RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14655
(261 letters)
>gnl|CDD|238994 cd02037, MRP-like, MRP (Multiple Resistance and pH adaptation) is a
homologue of the Fer4_NifH superfamily. Like the other
members of the superfamily, MRP contains a ATP-binding
domain at the N-termini. It is found in bacteria as a
membrane-spanning protein and functions as a Na+/H+
antiporter.
Length = 169
Score = 174 bits (444), Expect = 4e-55
Identities = 69/178 (38%), Positives = 92/178 (51%), Gaps = 41/178 (23%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
+ S KGGVGKST VNLA A+ ++G+LDAD++GPSIP +
Sbjct: 4 VMSGKGGVGKSTVAVNLALALA--KLGYKVGLLDADIYGPSIPKM--------------- 46
Query: 62 IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT 121
WRG M M A+ + V WG D L ID PPGTGD
Sbjct: 47 ------------------------WRGPMKMGAIKQFLTDVDWGELDYLVIDMPPGTGDE 82
Query: 122 HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
HL+L Q+L ID A+I+T P ++L ++ MFKK+NIP+ G+V NM+ +CP C
Sbjct: 83 HLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFVCPHCGK 140
>gnl|CDD|223563 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 265
Score = 161 bits (410), Expect = 7e-49
Identities = 71/181 (39%), Positives = 103/181 (56%), Gaps = 9/181 (4%)
Query: 1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD----TPLLN 56
+ S KGGVGKST VNLA A+ K + +LDAD+ GPSIP ++ L + T LL
Sbjct: 61 AVTSGKGGVGKSTVAVNLAAAL--AQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLA 118
Query: 57 KDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPP 116
+ L + + G+K LS+ L I RGL+ +A+ +L V WG D + IDTPP
Sbjct: 119 GEALEPVIQHDGIKVLSILPLG--PVPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPP 176
Query: 117 GTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPS 176
GTGD +++Q + D +I+T P +L+ ++ M +K IPV G+V NM+ +CP
Sbjct: 177 GTGDADATVLQRI-PDGVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFICPR 235
Query: 177 C 177
C
Sbjct: 236 C 236
>gnl|CDD|183270 PRK11670, PRK11670, antiporter inner membrane protein; Provisional.
Length = 369
Score = 157 bits (400), Expect = 3e-46
Identities = 73/179 (40%), Positives = 115/179 (64%), Gaps = 3/179 (1%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
++S KGGVGKS+T VNLA A+ ++GILDAD++GPSIP ++ D + D
Sbjct: 112 VSSGKGGVGKSSTAVNLALALAA--EGAKVGILDADIYGPSIPTMLGAEDQRPTSPDGTH 169
Query: 61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
M P++ +G+ S+G L+T+ +A +WRG M +AL ++ + W D L +D PPGTGD
Sbjct: 170 MAPIMAHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTGD 229
Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
L+L QN+ + A+++T P ++L A++G MF+K+ +PV G+V NM+ +C +C H
Sbjct: 230 IQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMHICSNCGH 288
>gnl|CDD|204531 pfam10609, ParA, ParA/MinD ATPase like. This family contains
ATPases involved in plasmid partitioning. It also
contains the cytosolic Fe-S cluster assembling factor
NBP35 which is required for biogenesis and export of
both ribosomal subunits.
Length = 81
Score = 106 bits (268), Expect = 9e-30
Identities = 34/77 (44%), Positives = 51/77 (66%)
Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVM 167
D L ID PPGTGD HL+L Q+L +D A+I+T P ++L ++ MFKK+N+P+ G+V
Sbjct: 2 DYLLIDLPPGTGDEHLTLAQSLPVDGAVIVTTPQDVALLDVRKAIDMFKKVNVPILGVVE 61
Query: 168 NMNSVLCPSCNHMFELY 184
NM+ +CP C ++
Sbjct: 62 NMSYFVCPDCGEKIYIF 78
>gnl|CDD|223531 COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an
ATPase [Cell motility].
Length = 262
Score = 70.0 bits (172), Expect = 3e-14
Identities = 44/185 (23%), Positives = 77/185 (41%), Gaps = 33/185 (17%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-----LLN 56
+ S KGGVGK+T T NL A+ + ++DAD+ ++ +L+ + P +L
Sbjct: 7 VVSGKGGVGKTTITANLGAALAALGGKV-VLLIDADLGLGNLSLLLGVESKPTTLHDVLA 65
Query: 57 KD----NLMIPLVNYGVKCLSMGNLITEK---SAAIWRGLMVMQALNKLTVQVQWGPCDI 109
+ +++ G+ L G+ + + V++ L +L D
Sbjct: 66 GEASIEDIIYETPQDGLYVLPGGSGLEDLAKLDPEDLED--VIKELEEL--------YDY 115
Query: 110 LFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK-----KLNIPVAG 164
+ IDT G LS I L D +I+T P+ S+ A Y K L++
Sbjct: 116 ILIDTGAGLSRDTLSFI--LSSDELVIVTTPEPTSITDA---YKTIKILSKLGLDLLGRR 170
Query: 165 LVMNM 169
+V+N
Sbjct: 171 VVLNR 175
>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on
the inner membrane of the cell. This ATP-driven oxyanion
pump catalyzes the extrusion of arsenite, antimonite and
arsenate. Maintenance of a low intracellular
concentration of oxyanion produces resistance to the
toxic agents. The pump is composed of two subunits, the
catalytic ArsA subunit and the membrane subunit ArsB,
which are encoded by arsA and arsB genes respectively.
Arsenic efflux in bacteria is catalyzed by either ArsB
alone or by ArsAB complex. The ATP-coupled pump,
however, is more efficient. ArsA is composed of two
homologous halves, A1 and A2, connected by a short
linker sequence.
