RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780827|ref|YP_003065240.1| pantothenate kinase
[Candidatus Liberibacter asiaticus str. psy62]
(311 letters)
>gnl|CDD|30198 cd02025, PanK, Pantothenate kinase (PanK) catalyzes the
phosphorylation of pantothenic acid to form
4'-phosphopantothenic, which is the first of five steps
in coenzyme A (CoA) biosynthetic pathway. The reaction
carried out by this enzyme is a key regulatory point in
CoA biosynthesis..
Length = 220
Score = 289 bits (741), Expect = 6e-79
Identities = 130/223 (58%), Positives = 158/223 (70%), Gaps = 6/223 (2%)
Query: 85 VVGITGSVAVGKSTFARILCILLQ-QISNFKVSLITTDGFLFPNAVLTANNLMQRKGFPE 143
++GI GSVAVGKST AR+L LL + V LITTDGFL+PN L LM RKGFPE
Sbjct: 1 IIGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFLYPNKELIERGLMDRKGFPE 60
Query: 144 SYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVLQQNSL 203
SYD LL FL D+KSGKK V +P YSH YD++ GE T+ QPDIL+IEG+NVLQ
Sbjct: 61 SYDMEALLKFLKDIKSGKKNVKIPVYSHLTYDVIPGEKQTVDQPDILIIEGLNVLQ---- 116
Query: 204 SDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRETAFLNPRSYFHHFTEISEEQ 263
Q +SDF DFSIY+DAD+ DI +WY+ RFLKLRETAF +P SYFH + ++SEE+
Sbjct: 117 -TGQNPRLFVSDFFDFSIYVDADEDDIEKWYIKRFLKLRETAFSDPDSYFHRYAKMSEEE 175
Query: 264 SLKIAETAWNNINLPNLQHNILPTRKRADLILSKGEDHSVKTI 306
++ A W NINL NL+ NILPTR RADLIL KG DHS++ +
Sbjct: 176 AIAFAREVWKNINLKNLRENILPTRNRADLILEKGADHSIEEV 218
>gnl|CDD|31270 COG1072, CoaA, Panthothenate kinase [Coenzyme metabolism].
Length = 283
Score = 281 bits (721), Expect = 2e-76
Identities = 129/284 (45%), Positives = 174/284 (61%), Gaps = 9/284 (3%)
Query: 7 YHFFTSHEWA-VHSKFSSILSKKISNQLLSFDSPIDSTEIYKIYFPLSHLLLINVNSAKI 65
Y F+ +WA + + L+++ +L + PI E+ IY PLS LL + V + +
Sbjct: 6 YLIFSREQWAALRASTPLTLTEEELKRLRGLNEPISLDEVEDIYLPLSRLLQLYVEARER 65
Query: 66 TCHQYNKFLNLKEESKIPFVVGITGSVAVGKSTFARILCILLQQI-SNFKVSLITTDGFL 124
+ +FL + PF++GI GSVAVGKST ARIL LL + + KV L+T DGF
Sbjct: 66 LFAELLRFLG-TNNQQRPFIIGIAGSVAVGKSTTARILQALLSRWPESPKVDLVTMDGFH 124
Query: 125 FPNAVLTANNLMQRKGFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTI 184
+PNAVL LM RKGFPESYD LL FLSDVK+GK V P YSH YD + + +
Sbjct: 125 YPNAVLDERGLMARKGFPESYDVAALLRFLSDVKAGKPDVFAPVYSHLIYDPVPDAFQVV 184
Query: 185 IQPDILLIEGINVLQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRET 244
QPDIL++EG NVLQ + + +SDF DFSIY+DAD+ + Y+ RFLK T
Sbjct: 185 PQPDILIVEGNNVLQ------DGEPWLFLSDFFDFSIYVDADEELLEERYIERFLKFGLT 238
Query: 245 AFLNPRSYFHHFTEISEEQSLKIAETAWNNINLPNLQHNILPTR 288
AF +P SYFH++ +SE ++++ A W+NINL NL+ NILPTR
Sbjct: 239 AFEDPASYFHNYAPLSEREAIESARAIWDNINLLNLRENILPTR 282
>gnl|CDD|30917 COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism].
Length = 218
Score = 76.4 bits (188), Expect = 1e-14
Identities = 52/235 (22%), Positives = 93/235 (39%), Gaps = 39/235 (16%)
Query: 80 SKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTAN-NLMQR 138
+ ++GI G GK+T A+ L +Q+ KV +I+ D + + L
Sbjct: 5 PEKVIIIGIAGGSGSGKTTVAKELS---EQLGVEKVVVISLDDYYKDQSHLPFEERNKIN 61
Query: 139 KGFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQP--DILLIEGIN 196
PE++D + L+ L D+K GK V +P Y + + E +TI D++++EGI
Sbjct: 62 YDHPEAFDLDLLIEHLKDLKQGKP-VDLPVYDYKTHTR---EPETIKVEPNDVVIVEGIL 117
Query: 197 VLQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRETAFLNPRSYFHHF 256
+L + D +D I++D D + R ++ R R
Sbjct: 118 LLY----------DERLRDLMDLKIFVDTDADVRLIRRIKRDVQERG------RDLESVI 161
Query: 257 TEISEEQSLKIAETAWNNINLPNLQHNILPTRKRADLILSKGEDHSVKTIKIKKI 311
+ + P + I PT+K AD+I+ G + V ++
Sbjct: 162 EQ-------------YVKTVRPMYEQFIEPTKKYADIIIPSGGKNEVAVDLLQAK 203
>gnl|CDD|30196 cd02023, UMPK, Uridine monophosphate kinase (UMPK, EC 2.7.1.48),
also known as uridine kinase or uridine-cytidine kinase
(UCK), catalyzes the reversible phosphoryl transfer from
ATP to uridine or cytidine to yield UMP or CMP. In the
primidine nucleotide-salvage pathway, this enzyme
combined with nucleoside diphosphate kinases further
phosphorylates UMP and CMP to form UTP and CTP. This
kinase also catalyzes the phosphorylation of several
cytotoxic ribonucleoside analogs such as 5-flurrouridine
and cyclopentenyl-cytidine..
