RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781018|ref|YP_003065431.1| GHMP kinase [Candidatus
Liberibacter asiaticus str. psy62]
(337 letters)
>gnl|CDD|31765 COG1577, ERG12, Mevalonate kinase [Lipid metabolism].
Length = 307
Score = 111 bits (278), Expect = 3e-25
Identities = 72/292 (24%), Positives = 122/292 (41%), Gaps = 34/292 (11%)
Query: 14 IAPAKVILSGEYSSLYGASALAVAITFYLRALLTTIEPSLIRIINSQTIEYSFEACRLLG 73
AP K+IL GE++ +YG A+A AI + ++ + + I I +S
Sbjct: 4 SAPGKLILFGEHAVVYGYPAIAAAIDLRVTVTISESDSNKIVIESS-------------- 49
Query: 74 HQIDQRHRDFIAKKIPITSVLTHPNDLILYIFNRHLPHISCGISLDLHSTIPIGSGFGSS 133
D + + + + SL++ S IPIG+G GSS
Sbjct: 50 --------DLKSSTLERDEDEGYIQAAVRLASELLNQSSLKPFSLEIDSEIPIGAGLGSS 101
Query: 134 SAIISALSLALSSITHQPFCNKEKLIAETGYIERLQHGKTGIIDSTTIVMGGIIYI---N 190
+A+ A+ ALS+ + E+L +E + GK ID TI GG++
Sbjct: 102 AAVSVAVIKALSAY-FGVELSPEELAKLANKVELIVQGKASGIDIATITYGGLVAFKKGF 160
Query: 191 PPQIIKNETLVGEWWAINTGMPESSTGECVSFVEQHFSQS-----SIWSEFNAVTNEMME 245
+ ++ E L G +TG+P ST E V+ V + + I + E
Sbjct: 161 DFEKLEIELL-GTLVIGDTGVP-GSTKELVAGVAKLLEEEPEVIDPILDAIGELVQEAEA 218
Query: 246 NIQKKDAEKTYKSVRVNQSLLESIGVVPETVGKFIRCIENNGG-SAKIAGAG 296
+Q D E+ + + +NQ LL+++GV + + + + G AK+ GAG
Sbjct: 219 ALQTGDFEELGELMNINQGLLKALGVSTPELDELVEAARSLGALGAKLTGAG 270
>gnl|CDD|36724 KOG1511, KOG1511, KOG1511, Mevalonate kinase MVK/ERG12 [Lipid
transport and metabolism].
Length = 397
Score = 75.4 bits (185), Expect = 2e-14
Identities = 77/331 (23%), Positives = 136/331 (41%), Gaps = 53/331 (16%)
Query: 15 APAKVILSGEYSSLYGASALAVAITFYLRALLTTIEPSLIRI-INSQTIEYSFEACRLLG 73
AP KVIL GE++ +YG +ALA AI L T I + + +IE ++ G
Sbjct: 9 APGKVILFGEHAVVYGRTALAAAIDLRTYLRLQTSANDRILLQLPDISIEKAWSLADFNG 68
Query: 74 HQIDQRHRDFIAKKIPITSVLT-------------------HPNDLILYIFNRHLPHISC 114
+ ++ + + + P + V LY+F
Sbjct: 69 -ALPEQRSTYESVQTPASEVRVELLKQLGGLLENQEKVKEHLAGLSFLYLFLGLCLRAPG 127
Query: 115 G---ISLDLHSTIPIGSGFGSSSAIISALSLAL---SSITHQPFC------NKEKLIAET 162
+++ + S +P+G+G GSS+AI AL+ AL + + P N LI +
Sbjct: 128 TLPALTVVVDSELPLGAGLGSSAAISVALATALLRLAGLIPPPGSNLSLAENDLALINKW 187
Query: 163 GYI-ERLQHGKTGIIDSTTIVMGGIIYINPPQIIK----NETLVGEWWAINTGMPESSTG 217
+ E+ HG ID+ GG+I I+ L NT +P + T
Sbjct: 188 AFEGEKCIHGTPSGIDNAVCTYGGLISFKKGVEIESLKHLPPL--RILLTNTRVPRN-TK 244
Query: 218 ECVSFVEQ---HFSQ--SSIWSEFNAVTNEMMENIQKKDAE-------KTYKSVRVNQSL 265
V+ V + F + +I+ + ++ E + +Q+++ E K + +R+NQ L
Sbjct: 245 ALVAGVRELLEKFPEVIKAIFDAIDEISLEAVWILQRENDEFSSPKEQKLEELIRINQDL 304
Query: 266 LESIGVVPETVGKFIRCIENNGGSAKIAGAG 296
L+++GV ++ G +K+ GAG
Sbjct: 305 LDALGVSHPSLELVCTTTRKLGIHSKLTGAG 335
>gnl|CDD|30502 COG0153, GalK, Galactokinase [Carbohydrate transport and
metabolism].