Length = 217
Score = 63.0 bits (154), Expect = 5e-12
Identities = 48/211 (22%), Positives = 87/211 (41%), Gaps = 31/211 (14%)
Query: 6 KGGVGKSTTTVNLATAMKICYPDKEIGIL-------DADVFGPSIPILMNLPDTPLLNKD 58
KGGVGK TT+ ATA+++ K++ ++ +D P++ + D +
Sbjct: 7 KGGVGK--TTIAAATAVRLAEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIA--P 62
Query: 59 NL----MIPLVNYGVKCLSMGNLITEKSAAIWRG---LMVMQALNKLTVQVQWGPCDILF 111
NL + G L+ E +AA+ G L + A+ + + + D++
Sbjct: 63 NLYREEVDATRRVERAWGGEGGLMLELAAAL-PGIEELASLLAVFREFSEGLY---DVIV 118
Query: 112 IDTPPGTGDTHLSLIQNLFID----TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVM 167
DT P TG T L++ L D + ++T+P+ + L +R T IPV +V+
Sbjct: 119 FDTAP-TGHTLRLLVRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVV 177
Query: 168 N----MNSVLCPSCNHMFELYENNLHQFEAK 194
N P ++ + L + E
Sbjct: 178 NRVLPAEVDDDPFLAARRQIQQKYLAEIEEL 208
>gnl|CDD|238993 cd02036, MinD, Bacterial cell division requires the formation of a
septum at mid-cell. The site is determined by the min
operon products MinC, MinD and MinE. MinC is a
nonspecific inhibitor of the septum protein FtsZ. MinE
is the supressor of MinC. MinD plays a pivotal role,
selecting the mid-cell over other sites through the
activation and regulation of MinC and MinE. MinD is a
membrane-associated ATPase, related to nitrogenase iron
protein. More distantly related proteins include
flagellar biosynthesis proteins and ParA chromosome
partitioning proteins. MinD is a monomer.
Length = 179
Score = 60.3 bits (147), Expect = 3e-11
Identities = 38/169 (22%), Positives = 69/169 (40%), Gaps = 50/169 (29%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
+ S KGGVGK+TTT NL TA+ ++ ++DAD+ ++ +++ L + +
Sbjct: 4 VTSGKGGVGKTTTTANLGTALAQL--GYKVVLIDADLGLRNLDLILGLENRVVYT----- 56
Query: 62 IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG-D 120
L + V+ D + ID+P G
Sbjct: 57 --LHD------------------------VLAG-------------DYILIDSPAGIERG 77
Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
++ D A+++T P+ SL+ A R + + L I V G+++N
Sbjct: 78 FITAI---APADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNR 123
>gnl|CDD|224113 COG1192, Soj, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 259
Score = 59.1 bits (143), Expect = 2e-10
Identities = 52/254 (20%), Positives = 93/254 (36%), Gaps = 45/254 (17%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
+A+ KGGVGK+TT VNLA A+ K++ ++D D G L PD + L
Sbjct: 7 VANQKGGVGKTTTAVNLAAALAK-RGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYNLLS 65
Query: 61 MIPLVNYGVKCLSM--------GNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFI 112
+ + + N+ + A I + + L K + D + I
Sbjct: 66 GLKERPDILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVKDDYDYIII 125
Query: 113 DTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN------IPVAGL 165
DTPP G T +L D +I P+ + L+ ++ + L + V G+
Sbjct: 126 DTPPSLGVLTLNALAAA---DHVLIPVQPEFLDLEGLEQLLNTLEDLLKLRRNKLIVVGI 182
Query: 166 VMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRN 225
++ +++ + + ++L G + IP R
Sbjct: 183 LITR--------------FDSRTKLA---DEVLQELKQLLGDPVLKTKIP--------RR 217
Query: 226 VAYGNSHGHGNTVH 239
VAY + G ++
Sbjct: 218 VAYREAAAEGKPLY 231
>gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal. This
model represents the archaeal branch of the MinD family.
MinD, a weak ATPase, works in bacteria with MinC as a
generalized cell division inhibitor and, through
interaction with MinE, prevents septum placement
inappropriate sites. Often several members of this
family are found in archaeal genomes, and the function
is uncharacterized. More distantly related proteins
include flagellar biosynthesis proteins and ParA
chromosome partitioning proteins. The exact roles of the
various archaeal MinD homologs are unknown.
Length = 251
Score = 56.7 bits (137), Expect = 2e-09
Identities = 46/176 (26%), Positives = 80/176 (45%), Gaps = 21/176 (11%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
IAS KGG GK+T T NL A+ K++ LDAD+ ++ +++ + D P+ D L
Sbjct: 5 IASGKGGTGKTTITANLGVALAKL--GKKVLALDADITMANLELILGMEDKPVTLHDVLA 62
Query: 61 -------MIPLVNYGVKCLSMG-NLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFI 112
I +GVK + G +L + A + V++ + T D L I
Sbjct: 63 GEADIKDAIYEGPFGVKVIPAGVSLEGLRKADPDKLEDVLKEIIDDT--------DFLLI 114
Query: 113 DTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMN 168
D P G ++ + D +++ P+ S+ A + + +KL + G+V+N
Sbjct: 115 DAPAGLERDAVTAL--AAADELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLN 168
>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is unkown.
It contains nucleotide binding site. It uses NTP as
energy source to transfer electron or ion.
Length = 179
Score = 54.9 bits (133), Expect = 2e-09
Identities = 41/172 (23%), Positives = 70/172 (40%), Gaps = 29/172 (16%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMN-----LPDTPLLN 56
+ S KGG GK+T T LA + K + + D DV P++ + + D +
Sbjct: 4 VISGKGGTGKTTVTAALAALL------KNVVLADCDVDAPNLHLFLKPEIEEEEDFIVGG 57
Query: 57 KDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPP 116
K ++ P + C G L+TE + +++ ID PP
Sbjct: 58 KKAVIDPELCIS--CGLCGKLVTEVR-------------KHAKEIAKAEGAELIIIDGPP 102
Query: 117 GTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMN 168
G G ++ + D A+++T P L +R + + IPV G+V+N
Sbjct: 103 GIGCPVIASLTG--ADAALLVTEPTPSGLHDLERAVELVRHFGIPV-GVVIN 151
>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain.
This family consists of various cobyrinic acid
a,c-diamide synthases. These include CbiA and CbiP from
S.typhimurium, and CobQ from R. capsulatus. These
amidases catalyze amidations to various side chains of
hydrogenobyrinic acid or cobyrinic acid a,c-diamide in
the biosynthesis of cobalamin (vitamin B12) from
uroporphyrinogen III. Vitamin B12 is an important
cofactor and an essential nutrient for many plants and
animals and is primarily produced by bacteria. The
family also contains dethiobiotin synthetases as well as
the plasmid partitioning proteins of the MinD/ParA
family.