Length = 198
Score = 67.5 bits (165), Expect = 4e-12
Identities = 57/231 (24%), Positives = 99/231 (42%), Gaps = 53/231 (22%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKG---- 140
++GI G GK+T A + +Q+ N KV +I+ D + L+ L +RK
Sbjct: 1 IIGIAGGSGSGKTTVAEEII---EQLGNPKVVIISQDSYYKD---LSHEELEERKNNNYD 54
Query: 141 FPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVLQQ 200
P+++D + L++ L D+K+G K V +P Y + L+ E T+ D++++EGI L
Sbjct: 55 HPDAFDFDLLISHLQDLKNG-KSVEIPVYDFKTHSRLK-ETVTVYPADVIILEGILAL-- 110
Query: 201 NSLSDNQKATPMISDFLDFSIYIDADK-----RDIHRWYLNRFLKLRETAFLNPRSYFHH 255
+ D +D I++D D R I R
Sbjct: 111 --------YDKELRDLMDLKIFVDTDADVRLIRRIER----------------------- 139
Query: 256 FTEISEE-QSLKIAETAWNNINLPNLQHNILPTRKRADLILSKGEDHSVKT 305
+I E + L+ + P + I PT++ AD+I+ +G D+ V
Sbjct: 140 --DIVERGRDLESVINQYLKFVKPMHEQFIEPTKRYADVIIPRGGDNHVAI 188
>gnl|CDD|33963 COG4240, COG4240, Predicted kinase [General function prediction
only].
Length = 300
Score = 58.1 bits (140), Expect = 3e-09
Identities = 34/129 (26%), Positives = 57/129 (44%), Gaps = 15/129 (11%)
Query: 78 EESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNA---VLTANN 134
+E P +VGI+G GKST + ++ LL + + ++ D +A L
Sbjct: 45 QERGRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDLYLTHADRLRLARQV 104
Query: 135 --LMQRKGFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQP----- 187
L+Q +G P ++D L L+ + G V +PR+ S + G D Q
Sbjct: 105 NPLLQTRGLPGTHDPTLGLNVLNAIARGGPTVPLPRFDKSAF---AGAGDRAPQTQWIKF 161
Query: 188 --DILLIEG 194
DI+++EG
Sbjct: 162 EVDIVILEG 170
>gnl|CDD|109538 pfam00485, PRK, Phosphoribulokinase / Uridine kinase family. In
Arabidopsis the region carries two binding domains, a
phosphoribosylpyrophosphate-binding domain and, at the
very C-terminus, a uracil-binding domain.
Length = 196
Score = 50.8 bits (122), Expect = 4e-07
Identities = 38/161 (23%), Positives = 57/161 (35%), Gaps = 25/161 (15%)
Query: 85 VVGITGSVAVGKSTFAR----ILCIL-LQQISNFKVSLITTDGFLFPNAVLTANN--LMQ 137
++G+ GS GK+T AR I + S D F +
Sbjct: 1 IIGVAGSSGAGKTTVARTFVSIFGREGVPAAGIEGDSFHRYDRFYMDLHMEDRKRAGNNH 60
Query: 138 RKGF-PESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGIN 196
F PE+ D + L ++K G P Y+H + + I DIL IEG++
Sbjct: 61 YSFFSPEANDFDLLYEQFKELKEG-GSGDKPIYNHV-TGEADPWPELIEGADILFIEGLH 118
Query: 197 VLQQNSLSDNQKATPMISDFLDFSIYIDAD-----KRDIHR 232
L ++ LD IY+D D + I R
Sbjct: 119 GLYDER----------VAQLLDLKIYVDPDIDLELIQKIQR 149
>gnl|CDD|30201 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 = 44.1 bits (104), Expect = 4e-05
Identities = 36/146 (24%), Positives = 59/146 (40%), Gaps = 25/146 (17%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFPES 144
VVGI G GK+TFA+ L L +++ +I+ D + P T + F
Sbjct: 1 VVGIAGPSGSGKTTFAKKLSNQL-RVNGIGPVVISLDDYYVPR--KTPRDEDGNYDFESI 57
Query: 145 YDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGE---YDTIIQP--DILLIEGINVLQ 199
D + L L D+ +G K+V +P YD G+ Y + P ++++EGI L
Sbjct: 58 LDLDLLNKNLHDLLNG-KEVELP-----IYDFRTGKRRGYRKLKLPPSGVVILEGIYALN 111
Query: 200 QNSLSDNQKATPMISDFLDFSIYIDA 225
+ LD + +
Sbjct: 112 -----------ERLRSLLDIRVAVSG 126
>gnl|CDD|38089 KOG2878, KOG2878, KOG2878, Predicted kinase [General function
prediction only].
Length = 282
Score = 43.9 bits (103), Expect = 5e-05
Identities = 38/137 (27%), Positives = 57/137 (41%), Gaps = 28/137 (20%)
Query: 61 NSAKITCHQYNKFLN------LKEESKIPFVVGITGSVAVGKSTFARILCILLQQ--ISN 112
N K+T Q +FL+ K+ +P V+G +G GKST L L + I
Sbjct: 3 NELKLTIDQKARFLHKYIPVFFKDGDDVPLVIGFSGPQGSGKSTLVFALDYKLTKKYIQE 62
Query: 113 FKVSLITTDGFL------------FPNAVLTANNLMQRKGFPESYD---SNKLLTFLSDV 157
+ + I+ D F PN N L+Q +G ++D ++L LS +
Sbjct: 63 YSSATISVDDFYLTHEGQAELRKKNPN-----NALLQYRGLAGTHDLKLLVEVLNALSKL 117
Query: 158 KSGKKKVAVPRYSHSQY 174
KV VPRY S +
Sbjct: 118 TKDGLKVKVPRYDKSAF 134
>gnl|CDD|39404 KOG4203, KOG4203, KOG4203, Armadillo/beta-Catenin/plakoglobin
[Signal transduction mechanisms, Cytoskeleton].
