV
Sbjct: 133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVV 166
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 27.1 bits (61), Expect = 1.5
Identities = 7/33 (21%), Positives = 16/33 (48%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFL 72
+ ++L G G GK+ + + +A + F+
Sbjct: 1 MLKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFI 33
>gnl|CDD|181180 PRK07952, PRK07952, DNA replication protein DnaC; Validated.
Length = 244
Score = 27.0 bits (60), Expect = 1.6
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 45 GVILYGPPGTGKTLLAKAVAN 65
I G PGTGK LA A+ N
Sbjct: 101 SFIFSGKPGTGKNHLAAAICN 121
>gnl|CDD|151168 pfam10662, PduV-EutP, Ethanolamine utilisation - propanediol
utilisation. Members of this family function in
ethanolamine and propanediol degradation pathways,
however the exact roles of these proteins is poorly
understood.
Length = 143
Score = 26.8 bits (60), Expect = 1.6
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ 66
K ++L G G GKT L +A+ +
Sbjct: 2 KKIMLIGRSGCGKTTLTQALNGE 24
>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 169
Score = 26.8 bits (60), Expect = 1.6
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 40 IKPPKGVILYGPPGTGKTLLA 60
I K V++ P G+GKTL
Sbjct: 11 ILSGKDVLVQAPTGSGKTLAF 31
>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 = 26.8 bits (60), Expect = 1.6
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSAT 70
V L GP G+GK+ L +A+A T
Sbjct: 28 VALVGPNGSGKSTLLRAIAGLLKPT 52
>gnl|CDD|132027 TIGR02982, heterocyst_DevA, ABC exporter ATP-binding subunit,
DevA family. Members of this protein family are found
mostly in the Cyanobacteria, but also in the
Planctomycetes. Cyanobacterial examples are involved in
heterocyst formation, by which some fraction of members
of the colony undergo a developmental change and become
capable of nitrogen fixation. The DevBCA proteins are
thought export of either heterocyst-specific
glycolipids or an enzyme essential for formation of the
laminated layer found in heterocysts.
Length = 220
Score = 26.9 bits (60), Expect = 1.6
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSAT--FLRVVGSEL 79
I P + VIL GP G+GKT L + S L+V+G EL
Sbjct: 28 INPGEIVILTGPSGSGKTTLLTLIGGLRSVQEGSLKVLGQEL 69
>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 = 26.5 bits (59), Expect = 1.7
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 41 KPPKGVIL--YGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLG 85
KP K ++L +G GTGK +A+ +A+ + + S + ++
Sbjct: 49 KPRKPLVLSFHGWTGTGKNFVAEIIAD---NLYRDGLRSPYVHHFVA 92
>gnl|CDD|237745 PRK14527, PRK14527, adenylate kinase; Provisional.
Length = 191
Score = 27.1 bits (60), Expect = 1.7
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 38 MGIKPPKGVILYGPPGTGKTLLAKAVA 64
M K VI GPPG GK A+ +A
Sbjct: 1 MTQTKNKVVIFLGPPGAGKGTQAERLA 27
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 27.1 bits (61), Expect = 1.8
Identities = 11/18 (61%), Positives = 12/18 (66%), Gaps = 4/18 (22%)
Query: 50 GPPGTGKT----LLAKAV 63
GP GTGKT + AKAV
Sbjct: 45 GPRGTGKTSAAKIFAKAV 62
>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau;
Validated.
Length = 605
Score = 27.1 bits (60), Expect = 1.8
Identities = 11/24 (45%), Positives = 12/24 (50%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVA 64
K I GP G GKT +AK A
Sbjct: 36 KLTHAYIFSGPRGIGKTSIAKIFA 59
>gnl|CDD|181547 PRK08760, PRK08760, replicative DNA helicase; Provisional.
Length = 476
Score = 27.2 bits (60), Expect = 1.8
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 12 GSLDVQIQEIKESVE-------LPLTHPEYYEEM--GIKPPKGVILYGPPGTGKTLLAKA 62
G+L +E++ E LP + ++ + M G++P +IL P GKT A
Sbjct: 190 GALKDAFEELRNRFENGGNITGLPTGYNDF-DAMTAGLQPTDLIILAARPAMGKTTFALN 248
Query: 63 VA 64
+A
Sbjct: 249 IA 250
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 26.7 bits (59), Expect = 1.8
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 44 KGVILYGPPGTGKTLLA 60
+ VIL P G+GKTL A
Sbjct: 25 RDVILAAPTGSGKTLAA 41
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 26.9 bits (60), Expect = 1.9
Identities = 14/24 (58%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 40 IKPPKGVI-LYGPPGTGKTL-LAK 61
I GVI L GP G GKT LAK
Sbjct: 191 ILERGGVIALVGPTGVGKTTTLAK 214
>gnl|CDD|217821 pfam03969, AFG1_ATPase, AFG1-like ATPase. This family of
proteins contains a P-loop motif and are predicted to
be ATPases.
Length = 361
Score = 27.0 bits (60), Expect = 1.9
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 42 PPKGVILYGPPGTGKTLL 59
P +G+ L+G G GKT L
Sbjct: 60 PVRGLYLWGGVGRGKTHL 77
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 26.8 bits (60), Expect = 2.0
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 47 ILYGPPGTGKTLLAKAVA 64
+ GP G GKT LAKA+A
Sbjct: 599 LFLGPTGVGKTELAKALA 616
>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 = 26.9 bits (60), Expect = 2.0
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV 75
+IL G P +GK+ AK +A V+
Sbjct: 2 IILTGLPSSGKSTRAKELAKYLEEKGYDVI 31
>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 = 26.8 bits (60), Expect = 2.0
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
++L GPPG+GK A+ +A
Sbjct: 2 ILLLGPPGSGKGTQAERLAK 21
>gnl|CDD|222724 pfam14385, DUF4416, Domain of unknown function (DUF4416). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 176 and 187 amino
acids in length. There is a conserved DPG sequence
motif.
