RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043263
(286 letters)
>gnl|CDD|237809 PRK14738, gmk, guanylate kinase; Provisional.
Length = 206
Score = 244 bits (625), Expect = 1e-81
Identities = 101/198 (51%), Positives = 145/198 (73%), Gaps = 1/198 (0%)
Query: 89 PPNPLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEF 148
P PL++VISGPSGVGKD V+ ++RE + HFVVTAT+RP RPGE++G DY FV+ EEF
Sbjct: 10 PAKPLLVVISGPSGVGKDAVLARMRERKLPFHFVVTATTRPKRPGEIDGVDYHFVTPEEF 69
Query: 149 LQMVDKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFV 208
+M+ +NELLE+A VYG+Y G+PK +R+ +A G D++++VD+QGA +++R++ + AVF+
Sbjct: 70 REMISQNELLEWAEVYGNYYGVPKAPVRQALASGRDVIVKVDVQGAASIKRLVPE-AVFI 128
Query: 209 FLAAESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLV 268
FLA S L RL R+TE+ EEL R+ATA E++ + FDYVVVN E +LD AV +
Sbjct: 129 FLAPPSMDELTRRLELRRTESPEELERRLATAPLELEQLPEFDYVVVNPEDRLDEAVAQI 188
Query: 269 ESVIDAEKAKVRQRSAVI 286
++I AEK++V R +
Sbjct: 189 MAIISAEKSRVHPRRIEL 206
>gnl|CDD|234719 PRK00300, gmk, guanylate kinase; Provisional.
Length = 205
Score = 235 bits (603), Expect = 3e-78
Identities = 86/191 (45%), Positives = 130/191 (68%), Gaps = 4/191 (2%)
Query: 93 LIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMV 152
L+IV+SGPSG GK T++K L E +L V+AT+R RPGEV+G DYFFVSKEEF +M+
Sbjct: 6 LLIVLSGPSGAGKSTLVKALLERDPNLQLSVSATTRAPRPGEVDGVDYFFVSKEEFEEMI 65
Query: 153 DKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAA 212
+ E LE+A V+G+Y G P+ + E +A G D++L +D QGAR +++ + D AV +F+
Sbjct: 66 ENGEFLEWAEVFGNYYGTPRSPVEEALAAGKDVLLEIDWQGARQVKKKMPD-AVSIFILP 124
Query: 213 ESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVESVI 272
S L RL R T++ E + R+A AREE+ H +DYV+VN + LD+A++ ++++I
Sbjct: 125 PSLEELERRLRGRGTDSEEVIARRLAKAREEIAHASEYDYVIVNDD--LDTALEELKAII 182
Query: 273 DAEKAKV-RQR 282
AE+ + RQ+
Sbjct: 183 RAERLRRSRQQ 193
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP kinase.
This enzyme transfers a phosphate from ATP to GMP,
yielding ADP and GDP [Purines, pyrimidines, nucleosides,
and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 223 bits (571), Expect = 7e-74
Identities = 85/182 (46%), Positives = 124/182 (68%), Gaps = 3/182 (1%)
Query: 93 LIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMV 152
L+IVISGPSG GK T++K L E +L F ++AT+R RPGEV+G DYFFVSKEEF +M+
Sbjct: 1 LLIVISGPSGAGKSTLVKALLEEDPNLKFSISATTRKPRPGEVDGVDYFFVSKEEFEEMI 60
Query: 153 DKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAA 212
E LE+A V+G+Y G PK + E +A G D++L +D+QGAR +++ D AV +F+
Sbjct: 61 KAGEFLEWAEVHGNYYGTPKSPVEEALAAGKDVLLEIDVQGARQVKKKFPD-AVSIFILP 119
Query: 213 ESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVESVI 272
S L RL +R T++ E + R+A A++E+ H FDYV+VN + L+ AV+ ++S+I
Sbjct: 120 PSLEELERRLRKRGTDSEEVIERRLAKAKKEIAHADEFDYVIVNDD--LEKAVEELKSII 177
Query: 273 DA 274
A
Sbjct: 178 LA 179
>gnl|CDD|223272 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 211 bits (540), Expect = 6e-69
Identities = 77/188 (40%), Positives = 129/188 (68%), Gaps = 4/188 (2%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQM 151
L+IV+SGPSGVGK T++K L E D L F V+AT+R RPGEV+G DYFFV++EEF ++
Sbjct: 4 GLLIVLSGPSGVGKSTLVKALLE-DDKLRFSVSATTRKPRPGEVDGVDYFFVTEEEFEEL 62
Query: 152 VDKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLA 211
++++E LE+A +G+Y G ++ + + +A+G D++L +D+QGA +++ + + AV +F+
Sbjct: 63 IERDEFLEWAEYHGNYYGTSREPVEQALAEGKDVILDIDVQGALQVKKKMPN-AVSIFIL 121
Query: 212 AESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVESV 271
S L RL R T++ E + R+ A++E+ H FDYV+VN + L+ A++ ++S+
Sbjct: 122 PPSLEELERRLKGRGTDSEEVIARRLENAKKEISHADEFDYVIVNDD--LEKALEELKSI 179
Query: 272 IDAEKAKV 279
I AE+ +
Sbjct: 180 ILAERLRR 187
>gnl|CDD|238026 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines.
Length = 137
Score = 166 bits (424), Expect = 3e-52
Identities = 54/119 (45%), Positives = 82/119 (68%), Gaps = 2/119 (1%)
Query: 94 IIVISGPSGVGKDTVIKKLRESRD-SLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMV 152
+IV+SGPSGVGK T++K+L E D + F V+ T+R RPGEV+G DY FVSKEEF +++
Sbjct: 1 LIVLSGPSGVGKSTLLKRLLEEFDPNFGFSVSHTTRKPRPGEVDGVDYHFVSKEEFERLI 60
Query: 153 DKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLA 211
+ E LE+A +G+Y G K + E +A+G ++L +D+QGAR +++ AV +F+
Sbjct: 61 ENGEFLEWAEFHGNYYGTSKAAVEEALAEGKIVILEIDVQGARQVKK-SYPDAVSIFIL 118
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 149 bits (378), Expect = 1e-44
Identities = 79/183 (43%), Positives = 107/183 (58%), Gaps = 4/183 (2%)
Query: 94 IIVISGPSGVGKDTVIKKL-RESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMV 152
IV+SGPSGVGK + K L E + + V+ T+RP RPGEV+GKDY FVSKEE +
Sbjct: 4 PIVLSGPSGVGKSHIKKALLDEYPEKFGYSVSHTTRPPRPGEVDGKDYHFVSKEEMENDI 63
Query: 153 DKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAA 212
NE LEYA G+Y G K+ I + G +L VDIQG + LR+ S + VF+
Sbjct: 64 SANEFLEYAEFNGNYYGTSKEAIEQIAESGKICILDVDIQGVKQLRKAE-LSPISVFIKP 122
Query: 213 ESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVESVI 272
S L RL R TE E++ R+ A +E QH FDY++VN + LD A K ++ ++
Sbjct: 123 PSLKVLQRRLKRRGTEQEEKINKRMEAAEQEFQHYALFDYIIVNDD--LDEAYKKLKEIL 180
Query: 273 DAE 275
+AE
Sbjct: 181 EAE 183
>gnl|CDD|214504 smart00072, GuKc, Guanylate kinase homologues. Active enzymes
catalyze ATP-dependent phosphorylation of GMP to GDP.
Structure resembles that of adenylate kinase. So-called
membrane-associated guanylate kinase homologues (MAGUKs)
do not possess guanylate kinase activities; instead at
least some possess protein-binding functions.