Length = 390
Score = 53.0 bits (127), Expect = 1e-07
Identities = 38/182 (20%), Positives = 68/182 (37%), Gaps = 21/182 (11%)
Query: 7 QTPHAHSIAPAKVILSGEYSSLYGASALAVAITFYLRALLTTIEPSLIRIINSQTIEYSF 66
P + AP +V L GE++ G L AI + + + +R+ ++
Sbjct: 20 VEPTVTAFAPGRVNLIGEHTDYNGGFVLPCAINYGTYVAVAKRDDGKVRLYSAN------ 73
Query: 67 EACRLLGHQIDQRHRDFIAKKIPITSVLTHPNDLILYIFNRHLPHISCGISLDLHSTIPI 126
G+ D K I + +I + + G+ + + IPI
Sbjct: 74 -----FGNAGDIFFLLLDIAKEKIDDWANYVKGVI-KALQKRGYAFT-GLDIVISGNIPI 126
Query: 127 GSGFGSSSAIISALSLALSSITHQPFCNKEKL----IAETGYIERLQHGKTGIIDSTTIV 182
G+G SS+A+ A++LAL + + P E +AE ++ GI+D
Sbjct: 127 GAGLSSSAALEVAVALALQRLFNLPLDKAELAKIAQVAENQFVGV----NCGIMDQLASA 182
Query: 183 MG 184
G
Sbjct: 183 FG 184
>gnl|CDD|144028 pfam00288, GHMP_kinases_N, GHMP kinases N terminal domain. This
family includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 67
Score = 49.5 bits (119), Expect = 1e-06
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 117 SLDLHSTIPIGSGFGSSSAIISALSLALSSITHQPFCNKEKLIAETGYIERLQHGKTGII 176
+++ S IP+G+G GSS+A+ AL LAL+ + P +E +A G
Sbjct: 1 DIEIESNIPLGAGLGSSAALAVALLLALNELFGLPLSKEE--LARLALEAEGAIGVNSGD 58
Query: 177 DSTTIVMGG 185
D V GG
Sbjct: 59 DVAASVYGG 67
>gnl|CDD|32014 COG1829, COG1829, Predicted archaeal kinase (sugar kinase
superfamily) [General function prediction only].
Length = 283
Score = 46.1 bits (109), Expect = 2e-05
Identities = 31/178 (17%), Positives = 68/178 (38%), Gaps = 19/178 (10%)
Query: 115 GISLDLHSTIPIGSGFGSSSAIISALSLALSSITHQPFCNKEKLIAETGYIERLQHGKTG 174
G+ + + S +P+G G+G S A +LAL+ E+ A ++ +++G TG
Sbjct: 74 GVGVRIESPVPLGCGYGVSGAGALGTALALAEELGLG----EESAARIAHVAEVENG-TG 128
Query: 175 IIDSTTIVMGGIIY---INPPQIIKNETLVGEWWAINTG-MPESSTGECVSFVEQHFSQS 230
+ D GG++ P + + + + T + E ST ++
Sbjct: 129 LGDVVAQYTGGLVIRVKPGGPGEGEVDRIPVPGLRVITISLGELSTKSVIT--------D 180
Query: 231 SIWSEFNAVTNEMMENIQKKDAEKTYKSVRVNQSLLESIGVVPETVGKFIRCIENNGG 288
+ + N + + K + + + + G++ E V + + + GG
Sbjct: 181 EVVRKINEAGKRALAELLKNPTLENF--MEEAREFARRTGLMSEEVKEAAEALHSVGG 236
>gnl|CDD|32597 COG2605, COG2605, Predicted kinase related to galactokinase and
mevalonate kinase [General function prediction only].