Length = 217
Score = 50.9 bits (122), Expect = 1e-07
Identities = 42/188 (22%), Positives = 74/188 (39%), Gaps = 29/188 (15%)
Query: 1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
IA +KGGVGK+T NLA A+ + ++D D + L + + + +
Sbjct: 2 AIAGTKGGVGKTTLAANLARALAKR--GYRVLLIDLDPQANNSSYLGKVEEVLPEGLEIV 59
Query: 61 ----------------MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQW 104
+ + LS+ N +E R + AL L
Sbjct: 60 DAQALQAIAAAIVPSRNLDPLLLIPSNLSLENFESELIVEGKRESRLRAALESLIKLA-- 117
Query: 105 GPCDILFIDTPPGTGDTHLSLIQNLFI--DTAIIITIPDTMSLQVAQRGYTMFKKLNIP- 161
D + ID PPG G+ L N + D ++ P+ ++++ AQR + + L +
Sbjct: 118 --YDYVIIDGPPGLGE----LTANALVAADILVVPIEPEGVAVEGAQRLLELIEDLGVLD 171
Query: 162 VAGLVMNM 169
+ G+V+N
Sbjct: 172 ILGVVLNK 179
>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 50.4 bits (121), Expect = 2e-07
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 4/75 (5%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
+AS KGG GK+T NLA + Y ++ + D DV P++ +L+ +
Sbjct: 6 VASGKGGTGKTTVAANLAVLLGDKY---KLVLADCDVEAPNLHLLLGVEVLEEEEVIRGE 62
Query: 62 IPLVNYGVKCLSMGN 76
IP ++ KC+ G
Sbjct: 63 IPEIDPE-KCIRCGK 76
Score = 40.0 bits (94), Expect = 6e-04
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 107 CDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLV 166
D+L ID+ GTG ++ ++ D AI++T P L +R + + IP G+V
Sbjct: 164 ADLLIIDSAAGTGCPVIASLKG--ADLAILVTEPTPFGLHDLKRALELVEHFGIPT-GIV 220
Query: 167 MN 168
+N
Sbjct: 221 IN 222
>gnl|CDD|238997 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to
a conserved family of bacterial proteins implicated in
chromosome segregation. ParB binds to DNA sequences
adjacent to the origin of replication and localizes to
opposite cell poles shortly following the initiation of
DNA replication. ParB regulates the ParA ATPase
activity by promoting nucleotide exchange in a fashion
reminiscent of the exchange factors of eukaryotic G
proteins. ADP-bound ParA binds single-stranded DNA,
whereas the ATP-bound form dissociates ParB from its
DNA binding sites. Increasing the fraction of ParA-ADP
in the cell inhibits cell division, suggesting that
this simple nucleotide switch may regulate cytokinesis.
ParA shares sequence similarity to a conserved and
widespread family of ATPases which includes the repA
protein of the repABC operon in R. etli Sym plasmid.
This operon is involved in the plasmid replication and
partition.
Length = 104
Score = 43.3 bits (103), Expect = 7e-06
Identities = 17/36 (47%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
+A+ KGGVGK+TT VNLA A+ K + ++D D
Sbjct: 4 VANQKGGVGKTTTAVNLAAAL--ARRGKRVLLIDLD 37
Score = 26.8 bits (60), Expect = 5.9
Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 7/66 (10%)
Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQR---GYTMFKKLN--IPV 162
D + IDTPP G + + D +I P + L ++ + +LN + +
Sbjct: 41 DYIIIDTPPSLGLLTRNAL--AAADLVLIPVQPSPLDLDGLEKLLETLILEDRLNPDLDI 98
Query: 163 AGLVMN 168
G++
Sbjct: 99 LGILPT 104
>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety
of proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion.
Length = 99
Score = 42.4 bits (100), Expect = 2e-05
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF---GPSIPILMNLPDTPLLNKDNL 60
+ KGGVGK+T NLA A+ K + ++D V P + +L+ L LL D +
Sbjct: 5 TGKGGVGKTTLAANLAAALA--KRGKRVLLIDDYVLIDTPPGLGLLVLLCLLALLAADLV 62
Query: 61 MIPL 64
+I
Sbjct: 63 IIVT 66
Score = 41.2 bits (97), Expect = 4e-05
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 108 DILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL---NIPVA 163
D + IDTPPG G L L+ L D II+T P+ +++ A+R + +L +
Sbjct: 35 DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEALAVLGARRLTEVVLELAIEGLRPV 94
Query: 164 GLVMN 168
G+V+N
Sbjct: 95 GVVVN 99
>gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD. This
model describes the bacterial and chloroplast form of
MinD, a multifunctional cell division protein that
guides correct placement of the septum. The homologous
archaeal MinD proteins, with many archaeal genomes
having two or more forms, are described by a separate
model [Cellular processes, Cell division].
Length = 261
Score = 43.5 bits (103), Expect = 4e-05
Identities = 20/42 (47%), Positives = 27/42 (64%), Gaps = 5/42 (11%)
Query: 2 IASSKGGVGKSTTTVNLATAM-----KICYPDKEIGILDADV 38
I S KGGVGK+TTT NL TA+ K+ D +IG+ + D+
Sbjct: 6 ITSGKGGVGKTTTTANLGTALARLGKKVVLIDADIGLRNLDL 47
>gnl|CDD|225447 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell
division and chromosome partitioning].
Length = 272
Score = 43.0 bits (102), Expect = 5e-05
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 5/42 (11%)
Query: 2 IASSKGGVGKSTTTVNLATAM-----KICYPDKEIGILDADV 38
+ S KGGVGK+TTT N+ TA+ K+ D +IG+ + D+
Sbjct: 7 VTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDIGLRNLDL 48
>gnl|CDD|132063 TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-CTERM locus
tyrosine autokinase. Members of this protein family
are related to a known protein-tyrosine autokinase and
to numerous homologs from exopolysaccharide
biosynthesis region proteins, many of which are
designated as chain length determinants. Most members
of this family contain a short region, immediately
C-terminal to the region modeled here, with an
abundance of Tyr residues. These C-terminal tyrosine
residues are likely to be autophosphorylation sites.
Some members of this family are fusion proteins.