Length = 174
Score = 142 bits (359), Expect = 5e-42
Identities = 71/178 (39%), Positives = 104/178 (58%), Gaps = 6/178 (3%)
Query: 101 SGVGKDTVIKKLRES-RDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMVDKNELLE 159
SGVGK T++ +L + D+ VV+ T+RP RPGEVNG DY FVSKEEF + LE
Sbjct: 1 SGVGKGTLLAELIQEIPDAFERVVSHTTRPPRPGEVNGVDYHFVSKEEFEDDIKSGLFLE 60
Query: 160 YALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLR-RILGDSAVFVFLAAESEMAL 218
+ G+Y G K+ IR+ KG +L +D QG + LR L + +F+A S L
Sbjct: 61 WGEYEGNYYGTSKETIRQVAEKGKHCLLDIDPQGVKQLRKAQL--YPIVIFIAPPSSEEL 118
Query: 219 VERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVESVIDAEK 276
RL +R TE E + R+A A++E Q FDYV+VN + L+ A + ++ +++AE+
Sbjct: 119 ERRLRQRGTETSERIQKRLAAAQKEAQEYHLFDYVIVNDD--LEDAYEELKEILEAEQ 174
>gnl|CDD|173199 PRK14737, gmk, guanylate kinase; Provisional.
Length = 186
Score = 129 bits (326), Expect = 5e-37
Identities = 60/181 (33%), Positives = 100/181 (55%), Gaps = 2/181 (1%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQM 151
P + +IS +G GK T+I+ L E F ++ T+R RPG+ GK YFF++ EEF +
Sbjct: 4 PKLFIISSVAGGGKSTIIQALLEEHPDFLFSISCTTRAPRPGDEEGKTYFFLTIEEFKKG 63
Query: 152 VDKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLA 211
+ E LE+A V+ +Y G PK I + +G ++ +D+QGA+ ++ + V +F+
Sbjct: 64 IADGEFLEWAEVHDNYYGTPKAFIEDAFKEGRSAIMDIDVQGAKIIKEKFPERIVTIFIE 123
Query: 212 AESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVESV 271
SE ERL+ R T++ E + RI E+ FDY ++N L+ A+ +E++
Sbjct: 124 PPSEEEWEERLIHRGTDSEESIEKRIENGIIELDEANEFDYKIIN--DDLEDAIADLEAI 181
Query: 272 I 272
I
Sbjct: 182 I 182
>gnl|CDD|215414 PLN02772, PLN02772, guanylate kinase.
Length = 398
Score = 94.5 bits (235), Expect = 4e-22
Identities = 56/166 (33%), Positives = 89/166 (53%), Gaps = 5/166 (3%)
Query: 95 IVISGPSGVGKDTVIKKL-RESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMVD 153
IVISGPSGVGK T+I L +E F V+ T+R R E +G Y F + + +
Sbjct: 138 IVISGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPREMEKDGVHYHFTERSVMEKEIK 197
Query: 154 KNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAAE 213
+ LE+A V+G+ G + + G +L +D+QGAR++R + A+F+F+
Sbjct: 198 DGKFLEFASVHGNLYGTSIEAVEVVTDSGKRCILDIDVQGARSVRASSLE-AIFIFICPP 256
Query: 214 SEMALVERLVERKTENREELLVRIATAREEVQHVKN---FDYVVVN 256
S L +RL R TE E++ R+ A E++ K+ FD+++ N
Sbjct: 257 SMEELEKRLRARGTETEEQIQKRLRNAEAELEQGKSSGIFDHILYN 302
>gnl|CDD|226232 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 82.4 bits (204), Expect = 4e-19
Identities = 53/175 (30%), Positives = 80/175 (45%), Gaps = 11/175 (6%)
Query: 95 IVISGPSGVGKDTVIKKLRE---SRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQM 151
I + GPSG GKDT++ R R LHFV +RP G G+D+ +S+ EF
Sbjct: 8 IAVVGPSGAGKDTLLDAARARLAGRPRLHFVRRVITRPADAG---GEDHDALSEAEFNTR 64
Query: 152 VDKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLA 211
+ +G GIP +I ++A G +++ RR V V +
Sbjct: 65 AGQGAFALSWQAHGLSYGIP-AEIDLWLAAGDVVLVNGSRAVLPQARRRYPQLLV-VCIT 122
Query: 212 AESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVK 266
A E+ L +RL ER E+REE+L R+ AR D ++ G+L+ A +
Sbjct: 123 ASPEV-LAQRLAERGRESREEILARL--ARAARYTAGPGDVTTIDNSGELEDAGE 174
>gnl|CDD|233821 TIGR02322, phosphon_PhnN, phosphonate metabolism
protein/1,5-bisphosphokinase (PRPP-forming) PhnN.
Members of this family resemble PhnN of phosphonate
utilization operons, where different such operons confer
the ability to use somewhat different profiles of C-P
bond-containing compounds (see PMID:15231805), including
phosphites as well as phosphonates. PhnN in E. coli
shows considerable homology to guanylate kinases (EC
2.7.4.8), and has actually been shown to act as a ribose
1,5-bisphosphokinase (PRPP forming). This suggests an
analogous kinase reaction for phosphonate metabolism,
converting 5-phosphoalpha-1-(methylphosphono)ribose to
methylphosphono-PRPP [Central intermediary metabolism,
Phosphorus compounds].
Length = 179
Score = 65.1 bits (159), Expect = 9e-13
Identities = 53/193 (27%), Positives = 86/193 (44%), Gaps = 29/193 (15%)
Query: 95 IVISGPSGVGKDTVIKKLRE---SRDSLHF---VVTATSRPMRPGEVNGKDYFFVSKEEF 148
I + GPSG GKDT++ R +HF V+T RP G+++ +S EEF
Sbjct: 4 IYVVGPSGAGKDTLLDYARARLAGDPRVHFVRRVIT------RPASAGGENHIALSTEEF 57
Query: 149 LQMVDKNELLEYALVY---GDYKGIPKKQIREYMAKGYDIVL---RVDIQGARTLRRILG 202
D +AL + G GIP +I +++ G +V+ R + AR L
Sbjct: 58 DHREDGG---AFALSWQAHGLSYGIP-AEIDQWLEAGDVVVVNGSRAVLPEARQRYPNL- 112
Query: 203 DSAVFVFLAAESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLD 262
+ V + A ++ L +RL R E+REE+ R+ AR D ++ G L+
Sbjct: 113 ---LVVNITASPDV-LAQRLAARGRESREEIEERL--ARSARFAAAPADVTTIDNSGSLE 166
Query: 263 SAVKLVESVIDAE 275
A + + ++ E
Sbjct: 167 VAGETLLRLLRQE 179
>gnl|CDD|236648 PRK10078, PRK10078, ribose 1,5-bisphosphokinase; Provisional.