Length = 163
Score = 26.4 bits (59), Expect = 2.0
Identities = 10/18 (55%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 23 ESVELPLTHPEYYE-EMG 39
ES LP + +YYE EMG
Sbjct: 36 ESPPLPFDYTDYYEKEMG 53
>gnl|CDD|238321 cd00575, NOS_oxygenase, Nitric oxide synthase (NOS) produces nitric
oxide (NO) by catalyzing a five-electron heme-based
oxidation of a guanidine nitrogen of L-arginine to
L-citrulline via two successive monooxygenation
reactions producing N(omega)-hydroxy-L-arginine (NHA) as
an intermediate. In mammals, there are three distinct
NOS isozymes: neuronal (nNOS or NOS-1),
cytokine-inducible (iNOS or NOS-2) and endothelial (eNOS
or NOS-3) . Nitric oxide synthases are homodimers. In
eukaryotes, each monomer has an N-terminal oxygenase
domain which binds to the substrate L-Arg, zinc, and to
the cofactors heme and 5.6.7.8-(6R)-tetrahydrobiopterin
(BH4) . Eukaryotic NOSs also have a C-terminal electron
supplying reductase region, which is homologous to
cytochrome P450 reductase and binds NADH, FAD and FMN.
While prokaryotes can produce NO as a byproduct of
denitrification, using a completely different set of
enzymes than NOS, a few prokaryotes also have a NOS
which consists solely of the NOS oxygenase domain.
Prokaryotic NOS binds to the substrate L-Arg, zinc, and
to the cofactors heme and tetrahydrofolate.
Length = 356
Score = 26.9 bits (60), Expect = 2.2
Identities = 13/31 (41%), Positives = 21/31 (67%), Gaps = 4/31 (12%)
Query: 15 DVQIQEI-KESV-ELPLTHPEY--YEEMGIK 41
D ++ EI E V E+P+ HP+Y + E+G+K
Sbjct: 178 DPELFEIPPELVLEVPIEHPKYEWFAELGLK 208
>gnl|CDD|181406 PRK08377, PRK08377, NADH dehydrogenase subunit N; Validated.
Length = 494
Score = 26.7 bits (59), Expect = 2.2
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 39 GIKPPKGVILY-GPPGTGKTLLAKAVANQTSATFLRVVGSELIQKY 83
G KPP G+ LY GP L+ V+ S L+ V E I KY
Sbjct: 65 GWKPPVGINLYIGPFAALFVLIIAIVSFIMSIFSLKAVEVEPIDKY 110
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative. The gene product may
represent a DNA helicase. Eukaryotic members of this
family have been characterized as binding certain
single-stranded G-rich DNA sequences (GGGGT and GGGCT).
A number of related proteins are characterized as
helicases [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 26.7 bits (59), Expect = 2.3
Identities = 8/11 (72%), Positives = 11/11 (100%)
Query: 47 ILYGPPGTGKT 57
+++GPPGTGKT
Sbjct: 177 LIHGPPGTGKT 187
>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated.
Length = 328
Score = 26.6 bits (59), Expect = 2.3
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 43 PKGVILYGPPGTGKTLLAKAVA 64
P +L+GP G GK LA+ +A
Sbjct: 22 PHAYLLHGPAGIGKRALAERLA 43
>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 = 26.6 bits (59), Expect = 2.3
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 37 EMGIKPPKGV---ILYGPPGTGKTLLAKAVA 64
E G+K K V I G PGTGKT +A+ +
Sbjct: 33 EEGLKTSKQVLHMIFKGNPGTGKTTVARILG 63
>gnl|CDD|218872 pfam06048, DUF927, Domain of unknown function (DUF927). Family of
bacterial proteins of unknown function. The C-terminal
half of this family contains a P-loop motif.
Length = 284
Score = 26.5 bits (59), Expect = 2.4
Identities = 8/20 (40%), Positives = 8/20 (40%)
Query: 45 GVILYGPPGTGKTLLAKAVA 64
G G TGKT K A
Sbjct: 193 GFHFVGDSSTGKTTALKLAA 212
>gnl|CDD|226426 COG3911, COG3911, Predicted ATPase [General function prediction
only].
Length = 183
Score = 26.4 bits (58), Expect = 2.8
Identities = 13/25 (52%), Positives = 14/25 (56%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSAT 70
IL G PG GKT L A+A AT
Sbjct: 12 FILTGGPGAGKTTLLAALARAGFAT 36
>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 = 26.3 bits (59), Expect = 2.8
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 41 KPPKGVIL-YGPPGTGKTLLA 60
P K ++ YGPP TGK++
Sbjct: 259 IPKKNCLVIYGPPDTGKSMFC 279
>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 26.5 bits (59), Expect = 2.8
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
E G P +++YGP GKT L + + RV+
Sbjct: 16 ERGTYPI--IVVYGPRRCGKTALLREFLEELRELGYRVI 52
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 26.0 bits (58), Expect = 2.8
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVG 76
+ + GPPG GKT L +A +V G
Sbjct: 3 IGITGPPGVGKTTLVLKIAELLKEEGYKVGG 33
>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 = 26.4 bits (59), Expect = 2.8
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELI 80
KP + + GP G GK+ L A+A + + L V G LI
Sbjct: 32 AKPGELTAIMGPSGAGKSTLLNALAGRRTG--LGVSGEVLI 70
>gnl|CDD|182097 PRK09825, idnK, D-gluconate kinase; Provisional.
Length = 176
Score = 26.1 bits (57), Expect = 2.9
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 47 ILYGPPGTGKTLLAKAVANQTSATFL 72
IL G G+GK+L+ +A SA F+
Sbjct: 7 ILMGVSGSGKSLIGSKIAALFSAKFI 32
>gnl|CDD|234015 TIGR02788, VirB11, P-type DNA transfer ATPase VirB11. The VirB11
protein is found in the vir locus of Agrobacterium Ti
plasmids where it is involved in the type IV secretion
system for DNA transfer. VirB11 is believed to be an
ATPase. VirB11 is a homolog of the P-like conjugation
system TrbB protein and the Flp pilus sytem protein
TadA.
Length = 308
Score = 26.2 bits (58), Expect = 3.1
Identities = 12/52 (23%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
D Q+ E+ ++ + + + I K +I+ G G+GKT K++ ++
Sbjct: 121 DEQLLELLDA-----GDIKEFLRLAIASRKNIIISGGTGSGKTTFLKSLVDE 167
>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional.