Length = 473
Score = 43.4 bits (102), Expect = 8e-05
Identities = 55/236 (23%), Positives = 93/236 (39%), Gaps = 45/236 (19%)
Query: 79 ESKIPFVVGITGSVAVGKSTFARILCILLQQISNF----KVSLITTDGFLFPNAVLTANN 134
E K PFV+G+ G A GKST + L I +V L++ D F VLT+
Sbjct: 40 EGKEPFVIGVAGGTASGKSTVCEKIVEQLGAIERDGRQPQVVLLSQDSFY---KVLTSEE 96
Query: 135 LMQRK------GFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQP- 187
L + + P+++D L L ++K GK V +P Y + + E ++ P
Sbjct: 97 LAKAQEGKYNFDHPDAFDFELLYLTLKNLKKGKA-VEIPVYDFVTHS-RDEEKTIVVYPA 154
Query: 188 DILLIEGINVLQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRETAFL 247
D++++EGI + D +++D D + R +
Sbjct: 155 DVIILEGILAF----------YDERVRDLFTMKLFVDTDADVRLARRILRDI-------- 196
Query: 248 NPRSYFHHFTEISEEQSLKIAETAWNNINLPNLQHNILPTRKRADLILSKGEDHSV 303
I + ++ P + ILPT+K AD+I+ +G D+ V
Sbjct: 197 --VERGRDLESILTQ---------YSTFVKPAFEEFILPTKKYADVIIPRGGDNDV 241
>gnl|CDD|30199 cd02026, PRK, Phosphoribulokinase (PRK) is an enzyme involved in
the Benson-Calvin cycle in chloroplasts or
photosynthetic prokaryotes. This enzyme catalyzes the
phosphorylation of D-ribulose 5-phosphate to form
D-ribulose 1, 5-biphosphate, using ATP and NADPH
produced by the primary reactions of photosynthesis..
Length = 273
Score = 41.0 bits (96), Expect = 4e-04
Identities = 47/218 (21%), Positives = 86/218 (39%), Gaps = 49/218 (22%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGF--- 141
++G+ G GKSTF R L L S+ V++I D + + + RK
Sbjct: 1 IIGVAGDSGCGKSTFLRRLTSLF--GSDL-VTVICLDDYH-------SLDRKGRKETGIT 50
Query: 142 ---PESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVL 198
P + + + + L +K G+ + P Y+H I E I I++IEG++ L
Sbjct: 51 ALDPRANNFDLMYEQLKALKEGQA-IEKPIYNHVTGLIDPPEL--IKPTKIVVIEGLHPL 107
Query: 199 QQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRETAFLNPRSYFHHFTE 258
+ + LDFS+Y+D W + R + R H +
Sbjct: 108 ----------YDERVRELLDFSVYLDISDEVKFAWKIQRDMAERG----------HSLED 147
Query: 259 ISEEQSLKIAETAWNNINLPNLQHNILPTRKRADLILS 296
+ S++ + P+ + I P ++ AD+++
Sbjct: 148 V--LASIEARK--------PDFEAYIDPQKQYADVVIQ 175
>gnl|CDD|38518 KOG3308, KOG3308, KOG3308, Uncharacterized protein of the uridine
kinase family [Nucleotide transport and metabolism].
Length = 225
Score = 38.8 bits (90), Expect = 0.002
Identities = 40/202 (19%), Positives = 66/202 (32%), Gaps = 19/202 (9%)
Query: 80 SKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFP-NAVLTANNLMQR 138
S +VGI+G GK+T A+ L SLI D F P N + N +
Sbjct: 1 SMKTLIVGISGCTNSGKTTLAKSLHRFFP-----GCSLIHQDDFYKPENEIEVDYNNIDN 55
Query: 139 KGFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPD----ILLIEG 194
ES D K L ++ + R Y E I++I+G
Sbjct: 56 WDLLESLDMEKFLEKIATWLDSRHNAPEAREHLVSYANFEHYAQQFQIKAYKNHIVIIDG 115
Query: 195 INVLQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRETAFLNPRSYFH 254
+ D M++ Y +R R Y +T + +P + H
Sbjct: 116 FMIYNYKPQVDLFDRIIMLT-----LDYETCKRRREARTYYPPD----DTGYFDPVVWPH 166
Query: 255 HFTEISEEQSLKIAETAWNNIN 276
+ E + ++ + N +
Sbjct: 167 YEKNFEEARDRSRHDSLFLNGD 188
>gnl|CDD|37913 KOG2702, KOG2702, KOG2702, Predicted panthothenate kinase/uridine
kinase-related protein [Nucleotide transport and
metabolism, Coenzyme transport and metabolism].
Length = 323
Score = 36.6 bits (84), Expect = 0.010
Identities = 36/154 (23%), Positives = 55/154 (35%), Gaps = 20/154 (12%)
Query: 86 VGITGSVAVGKSTFARIL-------CILLQQISNFKVSLITTDGFLFPNAVLTA----NN 134
G+ G GKST + Q S ++ DGF L
Sbjct: 122 TGLAGRPGTGKSTRIAAVDNAWPVNVNKFAQESINIAIIVPMDGFHLSRRCLDLFKDPQT 181
Query: 135 LMQRKGFPESYDSNKLLTFLSDV-KSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIE 193
R+G P ++DSN L + K+ + VP + H+ D + + I+++E
Sbjct: 182 AHARRGAPWTFDSNLFLQLCKILKKTTIPDIYVPSFDHALGDPVPDDICVSKFTRIVILE 241
Query: 194 GINVL-QQNSLSDNQKATPMISDFLDFSIYIDAD 226
G +L Q + D I LD ID D
Sbjct: 242 GNYLLLDQENWKD-------IYKTLDDKYKIDVD 268
>gnl|CDD|30195 cd02022, DPCK, Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24)
catalyzes the phosphorylation of dephosphocoenzyme A
(dCoA) to yield CoA, which is the final step in CoA
biosynthesis..
Length = 179
Score = 34.0 bits (78), Expect = 0.047
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 85 VVGITGSVAVGKSTFARIL 103
++G+TG + GKST A++L
Sbjct: 1 IIGLTGGIGSGKSTVAKLL 19
>gnl|CDD|30586 COG0237, CoaE, Dephospho-CoA kinase [Coenzyme metabolism].