Length = 333
Score = 44.9 bits (106), Expect = 4e-05
Identities = 42/187 (22%), Positives = 65/187 (34%), Gaps = 35/187 (18%)
Query: 13 SIAPAKVILSG------EYSSLYGASALAVAITFYLRALLTTIEPSLIRIINSQTIEYSF 66
S AP ++ G Y S +G + L I Y+ TIE I +
Sbjct: 4 SRAPLRITFGGGGTDVEPYCSKHGGAVLNATIDKYIYV---TIEKG-----FDDEIRVRY 55
Query: 67 EACRLLGHQIDQRHRDFIAKKIPITSVLTHPNDLILYIFNRHLPHISCGISLDLHST--I 124
+ + ++ H+ L++ R + G ++LH+
Sbjct: 56 DRTEFVKSYLENEHKP-----------------LVVESLKRDFLEFNGGTPIELHTQSDA 98
Query: 125 PIGSGFGSSSAIISALSLALSSITHQPFCNKEKLIAETGYIER-LQHGKTGIIDSTTIVM 183
P GSG GSSSA + AL AL + + +L E IER G D
Sbjct: 99 PPGSGLGSSSAFVVALLNALHAWKGESL-GPYELAREAYEIEREDLKIVGGKQDQYAAAF 157
Query: 184 GGIIYIN 190
GG ++
Sbjct: 158 GGFNFME 164
>gnl|CDD|34189 COG4542, PduX, Protein involved in propanediol utilization, and
related proteins (includes coumermycin biosynthetic
protein), possible kinase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 293
Score = 40.7 bits (95), Expect = 6e-04
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 111 HISCGISLDLHSTIPIGSGFGSSSAIISALSLALSSITHQPFCNKEKLIAE 161
I+ GI L L S+IP+G G SS+A + A + A + + +E IA+
Sbjct: 79 LINTGIDLLLQSSIPVGKGMASSTADLVATARATARFLGREL--RESEIAK 127
>gnl|CDD|30432 COG0083, ThrB, Homoserine kinase [Amino acid transport and
metabolism].
Length = 299
Score = 39.0 bits (91), Expect = 0.002
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 112 ISCGISLDLHSTIPIGSGFGSSSAIISALSLALSSITHQPFCNKEKLIAETGYIER 167
I G+ + + IP+G G GSS+A I A A + + P +KE+L+ IE
Sbjct: 74 IEAGVKIRIEKGIPLGRGLGSSAASIVAALAAANELAGLPL-SKEELLQLALEIEG 128
>gnl|CDD|31871 COG1685, COG1685, Archaeal shikimate kinase [Amino acid transport
and metabolism / Coenzyme metabolism].
Length = 278
Score = 36.0 bits (83), Expect = 0.014
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 112 ISCGISLDLHSTIPIGSGFGSSSAIISALSLALSS 146
I G+ +++ S IP+GSG SSSA +AL A+
Sbjct: 67 IPLGVEVEVESEIPVGSGLKSSSAASNALVKAVLK 101
>gnl|CDD|33679 COG3890, ERG8, Phosphomevalonate kinase [Lipid metabolism].