Length = 367
Score = 26.5 bits (59), Expect = 3.1
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 34 YYEEMGIKPPKGV-ILYGPPGTGKTLLAKAVANQTSAT 70
Y+ + I + IL G PGTGK+ L K + +
Sbjct: 21 LYDSI-IDGANRIFILKGGPGTGKSTLMKKIGEEFLEK 57
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 26.1 bits (58), Expect = 3.3
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
+ + G PG GKT + K +
Sbjct: 3 IAITGTPGVGKTTVCKLLR 21
>gnl|CDD|129128 TIGR00017, cmk, cytidylate kinase. This family consists of
cytidylate kinase, which catalyzes the phosphorylation
of cytidine 5-monophosphate (dCMP) to cytidine 5
-diphosphate (dCDP) in the presence of ATP or GTP. UMP
and dCMP can also act as acceptors [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 217
Score = 26.2 bits (58), Expect = 3.3
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
GP G GK+ +AKAVA + +L
Sbjct: 9 GPSGAGKSTVAKAVAEKLGYAYL 31
>gnl|CDD|223360 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 26.0 bits (58), Expect = 3.3
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
GP G+GK+ +AK +A + +L
Sbjct: 11 GPAGSGKSTVAKILAEKLGFHYL 33
>gnl|CDD|226970 COG4619, COG4619, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 223
Score = 26.0 bits (57), Expect = 3.4
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSAT 70
++ + + + GP G GK+ L K VA+ S T
Sbjct: 26 VRAGEFIAITGPSGCGKSTLLKIVASLISPT 56
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 26.2 bits (58), Expect = 3.4
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 43 PKGVILYGPPGTGKTLLAKAV 63
+ ++L GP G GK+ + KA+
Sbjct: 2 RRPIVLSGPSGVGKSHIKKAL 22
>gnl|CDD|234132 TIGR03167, tRNA_sel_U_synt, tRNA 2-selenouridine synthase. The
Escherichia coli YbbB protein was shown to encode a
selenophosphate-dependent tRNA 2-selenouridine synthase,
essential for modification of some tRNAs to replace a
sulfur atom with selenium. This enzyme works with SelD,
the selenium donor protein, which also acts in
selenocysteine incorporation. Although the members of
this protein family show a fairly deep split, sequences
from both sides of the split are supported by
co-occurence with, and often proximity to, the selD gene
[Protein synthesis, tRNA and rRNA base modification].
Length = 311
Score = 26.0 bits (58), Expect = 3.6
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
++L G G+GKT L A+AN
Sbjct: 130 IVLGGMTGSGKTELLHALANA 150
>gnl|CDD|215920 pfam00437, T2SE, Type II/IV secretion system protein. This family
contains both type II and type IV pathway secretion
proteins from bacteria. VirB11 ATPase is a subunit of
the Agrobacterium tumefaciens transfer DNA (T-DNA)
transfer system, a type IV secretion pathway required
for delivery of T-DNA and effector proteins to plant
cells during infection.
Length = 273
Score = 26.1 bits (58), Expect = 3.6
Identities = 14/48 (29%), Positives = 26/48 (54%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRV 93
+++ G G+GKT L A+ N+ + R+V E + +GP V++
Sbjct: 132 ILVSGGTGSGKTTLLYALLNEINTDDERIVTIEDPVEIQLEGPNQVQL 179
>gnl|CDD|238410 cd00795, NOS_oxygenase_euk, Nitric oxide synthase (NOS) eukaryotic
oxygenase domain. NOS produces nitric oxide (NO) by
catalyzing a five-electron heme-based oxidation of a
guanidine nitrogen of L-arginine to L-citrulline via two
successive monooxygenation reactions producing
N(omega)-hydroxy-L-arginine (NHA) as an intermediate. In
mammals, there are three distinct NOS isozymes: neuronal
(nNOS or NOS-1), cytokine-inducible (iNOS or NOS-2) and
endothelial (eNOS or NOS-3) . Nitric oxide synthases are
homodimers. In eukaryotes, each monomer has an
N-terminal oxygenase domain, which binds to the
substrate L-Arg, zinc, and to the cofactors heme and
5.6.7.8-(6R)-tetrahydrobiopterin (BH4) . Eukaryotic
NOS's also have a C-terminal electron supplying
reductase region, which is homologous to cytochrome P450
reductase and binds NADH, FAD and FMN.
Length = 412
Score = 26.1 bits (58), Expect = 3.8
Identities = 8/18 (44%), Positives = 15/18 (83%), Gaps = 2/18 (11%)
Query: 26 ELPLTHPEY--YEEMGIK 41
E+P+ HP+Y ++E+G+K
Sbjct: 244 EVPIEHPKYEWFKELGLK 261
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 26.3 bits (58), Expect = 3.8
Identities = 11/18 (61%), Positives = 12/18 (66%), Gaps = 4/18 (22%)
Query: 50 GPPGTGKT----LLAKAV 63
GP G GKT +LAKAV
Sbjct: 45 GPRGVGKTSTARILAKAV 62
>gnl|CDD|235898 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated.
Length = 342
Score = 25.9 bits (57), Expect = 3.8
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 43 PKGVILYGPPGTGKTLLAKAVA 64
P ++L+G G GK A+ +A
Sbjct: 21 PHALLLHGQAGIGKLDFAQHLA 42
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 26.2 bits (58), Expect = 3.9
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 36 EEMGIKPPKGVILYGPPGTGKTL-LAK 61
E + ++ + + L GP G GKT LAK
Sbjct: 196 ENLIVEQKRVIALVGPTGVGKTTTLAK 222
>gnl|CDD|172577 PRK14087, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 450
Score = 26.1 bits (57), Expect = 3.9
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATF 71
+YG G GKT L KA N + F
Sbjct: 146 IYGESGMGKTHLLKAAKNYIESNF 169
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 25.9 bits (56), Expect = 3.9
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 47 ILYGPPGTGKTLLAKAVA 64
++ GP G+GK+ L KA+A
Sbjct: 3 VIIGPNGSGKSNLLKALA 20
>gnl|CDD|237077 PRK12364, PRK12364, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 842
Score = 26.3 bits (58), Expect = 3.9
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 16 VQIQEIKESVELPLTHPEYYEEMGIKPPKGVILY 49
V ++EI++ VE L +Y E+ K ILY
Sbjct: 59 VSVEEIQDLVEKTLMEHGHYAEV-----KSYILY 87
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 25.9 bits (57), Expect = 3.9
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
GP G GK+ +++A+A +L
Sbjct: 8 GPAGVGKSSVSRALAQYLGYAYL 30
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 26.1 bits (58), Expect = 4.0
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
V++ G GTGK L A+A+ N
Sbjct: 271 VLILGESGTGKELFARAIHN 290
>gnl|CDD|183482 PRK12377, PRK12377, putative replication protein; Provisional.