Length = 201
Score = 33.3 bits (76), Expect = 0.079
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 83 PFVVGITGSVAVGKSTFARIL 103
++G+TG + GKST A+IL
Sbjct: 2 MLIIGLTGGIGSGKSTVAKIL 22
>gnl|CDD|33398 COG3598, RepA, RecA-family ATPase [DNA replication, recombination,
and repair].
Length = 402
Score = 33.1 bits (75), Expect = 0.096
Identities = 29/170 (17%), Positives = 59/170 (34%), Gaps = 16/170 (9%)
Query: 51 PLSHLLLINVNSAKITCHQYNKFL---NLKEESKIPFVVGITGSVAVGKSTFARILCILL 107
I V + + ++++ + E + +V + G VGK+T LCI L
Sbjct: 54 VTITQSFIQVQAEAMRLSEWDRSNSPQLIDEFFRKGYVSILYGDSGVGKTTLLLYLCIAL 113
Query: 108 QQISN-FKVSLITTDGFLFPNAVLTANNLMQRK-------GFPESYDSNKLLTFLSDVKS 159
N F + L+ + L ++++R G + N LT +S
Sbjct: 114 AAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLTDVSGAAD 173
Query: 160 GKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVLQQNSLSDNQKA 209
++ Y + + + D ++ + + S+SD Q
Sbjct: 174 ESDVLSPKLYRRFEKILEQKRPDFVVIDPF-----VAFYEGKSISDVQVK 218
>gnl|CDD|146080 pfam03266, DUF265, Protein of unknown function, DUF265.
Length = 168
Score = 32.6 bits (75), Expect = 0.15
Identities = 25/126 (19%), Positives = 48/126 (38%), Gaps = 37/126 (29%)
Query: 85 VVGITGSVAVGKSTFA-RILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFPE 143
+ ITG VGK+T +++ +L + KV GF P ++ G
Sbjct: 1 RIFITGPPGVGKTTLVKKVIELL--KSEGVKV-----GGFYTPE--------VREGGRRI 45
Query: 144 SYDSNKLLTFLSDVKSGKKKV-----AVPRYSHSQYDILEGEYDTII---------QPDI 189
+D + D+ SG++ V +Y + E++ I + D+
Sbjct: 46 GFD-------IVDLASGERGPLARVGGVSGPRVGKYVVNLEEFEEIALPALRRALEEADL 98
Query: 190 LLIEGI 195
++I+ I
Sbjct: 99 IIIDEI 104
>gnl|CDD|31889 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 31.4 bits (71), Expect = 0.31
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 83 PFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLM 136
V+GITG GKST L L++ +V+++ D P++ T +++
Sbjct: 51 AHVIGITGVPGAGKSTLIEALGRELRE-RGHRVAVLAVD----PSSPFTGGSIL 99
>gnl|CDD|185762 cd09239, BRO1_HD-PTP_like, Protein-interacting, N-terminal,
Bro1-like domain of mammalian His-Domain type N23
protein tyrosine phosphatase and related domains. This
family contains the N-terminal, Bro1-like domain of
mammalian His-Domain type N23 protein tyrosine
phosphatase (HD-PTP) and related domains. It belongs to
the BRO1_Alix_like superfamily which also includes the
Bro1-like domains of mammalian Alix (apoptosis-linked
gene-2 interacting protein X), RhoA-binding proteins
Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, Ustilago maydis
Rim23 (also known as PalC), and related domains. Alix,
also known as apoptosis-linked gene-2 interacting
protein 1 (AIP1), HD-PTP, Brox, Bro1, Rim20, and Rim23,
interact with the ESCRT (Endosomal Sorting Complexes
Required for Transport) system. HD-PTP participates in
cell migration and endosomal trafficking. Bro1-like
domains are boomerang-shaped, and part of the domain is
a tetratricopeptide repeat (TPR)-like structure.
Bro1-like domains bind components of the ESCRT-III
complex: CHMP4 in the case of HD-PTP. The Bro1-like
domain of HD-PTP can also bind human immunodeficiency
virus type 1 (HIV-1) nucleocapsid. HD-PTP, and some
other members of the BRO1_Alix_like superfamily
including Alix, also have a V-shaped (V) domain. In the
case of Alix, the V-domain contains a binding site for
the retroviral late assembly (L) domain YPXnL motif,
which is partially conserved in the V-domain
superfamily. HD-PTP is encoded by the PTPN23 gene, a
tumor suppressor gene candidate frequently absent in
human kidney, breast, lung, and cervical tumors. This
family also contains Drosophila Myopic which promotes
epidermal growth factor receptor (EGFR) signaling, and
Caenorhabditis elegans (enhancer of glp-1) EGO-2 which
promotes Notch signaling.
Length = 361
Score = 31.2 bits (71), Expect = 0.33
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 137 QRKGFPESYDSNKLLTFLSDVKSGKKKVA 165
KG P++ + + L+F DV GK+ A
Sbjct: 288 NAKGQPDTVNLQEALSFTMDVIGGKRNSA 316
>gnl|CDD|72985 cd03226, ABC_cobalt_CbiO_domain2, Domain II of the ABC component of
a cobalt transport family found in bacteria, archaea,
and eukaryota. The transition metal cobalt is an
essential component of many enzymes and must be
transported into cells in appropriate amounts when
needed. The CbiMNQO family ABC transport system is
involved in cobalt transport in association with the
cobalamin (vitamin B12) biosynthetic pathways. Most
cobalt (Cbi) transport systems possess a separate CbiN
component, the cobalt-binding periplasmic protein, and
they are encoded by the conserved gene cluster cbiMNQO.
Both the CbiM and CbiQ proteins are integral cytoplasmic
membrane proteins, and the CbiO protein has the linker
peptide and the Walker A and B motifs commonly found in
the ATPase components of the ABC-type transport
systems..