Length = 207
Score = 41.1 bits (97), Expect = 2e-04
Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL 55
M+ SS G GKS T +NLA ++ Y DK + ++DAD+ PS+ + L P L
Sbjct: 39 MVTSSLPGEGKSFTAINLAISLAQEY-DKTVLLIDADLRRPSLHRTLGLEAEPGL 92
>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily.
It shares the common function as an ATPase, with the
ATP-binding domain at the N-terminus. In Pseudomonas
aeruginosa, FleN gene is involved in regulating the
number of flagella and chemotactic motility by
influencing FleQ activity.
Length = 139
Score = 39.4 bits (93), Expect = 3e-04
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN 159
D + IDT G D L L D I++T P+ S+ A Y + KKL
Sbjct: 46 DYIIIDTGAGISDNVLDF--FLAADEVIVVTTPEPTSITDA---YALIKKLA 92
Score = 38.7 bits (91), Expect = 7e-04
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
+ S KGGVGK+ + NLA A+ K + +LDAD
Sbjct: 4 VTSGKGGVGKTNISANLALALAKL--GKRVLLLDAD 37
>gnl|CDD|214385 CHL00175, minD, septum-site determining protein; Validated.
Length = 281
Score = 37.8 bits (88), Expect = 0.003
Identities = 44/169 (26%), Positives = 72/169 (42%), Gaps = 38/169 (22%)
Query: 1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
+I S KGGVGK+TTT NL M I + ++DAD+ ++ +L+ L + L ++
Sbjct: 19 VITSGKGGVGKTTTTANL--GMSIARLGYRVALIDADIGLRNLDLLLGLENRVLYTAMDV 76
Query: 61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQA-------------LNKLTVQVQWGPC 107
+ G L LI +K W+ L ++ +N L ++
Sbjct: 77 L-----EGECRLDQA-LIRDKR---WKNLSLLAISKNRQRYNVTRKNMNMLVDSLKNRGY 127
Query: 108 DILFIDTPPGTGDTHLSLIQNLFI------DTAIIITIPDTMSLQVAQR 150
D + ID P G I FI AI++T P+ +++ A R
Sbjct: 128 DYILIDCPAG--------IDVGFINAIAPAQEAIVVTTPEITAIRDADR 168
>gnl|CDD|239034 cd02117, NifH_like, This family contains the NifH (iron protein)
of nitrogenase, L subunit (BchL/ChlL) of the
protochlorophyllide reductase and the BchX subunit of
the Chlorophyllide reductase. Members of this family
use energey from ATP hydrolysis and transfer electrons
through a Fe4-S4 cluster to other subunit for reduction
of substrate.
Length = 212
Score = 36.0 bits (84), Expect = 0.011
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ NL+ A+
Sbjct: 8 KGGIGKSTTSQNLSAAL 24
>gnl|CDD|234188 TIGR03371, cellulose_yhjQ, cellulose synthase operon protein YhjQ.
Members of this family are the YhjQ protein, found
immediately upsteam of bacterial cellulose synthase
(bcs) genes in a broad range of bacteria, including both
copies of the bcs locus in Klebsiella pneumoniae. In
several species it is seen clearly as part of the bcs
operon. It is identified as a probable component of the
bacterial cellulose metabolic process not only by gene
location, but also by partial phylogenetic profiling, or
Haft-Selengut algorithm (PMID:16930487), based on a
bacterial cellulose biosynthesis genome property
profile. Cellulose plays an important role in biofilm
formation and structural integrity in some bacteria.
Mutants in yhjQ in Escherichia coli, show altered
morphology an growth, but the function of YhjQ has not
yet been determined [Cell envelope, Biosynthesis and
degradation of surface polysaccharides and
lipopolysaccharides].
Length = 246
Score = 35.4 bits (82), Expect = 0.019
Identities = 36/156 (23%), Positives = 57/156 (36%), Gaps = 30/156 (19%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV-------FGPSIPI--------L 46
I S +GGVGK+T T NLA+A+K+ + + +D D FG + L
Sbjct: 6 IVSVRGGVGKTTLTANLASALKL--LGEPVLAIDLDPQNLLRLHFGMDWSVRDGWARALL 63
Query: 47 MNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGP 106
P + + + YG + + A W L +L Q+
Sbjct: 64 NGEPWAAAAYRSPDGVLFLPYG-DLSADEREAYQAHDAGW--------LARLLQQLDLAA 114
Query: 107 CDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPD 141
D + ID P G T +L D +++ D
Sbjct: 115 RDWVLIDLPRGPSPITRQALAAA---DLVLVVVNAD 147
>gnl|CDD|239385 cd03111, CpaE_like, This protein family consists of proteins
similar to the cpaE protein of the Caulobacter pilus
assembly and the orf4 protein of Actinobacillus pilus
formation gene cluster. The function of these proteins
are unkown. The Caulobacter pilus assembly contains 7
genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF.
These genes are clustered together on chromosome.
Length = 106
Score = 33.5 bits (77), Expect = 0.023
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 2 IASSKGGVGKSTTTVNLATAM 22
+KGGVG +T NLA A+
Sbjct: 4 FIGAKGGVGATTLAANLAVAL 24
>gnl|CDD|238996 cd02040, NifH, NifH gene encodes component II (iron protein) of
nitrogenase. Nitrogenase is responsible for the
biological nitrogen fixation, i.e. reduction of
molecular nitrogen to ammonia. NifH consists of two
oxygen-sensitive metallosulfur proteins: the
mollybdenum-iron (alternatively, vanadium-iron or
iron-iron) protein (commonly referred to as component
1), and the iron protein (commonly referred to as
component 2). The iron protein is a homodimer, with an
Fe4S4 cluster bound between the subunits and two
ATP-binding domains. It supplies energy by ATP
hydrolysis, and transfers electrons from reduced
ferredoxin or flavodoxin to component 1 for the
reduction of molecular nitrogen to ammonia.
Length = 270
Score = 34.9 bits (81), Expect = 0.026
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTTT NL+ A+
Sbjct: 9 KGGIGKSTTTQNLSAAL 25
>gnl|CDD|224267 COG1348, NifH, Nitrogenase subunit NifH (ATPase) [Inorganic ion
transport and metabolism].