Length = 186
Score = 49.4 bits (118), Expect = 3e-07
Identities = 45/183 (24%), Positives = 81/183 (44%), Gaps = 16/183 (8%)
Query: 94 IIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMVD 153
+I + GPSG GKD+++ LR+ + V A RP +++ +S++EF
Sbjct: 4 LIWLMGPSGSGKDSLLAALRQREQTQLLV--AHRYITRPASAGSENHIALSEQEFFTRAG 61
Query: 154 KNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGART----LRRILGDSAVFVF 209
+N G Y G+ +I ++ G+D++ + G+R R + + V
Sbjct: 62 QNLFALSWHANGLYYGV-GIEIDLWLHAGFDVL----VNGSRAHLPQARARYQSALLPVC 116
Query: 210 LAAESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAVKLVE 269
L S L +RL R EN E+ R+A A + D +N +G L +V +
Sbjct: 117 LQV-SPEILRQRLENRGRENASEINARLARA----ARYQPQDCHTLNNDGSLRQSVDTLL 171
Query: 270 SVI 272
+++
Sbjct: 172 TLL 174
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 39.2 bits (91), Expect = 3e-04
Identities = 31/115 (26%), Positives = 44/115 (38%), Gaps = 14/115 (12%)
Query: 94 IIVISGPSGVGKDTVIKKLRE-------SRDSLHFVVTATSRPMRPGEVNGKDYFFVSKE 146
II+I+GP G GK T+ KKL E S D L + GE++ D E
Sbjct: 1 IILITGPPGSGKSTLAKKLAEKLGIPVISLDDLLREEGL--AELDDGELDDIDIDLELLE 58
Query: 147 EFLQMVDKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRIL 201
E L +EL + V + + E + L + R L+R L
Sbjct: 59 EIL-----DELAKQEWVIDGVRESTLELRLEEADLVVFLDLPLPACRFRLLKRRL 108
>gnl|CDD|238977 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein
superfamily consisting of multiple families of enzymes
that share structural similarity and are functionally
related to the catalysis of the reversible phosphate
group transfer from nucleoside triphosphates to
nucleosides/nucleotides, nucleoside monophosphates, or
sugars. Members of this family play a wide variety of
essential roles in nucleotide metabolism, the
biosynthesis of coenzymes and aromatic compounds, as
well as the metabolism of sugar and sulfate.
Length = 69
Score = 35.4 bits (82), Expect = 0.003
Identities = 16/33 (48%), Positives = 17/33 (51%)
Query: 94 IIVISGPSGVGKDTVIKKLRESRDSLHFVVTAT 126
II I+G SG GK TV KKL E VV
Sbjct: 1 IIAITGGSGSGKSTVAKKLAEQLGGRSVVVLDE 33
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 37.3 bits (87), Expect = 0.005
Identities = 16/31 (51%), Positives = 21/31 (67%), Gaps = 2/31 (6%)
Query: 82 DSNPVCPPPNPLIIVISGPSGVGKDTVIKKL 112
D P PPP L++V+ GP GVGK T+I+ L
Sbjct: 31 DRTPEEPPP--LVVVVVGPPGVGKSTLIRSL 59
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 35.9 bits (83), Expect = 0.006
Identities = 21/103 (20%), Positives = 35/103 (33%), Gaps = 10/103 (9%)
Query: 95 IVISGPSGVGKDTVIKKLRESRDSLHFVV--TATSRPMRPGEVNGKDYFFVSKEEFLQMV 152
I+I+G G GK T+ K+L E L V+ A + +E
Sbjct: 1 ILITGTPGSGKTTLAKELAE---RLGDVLRDLAKENGLVLELDEEITDESKRLDEDKLAK 57
Query: 153 DKNELLEYALVYGDYK-----GIPKKQIREYMAKGYDIVLRVD 190
++L + + + G + E +VLR D
Sbjct: 58 LLDKLEKIIEELAEGENVIIDGHLAELELERFKDLVFVVLRAD 100
>gnl|CDD|173193 PRK14731, coaE, dephospho-CoA kinase; Provisional.
Length = 208
Score = 36.6 bits (85), Expect = 0.007
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 206 VFVFLAAESEMALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSAV 265
V +AA++E+ +ER V+R +REE+ RIA + + ++ DYV+ N G LD
Sbjct: 136 FIVVVAADTELR-LERAVQRGMGSREEIRRRIAAQWPQEKLIERADYVIYN-NGTLDELK 193
Query: 266 KLVESVI 272
E +
Sbjct: 194 AQTEQLY 200
>gnl|CDD|180682 PRK06761, PRK06761, hypothetical protein; Provisional.
Length = 282
Score = 36.3 bits (84), Expect = 0.011
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 13/93 (13%)
Query: 94 IIVISGPSGVGKDTVIK----KLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFL 149
+I+I G G GK T K L ++ + + P + +G F +KEEF
Sbjct: 5 LIIIEGLPGFGKSTTAKMLNDILSQNGIEVELYL--EGNLDHPADYDGVACF--TKEEFD 60
Query: 150 QMVD-----KNELLEYALVYGDYKGIPKKQIRE 177
+++ K LL+ L GDY +P ++I+
Sbjct: 61 RLLSNYPDFKEVLLKNVLKKGDYYLLPYRKIKN 93
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 36.0 bits (84), Expect = 0.011
Identities = 21/73 (28%), Positives = 28/73 (38%), Gaps = 8/73 (10%)
Query: 161 ALVYGDYKGIPKKQIREYMAKGYDIVL--RVDIQGARTLRRI---LGDSAVFVFL---AA 212
ALV G +G+ + G D+V+ R D + A L LG A V
Sbjct: 9 ALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEALGRRAQAVQADVTDK 68
Query: 213 ESEMALVERLVER 225
+ A V VER
Sbjct: 69 AALEAAVAAAVER 81
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 34.9 bits (81), Expect = 0.013
Identities = 29/141 (20%), Positives = 52/141 (36%), Gaps = 28/141 (19%)
Query: 91 NPLIIVISGPSGVGKDTVIKKLRESRDSLHFV-VTATSRPMRPGEVNGKDYFFVSKEEFL 149
I V++G SG GK T++++L + V V A S + ++ L
Sbjct: 3 GAGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLG--------------TPKDLL 48
Query: 150 QMVDKNELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVD-IQGAR-----TLRRI--L 201
+ + L L G + + I + + + +L +D Q LR + L
Sbjct: 49 RKI--LRALGLPLSGGTTAEL-LEAILDALKRRGRPLLIIDEAQHLSLEALEELRDLYDL 105
Query: 202 GDSAVFVFLAAESEMALVERL 222
+ + V L E L + L
Sbjct: 106 SEKGIQVILVGTPE--LRKLL 124
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 34.6 bits (80), Expect = 0.028
Identities = 44/189 (23%), Positives = 78/189 (41%), Gaps = 23/189 (12%)
Query: 95 IVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMVDK 154
I+I GP G GK T+ KKL + L T +R + EE + +DK
Sbjct: 3 ILILGPPGAGKSTLAKKLAK---KLGLPHLDTGDILRAAIAERTELG----EEIKKYIDK 55
Query: 155 NELLEYALVYGDYKGIPKKQIREYMAKGYDIVLRVD----IQGARTLRRILGDSAV---F 207
EL+ +V G K+++ E A + + AR L+R+L + V
Sbjct: 56 GELVPDEIVNGLV----KERLDE--ADCKAGFILDGFPRTLCQARALKRLLKELGVRLDM 109
Query: 208 VFLAAESEMALVERLV---ERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLDSA 264
V E L+ERL+ R+ +N E + R+ E+ + + V ++ G+++
Sbjct: 110 VIELDVPEELLLERLLGRRVREDDNEETVKKRLKVYHEQTAPLIEYYSVTIDGSGEIEEV 169
Query: 265 VKLVESVID 273
+ + +
Sbjct: 170 LADILKALS 178
>gnl|CDD|234321 TIGR03708, poly_P_AMP_trns, polyphosphate:AMP phosphotransferase.
Members of this protein family contain a domain
duplication. The characterized member from Acinetobacter
johnsonii is polyphosphate:AMP phosphotransferase (PAP),
which can transfer the terminal phosphate from poly(P)
to AMP, yielding ADP. In the opposite direction, this
enzyme can synthesize poly(P). Each domain of this
protein family is homologous to polyphosphate kinase, an
enzyme that can run in the forward direction to extend a
polyphosphate chain with a new terminal phosphate from
ATP, or in reverse to make ATP (or GTP) from ADP (or
GDP) [Central intermediary metabolism, Phosphorus
compounds].