Length = 205
Score = 31.4 bits (71), Expect = 0.36
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQ 109
++ +TG GK+T A+IL L+++
Sbjct: 28 IIALTGKNGAGKTTLAKILAGLIKE 52
>gnl|CDD|145019 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 catalyse 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 = 212
Score = 31.3 bits (71), Expect = 0.37
Identities = 38/184 (20%), Positives = 59/184 (32%), Gaps = 40/184 (21%)
Query: 84 FVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFPE 143
+ G G V GK+T A L L + ++V LI D AN P+
Sbjct: 2 AIAGTKGGV--GKTTLAANLARALAK-RGYRVLLIDLDP--------QANLTSSLGKGPD 50
Query: 144 SYDSNKLLTFLSDVKSGKKKVAVPRYSH-----------------SQYDILEGEYDTIIQ 186
D K + D + + A S ILEG + +I+
Sbjct: 51 LIDVLKEGLEIVDAQPLQHIAAAIVPSRNLDPLLLIPSNLSLANFESELILEGGEEGLIK 110
Query: 187 P--DILLIE---GINVLQQNSLSDNQKA----TPMISDFLDFSIYIDADKR---DIHRWY 234
D ++I+ G+ L N+L P L ++ +R I
Sbjct: 111 LAYDYVIIDGAPGLGELTANALVAADILVVPIEPEGVAVLGAQRLLELVERLGLKILGVV 170
Query: 235 LNRF 238
LN+
Sbjct: 171 LNKV 174
>gnl|CDD|38430 KOG3220, KOG3220, KOG3220, Similar to bacterial dephospho-CoA
kinase [Coenzyme transport and metabolism].
Length = 225
Score = 31.0 bits (70), Expect = 0.39
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 84 FVVGITGSVAVGKSTFARIL 103
+VG+TG +A GKST +++
Sbjct: 2 LIVGLTGGIATGKSTVSQVF 21
>gnl|CDD|48378 cd03114, ArgK-like, The function of this protein family is unkown.
The protein sequences are similar to the ArgK protein in
E. coli. ArgK protein is a membrane ATPase which is
required for transporting arginine, ornithine and lysine
into the cells by the arginine and ornithine (AO system)
and lysine, arginine and ornithine (LAO) transport
systems..
Length = 148
Score = 31.0 bits (70), Expect = 0.42
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTD 121
V+GITG GKST L L+ +V+++ D
Sbjct: 1 VIGITGVPGAGKSTLIDALITALRA-RGKRVAVLAID 36
>gnl|CDD|73178 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 31.0 bits (70), Expect = 0.47
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 78 EESKIPFVVGITGSVAVGKSTFARILCILLQ 108
+E + +VG +G GKST R++ L +
Sbjct: 37 KEGETLGLVGESGC---GKSTLGRLILGLEE 64
>gnl|CDD|73295 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 = 29.9 bits (67), Expect = 0.86
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLI 118
++ ITG GKST A+ L L S + I
Sbjct: 1 IIAITGGSGSGKSTVAKKLAEQLGGRSVVVLDEI 34
>gnl|CDD|73019 cd03260, ABC_PstB_phosphate_transporter, Phosphate uptake is of
fundamental importance in the cell physiology of
bacteria because phosphate is required as a nutrient.
The Pst system of E. coli comprises four distinct
subunits encoded by the pstS, pstA, pstB, and pstC
genes. The PstS protein is a phosphate-binding protein
located in the periplasmic space. P stA and PstC are
hydrophobic and they form the transmembrane portion of
the Pst system. PstB is the catalytic subunit, which
couples the energy of ATP hydrolysis to the import of
phosphate across cellular membranes through the Pst
system, often referred as ABC-protein. PstB belongs to
one of the largest superfamilies of proteins
characterized by a highly conserved adenosine
triphosphate (ATP) binding cassette (ABC), which is also
a nucleotide binding domain (NBD)..
Length = 227
Score = 29.4 bits (66), Expect = 1.2
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 4/44 (9%)
Query: 74 LNLK-EESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVS 116
++L + +I ++G +G GKST R+L L I
Sbjct: 19 ISLDIPKGEITALIGPSGC---GKSTLLRLLNRLNDLIPGAPDE 59
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an
ATPase enzyme and as a kinase, and phosphorylates
periplasmic binding proteins involved in the LAO
(lysine, arginine, ornithine)/AO transport systems.
Length = 267
Score = 29.3 bits (66), Expect = 1.3
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 85 VVGITGSVAVGKSTF 99
VGITG GKST
Sbjct: 31 RVGITGVPGAGKSTL 45
>gnl|CDD|144640 pfam01121, CoaE, Dephospho-CoA kinase. This family catalyses the
phosphorylation of the 3'-hydroxyl group of
dephosphocoenzyme A to form Coenzyme A EC:2.7.1.24. This
enzyme uses ATP in its reaction.
Length = 179
Score = 29.2 bits (66), Expect = 1.4
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 85 VVGITGSVAVGKSTFARIL 103
+VG+TG + GKST A +
Sbjct: 2 IVGLTGGIGSGKSTVANLF 20
>gnl|CDD|36000 KOG0781, KOG0781, KOG0781, Signal recognition particle receptor,
alpha subunit [Intracellular trafficking, secretion, and
vesicular transport].
Length = 587
Score = 29.2 bits (65), Expect = 1.5
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 77 KEESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGF 123
K P+V+ G VGKST + L Q + F+V + D F
Sbjct: 372 ARRRKRPYVISFVGVNGVGKSTNLAKIAYWLLQ-NKFRVLIAACDTF 417
>gnl|CDD|73005 cd03246, ABCC_Protease_Secretion, 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 = 29.0 bits (65), Expect = 1.7
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 85 VVGITGSVAVGKSTFARILCILLQ 108
+ I G GKST AR++ LL+
Sbjct: 30 SLAIIGPSGSGKSTLARLILGLLR 53
>gnl|CDD|37960 KOG2749, KOG2749, KOG2749, mRNA cleavage and polyadenylation factor
IA/II complex, subunit CLP1 [RNA processing and
modification].