Length = 278
Score = 34.6 bits (80), Expect = 0.032
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ NLA A+
Sbjct: 9 KGGIGKSTTSQNLAAAL 25
>gnl|CDD|130348 TIGR01281, DPOR_bchL, light-independent protochlorophyllide
reductase, iron-sulfur ATP-binding protein. The BchL
peptide (ChlL in chloroplast and cyanobacteria) is an
ATP-binding iron-sulfur protein of the dark form
protochlorophyllide reductase, an enzyme similar to
nitrogenase. This subunit resembles the nitrogenase
NifH subunit [Biosynthesis of cofactors, prosthetic
groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 268
Score = 34.4 bits (79), Expect = 0.038
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ NL+ A
Sbjct: 8 KGGIGKSTTSSNLSVAF 24
>gnl|CDD|237293 PRK13185, chlL, protochlorophyllide reductase iron-sulfur
ATP-binding protein; Provisional.
Length = 270
Score = 34.2 bits (79), Expect = 0.042
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ NL+ A
Sbjct: 10 KGGIGKSTTSSNLSAAF 26
>gnl|CDD|223082 COG0003, ArsA, Predicted ATPase involved in chromosome partitioning
[Cell division and chromosome partitioning].
Length = 322
Score = 34.3 bits (79), Expect = 0.044
Identities = 38/194 (19%), Positives = 70/194 (36%), Gaps = 44/194 (22%)
Query: 6 KGGVGKSTTTVNLATAMKICYPDKEIGI-LD-----ADVFGPSIP-----ILMNLP---- 50
KGGVGK+T A + K + + D DVF + + NL
Sbjct: 10 KGGVGKTTIAAATAVKLAE-SGKKVLLVSTDPAHSLGDVFDLELGHDPRKVGPNLDALEL 68
Query: 51 DTPLLNKDNLMIPLVNYGVKCLSMGNL--ITEKSAAIWRGL---MVMQALNKLTVQVQWG 105
D ++ + +Y + L L I A G+ + + + + V ++
Sbjct: 69 DPEKALEEYWDE-VKDYLARLLRTRGLGGIYADELATLPGIDEALALLKILEYYVSGEY- 126
Query: 106 PCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN------ 159
D++ +DT P TG T L L+ +P+ + + + K++
Sbjct: 127 --DVIVVDTAP-TGHT-LRLLS-----------LPEVLGWYLEKLFKPRRKRMVKALKSL 171
Query: 160 IPVAGLVMNMNSVL 173
AG + ++VL
Sbjct: 172 STAAGSPLPDDAVL 185
Score = 31.9 bits (73), Expect = 0.29
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 136 IITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMN 168
+++IP+ +SL +R IPV +++N
Sbjct: 212 LVSIPEKLSLYETKRAVERLSLYGIPVDAVIVN 244
>gnl|CDD|233343 TIGR01287, nifH, nitrogenase iron protein. This model describes
nitrogenase (EC 1.18.6.1) iron protein, also called
nitrogenase reductase or nitrogenase component II. This
model includes molybdenum-iron nitrogenase reductase
(nifH), vanadium-iron nitrogenase reductase (vnfH), and
iron-iron nitrogenase reductase (anfH). The model
excludes the homologous protein from the
light-independent protochlorophyllide reductase
[Central intermediary metabolism, Nitrogen fixation].
Length = 275
Score = 33.9 bits (78), Expect = 0.053
Identities = 12/17 (70%), Positives = 15/17 (88%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTTT N+A A+
Sbjct: 8 KGGIGKSTTTQNIAAAL 24
>gnl|CDD|201032 pfam00142, Fer4_NifH, 4Fe-4S iron sulfur cluster binding
proteins, NifH/frxC family.
Length = 272
Score = 33.9 bits (78), Expect = 0.059
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTTT N + A+
Sbjct: 8 KGGIGKSTTTQNTSAAL 24
>gnl|CDD|238989 cd02032, Bchl_like, This family of proteins contains bchL and
chlL. Protochlorophyllide reductase catalyzes the
reductive formation of chlorophyllide from
protochlorophyllide during biosynthesis of chlorophylls
and bacteriochlorophylls. Three genes, bchL, bchN and
bchB, are involved in light-independent
protochlorophyllide reduction in bacteriochlorophyll
biosynthesis. In cyanobacteria, algae, and gymnosperms,
three similar genes, chlL, chlN and chlB are involved
in protochlorophyllide reduction during chlorophylls
biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB
exhibit significant sequence similarity to the nifH,
nifD and nifK subunits of nitrogenase, respectively.
Nitrogenase catalyzes the reductive formation of
ammonia from dinitrogen.
Length = 267
Score = 33.5 bits (77), Expect = 0.073
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ NL+ A+
Sbjct: 8 KGGIGKSTTSSNLSVAL 24
>gnl|CDD|220125 pfam09140, MipZ, ATPase MipZ. MipZ is an ATPase that forms a
complex with the chromosome partitioning protein ParB
near the chromosomal origin of replication. It is
responsible for the temporal and spatial regulation of
FtsZ ring formation.
Length = 262
Score = 33.5 bits (77), Expect = 0.083
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 2 IASSKGGVGKSTTTVNLATAM 22
+ + KGG GKSTT V++A A+
Sbjct: 5 VGNEKGGSGKSTTAVHVAVAL 25
>gnl|CDD|183905 PRK13233, nifH, nitrogenase reductase; Reviewed.
Length = 275
Score = 33.6 bits (77), Expect = 0.083
Identities = 17/32 (53%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 6 KGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
KGG+GKSTTT N A AM + DK++ I D
Sbjct: 10 KGGIGKSTTTQNTAAAMAY-FHDKKVFIHGCD 40
>gnl|CDD|222264 pfam13614, AAA_31, 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 = 145
Score = 30.7 bits (70), Expect = 0.33
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNL 49
S GG GK+T +NLA ++ ++ LD + + + + + L
Sbjct: 7 SPVGGEGKTTFALNLAQSLAEE--GPKVLYLDLEEYSGDLALFLGL 50
>gnl|CDD|182756 PRK10818, PRK10818, cell division inhibitor MinD; Provisional.