Length = 493
Score = 34.6 bits (80), Expect = 0.050
Identities = 17/46 (36%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRP-----MRP 132
P+II+I G G GK I L E D A RP RP
Sbjct: 40 PVIILIEGWDGAGKGETINLLNEWMDPRGIETHAFGRPSDEERERP 85
>gnl|CDD|224533 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 179
Score = 33.1 bits (76), Expect = 0.078
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 90 PNPLIIVISGPSGVGKDTVIKKLRE 114
+ I I+G GVGK T++ K+ E
Sbjct: 3 KMAMKIFITGRPGVGKTTLVLKIAE 27
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 32.8 bits (76), Expect = 0.083
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
II I GP+G GK TV K L
Sbjct: 1 IIAIDGPAGSGKSTVAKLL 19
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 32.3 bits (74), Expect = 0.18
Identities = 13/41 (31%), Positives = 17/41 (41%)
Query: 91 NPLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMR 131
+ IVI G G GK T + L+E + V T P
Sbjct: 2 KGMFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTREPGG 42
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 32.2 bits (74), Expect = 0.19
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 95 IVISGPSGVGKDTVIKKLRE 114
I I+GP GVGK T++ K+ E
Sbjct: 3 IGITGPPGVGKTTLVLKIAE 22
>gnl|CDD|232890 TIGR00235, udk, uridine kinase. Model contains a number of longer
eukaryotic proteins and starts bringing in
phosphoribulokinase hits at scores of 160 and below
[Purines, pyrimidines, nucleosides, and nucleotides,
Salvage of nucleosides and nucleotides].
Length = 207
Score = 32.0 bits (73), Expect = 0.22
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 90 PNPLIIVISGPSGVGKDTVIKKLRESRDSLHFVV 123
P +II I G SG GK TV +K+ E L V+
Sbjct: 4 PKGIIIGIGGGSGSGKTTVARKIYEQLGKLEIVI 37
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 31.4 bits (71), Expect = 0.24
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 68 ELLRSLEASLGHAFDSNPVCPPPNPLIIVISGPSGVGKDTVIKKLRESRDSLHFVV 123
E L L +L A P ++++GPSG GK +++++L E
Sbjct: 7 EELERLLDALRRARS-------GGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKC 55
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism].
Length = 218
Score = 31.9 bits (73), Expect = 0.25
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 88 PPPNPLIIVISGPSGVGKDTVIKKLRE 114
P +II I+G SG GK TV K+L E
Sbjct: 4 KPEKVIIIGIAGGSGSGKTTVAKELSE 30
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 31.4 bits (72), Expect = 0.25
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 95 IVISGPSGVGKDTVIKKLRE 114
I I+GP GVGK T++KK+ E
Sbjct: 2 IFITGPPGVGKTTLVKKVIE 21
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 32.0 bits (73), Expect = 0.27
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 89 PPNPLIIVISGPSGVGKDTV 108
PLII+I G SGVGK T+
Sbjct: 86 MKRPLIILIGGASGVGKSTI 105
>gnl|CDD|238835 cd01672, TMPK, Thymidine monophosphate kinase (TMPK), also known as
thymidylate kinase, catalyzes the phosphorylation of
thymidine monophosphate (TMP) to thymidine diphosphate
(TDP) utilizing ATP as its preferred phophoryl donor.
TMPK represents the rate-limiting step in either de novo
or salvage biosynthesis of thymidine triphosphate (TTP).
Length = 200
Score = 31.5 bits (72), Expect = 0.34
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 93 LIIVISGPSGVGKDTVIKKLRE 114
+ IV G G GK T+I+ L E
Sbjct: 1 MFIVFEGIDGAGKTTLIELLAE 22
>gnl|CDD|217416 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 31.0 bits (71), Expect = 0.35
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
V++G SGVGK T++ L
Sbjct: 37 TSVLAGQSGVGKSTLLNAL 55
>gnl|CDD|237040 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 31.5 bits (72), Expect = 0.42
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
I V++GPSGVGK ++I +L
Sbjct: 174 ITVVAGPSGVGKSSLINRL 192
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 30.9 bits (71), Expect = 0.46
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 93 LIIVISGPSGVGKDTVIKKLRE 114
+II ISGP G GK TV + L E
Sbjct: 1 MIITISGPPGSGKTTVARLLAE 22
>gnl|CDD|237802 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 767
Score = 31.7 bits (72), Expect = 0.48
Identities = 22/85 (25%), Positives = 31/85 (36%), Gaps = 32/85 (37%)
Query: 99 GPSGVGKDTVIKKL------RESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQMV 152
GP+GVGK T KL RE D L + T D F + E L+
Sbjct: 192 GPTGVGKTTTTAKLAARCVAREGADQLALLTT--------------DSFRIGALEQLR-- 235
Query: 153 DKNELLEYALVYGDYKGIPKKQIRE 177
+YG G+P +++
Sbjct: 236 ----------IYGRILGVPVHAVKD 250
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in
this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 30.5 bits (69), Expect = 0.57
Identities = 14/22 (63%), Positives = 15/22 (68%)
Query: 93 LIIVISGPSGVGKDTVIKKLRE 114
+II ISGP G GK TV K L E
Sbjct: 1 MIITISGPPGSGKTTVAKILAE 22
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 30.4 bits (68), Expect = 0.63
Identities = 14/73 (19%), Positives = 21/73 (28%), Gaps = 3/73 (4%)
Query: 92 PLIIVISGPSGVGKDTVIKKL-RESRDSLH--FVVTATSRPMRPGEVNGKDYFFVSKEEF 148
+I+I GP G GK T+ + L RE + + K
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 149 LQMVDKNELLEYA 161
+ L A
Sbjct: 62 SGELRLRLALALA 74
>gnl|CDD|169400 PRK08356, PRK08356, hypothetical protein; Provisional.