Length = 415
Score = 29.1 bits (65), Expect = 1.7
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 72 KFLNLKEESKIPFVVGITGSVAVGKSTFARILC 104
+ +E S P V+ + G VGKST RIL
Sbjct: 93 RMQAEEESSYGPRVM-VVGPTDVGKSTLCRILL 124
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.4 bits (63), Expect = 2.4
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 64 KITCHQYNKFLNLKEESKIPF---VVGITGSVAVGKST-FARILCILLQQISNFKVSLIT 119
+ + K L E+ I V+ + G VGK+T A++ + KV++IT
Sbjct: 181 RYFSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT 240
Query: 120 TDGF 123
TD +
Sbjct: 241 TDTY 244
>gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 28.6 bits (64), Expect = 2.4
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 85 VVGITGSVAVGKSTFARIL 103
V+GI G +GK+TF ++L
Sbjct: 369 VIGILGPNGIGKTTFVKLL 387
Score = 28.2 bits (63), Expect = 3.1
Identities = 21/92 (22%), Positives = 33/92 (35%), Gaps = 31/92 (33%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFP-- 142
VVGI G +GKST +IL G L P NL + + P
Sbjct: 102 VVGILGPNGIGKSTALKILA-----------------GELKP-------NLGRYEDPPSW 137
Query: 143 ----ESYDSNKLLTFLSDVKSGKKKVAV-PRY 169
+ + +L + + G+ + P+Y
Sbjct: 138 DEVIKRFRGTELQNYFKKLYEGELRAVHKPQY 169
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 28.5 bits (64), Expect = 2.5
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 84 FVVGITGSVAVGKSTFARILC 104
+V + G GK+T R L
Sbjct: 1 PIVLVVGPKDSGKTTLIRKLL 21
>gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 28.3 bits (63), Expect = 2.9
Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 73 FLNLKEESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGF 123
+ K PFV+ G VGK+T L L+Q V L D F
Sbjct: 129 LPLEIPKEKKPFVILFVGVNGVGKTTTIAKLAKYLKQ-QGKSVLLAAGDTF 178
>gnl|CDD|72971 cd00267, ABC_ATPase, ABC (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 = 28.0 bits (62), Expect = 3.2
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQIS 111
+V + G GKST R + LL+ S
Sbjct: 27 IVALVGPNGSGKSTLLRAIAGLLKPTS 53
>gnl|CDD|37046 KOG1835, KOG1835, KOG1835, Uncharacterized conserved protein
[Function unknown].
Length = 1704
Score = 28.0 bits (62), Expect = 3.3
Identities = 33/159 (20%), Positives = 60/159 (37%), Gaps = 7/159 (4%)
Query: 29 ISNQLLSFDSPIDSTEIYKIYFPLSHLLLINVNSAKITCHQYNKFLNLKEESKIPFVVGI 88
+++ L+ + D KI+ S +L N N + L+L +P ++G+
Sbjct: 132 VTSILMLKEEREDIPTRLKIFLN-SAFILENGNKLLFQQIWFFPVLSLIVRLILPLILGL 190
Query: 89 TGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFPESYDSN 148
GS + A + I + VS + + F N +L + +L Q F
Sbjct: 191 LGSKSQ-ILQRAAFIEIRDEVH----VSELDINVFPGINYLLASVHLFQIVKFVIRRVHL 245
Query: 149 KLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQP 187
+ F+ D+K K +PR + +L I P
Sbjct: 246 LITAFIDDMKI-KSSELLPRADADIFQVLTNMILGIEPP 283
>gnl|CDD|31805 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 179
Score = 27.5 bits (61), Expect = 4.6
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 79 ESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITT 120
K+ + ITG VGK+T + L++ +KV T
Sbjct: 1 MIKMAMKIFITGRPGVGKTTLVLKIAEKLRE-KGYKVGGFIT 41
>gnl|CDD|72984 cd03225, ABC_cobalt_CbiO_domain1, Domain I of the ABC component of
a cobalt transport family found in bacteria, archaea,
and eukaryota. The transition metal cobalt is an
essential component of many enzymes and must be
transported into cells in appropriate amounts when
needed. This ABC transport system of the CbiMNQO family
is involved in cobalt transport in association with the
cobalamin (vitamin B12) biosynthetic pathways. Most of
cobalt (Cbi) transport systems possess a separate CbiN
component, the cobalt-binding periplasmic protein, and
they are encoded by the conserved gene cluster cbiMNQO.
Both the CbiM and CbiQ proteins are integral cytoplasmic
membrane proteins, and the CbiO protein has the linker
peptide and the Walker A and B motifs commonly found in
the ATPase components of the ABC-type transport
systems..
Length = 211
Score = 27.8 bits (62), Expect = 4.6
Identities = 12/26 (46%), Positives = 13/26 (50%)
Query: 86 VGITGSVAVGKSTFARILCILLQQIS 111
V I G GKST R+L LL S
Sbjct: 30 VLIVGPNGSGKSTLLRLLNGLLGPTS 55
>gnl|CDD|34241 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase
and permease components [General function prediction
only].
Length = 580
Score = 27.5 bits (61), Expect = 4.7
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 85 VVGITGSVAVGKSTFARIL 103
+GI G GKST AR+L
Sbjct: 364 ALGIIGPSGSGKSTLARLL 382
>gnl|CDD|39436 KOG4235, KOG4235, KOG4235, Mitochondrial thymidine kinase
2/deoxyguanosine kinase [Nucleotide transport and
metabolism].
Length = 244
Score = 27.3 bits (60), Expect = 5.1
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 76 LKEESKIPFVVGITGSVAVGKSTFARIL 103
L E + + I G++AVGKSTF
Sbjct: 15 LHEGTGPKRLSIIEGNIAVGKSTFLNFF 42
>gnl|CDD|119440 cd06578, HemD, Uroporphyrinogen-III synthase (HemD) catalyzes the
asymmetrical cyclization of tetrapyrrole (linear) to
uroporphyrinogen-III, the fourth step in the
biosynthesis of heme. This ubiquitous enzyme is present
in eukaryotes, bacteria and archaea. Mutations in the
human uroporphyrinogen-III synthase gene cause
congenital erythropoietic porphyria, a recessive inborn
error of metabolism also known as Gunther disease.