Length = 248
Score = 26.0 bits (57), Expect = 4.1
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 50 GPPGTGKTLLAKAVAN 65
G PGTGK LA A+ N
Sbjct: 108 GKPGTGKNHLAAAIGN 123
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 25.9 bits (57), Expect = 4.1
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 45 GVILYGPPGTGKTLLAKAVA 64
I GP GTGKT +A+ +A
Sbjct: 38 AYIFAGPRGTGKTTVARILA 57
>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 = 25.6 bits (57), Expect = 4.2
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
+++ GP GKT L +
Sbjct: 5 IVITGPRQVGKTTLLLQFLKE 25
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 26.1 bits (57), Expect = 4.2
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 44 KGVILYGPPGTGKTLL 59
+ I GPPG+GK +L
Sbjct: 1495 RSYIYCGPPGSGKEML 1510
>gnl|CDD|235281 PRK04328, PRK04328, hypothetical protein; Provisional.
Length = 249
Score = 25.8 bits (57), Expect = 4.3
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 46 VILYGPPGTGKTLLAK 61
V+L G PGTGK++ ++
Sbjct: 26 VLLSGGPGTGKSIFSQ 41
>gnl|CDD|201989 pfam01817, CM_2, Chorismate mutase type II. Chorismate mutase
EC:5.4.99.5 catalyzes the conversion of chorismate to
prephenate in the pathway of tyrosine and phenylalanine
biosynthesis. This enzyme is negatively regulated by
tyrosine, tryptophan and phenylalanine.
Length = 79
Score = 24.9 bits (55), Expect = 4.4
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 6 KALKKRGSLDVQIQEIKESVELPLTHPEYYEEM 38
L +R L +I E K+ LP+ PE E+
Sbjct: 13 FLLAERAELAREIAEYKKEQGLPIYDPEREAEV 45
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 25.7 bits (57), Expect = 4.5
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V++ G GTGK L+A+A+
Sbjct: 167 VLITGESGTGKELVARAI 184
>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
Length = 1627
Score = 26.0 bits (57), Expect = 4.5
Identities = 24/77 (31%), Positives = 33/77 (42%), Gaps = 9/77 (11%)
Query: 17 QIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTG---------KTLLAKAVANQT 67
+++E E+VE L PE YE +G I GP KT AVA +
Sbjct: 1451 EVKEFIETVEDRLGKPEQYEGIGYTHETDDIGLGPKICAYKTLGSMLEKTARQLAVAEKI 1510
Query: 68 SATFLRVVGSELIQKYL 84
AT R V ++IQ +
Sbjct: 1511 RATDERDVAEKVIQSHF 1527
>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 = 25.4 bits (56), Expect = 4.8
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 46 VILYGPPGTGKTLLA 60
++ G PG+GKTL A
Sbjct: 3 YLITGKPGSGKTLEA 17
>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 = 25.9 bits (58), Expect = 4.8
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 50 GPPGTGKTLLAKAVANQTSAT 70
G PGTG+T L + + +
Sbjct: 37 GEPGTGRTTLVRRYLEERAKK 57
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 25.6 bits (57), Expect = 5.0
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 48 LYGPPGTGKTLLA 60
+YGPP TGK++
Sbjct: 439 IYGPPDTGKSMFC 451
>gnl|CDD|224043 COG1118, CysA, ABC-type sulfate/molybdate transport systems,
ATPase component [Inorganic ion transport and
metabolism].
Length = 345
Score = 25.8 bits (57), Expect = 5.1
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
V L GP G GK+ L + +A
Sbjct: 31 VALLGPSGAGKSTLLRIIA 49
>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 = 5.2
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 41 KPPKGVILYGPPGTGKTLL 59
+P + + GPPG+GKT L
Sbjct: 11 RPMLRIGVGGPPGSGKTAL 29
>gnl|CDD|218528 pfam05272, VirE, Virulence-associated protein E. This family
contains several bacterial virulence-associated protein
E like proteins. These proteins contain a P-loop motif.
Length = 198
Score = 25.4 bits (56), Expect = 5.2
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 12/42 (28%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
E G K +IL G G+GK+ TFL+ +G E
Sbjct: 46 EPGCKFDHVLILQGAQGSGKS------------TFLKKLGGE 75
>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 = 25.8 bits (57), Expect = 5.3
Identities = 9/17 (52%), Positives = 13/17 (76%), Gaps = 1/17 (5%)
Query: 47 ILYGPPGTGKT-LLAKA 62
++ GPPG+GKT LL +
Sbjct: 115 LVIGPPGSGKTTLLQNS 131
>gnl|CDD|162659 TIGR02012, tigrfam_recA, protein RecA. This model describes
orthologs of the recA protein. RecA promotes
hybridization of homolgous regions of DNA. A segment of
ssDNA can be hybridized to another ssDNA region, or to
a dsDNA region. ATP is hydrolyzed in the process. Part
of the SOS respones, it is regulated by LexA via
autocatalytic cleavage [DNA metabolism, DNA
replication, recombination, and repair].
Length = 321
Score = 25.4 bits (56), Expect = 5.4
Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 43 PKGVI--LYGPPGTGKTLLA-KAVAN 65
P+G I +YGP +GKT LA A+A
Sbjct: 53 PRGRIIEIYGPESSGKTTLALHAIAE 78
>gnl|CDD|163589 TIGR03877, thermo_KaiC_1, KaiC domain protein, Ph0284 family.