Length = 195
Score = 30.5 bits (69), Expect = 0.65
Identities = 48/208 (23%), Positives = 78/208 (37%), Gaps = 51/208 (24%)
Query: 93 LIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEV-NGKDYFFVSKEEFLQM 151
+I+ + G GK TV K E F + S P+ N DY +V + F
Sbjct: 6 MIVGVVGKIAAGKTTVAKFFEE----KGFCRVSCSDPLIDLLTHNVSDYSWVPEVPFKGE 61
Query: 152 VDKNELLEYALVYGDYKGIPKKQIREYMAKGY--DIVLR-----------VDIQGARTLR 198
+ L+E Y+ + Y DI++R + I G R+
Sbjct: 62 PTRENLIELG---------------RYLKEKYGEDILIRLAVDKKRNCKNIAIDGVRSRG 106
Query: 199 RI-----LGDSAVFVFLAAESEMALVERLVERKTE-----NREELLVRIATAREEVQHVK 248
+ +G ++V A+ E+ ERL R E E ++ E++ H
Sbjct: 107 EVEAIKRMGGKVIYV--EAKPEIRF-ERLRRRGAEKDKGIKSFEDFLKFDEWEEKLYHTT 163
Query: 249 NF----DYVVVNAEGKLDSAVKLVESVI 272
D+V+VN EG L+ K VE ++
Sbjct: 164 KLKDKADFVIVN-EGTLEELRKKVEEIL 190
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 30.4 bits (69), Expect = 0.73
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 94 IIVISGPSGVGKDTVIKKLRE 114
+I I+G GVGK TV K LRE
Sbjct: 2 LIAITGTPGVGKTTVCKLLRE 22
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 30.9 bits (69), Expect = 0.89
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 90 PNPLIIVISGPSGVGKDTVIKKL 112
P P I+ + GP G GK T+I+ L
Sbjct: 67 PPPFIVAVVGPPGTGKSTLIRSL 89
>gnl|CDD|223360 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 30.2 bits (69), Expect = 1.0
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 91 NPLIIVISGPSGVGKDTVIKKL 112
+II I GP+G GK TV K L
Sbjct: 3 AAIIIAIDGPAGSGKSTVAKIL 24
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 30.0 bits (68), Expect = 1.1
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 93 LIIVISGPSGVGKDTVIKKLRE 114
++I ISG G GK TV ++L E
Sbjct: 1 MVITISGLPGSGKTTVARELAE 22
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 27.9 bits (63), Expect = 1.1
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 89 PPNPLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSR 128
P +P +++GPSG GK T+I D++ ++ R
Sbjct: 18 PIDPKGTLLTGPSGSGKSTLI-------DAIQTLLVPAKR 50
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 29.5 bits (67), Expect = 1.2
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 94 IIVISGPSGVGKDTVIKKLRES 115
IIV+ G SG GK TV K L E
Sbjct: 1 IIVVMGVSGSGKSTVGKALAER 22
>gnl|CDD|129128 TIGR00017, cmk, cytidylate kinase. This family consists of
cytidylate kinase, which catalyzes the phosphorylation
of cytidine 5-monophosphate (dCMP) to cytidine 5
-diphosphate (dCDP) in the presence of ATP or GTP. UMP
and dCMP can also act as acceptors [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 217
Score = 29.7 bits (67), Expect = 1.2
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 93 LIIVISGPSGVGKDTVIKKLRE 114
+II I GPSG GK TV K + E
Sbjct: 3 MIIAIDGPSGAGKSTVAKAVAE 24
>gnl|CDD|187617 cd05359, ChcA_like_SDR_c, 1-cyclohexenylcarbonyl_coenzyme
A_reductase (ChcA)_like, classical (c) SDRs. This
subgroup contains classical SDR proteins, including
members identified as 1-cyclohexenylcarbonyl coenzyme A
reductase. ChcA of Streptomyces collinus is implicated
in the final reduction step of shikimic acid to
ansatrienin. ChcA shows sequence similarity to the SDR
family of NAD-binding proteins, but it lacks the
conserved Tyr of the characteristic catalytic site. This
subgroup also contains the NADH-dependent
enoyl-[acyl-carrier-protein(ACP)] reductase FabL from
Bacillus subtilis. This enzyme participates in bacterial
fatty acid synthesis, in type II fatty-acid synthases
and catalyzes the last step in each elongation cycle.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 30.0 bits (68), Expect = 1.3
Identities = 21/101 (20%), Positives = 30/101 (29%), Gaps = 21/101 (20%)
Query: 161 ALVYGDYKGIPKKQIREYMAKGYDIVL---RVDIQGARTLRRILGDSA-VFVFLAAESEM 216
ALV G +GI K +G D+V+ + A I V A S+
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEELGGKAVVVRADVSQP 60
Query: 217 ALVERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNA 257
VE + + D +V NA
Sbjct: 61 QDVEEMF-----------------AAVKERFGRLDVLVSNA 84
>gnl|CDD|224930 COG2019, AdkA, Archaeal adenylate kinase [Nucleotide transport and
metabolism].
Length = 189
Score = 29.7 bits (67), Expect = 1.3
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 90 PNPLIIVISGPSGVGKDTVIKKLRESRDSLHFV 122
++VI+G GVGK TV+K + V
Sbjct: 2 KGRKVVVITGVPGVGKTTVLKIALKELVKHKIV 34
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 637
Score = 30.3 bits (68), Expect = 1.3
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
I++I+GPSG GK T IK L
Sbjct: 112 ILLITGPSGCGKSTTIKIL 130
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 29.2 bits (66), Expect = 1.4
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 94 IIVISGPSGVGKDTVIKKLRESR 116
+I++ G G GK T ++L
Sbjct: 1 LILMVGLPGSGKSTFARRLLREL 23
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 30.0 bits (68), Expect = 1.5
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 90 PNPLIIVISGPSGVGKDTVIKKL 112
N +I I+G G GK T+I+ L
Sbjct: 49 GNAHVIGITGVPGAGKSTLIEAL 71
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 29.6 bits (67), Expect = 1.5
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 90 PNPLIIVISGPSGVGKDTVIKKLRES 115
+ ++I GP G+GK ++ K L
Sbjct: 1 TKNIKVLIYGPPGIGKTSLAKTLPPK 26
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 29.6 bits (67), Expect = 1.6
Identities = 24/78 (30%), Positives = 29/78 (37%), Gaps = 22/78 (28%)
Query: 57 NHTQAAPV---NKIELLRSLEA----------SLGHA--FDSNPVCPPPNPL-------I 94
PV NKI+LL EA +G+ F S L I
Sbjct: 107 EAGGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSAKNGDGLEELAELLAGKI 166
Query: 95 IVISGPSGVGKDTVIKKL 112
V+ G SGVGK T+I L
Sbjct: 167 TVLLGQSGVGKSTLINAL 184
>gnl|CDD|238836 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 = 29.5 bits (67), Expect = 1.6
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 94 IIVISGPSGVGKDTVIKKLRESRDSLHF 121
+IV+ G G GK T+ K+L E
Sbjct: 1 VIVVEGNIGAGKSTLAKELAEHLGYEVV 28
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 29.0 bits (65), Expect = 1.6
Identities = 17/70 (24%), Positives = 26/70 (37%), Gaps = 4/70 (5%)
Query: 88 PPPNPLIIVISGPSGVGKDTVIKKL-RES-RDSLHFVVTATSRPMRPGEVNGKDYFFVSK 145
PPP L++ GP G GK T+ + + E R F+ S + V F+ +
Sbjct: 17 PPPKNLLLY--GPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVR 74
Query: 146 EEFLQMVDKN 155
F
Sbjct: 75 LLFELAEKAK 84
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA. YjeQ
is a late-stage ribosomal biogenesis factor involved in
the 30S subunit maturation, and it represents a protein
family whose members are broadly conserved in bacteria
and have been shown to be essential to the growth of E.
coli and B. subtilis. Proteins of the YjeQ family
contain all sequence motifs typical of the vast class of
P-loop-containing GTPases, but show a circular
permutation, with a G4-G1-G3 pattern of motifs as
opposed to the regular G1-G3-G4 pattern seen in most
GTPases. All YjeQ family proteins display a unique
domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain.
Length = 211
Score = 29.3 bits (67), Expect = 1.6
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
V+ G SGVGK T++ L
Sbjct: 87 TSVLVGQSGVGKSTLLNAL 105
>gnl|CDD|234814 PRK00698, tmk, thymidylate kinase; Validated.
Length = 205
Score = 29.4 bits (67), Expect = 1.6
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 95 IVISGPSGVGKDTVIKKLRESRDSLHFVVTAT 126
I I G G GK T I+ L+E + V T
Sbjct: 6 ITIEGIDGAGKSTQIELLKELLEQQGRDVVFT 37
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6 family
in eukaryotes. Several members may be found in genome
and interact with each other [DNA metabolism, DNA
replication, recombination, and repair].
Length = 365
Score = 29.9 bits (68), Expect = 1.7
Identities = 13/43 (30%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 88 PPPNPLIIVISGPSGVGKDTVIKKL-----RESRDSLHFVVTA 125
P N + I G +G GK V K + + D VVT
Sbjct: 39 RPSN---VFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTV 78
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 29.3 bits (67), Expect = 1.7
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 91 NPLIIVISGPSGVGKDTVIKKL 112
++I I GP+G GK TV K L
Sbjct: 3 KAIVIAIDGPAGSGKGTVAKIL 24
>gnl|CDD|219519 pfam07693, KAP_NTPase, KAP family P-loop domain. The KAP (after
Kidins220/ARMS and PifA) family of predicted NTPases are
sporadically distributed across a wide phylogenetic
range in bacteria and in animals. Many of the
prokaryotic KAP NTPases are encoded in plasmids and tend
to undergo disruption to form pseudogenes. A unique
feature of all eukaryotic and certain bacterial KAP
NTPases is the presence of two or four transmembrane
helices inserted into the P-loop NTPase domain. These
transmembrane helices anchor KAP NTPases in the membrane
such that the P-loop domain is located on the
intracellular side.