Length = 239
Score = 27.3 bits (61), Expect = 5.1
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 131 TANNLMQRKGF-----PESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEG 179
TA L + G PE DS LL L K++ PR ++ D+ E
Sbjct: 88 TAEAL-REAGLTADFVPEEGDSEGLLELLELQDGKGKRILRPRGGRAREDLAEA 140
>gnl|CDD|30631 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 27.5 bits (61), Expect = 5.3
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 81 KIPFVVGITGSVAVGKSTFARIL 103
K ++ I G GKST A+IL
Sbjct: 2 KAAIIIAIDGPAGSGKSTVAKIL 24
>gnl|CDD|73021 cd03262, ABC_HisP_GlnQ_permeases, HisP and GlnQ are the ATP-binding
components of the bacterial periplasmic histidine and
glutamine permeases, repectively. Histidine permease is
a multisubunit complex containing the HisQ and HisM
integral membrane subunits and two copies of HisP. HisP
has properties intermediate between those of integral
and peripheral membrane proteins and is accessible from
both sides of the membrane, presumably by its
interaction with HisQ and HisM. The two HisP subunits
form a homodimer within the complex. The domain
structure of the amino acid uptake systems is typical
for prokaryote extracellular solute binding
protein-dependent uptake systems. All of the amino acid
uptake systems also have at least one, and in a few
cases, two extracellular solute binding proteins located
in the periplasm of Gram-negative bacteria, or attached
to the cell membrane of Gram-positive bacteria. The
best-studied member of the PAAT (polar amino acid
transport) family is the HisJQMP system of S.
typhimurium, where HisJ is the extracellular solute
binding proteins and HisP is the ABC protein..
Length = 213
Score = 27.4 bits (61), Expect = 5.6
Identities = 25/82 (30%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 85 VVGITGSVAVGKSTFARILCI-LLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFP- 142
VV I G GKST R CI LL++ + I DG + N L Q+ G
Sbjct: 28 VVVIIGPSGSGKSTLLR--CINLLEEPDSGT---IIIDGLKLTDDKKNINELRQKVGMVF 82
Query: 143 ESYDSNKLLTFLSDVKSGKKKV 164
+ ++ LT L ++ KV
Sbjct: 83 QQFNLFPHLTVLENITLAPIKV 104
>gnl|CDD|111395 pfam02492, cobW, CobW/HypB/UreG, nucleotide-binding domain. This
domain is found in HypB, a hydrogenase expression /
formation protein, and UreG a urease accessory protein.
Both these proteins contain a P-loop nucleotide binding
motif. HypB has GTPase activity and is a guanine
nucleotide binding protein. It is not known whether UreG
binds GTP or some other nucleotide. Both enzymes are
involved in nickel binding. HypB can store nickel and is
required for nickel dependent hydrogenase expression.
UreG is required for functional incorporation of the
urease nickel metallocenter. GTP hydrolysis may required
by these proteins for nickel incorporation into other
nickel proteins. This family of domains also contains
P47K, a Pseudomonas chlororaphis protein needed for
nitrile hydratase expression, and the cobW gene product,
which may be involved in cobalamin biosynthesis in
Pseudomonas denitrificans.
Length = 174
Score = 27.2 bits (61), Expect = 5.6
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 84 FVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTD 121
V +TG + GK+T + +L K+++I D
Sbjct: 1 PVTVLTGFLGSGKTTL--LEHLLRDNREGLKIAVIVND 36
>gnl|CDD|31532 COG1341, COG1341, Predicted GTPase or GTP-binding protein [General
function prediction only].
Length = 398
Score = 27.2 bits (60), Expect = 5.8
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 75 NLKEESKIPFVVGITGSVAVGKSTFARILC-ILLQQISNFKVSLITTD 121
+ E + VV + G V GKST L LL + KV++I D
Sbjct: 65 SKSESAGKVGVVMVVGPVDSGKSTLTTYLANKLLARG--RKVAIIDAD 110
>gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 27.1 bits (60), Expect = 6.2
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 85 VVGITGSVAVGKSTFARILCILLQ 108
V I G GKST ++L L +
Sbjct: 501 KVAIVGRSGSGKSTLLKLLLGLYK 524
>gnl|CDD|30191 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the
phosphorylation of deoxyribonucleosides to yield
corresponding monophosphates (dNMPs). This family
consists of various deoxynucleoside kinases including
deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC
2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC
2.7.1.21) kinases. They are key enzymes in the salvage
of deoxyribonucleosides originating from extra- or
intracellular breakdown of DNA..
Length = 193
Score = 27.1 bits (60), Expect = 6.2
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 85 VVGITGSVAVGKSTFARIL 103
V+ + G++ GKST A+ L
Sbjct: 1 VIVVEGNIGAGKSTLAKEL 19
>gnl|CDD|31775 COG1587, HemD, Uroporphyrinogen-III synthase [Coenzyme metabolism].
Length = 248
Score = 26.9 bits (59), Expect = 6.4
Identities = 18/71 (25%), Positives = 26/71 (36%), Gaps = 14/71 (19%)
Query: 131 TANNLMQRKG----FPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQ 186
TA L + PE DS LL L ++ G K+V + R + + + E
Sbjct: 89 TAEALRKLGIKVDFIPEDGDSEGLLEELPELLKGGKRVLILRGNGGREVLEEK------- 141
Query: 187 PDILLIEGINV 197
L G V
Sbjct: 142 ---LEERGAEV 149
>gnl|CDD|31385 COG1192, Soj, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 259
Score = 27.1 bits (59), Expect = 6.5
Identities = 31/145 (21%), Positives = 47/145 (32%), Gaps = 20/145 (13%)
Query: 80 SKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRK 139
KI V G VGK+T A L L + KV LI D P LT+ ++
Sbjct: 2 MKIIAVANQKG--GVGKTTTAVNLAAALAKRGGKKVLLIDLD----PQGSLTSWLGLRPD 55
Query: 140 GFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVLQ 199
+ Y+ L + + D++ D +I L L
Sbjct: 56 LEGDLYN-------LLSGLKERPDILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELL 108
Query: 200 QNSLSDNQKATPMISDFLDFSIYID 224
++ + D D+ I ID
Sbjct: 109 L------KRLLDPVKDDYDY-IIID 126
>gnl|CDD|73290 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 = 27.0 bits (59), Expect = 7.0
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLI 118
V+ +TG VGK+T A L L + +V LI
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAALAK-RGKRVLLI 33
>gnl|CDD|30197 cd02024, NRK1, Nicotinamide riboside kinase (NRK) is an enzyme
involved in the metabolism of nicotinamide adenine
dinucleotide (NAD+). This enzyme catalyzes the
phosphorylation of nicotinamide riboside (NR) to form
nicotinamide mononucleotide (NMN). It defines the NR
salvage pathway of NAD+ biosynthesis in addition to the
pathways through nicotinic acid mononucleotide (NaMN).