Members of this family contain a single copy of the
KaiC domain (pfam06745) that occurs in two copies of
the circadian clock protein kinase KaiC itself. Members
occur primarily in thermophilic archaea and in
Thermotoga.
Length = 237
Score = 25.5 bits (56), Expect = 5.5
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 39 GIKPPKGVILYGPPGTGKTLLAK 61
GI V+L G PGTGK++ ++
Sbjct: 17 GIPERNVVLLSGGPGTGKSIFSQ 39
>gnl|CDD|233584 TIGR01817, nifA, Nif-specific regulatory protein. This model
represents NifA, a DNA-binding regulatory protein for
nitrogen fixation. The model produces scores between the
trusted and noise cutoffs for a well-described NifA
homolog in Aquifex aeolicus (which lacks nitrogenase),
for transcriptional activators of alternative
nitrogenases (VFe or FeFe instead of MoFe), and
truncated forms [Central intermediary metabolism,
Nitrogen fixation, Regulatory functions, DNA
interactions].
Length = 534
Score = 25.4 bits (56), Expect = 5.6
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V+L G GTGK L+AKA+
Sbjct: 222 VLLRGESGTGKELIAKAI 239
>gnl|CDD|234057 TIGR02915, PEP_resp_reg, PEP-CTERM-box response regulator
transcription factor. Members of this protein family
share full-length homology with (but do not include) the
acetoacetate metabolism regulatory protein AtoC (see
SP|Q06065). These proteins have a Fis family DNA binding
sequence (pfam02954), a response regulator receiver
domain (pfam00072), and sigma-54 interaction domain
(pfam00158) [Regulatory functions, DNA interactions].
Length = 445
Score = 25.5 bits (56), Expect = 5.7
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V+L G GTGK +LA+A+
Sbjct: 165 VLLLGESGTGKEVLARAL 182
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 25.5 bits (56), Expect = 5.7
Identities = 12/42 (28%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLG 85
K +++ GP G GK+ LA +A + + ++ ++ +Q Y G
Sbjct: 22 KVIVISGPTGAGKSRLALELAKRLNG---EIISADSVQVYRG 60
>gnl|CDD|191413 pfam05970, PIF1, PIF1-like helicase. This family includes
homologues of the PIF1 helicase, which inhibits
telomerase activity and is cell cycle regulated. This
family includes a large number of largely
uncharacterized plant proteins. This family includes a
P-loop motif that is involved in nucleotide binding.
Length = 364
Score = 25.4 bits (56), Expect = 5.7
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 48 LYGPPGTGKTLLAKAVAN 65
+YG GTGKT L KA++
Sbjct: 27 VYGYGGTGKTYLWKALSA 44
>gnl|CDD|184118 PRK13531, PRK13531, regulatory ATPase RavA; Provisional.
Length = 498
Score = 25.7 bits (57), Expect = 5.7
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 46 VILYGPPGTGKTLLAK 61
V L GPPG K+L+A+
Sbjct: 42 VFLLGPPGIAKSLIAR 57
>gnl|CDD|224116 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 25.6 bits (57), Expect = 5.8
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 35 YEEMGIKPPKGV-ILYGPPGTGKTLLAKAV 63
Y E+ + GV +L G G GKT L +A+
Sbjct: 14 YAELDLDLSPGVNVLVGENGQGKTNLLEAI 43
>gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit;
Provisional.
Length = 353
Score = 25.4 bits (56), Expect = 5.8
Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 46 VILYGPPGTGKTLLAKAVA---NQTS 68
V L GP G+GKT L + +A +QTS
Sbjct: 31 VALLGPSGSGKTTLLRIIAGLEHQTS 56
>gnl|CDD|224586 COG1672, COG1672, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 359
Score = 25.5 bits (56), Expect = 6.0
Identities = 10/26 (38%), Positives = 12/26 (46%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVAN 65
+PP V +YG GKT L K
Sbjct: 20 SEPPSIVFIYGRRRVGKTSLLKEFIK 45
>gnl|CDD|200134 TIGR01842, type_I_sec_PrtD, type I secretion system ABC
transporter, PrtD family. Type I protein secretion is a
system in some Gram-negative bacteria to export proteins
(often proteases) across both inner and outer membranes
to the extracellular medium. This is one of three
proteins of the type I secretion apparatus. Targeted
proteins are not cleaved at the N-terminus, but rather
carry signals located toward the extreme C-terminus to
direct type I secretion [Protein fate, Protein and
peptide secretion and trafficking].
Length = 544
Score = 25.4 bits (56), Expect = 6.4
Identities = 7/24 (29%), Positives = 15/24 (62%)
Query: 38 MGIKPPKGVILYGPPGTGKTLLAK 61
++ + + + GP G+GK+ LA+
Sbjct: 339 FSLQAGEALAIIGPSGSGKSTLAR 362
>gnl|CDD|116541 pfam07931, CPT, Chloramphenicol phosphotransferase-like protein.
The members of this family are all similar to
chloramphenicol 3-O phosphotransferase (CPT) expressed
by Streptomyces venezuelae. Chloramphenicol (Cm) is a
metabolite produced by this bacterium that can inhibit
ribosomal peptidyl transferase activity and therefore
protein production. By transferring a phosphate group
to the C-3 hydroxyl group of Cm, CPT inactivates this
potentially lethal metabolite.
Length = 174
Score = 25.1 bits (55), Expect = 6.8
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
++L G +GK+ +A+A+ + +L
Sbjct: 4 ILLNGGSSSGKSSIARALQDILDGPWLHF 32
>gnl|CDD|204242 pfam09439, SRPRB, Signal recognition particle receptor beta
subunit. The beta subunit of the signal recognition
particle receptor (SRP) is a transmembrane GTPase which
anchors the alpha subunit to the endoplasmic reticulum
membrane.
Length = 181
Score = 25.1 bits (55), Expect = 6.9
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 46 VILYGPPGTGKTLL 59
VI+ G +GKT L
Sbjct: 6 VIIAGLCDSGKTSL 19
>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 = 24.2 bits (53), Expect = 6.9
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 50 GPPGTGKTLLAKAVANQ 66
G G+GK+ +AK +A Q
Sbjct: 6 GGSGSGKSTVAKKLAEQ 22
>gnl|CDD|236490 PRK09376, rho, transcription termination factor Rho; Provisional.