Length = 301
Score = 29.7 bits (67), Expect = 1.8
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 4/40 (10%)
Query: 87 CPPPNPLIIVISGPSGVGKDTVIKKLR----ESRDSLHFV 122
+I + G G GK + + L E + H V
Sbjct: 15 PSLAPGFVIGLYGAWGSGKTSFLNLLEDELKEFPEEFHIV 54
>gnl|CDD|235492 PRK05480, PRK05480, uridine/cytidine kinase; Provisional.
Length = 209
Score = 29.4 bits (67), Expect = 1.8
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 91 NPLIIVISGPSGVGKDTVIKKLRESRDSLHFVV 123
P+II I+G SG GK TV + E V
Sbjct: 5 KPIIIGIAGGSGSGKTTVASTIYEELGDESIAV 37
>gnl|CDD|179793 PRK04220, PRK04220, 2-phosphoglycerate kinase; Provisional.
Length = 301
Score = 29.5 bits (67), Expect = 1.8
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 92 PLIIVISGPSGVGKDTV 108
P+II+I G SGVG T+
Sbjct: 92 PIIILIGGASGVGTSTI 108
>gnl|CDD|240071 cd04720, BAH_Orc1p_Yeast, BAH, or Bromo Adjacent Homology domain,
as present in Orc1p, which again is part of the
Saccharomyces cerevisiae Sir1-origin recognition
complex, and as present in Sir3p. The Orc1p BAH doman
functions in epigenetic silencing. BAH domains are found
in a variety of proteins playing roles in
transcriptional silencing and the remodeling of
chromatin. It is assumed that in most or all of these
instances the BAH domain mediates protein-protein
interactions.
Length = 179
Score = 28.9 bits (65), Expect = 1.8
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 131 RPGEVNGKDYFFVSKEEFLQMVDKNELL 158
R E+N Y+ EF +KNEL
Sbjct: 95 RWFEINPARYYKQFDPEFRSESNKNELY 122
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.1 bits (66), Expect = 1.9
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 95 IVISGPSGVGKDTVIKKLRE 114
IVI+G GK T+++ L
Sbjct: 2 IVITGGPSTGKTTLLEALAA 21
>gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional.
Length = 180
Score = 28.9 bits (65), Expect = 1.9
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 93 LIIVISGPSGVGKDTVIKKLRE 114
+II I+G GVGK TV K L E
Sbjct: 1 MIIAITGTPGVGKTTVSKLLAE 22
>gnl|CDD|178082 PLN02463, PLN02463, lycopene beta cyclase.
Length = 447
Score = 29.7 bits (67), Expect = 2.0
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 160 YALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGAR 195
A V+ D I +++ RE+ G DI+L++D+ G R
Sbjct: 346 SAEVWNDLWPIERRRQREFFCFGMDILLKLDLDGTR 381
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 28.0 bits (63), Expect = 2.0
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 95 IVISGPSGVGKDTVIKKL 112
I + GP G GK T+ K L
Sbjct: 1 IWLYGPPGCGKSTLAKYL 18
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 28.7 bits (65), Expect = 2.2
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRE 114
++V++G GVGK TV+ K E
Sbjct: 2 MKVVVVTGVPGVGKTTVLNKALE 24
>gnl|CDD|237875 PRK14974, PRK14974, cell division protein FtsY; Provisional.
Length = 336
Score = 29.2 bits (66), Expect = 2.3
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 92 PLIIVISGPSGVGKDTVIKKL 112
P++IV G +G GK T I KL
Sbjct: 140 PVVIVFVGVNGTGKTTTIAKL 160
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 29.2 bits (65), Expect = 2.4
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 93 LIIVISGPSGVGKDTVIKKL 112
LI++++GPSG GK T +K L
Sbjct: 46 LILLLTGPSGCGKSTTVKVL 65
>gnl|CDD|217424 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 126
Score = 28.1 bits (63), Expect = 2.5
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
I+++ GP GK T+I+KL
Sbjct: 2 IVLVVGPKDSGKTTLIRKL 20
>gnl|CDD|235958 PRK07194, fliG, flagellar motor switch protein G; Reviewed.
Length = 334
Score = 28.8 bits (65), Expect = 2.9
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 205 AVF-VFLAAESEMALVERLVERKTENREELLVRIATAREEVQHV 247
AVF FL ES A+++ L E + ++++L RIA + + V
Sbjct: 133 AVFLAFLPPESAAAVLKYLPE---DRQDDILYRIAQLDDVDRDV 173
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport and
metabolism].
Length = 216
Score = 28.8 bits (65), Expect = 2.9
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 94 IIVISGPSGVGKDTVIKKLRESRDSLHFV 122
+IVI G G GK T+ + L E F
Sbjct: 6 VIVIEGMIGAGKSTLAQALAEHLGFKVFY 34
>gnl|CDD|237066 PRK12338, PRK12338, hypothetical protein; Provisional.
Length = 319
Score = 29.0 bits (65), Expect = 3.1
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDY 140
P +I+I SG+GK T+ +L + + H + T R + G + GK+Y
Sbjct: 4 PYVILIGSASGIGKSTIASELARTLNIKHLIETDFIREVVRGII-GKEY 51
>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional.
Length = 367
Score = 28.8 bits (65), Expect = 3.2
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
I ++ G G GK T++KK+
Sbjct: 32 IFILKGGPGTGKSTLMKKI 50
>gnl|CDD|176982 CHL00041, rps11, ribosomal protein S11.
Length = 116
Score = 27.5 bits (62), Expect = 3.3
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 95 IVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRP 129
++I GP G+G+DT ++ +R S L + T P
Sbjct: 79 VMIKGP-GLGRDTALRAIRRSGLKLSSIRDVTPMP 112
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 28.6 bits (65), Expect = 3.6
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 88 PPPNPLIIVISGPSGVGKDTVIKKLRE 114
P PL+ V+ G +G GK +++ L
Sbjct: 138 PAQFPLV-VLGGNTGSGKTELLQALAN 163
>gnl|CDD|213194 cd03227, ABC_Class2, ATP-binding cassette domain of non-transporter
proteins. ABC-type Class 2 contains systems involved in
cellular processes other than transport. These families
are characterized by the fact that the ABC subunit is
made up of duplicated, fused ABC modules (ABC2). No
known transmembrane proteins or domains are associated
with these proteins.
Length = 162
Score = 28.1 bits (63), Expect = 3.6
Identities = 12/63 (19%), Positives = 21/63 (33%), Gaps = 8/63 (12%)
Query: 79 HAFDSNPVCPPPNPLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGK 138
F N V + +I+GP+G GK T++ D++ + R
Sbjct: 9 SYFVPNDV-TFGEGSLTIITGPNGSGKSTIL-------DAIGLALGGAQSATRRRSGVKA 60
Query: 139 DYF 141
Sbjct: 61 GCI 63
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 28.6 bits (65), Expect = 3.7
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 96 VISGPSGVGKDTVIKKL 112
V++G SGVGK T++ L
Sbjct: 168 VLAGQSGVGKSTLLNAL 184
>gnl|CDD|238986 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK).
Length = 179
Score = 28.0 bits (63), Expect = 3.7
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
++ I+GPSG GK T KKL
Sbjct: 1 VVGIAGPSGSGKTTFAKKL 19
>gnl|CDD|206444 pfam14276, DUF4363, Domain of unknown function (DUF4363). This
family of proteins is found in bacteria. Proteins in
this family are approximately 120 amino acids in length.