Length = 337
Score = 31.9 bits (72), Expect = 0.27
Identities = 41/181 (22%), Positives = 66/181 (36%), Gaps = 24/181 (13%)
Query: 15 APAKVILSGEYSSLY-GASALAVAITFYLRALLTTIEPSLIRIINSQTIEYSFEACRLLG 73
AP K++L+G+YS L G SA A+AI RA S +R+ + + +
Sbjct: 8 APGKLLLAGDYSILVEGLSAHAIAIN--KRAFC-----SFVRVKSKDSWLF--------- 51
Query: 74 HQIDQRHRDFIAKKIPITSVLTHPNDLILYIFNRHLPHISCGISLDLHSTIPIGS---GF 130
H + ++ V + L F ++L + D + G
Sbjct: 52 HISIKGIDKNSFIELRSDFVFKYFAYLSQNCF-QNLEVFADDAYYDQSNFFFDDGTKTGL 110
Query: 131 GSSSAIISAL--SLALSSITHQPFCNKEKLIAETGYIERLQHGKTGI-IDSTTIVMGGII 187
GSS+A+ ++L L LS K ++ G G D + G II
Sbjct: 111 GSSAAVATSLTCGLFLSHANATNVDEKGEIHKLAQIAHCYAQGGIGSGFDIAAAIFGSII 170
Query: 188 Y 188
Y
Sbjct: 171 Y 171
>gnl|CDD|35850 KOG0631, KOG0631, KOG0631, Galactokinase [Carbohydrate transport
and metabolism].
Length = 489
Score = 30.7 bits (69), Expect = 0.62
Identities = 36/182 (19%), Positives = 59/182 (32%), Gaps = 20/182 (10%)
Query: 13 SIAPAKVILSGEYSSLYGASALAVAITFYLRALLTTIEPSLIRIINSQTIEYSFEACRLL 72
+ AP +V L GE+ G S L +AI + + ++ + + F +
Sbjct: 42 ARAPGRVNLIGEHIDYCGYSVLPMAIDVDTLIAVAPSDDGIVSLRLTNF-NPDFIYFKYP 100
Query: 73 ----GHQIDQRHRD----FIAKKIPITSVLTHPNDLILYIFNRHLPHISCGISLDLHSTI 124
QID F + G+S+ ++
Sbjct: 101 LPSIVWQIDPDVSKWENYFYCGMKGFHEYIKRKPVR---------FEPPVGLSILNDGSV 151
Query: 125 PIGSGFGSSSAIISALSLALSSITHQPFCNKEK--LIAETGYIERLQHGKTGIIDSTTIV 182
P GSG SS+A + A +LA + P K L T E +G +D V
Sbjct: 152 PTGSGLSSSAAWLCAAALATLKLNLGPNFIISKKDLATITVVAESYIGLNSGGMDQAASV 211
Query: 183 MG 184
+
Sbjct: 212 LA 213
>gnl|CDD|33213 COG3407, MVD1, Mevalonate pyrophosphate decarboxylase [Lipid
metabolism].
Length = 329
Score = 28.0 bits (62), Expect = 4.2
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 107 RHLPHISCGISLDLHSTIPIGSGFGSSSAIISALSLALSS 146
R IS + + ++ P +G SS+A +AL+ AL+
Sbjct: 82 RKEYGISFKVKIVSYNNFPTAAGLASSAAGAAALAAALNR 121
>gnl|CDD|34163 COG4493, COG4493, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 209
Score = 27.6 bits (61), Expect = 4.4
Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 6/63 (9%)
Query: 152 FCNKEKLIAETGYIERLQHGKTGIIDSTTIVMGGIIYINPPQIIKNETLVGEWWAINTGM 211
F ++ GY ++L H + G+ + V IIY + + L + AI +
Sbjct: 75 FATSKR-----GY-KKLPHFQIGLWEDYLFVWFAIIYESKKKKEYANLLEKKSKAIEKNL 128
Query: 212 PES 214
P+
Sbjct: 129 PDD 131
>gnl|CDD|32130 COG1947, IspE, 4-diphosphocytidyl-2C-methyl-D-erythritol
2-phosphate synthase [Lipid metabolism].