Length = 416
Score = 25.1 bits (56), Expect = 7.1
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 50 GPPGTGKTLLAKAVAN 65
PP GKT+L + +AN
Sbjct: 176 APPKAGKTVLLQNIAN 191
>gnl|CDD|213250 cd03283, ABC_MutS-like, ATP-binding cassette domain of MutS-like
homolog. The MutS protein initiates DNA mismatch
repair by recognizing mispaired and unpaired bases
embedded in duplex DNA and activating endo- and
exonucleases to remove the mismatch. Members of the
MutS family possess C-terminal domain with a conserved
ATPase activity that belongs to the ATP binding
cassette (ABC) superfamily. MutS homologs (MSH) have
been identified in most prokaryotic and all eukaryotic
organisms examined. Prokaryotes have two homologs
(MutS1 and MutS2), whereas seven MSH proteins (MSH1 to
MSH7) have been identified in eukaryotes. The homodimer
MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are
primarily involved in mitotic mismatch repair, whereas
MSH4-MSH5 is involved in resolution of Holliday
junctions during meiosis. All members of the MutS
family contain the highly conserved Walker A/B ATPase
domain, and many share a common mechanism of action.
MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to
form sliding clamps, and recognition of specific DNA
structures or lesions results in ADP/ATP exchange.
Length = 199
Score = 25.0 bits (55), Expect = 7.3
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 18/63 (28%)
Query: 29 LTHPEYYEE------MGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQK 82
L HP E + ++ G+++ G +GK+ TFLR +G +I
Sbjct: 5 LGHPLIGREKRVANDIDMEKKNGILITGSNMSGKS------------TFLRTIGVNVILA 52
Query: 83 YLG 85
G
Sbjct: 53 QAG 55
>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta), together with SR-alpha, forms the
heterodimeric signal recognition particle (SRP).
Signal recognition particle receptor, beta subunit
(SR-beta). SR-beta and SR-alpha form the heterodimeric
signal recognition particle (SRP or SR) receptor that
binds SRP to regulate protein translocation across the
ER membrane. Nascent polypeptide chains are synthesized
with an N-terminal hydrophobic signal sequence that
binds SRP54, a component of the SRP. SRP directs
targeting of the ribosome-nascent chain complex (RNC)
to the ER membrane via interaction with the SR, which
is localized to the ER membrane. The RNC is then
transferred to the protein-conducting channel, or
translocon, which facilitates polypeptide translation
across the ER membrane or integration into the ER
membrane. SR-beta is found only in eukaryotes; it is
believed to control the release of the signal sequence
from SRP54 upon binding of the ribosome to the
translocon. High expression of SR-beta has been
observed in human colon cancer, suggesting it may play
a role in the development of this type of cancer.
Length = 202
Score = 25.0 bits (55), Expect = 7.4
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 46 VILYGPPGTGKT-LLAKAVANQTSATF 71
V+L GP +GKT L K + +T
Sbjct: 3 VLLLGPSDSGKTALFTKLTTGKVRSTV 29
>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain.
Length = 249
Score = 25.0 bits (55), Expect = 7.4
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 51 PPGTGKTLLAKAVAN 65
PP GKT L +++AN
Sbjct: 24 PPKAGKTTLLQSIAN 38
>gnl|CDD|238418 cd00820, PEPCK_HprK, Phosphoenolpyruvate carboxykinase (PEPCK), a
critical gluconeogenic enzyme, catalyzes the first
committed step in the diversion of tricarboxylic acid
cycle intermediates toward gluconeogenesis. It
catalyzes the reversible decarboxylation and
phosphorylation of oxaloacetate to yield
phosphoenolpyruvate and carbon dioxide, using a
nucleotide molecule (ATP or GTP) for the phosphoryl
transfer, and has a strict requirement for divalent
metal ions for activity. PEPCK's separate into two
phylogenetic groups based on their nucleotide substrate
specificity (the ATP-, and GTP-dependent
groups).HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of HPr and its
dephosphorylation by phosphorolysis. PEPCK and the
C-terminal catalytic domain of HprK/P are structurally
similar with conserved active site residues suggesting
that these two phosphotransferases have related
functions.
Length = 107
Score = 24.6 bits (53), Expect = 7.4
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 38 MGIKPPKGVILYGPPGTGKTLLA 60
+ + GV++ G G GKT LA
Sbjct: 10 VDVYGKVGVLITGDSGIGKTELA 32
>gnl|CDD|239390 cd03116, MobB, Molybdenum is an essential trace element in the
form of molybdenum cofactor (Moco) which is associated
with the metabolism of nitrogen, carbon and sulfur by
redox active enzymes. In E. coli, the synthesis of Moco
involves genes from several loci: moa, mob, mod, moe
and mog. The mob locus contains mobA and mobB genes.
MobB catalyzes the attachment of the guanine
dinucleotide to molybdopterin.
Length = 159
Score = 24.9 bits (55), Expect = 7.6
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRV 74
G G+GKT L + + SA LRV
Sbjct: 8 GYSGSGKTTLLEKLIPALSARGLRV 32
>gnl|CDD|226126 COG3598, RepA, RecA-family ATPase [DNA replication, recombination,
and repair].
Length = 402
Score = 25.3 bits (55), Expect = 7.6
Identities = 9/16 (56%), Positives = 9/16 (56%)
Query: 45 GVILYGPPGTGKTLLA 60
ILYG G GKT L
Sbjct: 91 VSILYGDSGVGKTTLL 106
>gnl|CDD|213202 cd03235, ABC_Metallic_Cations, ATP-binding cassette domain of the
metal-type transporters. This family includes
transporters involved in the uptake of various metallic
cations such as iron, manganese, and zinc. The ATPases
of this group of transporters are very similar to
members of iron-siderophore uptake family suggesting
that they share a common ancestor. The best
characterized metal-type ABC transporters are the
YfeABCD system of Y. pestis, the SitABCD system of
Salmonella enterica serovar Typhimurium, and the SitABCD
transporter of Shigella flexneri. Moreover other
uncharacterized homologs of these metal-type
transporters are mainly found in pathogens like
Haemophilus or enteroinvasive E. coli isolates.