Length = 121
Score = 27.6 bits (62), Expect = 3.8
Identities = 10/36 (27%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 213 ESEMALVERLVERKTENREELLVRIATAREEVQHVK 248
+ E+A +++ + KT+N++E L + T + ++H+K
Sbjct: 78 DLELAKLKQYI--KTKNKDEALAELHTLKTLLEHIK 111
>gnl|CDD|182331 PRK10247, PRK10247, putative ABC transporter ATP-binding protein
YbbL; Provisional.
Length = 225
Score = 28.1 bits (63), Expect = 3.9
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 14/59 (23%)
Query: 96 VISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEV--NGKDYFFVSKEEFLQMV 152
+I+GPSG GK T++K +V + P G + G+D + E + Q V
Sbjct: 37 LITGPSGCGKSTLLK-----------IVASLISPTS-GTLLFEGEDISTLKPEIYRQQV 83
>gnl|CDD|181310 PRK08233, PRK08233, hypothetical protein; Provisional.
Length = 182
Score = 28.2 bits (63), Expect = 4.1
Identities = 27/133 (20%), Positives = 49/133 (36%), Gaps = 37/133 (27%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRESR--------DSLHFVVTATSRPMRPGEV-----NGK 138
II I+ SG GK T+ ++L D F P ++ G
Sbjct: 3 TKIITIAAVSGGGKTTLTERLTHKLKNSKALYFDRYDF-------DNCPEDICKWIDKGA 55
Query: 139 DYFFVSKEEFL----QMVDKNEL----LEYALVYGDYKGIPKKQIREYMAKGYDIVLRVD 190
+Y + +++ K+ + ++Y Y + ++R+++ I +D
Sbjct: 56 NYSEWVLTPLIKDIQELIAKSNVDYIIVDYPFAYLN------SEMRQFIDVTIFIDTPLD 109
Query: 191 IQGARTLRRILGD 203
I A RRIL D
Sbjct: 110 IAMA---RRILRD 119
>gnl|CDD|235498 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
Length = 176
Score = 28.1 bits (63), Expect = 4.4
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 87 CPPPNPLIIVISGPSGVGKDTVIKKLRE 114
PN +I I+G +G GK T+ K L E
Sbjct: 2 QMKPNGYVIWITGLAGSGKTTIAKALYE 29
>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 388
Score = 28.3 bits (63), Expect = 4.9
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 83 SNPVCPPPNPLIIVISGPSGVGKDTVIKKL 112
S + + ++ GP+GVGK T I KL
Sbjct: 165 SGSIIDNLKKRVFILVGPTGVGKTTTIAKL 194
>gnl|CDD|224677 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 27.7 bits (62), Expect = 5.1
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRE 114
I+ I G GK T+I+KL
Sbjct: 2 MKILGIVGYKNSGKTTLIEKLVR 24
>gnl|CDD|215427 PLN02796, PLN02796, D-glycerate 3-kinase.
Length = 347
Score = 28.2 bits (63), Expect = 5.1
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 89 PPNPLIIVISGPSGVGKDTVIKKL 112
PL+I IS P G GK T++ L
Sbjct: 97 EIPPLVIGISAPQGCGKTTLVFAL 120
>gnl|CDD|235858 PRK06762, PRK06762, hypothetical protein; Provisional.
Length = 166
Score = 27.6 bits (62), Expect = 5.2
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRES 115
+I+I G SG GK T+ K+L+E
Sbjct: 2 TTLIIIRGNSGSGKTTIAKQLQER 25
>gnl|CDD|237393 PRK13477, PRK13477, bifunctional pantoate ligase/cytidylate kinase;
Provisional.
Length = 512
Score = 28.3 bits (64), Expect = 5.7
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 94 IIVISGPSGVGKDTVIK 110
II I GP+G GK TV +
Sbjct: 286 IIAIDGPAGAGKSTVTR 302
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.1 bits (63), Expect = 5.8
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
+I + GP+GVGK T + KL
Sbjct: 205 VIALVGPTGVGKTTTLAKL 223
>gnl|CDD|226691 COG4240, COG4240, Predicted kinase [General function prediction
only].
Length = 300
Score = 27.9 bits (62), Expect = 5.8
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 91 NPLIIVISGPSGVGKDT 107
PLI+ ISGP G GK T
Sbjct: 49 RPLIVGISGPQGSGKST 65
>gnl|CDD|223207 COG0129, IlvD, Dihydroxyacid dehydratase/phosphogluconate
dehydratase [Amino acid transport and metabolism /
Carbohydrate transport and metabolism].
Length = 575
Score = 28.3 bits (64), Expect = 6.0
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
Query: 129 PMRPGEVNGKDYFFVSKEEFLQM-----VDKNELLEY 160
PM G+VNG+ S E + + + ELLE
Sbjct: 155 PMLAGKVNGEKAGGTSVFEAVGAYAAGKISREELLEI 191
>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction
only].
Length = 187
Score = 27.4 bits (61), Expect = 6.4
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 95 IVISGPSGVGKDTVIKKLRE 114
IV+ GP G GK T ++ L +
Sbjct: 13 IVVIGPVGAGKTTFVRALSD 32
>gnl|CDD|215925 pfam00448, SRP54, SRP54-type protein, GTPase domain. This family
includes relatives of the G-domain of the SRP54 family
of proteins.
Length = 196
Score = 27.5 bits (62), Expect = 6.5
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 92 PLIIVISGPSGVGKDTVIKKL 112
P +I++ G G GK T I KL
Sbjct: 1 PNVILLVGLQGSGKTTTIAKL 21
>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 = 6.5
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 92 PLIIVISGPSGVGKDTVIKKL 112
P +I++ GP+GVGK T I KL
Sbjct: 1 PGVILLVGPNGVGKTTTIAKL 21
>gnl|CDD|119312 pfam10792, DUF2605, Protein of unknown function (DUF2605). This
family is conserved in Cyanobacteria. The function is
not known.
Length = 99
Score = 26.5 bits (59), Expect = 6.6
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 219 VERLVERKTENREELLVRIATAREEVQHVK 248
E + E ++ LL R+ A++EV +
Sbjct: 33 TEPISFMSPEEQQALLERVKEAQKEVIATR 62
>gnl|CDD|219580 pfam07793, DUF1631, Protein of unknown function (DUF1631). The
members of this family are sequences derived from a
group of hypothetical proteins expressed by certain
bacterial species. The region concerned is approximately
440 amino acid residues in length.
Length = 729
Score = 28.0 bits (63), Expect = 7.1
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 15/66 (22%)
Query: 194 ARTLRRIL----GDSAVFV--------FLAAESEMALVERLVERKTENREELLVRIATAR 241
++RIL D ++F FL E + LVE++T EE R+ AR
Sbjct: 430 EEIVQRILNEFDDDPSLFAELLEEFQAFLEQERRRS---ELVEQRTREAEEGRARLELAR 486
Query: 242 EEVQHV 247
++VQ
Sbjct: 487 QQVQQE 492
>gnl|CDD|217823 pfam03972, MmgE_PrpD, MmgE/PrpD family. This family includes
2-methylcitrate dehydratase EC:4.2.1.79 (PrpD) that is
required for propionate catabolism. It catalyzes the
third step of the 2-methylcitric acid cycle.
Length = 445
Score = 27.7 bits (62), Expect = 7.3
Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 173 KQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAAESEMALVERLVERKTEN 229
K++ E M Y+I +R+ + + + R + D +V +AA + A + L + EN
Sbjct: 122 KEVLEAMVVAYEIAIRLAL--SNSFRHVGLDHVTWVGIAAAAAAAKLLGLDREEIEN 176
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 27.8 bits (62), Expect = 7.3
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 89 PPNPLIIVISGPSGVGKDTVIKKLRE 114
P II+I GP VGK T++K L +
Sbjct: 34 DLRPFIILILGPRQVGKTTLLKLLIK 59
>gnl|CDD|216308 pfam01121, CoaE, Dephospho-CoA kinase. This family catalyzes 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 = 27.3 bits (61), Expect = 7.4
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 219 VERLVERKTENREELLVRIATAREEVQHVKNFDYVVVNAEGKLD 262
VERL++R +RE++ IA + + D V+ N G +
Sbjct: 136 VERLMQRDGLSREQVQAIIAAQASREERLALADDVLDNDSGLAE 179
>gnl|CDD|234896 PRK01077, PRK01077, cobyrinic acid a,c-diamide synthase; Validated.