Length = 270
Score = 31.4 bits (71), Expect = 0.33
Identities = 40/162 (24%), Positives = 72/162 (44%), Gaps = 24/162 (14%)
Query: 1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
++ S KGGVGK+T++ +AT + K+ ++D D+ ++ ++M + + N+
Sbjct: 6 VVTSGKGGVGKTTSSAAIATGL--AQKGKKTVVIDFDIGLRNLDLIMGCERRVVYDFVNV 63
Query: 61 M---IPLVNYGVKCLSMGNLIT-------EKSAAIWRGLMVMQALNKLTVQVQWGPCDIL 110
+ L +K NL +K A G V + L+ L + +
Sbjct: 64 IQGDATLNQALIKDKRTENLYILPASQTRDKDALTREG--VAKVLDDLKAM----DFEFI 117
Query: 111 FIDTPPG--TGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQR 150
D+P G TG +L+ F D AII T P+ S++ + R
Sbjct: 118 VCDSPAGIETG----ALMALYFADEAIITTNPEVSSVRDSDR 155
>gnl|CDD|222854 PHA02518, PHA02518, ParA-like protein; Provisional.
Length = 211
Score = 30.2 bits (68), Expect = 0.73
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 2 IASSKGGVGKSTTTVNLA 19
+ + KGG GK+T NLA
Sbjct: 5 VLNQKGGAGKTTVATNLA 22
>gnl|CDD|183904 PRK13231, PRK13231, nitrogenase reductase-like protein; Reviewed.
Length = 264
Score = 30.2 bits (68), Expect = 0.90
Identities = 49/181 (27%), Positives = 76/181 (41%), Gaps = 24/181 (13%)
Query: 6 KGGVGKSTTTVNLATA-------MKI-CYPDKEIGILDADVFGPSIP-ILMNLPDTPLLN 56
KGG+GKSTT N+A A + I C P + + G IP +L L D
Sbjct: 10 KGGIGKSTTVSNMAAAYSNDHRVLVIGCDPKADT---TRTLCGKRIPTVLDTLKDNRKPE 66
Query: 57 KDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMV-MQALNKLTVQVQWGPCDILFIDTP 115
++++ N G+ C+ G A RG++V M L L V + D++ D
Sbjct: 67 LEDIIHEGFN-GILCVESGGPEPGVGCA-GRGVIVAMNLLENLGVFDE--DIDVVIYDV- 121
Query: 116 PGTGDT---HLSL-IQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS 171
GD S+ ++ + D I+T + MSL A KKL + G++ N
Sbjct: 122 --LGDVVCGGFSVPLREDYADEVYIVTSGEYMSLYAANNIARGIKKLKGKLGGIICNCRG 179
Query: 172 V 172
+
Sbjct: 180 I 180
>gnl|CDD|183903 PRK13230, PRK13230, nitrogenase reductase-like protein; Reviewed.
Length = 279
Score = 30.1 bits (68), Expect = 0.98
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT N+A A+
Sbjct: 9 KGGIGKSTTVCNIAAAL 25
>gnl|CDD|183482 PRK12377, PRK12377, putative replication protein; Provisional.
Length = 248
Score = 29.4 bits (66), Expect = 1.6
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 4/33 (12%)
Query: 116 PGTGDTHLSL-IQNLFI---DTAIIITIPDTMS 144
PGTG HL+ I N + + I++T+PD MS
Sbjct: 110 PGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMS 142
>gnl|CDD|177011 CHL00072, chlL, photochlorophyllide reductase subunit L.
Length = 290
Score = 29.3 bits (66), Expect = 2.0
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ N++ A+
Sbjct: 8 KGGIGKSTTSCNISIAL 24
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 29.4 bits (66), Expect = 2.0
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 103 QWGPCDILFIDTPPGTGDTHLS 124
W P ++LF PPGTG T ++
Sbjct: 148 DWAPKNVLFYG-PPGTGKTMMA 168
>gnl|CDD|217004 pfam02374, ArsA_ATPase, Anion-transporting ATPase. This Pfam
family represents a conserved domain, which is
sometimes repeated, in an anion-transporting ATPase.
The ATPase is involved in the removal of arsenate,
antimonite, and arsenate from the cell.
Length = 304
Score = 29.2 bits (66), Expect = 2.0
Identities = 14/34 (41%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
KGGVGK TTV+ ATA+++ K++ ++ D
Sbjct: 7 GGKGGVGK--TTVSCATAVRLSEQGKKVLLVSTD 38
Score = 28.1 bits (63), Expect = 4.2
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 133 TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM---NSVLCPSCN 178
+ ++ IP+ MSL +R K I V +++N + CP C
Sbjct: 209 SFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQVLPETEQCPFCE 257
>gnl|CDD|129483 TIGR00388, glyQ, glycyl-tRNA synthetase, tetrameric type, alpha
subunit. This tetrameric form of glycyl-tRNA synthetase
(2 alpha, 2 beta) is found in the majority of completed
eubacterial genomes, with the two genes fused in a few
species. A substantially different homodimeric form (not
recognized by this model) replaces this form in the
Archaea, animals, yeasts, and some eubacteria [Protein
synthesis, tRNA aminoacylation].
Length = 293
Score = 29.0 bits (65), Expect = 2.4
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 180 MFELYENN-LHQFEAKNFLKSYERKLYGIHMWNFL-----IPLC---NLIIKIRNVAYGN 230
+F+ YE E L +YE L H +N L I + I++IRN+A G
Sbjct: 216 LFKQYEKEAQQLLENGLPLPAYEYVLKCSHSFNLLDARKAISVTERQRYILRIRNLAKGV 275
Query: 231 SH 232
+
Sbjct: 276 AE 277
>gnl|CDD|130080 TIGR01007, eps_fam, capsular exopolysaccharide family. This model
describes the capsular exopolysaccharide proteins in
bacteria. The exopolysaccharide gene cluster consists of
several genes which encode a number of proteins which
regulate the exoploysaccharide biosynthesis(EPS).
Atleast 13 genes espA to espM in streptococcus species
seem to direct the EPS proteins and all of which share
high homology. Functional roles were characterized by
gene disruption experiments which resulted in
exopolysaccharide-deficient phenotypes [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 204
Score = 28.6 bits (64), Expect = 2.6
Identities = 31/150 (20%), Positives = 49/150 (32%), Gaps = 39/150 (26%)
Query: 2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
I S K G GKSTT+ N+A A + ++D D+ + N +
Sbjct: 22 ITSVKPGEGKSTTSANIAVAF--AQAGYKTLLIDGDMRNSVMSGTFKSQ--------NKI 71
Query: 62 IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQA---------------LNKLTVQVQWGP 106
L N+ + + I + + L V+ + L ++
Sbjct: 72 TGLTNFLSGTTDLSDAICDTNI---ENLFVITSGPVPPNPTELLQSSNFKTL-IETLRKY 127
Query: 107 CDILFIDTPPGTGDTHLSLIQNLFIDTAII 136
D + IDTPP D AII
Sbjct: 128 FDYIIIDTPP----------IGTVTDAAII 147
>gnl|CDD|112575 pfam03768, Attacin_N, Attacin, N-terminal region. This family
includes attacin and sarcotoxin, but not diptericin
(which share similarity to the C-terminal region of
attacin). All members of this family are insect
antibacterial proteins which are induced by the fat body
and subsequently released into secreted into the
hemolymph where they act synergistically to kill the
invading microorganism.