Length = 213
Score = 25.2 bits (56), Expect = 7.6
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 9/64 (14%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATF--LRVVGSELIQKYLGDGPKLVRVALVP 97
+KP + + + GP G GK+ L KA+ T +RV G L ++ R+ VP
Sbjct: 22 VKPGEFLAIVGPNGAGKSTLLKAILGLLKPTSGSIRVFGKPLEKERK-------RIGYVP 74
Query: 98 EVRN 101
+ R+
Sbjct: 75 QRRS 78
>gnl|CDD|225913 COG3378, COG3378, Phage associated DNA primase [General function
prediction only].
Length = 517
Score = 25.1 bits (55), Expect = 7.7
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 44 KGVILYGPPGTGKTLLAKAVAN 65
K LYGP G GK+ ++N
Sbjct: 231 KLFWLYGPGGNGKSTFVDLISN 252
>gnl|CDD|177297 PHA00729, PHA00729, NTP-binding motif containing protein.
Length = 226
Score = 25.1 bits (55), Expect = 7.7
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 35 YEEMGIKPPKGVILYGPPGTGKTLLAKAVA 64
Y G +++G G+GKT A VA
Sbjct: 12 YNNNGFV---SAVIFGKQGSGKTTYALKVA 38
>gnl|CDD|218292 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 100
Score = 24.5 bits (54), Expect = 7.8
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 40 IKPPKGVILYGPPGTGKTLLA 60
+ K ++ G+GKTL A
Sbjct: 15 LLEKKRGLIVMATGSGKTLTA 35
>gnl|CDD|223487 COG0410, LivF, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 237
Score = 25.1 bits (56), Expect = 7.8
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 3/58 (5%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV--GSELIQKYLGDGPKLVRVALVPEVRN 101
V L G G GKT L K + R++ G ++ + +L +A VPE R
Sbjct: 32 VALLGRNGAGKTTLLKTIMGLVRPRSGRIIFDGEDITGLPPHERARL-GIAYVPEGRR 88
>gnl|CDD|145542 pfam02456, Adeno_IVa2, Adenovirus IVa2 protein. IVa2 protein can
interact with the adenoviral packaging signal and that
this interaction involves DNA sequences that have
previously been demonstrated to be required for
packaging. During the course of lytic infection, the
adenovirus major late promoter (MLP) is induced to high
levels after replication of viral DNA has started. IVa2
is a transcriptional activator of the major late
promoter.
Length = 370
Score = 25.0 bits (55), Expect = 7.8
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 38 MGIKPPKGVILYGPPGTGKTLL 59
G++P GV+ YGP G GK+ L
Sbjct: 83 YGLQPVIGVV-YGPTGCGKSQL 103
>gnl|CDD|227321 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 25.3 bits (56), Expect = 7.8
Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 10/59 (16%)
Query: 22 KESVELPLTHPEY-YEE---------MGIKPPKGVILYGPPGTGKTLLAKAVANQTSAT 70
+ +E+ L + + Y + + IK + L G G GK+ L + + T
Sbjct: 316 EPPIEISLENLSFRYPDGKPALSDLNLTIKAGQLTALVGASGAGKSTLLNLLLGFLAPT 374
>gnl|CDD|236134 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated.
Length = 394
Score = 25.3 bits (56), Expect = 7.9
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 50 GPPGTGKTLLAKAVA 64
GPPG+G+++ A+A A
Sbjct: 43 GPPGSGRSVAARAFA 57
>gnl|CDD|213209 cd03242, ABC_RecF, ATP-binding cassette domain of RecF. RecF is
a recombinational DNA repair ATPase that maintains
replication in the presence of DNA damage. When
replication is prematurely disrupted by DNA damage,
several recF pathway gene products play critical roles
processing the arrested replication fork, allowing it
to resume and complete its task. This CD represents the
nucleotide binding domain of RecF. RecF belongs to a
large superfamily of ABC transporters involved in the
transport of a wide variety of different compounds
including 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 with 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 = 270
Score = 25.0 bits (55), Expect = 8.1
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 27 LPLTHPEYYEEMGIK-PPKGVILYGPPGTGKTLLAKAV 63
L L + Y E+ ++ P +L G GKT L +A+
Sbjct: 4 LELRNFRNYAELELEFEPGVTVLVGENAQGKTNLLEAI 41
>gnl|CDD|236476 PRK09354, recA, recombinase A; Provisional.
Length = 349
Score = 25.1 bits (56), Expect = 8.3
Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 43 PKGVI--LYGPPGTGKTLLA-KAVAN 65
P+G I +YGP +GKT LA A+A
Sbjct: 58 PRGRIVEIYGPESSGKTTLALHAIAE 83
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 25.0 bits (55), Expect = 8.3
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 51 PPGTGKTLLAKAVA 64
PP GKT+L + +A
Sbjct: 141 PPRAGKTVLLQQIA 154
>gnl|CDD|215755 pfam00154, RecA, recA bacterial DNA recombination protein. RecA
is a DNA-dependent ATPase and functions in DNA repair
systems. RecA protein catalyzes an ATP-dependent DNA
strand-exchange reaction that is the central step in
the repair of dsDNA breaks by homologous recombination.