Length = 289
Score = 27.9 bits (62), Expect = 4.5
Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 4/84 (4%)
Query: 76 IDQRHRDFIAKKIPITSVLTHPNDLI---LYIFNRHLPHISCGISLDLHSTIPIGSGFGS 132
I R D L +L+ + + I+ G+S+ L IP+G+G G
Sbjct: 44 IRPRDDDGFIVLGTFADGLPTDENLVYRAAELLRKRT-GIAGGVSIHLDKNIPVGAGLGG 102
Query: 133 SSAIISALSLALSSITHQPFCNKE 156
S+ +A+ +AL+ + +E
Sbjct: 103 GSSDAAAVLVALNELWGLGLSLEE 126
>gnl|CDD|35699 KOG0478, KOG0478, KOG0478, DNA replication licensing factor, MCM4
component [Replication, recombination and repair].
Length = 804
Score = 27.6 bits (61), Expect = 5.2
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 222 FVEQHFSQSSIWSEFNAVTNEMMENIQKKDAEKTYKSVRVNQSLLESIGVVPETVGKFIR 281
+V + +S FNA M N+ D +K + ++ ++ S V+PE V F R
Sbjct: 210 YVLEILEKSIKVRPFNAGKTFSMRNLNPNDIDKL---ISISGMVIRSSEVIPEMVEAFFR 266
Query: 282 C 282
C
Sbjct: 267 C 267
>gnl|CDD|153131 cd01581, AcnB, Aconitate hydratase B catalyses the formation of
cis-aconitate from citrate as part of the TCA cycle.
Aconitase B catalytic domain. Aconitate hydratase B
catalyses the formation of cis-aconitate from citrate as
part of the TCA cycle. Aconitase has an active (4FE-4S)
and an inactive (3FE-4S) form. The active cluster is
part of the catalytic site that interconverts citrate,
cis-aconitase and isocitrate. The domain architecture of
aconitase B is different from other aconitases in that
the catalytic domain is normally found at C-terminus for
other aconitases, but it is at N-terminus for B family.
It also has a HEAT domain before domain 4 which plays a
role in protein-protein interaction. This alignment is
the core domain including domains 1,2 and 3.
Length = 436
Score = 27.5 bits (61), Expect = 5.8
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 93 VLTHPNDLILY-IFNRHLPHISCGISLDLHSTIPIGSGFGSSSAIISALSLALSSIT 148
V P D +++ NR L + G D H+ PIG F + S ++ A + A +
Sbjct: 87 VALRPGDGVIHSWLNRMLLPDTVGTGGDSHTRFPIGISFPAGSGLV-AFAAATGVMP 142
>gnl|CDD|146987 pfam04609, MCR_C, Methyl-coenzyme M reductase operon protein C.
Methyl coenzyme M reductase (MCR) catalyses the final
step in methanogenesis. MCR is composed of three
subunits, alpha (pfam02249), beta (pfam02241) and gamma
(pfam02240). Genes encoding the beta (mcrB) and gamma
(mcrG) subunits are separated by two open reading frames
coding for two proteins C and D. The function of
proteins C and D (this family) is unknown. This family
nowalso includes family MtrC_related,.
Length = 268
Score = 27.1 bits (60), Expect = 7.5
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 107 RHLPHISCGISLDLH------STIPIGSGFGSSSAIIS 138
HLPH +C I+ L + I + G G A ++
Sbjct: 83 HHLPHPACDIAEYLRRAGAKTNMIGLARGAGRRIAQLT 120
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
0.317 0.133 0.386
Gapped
Lambda K H
0.267 0.0638 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,925,569
Number of extensions: 203654
Number of successful extensions: 487
Number of sequences better than 10.0: 1
Number of HSP's gapped: 482
Number of HSP's successfully gapped: 21
Length of query: 337
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 243
Effective length of database: 4,232,491
Effective search space: 1028495313
Effective search space used: 1028495313
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: 41 (21.7 bits)
S2: 58 (26.3 bits)