Length = 66
Score = 26.9 bits (60), Expect = 2.8
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 223 IRNVAYGNSHGHGNTVHHHH 242
+A N++GHG ++ H
Sbjct: 47 TAGLALDNANGHGLSLTKTH 66
>gnl|CDD|106194 PRK13232, nifH, nitrogenase reductase; Reviewed.
Length = 273
Score = 28.8 bits (64), Expect = 3.0
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTTT NL A+
Sbjct: 9 KGGIGKSTTTQNLTAAL 25
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 28.5 bits (64), Expect = 3.1
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 92 MQALNKLTVQVQWGP-CDILFIDTPPGTGDTHLS------LIQNLFIDTAIIITIPDTMS 144
+AL L V++ + L + PPG G THL+ L++ + + IT PD +S
Sbjct: 89 KKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGI--SVLFITAPDLLS 146
Query: 145 -LQVAQRGYTMFKKLN 159
L+ A + +KL
Sbjct: 147 KLKAAFDEGRLEEKLL 162
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 28.5 bits (64), Expect = 3.3
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 8 GVGKSTTTVNLATAMKICYPDKEIGILDADVF 39
GVGK+TT LA + + K++ ++ D +
Sbjct: 205 GVGKTTTLAKLAARFVLEHGKKKVALITTDTY 236
>gnl|CDD|232932 TIGR00345, GET3_arsA_TRC40, transport-energizing ATPase,
TRC40/GET3/ArsA family. Members of this family are
ATPases that energize transport, although with different
partner proteins for different functions. Recent
findings show that TRC40 (GET3 in yeast) in involved in
the insertion of tail-anchored membrane proteins in
eukaryotes. A similar function is expected for members
of this family in archaea. However, the earliest
discovery of a function for this protein family is ArsA,
an arsenic resistance protein that partners with ArsB
(see pfam02040) for As(III) efflux [Hypothetical
proteins, Conserved].
Length = 284
Score = 28.6 bits (64), Expect = 3.5
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 3/61 (4%)
Query: 137 ITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM---NSVLCPSCNHMFELYENNLHQFEA 193
+ IP+ MSL ++R + K I V +++N + C +EL + L Q
Sbjct: 195 VVIPEKMSLYESERAHKELAKYGIKVDAVIVNQVLPENAQDEFCQARWELQQKYLKQIPE 254
Query: 194 K 194
K
Sbjct: 255 K 255
>gnl|CDD|238991 cd02034, CooC, The accessory protein CooC, which contains a
nucleotide-binding domain (P-loop) near the N-terminus,
participates in the maturation of the nickel center of
carbon monoxide dehydrogenase (CODH). CODH from
Rhodospirillum rubrum catalyzes the reversible
oxidation of CO to CO2. CODH contains a
nickel-iron-sulfur cluster (C-center) and an
iron-sulfur cluster (B-center). CO oxidation occurs at
the C-center. Three accessory proteins encoded by
cooCTJ genes are involved in nickel incorporation into
a nickel site. CooC functions as a nickel insertase
that mobilizes nickel to apoCODH using energy released
from ATP hydrolysis. CooC is a homodimer and has NTPase
activities. Mutation at the P-loop abolishs its
function.
Length = 116
Score = 27.2 bits (61), Expect = 3.7
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 1 MIASSKGGVGKSTTTVNLATAMK 23
+ + KGGVGK+T LA +
Sbjct: 2 IAITGKGGVGKTTIAALLARYLA 24
>gnl|CDD|234215 TIGR03453, partition_RepA, plasmid partitioning protein RepA.
Members of this family are the RepA (or ParA) protein
involved in replicon partitioning. All known examples
occur in bacterial species with two or more replicons,
on a plasmid or the smaller chromosome. Note that an
apparent exception may be seen as a pseudomolecule from
assembly of an incompletely sequenced genome. Members of
this family belong to a larger family that also includes
the enzyme cobyrinic acid a,c-diamide synthase, but
assignment of that name to members of this family would
be in error [Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 387
Score = 28.4 bits (64), Expect = 4.1
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA 148
D++ ID PP G LS L T ++IT+ M L V
Sbjct: 236 DVVVIDCPPQLGFLTLS---ALCAATGVLITVHPQM-LDVM 272
>gnl|CDD|185713 cd07903, Adenylation_DNA_ligase_IV, Adenylation domain of DNA
Ligase IV. ATP-dependent polynucleotide ligases
catalyze phosphodiester bond formation using nicked
nucleic acid substrates with the high energy nucleotide
of ATP as a cofactor in a three step reaction mechanism.
DNA ligases play a vital role in the diverse processes
of DNA replication, recombination and repair.
ATP-dependent ligases are present in many organisms such
as viruses, bacteriophages, eukarya, archaea and
bacteria. There are three classes of ATP-dependent DNA
ligase in eukaryotic cells (I, III and IV). DNA ligase
IV is required for DNA non-homologous end joining
pathways, including recombination of the V(D)J
immunoglobulin gene segments in cells of the mammalian
immune system. DNA ligase IV is stabilized by forming a
complex with XRCC4, a nuclear phosphoprotein, which is
phosphorylated by DNA-dependent protein kinase. DNA
ligases have a highly modular architecture consisting of
a unique arrangement of two or more discrete domains.
The adenylation and C-terminal
oligonucleotide/oligosaccharide binding (OB)-fold
domains comprise a catalytic core unit that is common to
all members of the ATP-dependent DNA ligase family. The
adenylation domain binds ATP and contains many of the
active-site residues. The common catalytic unit
comprises six conserved sequence motifs (I, III, IIIa,
IV, V and VI) that define this family of related
nucleotidyltransferases.