This enzyme can also phosphorylate the anticancer drug
tiazofurin, which is an analog of nicotinamide
riboside..
Length = 187
Score = 26.8 bits (59), Expect = 7.6
Identities = 26/127 (20%), Positives = 48/127 (37%), Gaps = 26/127 (20%)
Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGF--- 141
+VGI+G GK+T A+ +L + + N +I D F P + + GF
Sbjct: 1 IVGISGVTNSGKTTLAK---LLQRILPN--CCVIHQDDFFKPEDEIP----VDENGFKQW 51
Query: 142 --PESYDSNKLLTFLSDVKSGK----------KKVAVPRYSHSQYDILEGEYDTIIQPD- 188
E+ D +++ L + + + I E + D + D
Sbjct: 52 DVLEALDMEAMMSTLDYWRETGHFPKFLRSHGNENDPEKEFIEDAQIEETKADLLGAEDL 111
Query: 189 -ILLIEG 194
IL+++G
Sbjct: 112 HILIVDG 118
>gnl|CDD|38804 KOG3598, KOG3598, KOG3598, Thyroid hormone receptor-associated
protein complex, subunit TRAP230 [Transcription].
Length = 2220
Score = 27.0 bits (59), Expect = 7.7
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 198 LQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWY 234
+SL ++++ ++ L F + DKR I +Y
Sbjct: 116 DLSSSLVLARRSSTLLCQALGFLFEMAQDKRKIDAYY 152
>gnl|CDD|133448 cd01080, NAD_bind_m-THF_DH_Cyclohyd, NADP binding domain of
methylene-tetrahydrofolate dehydrogenase/cyclohydrolase.
NADP binding domain of the Methylene-Tetrahydrofolate
Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase)
bifunctional enzyme. Tetrahydrofolate is a versatile
carrier of activated one-carbon units. The major
one-carbon folate donors are N-5 methyltetrahydrofolate,
N5,N10-m-THF, and N10-formayltetrahydrofolate. The
oxidation of metabolic intermediate m-THF to m-THF
requires the enzyme m-THF DH. In addition, most DHs also
have an associated cyclohydrolase activity which
catalyzes its hydrolysis to N10-formyltetrahydrofolate.
m-THF DH is typically found as part of a multifunctional
protein in eukaryotes. NADP-dependent m-THF DH in
mammals, birds and yeast are components of a
trifunctional enzyme with DH, cyclohydrolase, and
synthetase activities. Certain eukaryotic cells also
contain homodimeric bifunctional DH/cyclodrolase form.
In bacteria, monofucntional DH, as well as bifunctional
m-THF m-THF DHm-THF DHDH/cyclodrolase are found. In
addition, yeast (S. cerevisiae) also express an
monofunctional DH. This family contains the bifunctional
DH/cyclohydrolase. M-THF DH, like other amino acid
DH-like NAD(P)-binding domains, is a member of the
Rossmann fold superfamily which includes glutamate,
leucine, and phenylalanine DHs, m-THF DH,
methylene-tetrahydromethanopterin DH, m-THF
DH/cyclohydrolase, Shikimate DH-like proteins, malate
oxidoreductases, and glutamyl tRNA reductase. Amino acid
DHs catalyze the deamination of amino acids to keto
acids with NAD(P)+ as a cofactor. The NAD(P)-binding
Rossmann fold superfamily includes a wide variety of
protein families including NAD(P)- binding domains of
alcohol DHs, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains.
Length = 168
Score = 26.7 bits (60), Expect = 7.9
Identities = 22/53 (41%), Positives = 27/53 (50%), Gaps = 15/53 (28%)
Query: 51 PLSHLLLINVNSAKIT-CHQYNKFLNLKEESK---IPFVVGITGSVAVGKSTF 99
PL+ LLL +A +T CH K NLKE +K I V+ VAVGK
Sbjct: 59 PLAALLL--NRNATVTVCHSKTK--NLKEHTKQADI--VI-----VAVGKPGL 100
>gnl|CDD|29743 cd01140, FatB, Siderophore binding protein FatB. These proteins
have been shown to function as ABC-type initial
receptors in the siderophore-mediated iron uptake in
some eubacterial species. They belong to the TroA
superfamily of periplasmic metal binding proteins that
share a distinct fold and ligand binding mechanism. A
typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind
their ligands in the cleft between these domains..
Length = 270
Score = 26.7 bits (59), Expect = 8.5
Identities = 19/88 (21%), Positives = 35/88 (39%), Gaps = 15/88 (17%)
Query: 146 DSNKLLTFLSDVKSGK-KKVAVPRYSHSQYDILEGEYDTI--IQPDILLIEGINVLQQNS 202
S+ L +L K K V E + + I ++PD+++I G
Sbjct: 38 KSSTLPEYLKKYKDDKYANVGTLF---------EPDLEAIAALKPDLIIIGG---RLAEK 85
Query: 203 LSDNQKATPMISDFLDFSIYIDADKRDI 230
+ +K P I D Y+++ K++I
Sbjct: 86 YDELKKIAPTIDLGADLKNYLESVKQNI 113
>gnl|CDD|31113 COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 451
Score = 26.4 bits (58), Expect = 9.0
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 83 PFVVGITGSVAVGKSTFARILCILLQQ 109
V+ ITGS GK+T +L +L
Sbjct: 103 AKVIAITGS--NGKTTTKEMLAAILST 127
>gnl|CDD|31320 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 26.7 bits (59), Expect = 9.5
Identities = 12/19 (63%), Positives = 14/19 (73%), Gaps = 3/19 (15%)
Query: 85 VVGITGSVAVGKSTFARIL 103
+VG +GS GKST ARIL
Sbjct: 322 LVGESGS---GKSTLARIL 337
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.136 0.397
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,696,608
Number of extensions: 191149
Number of successful extensions: 718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 703
Number of HSP's successfully gapped: 74
Length of query: 311
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 217
Effective length of database: 4,232,491
Effective search space: 918450547
Effective search space used: 918450547
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: 57 (25.8 bits)