Length = 322
Score = 24.9 bits (55), Expect = 8.3
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 3/25 (12%)
Query: 43 PKGVI--LYGPPGTGKTLLA-KAVA 64
PKG I +YGP +GKT LA A+A
Sbjct: 50 PKGRIIEIYGPESSGKTTLALHAIA 74
>gnl|CDD|227341 COG5008, PilU, Tfp pilus assembly protein, ATPase PilU [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 375
Score = 25.1 bits (55), Expect = 8.4
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 9/69 (13%)
Query: 7 ALKKRGSLDVQIQEIKESV----ELPLTHPEYYEEMGIKPPKGVILYGPPGTGK-TLLAK 61
A +RG + ++ I+ + EL L PE +++ + VI+ G G+GK T +A
Sbjct: 89 AFYQRGLAGLVLRRIETKIPTFEELKL--PEVLKDLALAKRGLVIIVGATGSGKSTTMAA 146
Query: 62 AVA--NQTS 68
+ N+ S
Sbjct: 147 MIGYRNKNS 155
>gnl|CDD|233665 TIGR01978, sufC, FeS assembly ATPase SufC. SufC is part of the
SUF system, shown in E. coli to consist of six proteins
and believed to act in Fe-S cluster formation during
oxidative stress. SufC forms a complex with SufB and
SufD. SufC belongs to the ATP-binding cassette
transporter family (pfam00005) but is no longer thought
to be part of a transporter. The complex is reported as
cytosolic (PMID:12554644) or associated with the
membrane (PMID:11943156). The SUF system also includes
a cysteine desulfurase (SufS, enhanced by SufE) and a
probable iron-sulfur cluster assembly scaffold protein,
SufA [Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 243
Score = 24.9 bits (55), Expect = 8.4
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVA 64
+K + + GP G+GK+ L+K +A
Sbjct: 23 VKKGEIHAIMGPNGSGKSTLSKTIA 47
>gnl|CDD|163508 TIGR03796, NHLM_micro_ABC1, NHLM bacteriocin system ABC
transporter, peptidase/ATP-binding protein. This
protein describes a multidomain ABC transporter subunit
that is one of three protein families associated with
some regularity with a distinctive family of putative
bacteriocins. It includes a bacteriocin-processing
peptidase domain at the N-terminus. Model TIGR03793
describes a conserved propeptide region for this
bacteriocin family, unusual because it shows obvious
homology a region of the enzyme nitrile hydratase up to
the classic Gly-Gly cleavage motif. This family is
therefore predicted to be a subunit of a bacteriocin
processing and export system characteristic to this
system that we designate NHLM, Nitrile Hydratase Leader
Microcin [Transport and binding proteins, Amino acids,
peptides and amines, Cellular processes, Biosynthesis of
natural products].
Length = 710
Score = 25.3 bits (56), Expect = 8.4
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVA 64
++P + V L G G+GK+ +AK VA
Sbjct: 502 LQPGQRVALVGGSGSGKSTIAKLVA 526
>gnl|CDD|163593 TIGR03881, KaiC_arch_4, KaiC domain protein, PAE1156 family.
Members of this protein family are archaeal
single-domain KaiC_related proteins, homologous to the
Cyanobacterial circadian clock cycle protein KaiC, an
autokinase/autophosphorylase that has two copies of the
domain.
Length = 229
Score = 25.1 bits (55), Expect = 8.6
Identities = 10/19 (52%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 43 PKG--VILYGPPGTGKTLL 59
P+G V + G PGTGKT+
Sbjct: 18 PRGFFVAVTGEPGTGKTIF 36
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 25.1 bits (55), Expect = 8.6
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 5 YKALKKRGSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLA 60
+K+ + ++Q +++EL L K V+L P G GKT +
Sbjct: 188 FKSFIEHEGYELQE----KALELILR--------LEKRSLLVVLEAPTGYGKTEAS 231
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 25.1 bits (55), Expect = 8.7
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVA 64
IK V L GP G GKT + + VA
Sbjct: 29 IKQGTMVTLLGPSGCGKTTVLRLVA 53
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase.
The Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show
sequence conservation in the region between the Walker
A and B motifs (G1 and G3 box motifs), to the exclusion
of other GTPases. TrmE is ubiquitous in bacteria and is
a widespread mitochondrial protein in eukaryotes, but
is absent from archaea. The yeast member of TrmE
family, MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein
involved in cell division control. Era is characterized
by a distinct derivative of the KH domain (the
pseudo-KH domain) which is located C-terminal to the
GTPase domain. EngA and its orthologs are composed of
two GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct
GTPases, gave rise to this family.
Length = 161
Score = 24.9 bits (55), Expect = 8.7
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 48 LYGPPGTGKTLLAKAVANQTSA 69
++G P GK+ L A+ Q
Sbjct: 2 IFGRPNVGKSSLLNALLGQNVG 23
>gnl|CDD|237435 PRK13579, gcvT, glycine cleavage system aminomethyltransferase T;
Provisional.
Length = 370
Score = 24.9 bits (55), Expect = 8.9
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 76 GSELIQKYLGDGPKLVRVALVPEVR 100
G++ I L G RV L PE R
Sbjct: 272 GAKAILAALAKGASRRRVGLKPEGR 296
>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 = 24.6 bits (54), Expect = 9.4
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 44 KGVILYGPPGTGKTL 58
+ V+L P G+GKTL
Sbjct: 1 RDVLLAAPTGSGKTL 15
>gnl|CDD|216360 pfam01202, SKI, Shikimate kinase.
Length = 158
Score = 24.5 bits (54), Expect = 9.5
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 52 PGTGKTLLAKAVANQTSATFL 72
G GK+ + + +A F+
Sbjct: 1 MGAGKSTIGRLLAKALGLPFI 21
>gnl|CDD|226132 COG3604, FhlA, Transcriptional regulator containing GAF, AAA-type
ATPase, and DNA binding domains [Transcription / Signal
transduction mechanisms].
Length = 550
Score = 25.0 bits (55), Expect = 9.7
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V++ G GTGK L+A+A+
Sbjct: 249 VLIRGETGTGKELVARAI 266
>gnl|CDD|181676 PRK09165, PRK09165, replicative DNA helicase; Provisional.
Length = 497
Score = 24.8 bits (55), Expect = 9.8
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 39 GIKPPKGVILYGPPGTGKTLLAKAVA 64
G+ P +IL G P GKT LA +A
Sbjct: 213 GLHPSDLIILAGRPSMGKTALATNIA 238
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
0.315 0.136 0.388
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,250,981
Number of extensions: 447749
Number of successful extensions: 1074
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1073
Number of HSP's successfully gapped: 380
Length of query: 102
Length of database: 10,937,602
Length adjustment: 68
Effective length of query: 34
Effective length of database: 7,921,530
Effective search space: 269332020
Effective search space used: 269332020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.2 bits)