Length = 225
Score = 27.9 bits (63), Expect = 4.8
Identities = 21/94 (22%), Positives = 38/94 (40%), Gaps = 15/94 (15%)
Query: 94 ALNKLTVQVQWGPC----DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQ 149
A + PC DIL+++ G T+L L + + II IP + +
Sbjct: 119 AKLREVEDSDLQPCFVVFDILYLN---GKSLTNLPLHERKKLLEKIITPIPGRLEVVKRT 175
Query: 150 RGYT--MFKK-LNIPVA----GLVM-NMNSVLCP 175
T ++ LN + G+V+ +++S P
Sbjct: 176 EASTKEEIEEALNEAIDNREEGIVVKDLDSKYKP 209
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.1 bits (63), Expect = 5.1
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 8 GVGKSTTTVNLATAMKICYPDKEIGILDADVF 39
GVGK+TT LA + K++ I+ D +
Sbjct: 213 GVGKTTTLAKLAARYVMLKKKKKVAIITTDTY 244
>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain. This entry
represents the GTPase domain of the 54 kDa SRP54
component, a GTP-binding protein that interacts with the
signal sequence when it emerges from the ribosome. SRP54
of the signal recognition particle has a three-domain
structure: an N-terminal helical bundle domain, a GTPase
domain, and the M-domain that binds the 7s RNA and also
binds the signal sequence. The extreme C-terminal region
is glycine-rich and lower in complexity and poorly
conserved between species. The GTPase domain is
evolutionary related to P-loop NTPase domains found in a
variety of other proteins.
Length = 197
Score = 27.4 bits (62), Expect = 5.5
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 7/66 (10%)
Query: 107 CDILFIDTPPGTGDTHLSLIQNL-----FIDTAIIITIPDTMSLQVAQRGYTMFKKLNIP 161
D++ IDT G +L++ L I ++ + D + Q A F + +
Sbjct: 85 YDVVLIDT-AGRLHNDENLMEELKKIKRVIKPDEVLLVSDATTGQDAVEQAKAFNE-ALG 142
Query: 162 VAGLVM 167
+ G+++
Sbjct: 143 LTGIIL 148
Score = 27.4 bits (62), Expect = 6.7
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 8 GVGKSTTTVNLATAMKICYPDKEIGILDADVFGP 41
GVGK+TT LA +K+ K + ++ AD F
Sbjct: 11 GVGKTTTIAKLAARLKLKGGKK-VLLVAADTFRA 43
>gnl|CDD|237312 PRK13236, PRK13236, nitrogenase reductase; Reviewed.
Length = 296
Score = 27.3 bits (60), Expect = 7.4
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG+GKSTT+ N AM
Sbjct: 14 KGGIGKSTTSQNTLAAM 30
>gnl|CDD|238375 cd00733, GlyRS_alpha_core, Class II Glycyl-tRNA synthetase (GlyRS)
alpha subunit core catalytic domain. GlyRS functions as
a homodimer in eukaryotes, archaea and some bacteria and
as a heterotetramer in the remainder of prokaryotes and
in arabidopsis. It is responsible for the attachment of
glycine to the 3' OH group of ribose of the appropriate
tRNA. This domain is primarily responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. This alignment contains only
sequences from the GlyRS form which heterotetramerizes.
The homodimer form of GlyRS is in a different family of
class II aaRS. Class II assignment is based upon
structure and the presence of three characteristic
sequence motifs.
Length = 279
Score = 27.3 bits (61), Expect = 7.4
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 180 MFELYENN-LHQFEAKNFLKSYERKLYGIHMWNFL-----IPLC---NLIIKIRNVA 227
+FE YE E L +Y+ L H +N L I + I++IRN+A
Sbjct: 211 LFEDYEKEAKRLLELGLPLPAYDYVLKCSHTFNLLDARGAISVTERQRYILRIRNLA 267
>gnl|CDD|183907 PRK13235, nifH, nitrogenase reductase; Reviewed.
Length = 274
Score = 27.5 bits (61), Expect = 7.8
Identities = 10/12 (83%), Positives = 11/12 (91%)
Query: 6 KGGVGKSTTTVN 17
KGG+GKSTTT N
Sbjct: 9 KGGIGKSTTTQN 20
>gnl|CDD|217182 pfam02682, AHS1, Allophanate hydrolase subunit 1. This family is
the first subunit of allophanate hydrolase.
Length = 202
Score = 27.1 bits (61), Expect = 7.9
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 132 DTAIIITIPDTMSLQVAQRG---YTMFKKLNIP-VAGLVMNMNSVL 173
D A+++ D + L + +R + +P V +V S+L
Sbjct: 8 DRALLVEFGDEIDLALNRRVLALAAALRAAPLPGVVEVVPAYRSLL 53
>gnl|CDD|227298 COG4963, CpaE, Flp pilus assembly protein, ATPase CpaE
[Intracellular trafficking and secretion].
Length = 366
Score = 27.4 bits (61), Expect = 9.7
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 2 IASSKGGVGKSTTTVNLATAMKI 24
+KGGVG ST NLA + I
Sbjct: 109 FLGAKGGVGTSTLAHNLAKGLAI 131
>gnl|CDD|233686 TIGR02016, BchX, chlorophyllide reductase iron protein subunit X.
This model represents the X subunit of the
three-subunit enzyme, (bacterio)chlorophyllide
reductase. This enzyme is responsible for the reduction
of the chlorin B-ring and is closely related to the
protochlorophyllide reductase complex which reduces the
D-ring. Both of these complexes in turn are homologous
to nitrogenase. This subunit is homologous to the
nitrogenase component II, or "iron" protein [Energy
metabolism, Photosynthesis].
Length = 296
Score = 27.1 bits (60), Expect = 9.8
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 6 KGGVGKSTTTVNLATAM 22
KGG GKS TT NL+ M
Sbjct: 8 KGGSGKSFTTTNLSHMM 24
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.322 0.139 0.426
Gapped
Lambda K H
0.267 0.0889 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,004,787
Number of extensions: 1213255
Number of successful extensions: 1253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1237
Number of HSP's successfully gapped: 83
Length of query: 261
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 166
Effective length of database: 6,723,972
Effective search space: 1116179352
Effective search space used: 1116179352
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (25.8 bits)