Length = 451
Score = 27.8 bits (63), Expect = 7.4
Identities = 9/15 (60%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 95 IVISGP-SGVGKDTV 108
+VI+ P SG GK TV
Sbjct: 6 LVIAAPASGSGKTTV 20
>gnl|CDD|232857 TIGR00176, mobB, molybdopterin-guanine dinucleotide biosynthesis
protein MobB. This molybdenum cofactor biosynthesis
enzyme is similar to the urease accessory protein UreG
and to the hydrogenase accessory protein HypB, both GTP
hydrolases involved in loading nickel into the
metallocenters of their respective target enzymes
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Molybdopterin].
Length = 155
Score = 27.0 bits (60), Expect = 7.7
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
++ I GP GK T+I++L
Sbjct: 1 VLQIVGPKNSGKTTLIERL 19
>gnl|CDD|182980 PRK11124, artP, arginine transporter ATP-binding subunit;
Provisional.
Length = 242
Score = 27.3 bits (61), Expect = 7.8
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 81 FDSNPVCPPPNPLIIVISGPSGVGKDTVIKKL 112
FD CP L V+ GPSG GK ++++ L
Sbjct: 19 FDITLDCPQGETL--VLLGPSGAGKSSLLRVL 48
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 27.5 bits (62), Expect = 7.8
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 92 PLIIVISGPSGVGKDTVIKKL 112
PL ++I GP G GK T +KK+
Sbjct: 55 PLNVLIYGPPGTGKTTTVKKV 75
>gnl|CDD|178608 PLN03046, PLN03046, D-glycerate 3-kinase; Provisional.
Length = 460
Score = 27.6 bits (61), Expect = 8.1
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 13/72 (18%)
Query: 92 PLIIVISGPSGVGKDTVIKKLRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKEEFLQM 151
PL+I S P G GK T++ L D L F VT R D F+++ E ++
Sbjct: 212 PLVIGFSAPQGCGKTTLVFAL----DYL-FRVTG-----RKSATLSIDDFYLTAEGQAEL 261
Query: 152 VDK---NELLEY 160
++ N LLE
Sbjct: 262 RERNPGNALLEL 273
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 27.8 bits (62), Expect = 8.4
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 93 LIIVISGPSGVGKDTVIKKL 112
+I+ I GP+GVGK +V + L
Sbjct: 2 IIVAIDGPAGVGKSSVSRAL 21
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 27.5 bits (62), Expect = 8.4
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 5/42 (11%)
Query: 76 SLGHAFDSNPVCPPPNPLI-----IVISGPSGVGKDTVIKKL 112
+L FD+ P+ N L+ + I G +GVGK T+++ L
Sbjct: 324 NLTKGFDNGPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTL 365
>gnl|CDD|131992 TIGR02947, SigH_actino, RNA polymerase sigma-70 factor, TIGR02947
family. This group of sigma factors are members of the
sigma-70 family (TIGR02937). They and appear by
homology, tree building, bidirectional best hits and
(with the exception of a paralog in Thermobifida fusca
YX) one-to-a-genome distribution, to represent a
conserved family. This family is restricted to the
Actinobacteria and each gene examined is followed by an
anti-sigma factor in an apparent operon.
Length = 193
Score = 27.2 bits (60), Expect = 8.4
Identities = 14/45 (31%), Positives = 21/45 (46%)
Query: 161 ALVYGDYKGIPKKQIREYMAKGYDIVLRVDIQGARTLRRILGDSA 205
A+ D +G K+I E M V+ +G + LR+ L D A
Sbjct: 139 AVYLADVEGFAYKEIAEIMGTPIGTVMSRLHRGRKQLRKQLVDVA 183
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 27.8 bits (62), Expect = 8.5
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 89 PPNPLIIVISGPSGVGK 105
PP PL ++I G SGVGK
Sbjct: 252 PPRPLHVLIGGVSGVGK 268
>gnl|CDD|224990 COG2079, PrpD, Uncharacterized protein involved in propionate
catabolism [General function prediction only].
Length = 453
Score = 27.7 bits (62), Expect = 8.5
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 173 KQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAAESEMALVERLVERKTEN 229
+++ +A GY+I +R+ + +LR + D V +AA + +A + L +T N
Sbjct: 126 RELLAAIAAGYEIQVRLAL--ENSLRHVGHDHVTLVGVAAAAAVAKLLGLDREETAN 180
>gnl|CDD|185507 PTZ00191, PTZ00191, 60S ribosomal protein L23a; Provisional.
Length = 145
Score = 27.0 bits (60), Expect = 8.6
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 172 KKQIREYMAKGYDI-VLRVDIQGARTLRRILGDSAVFVFLAAESE 215
K QI++ + K YD+ V++V TL G ++ L+ + +
Sbjct: 95 KTQIKKAVEKLYDVKVVKV-----NTLITPDGLKKAYIRLSPDVD 134
>gnl|CDD|216130 pfam00809, Pterin_bind, Pterin binding enzyme. This family
includes a variety of pterin binding enzymes that all
adopt a TIM barrel fold. The family includes
dihydropteroate synthase EC:2.5.1.15 as well as a group
methyltransferase enzymes including
methyltetrahydrofolate, corrinoid iron-sulfur protein
methyltransferase (MeTr) that catalyzes a key step in
the Wood-Ljungdahl pathway of carbon dioxide fixation.
It transfers the N5-methyl group from
methyltetrahydrofolate (CH3-H4folate) to a cob(I)amide
centre in another protein, the corrinoid iron-sulfur
protein. MeTr is a member of a family of proteins that
includes methionine synthase and methanogenic enzymes
that activate the methyl group of
methyltetra-hydromethano(or -sarcino)pterin.
Length = 210
Score = 27.2 bits (61), Expect = 8.8
Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 10/73 (13%)
Query: 173 KQIREYMAKGYDIVLRVDIQGARTLRRILGDSAVFVFLAAESEMALVERLVERKTENREE 232
+Q RE + +G DI+ DI G T ++ E E+ + ++E + ++
Sbjct: 23 EQAREMVEEGADII---DIGGESTRPGA-------GMVSGEEELERLVPVLEALRDLYQD 72
Query: 233 LLVRIATAREEVQ 245
+ + I T EV
Sbjct: 73 VPISIDTFNAEVA 85
>gnl|CDD|201257 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 = 197
Score = 27.0 bits (60), Expect = 9.0
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 94 IIVISGPSGVGKDTVIKKLRES 115
II ++G SG GK TV +
Sbjct: 1 IIGVTGSSGAGKTTVARTFVSI 22
>gnl|CDD|226800 COG4354, COG4354, Predicted bile acid beta-glucosidase
[Carbohydrate transport and metabolism].
Length = 721
Score = 27.5 bits (61), Expect = 9.0
Identities = 7/32 (21%), Positives = 12/32 (37%)
Query: 3 RRLSTSFSLYIISKPKSPFALQRNPIKSEKQY 34
R + F ++ + K + LQ P K
Sbjct: 49 NRPACGFHVFEAPEDKKAYILQTYPYKDGSLP 80
>gnl|CDD|223315 COG0237, CoaE, Dephospho-CoA kinase [Coenzyme metabolism].
Length = 201
Score = 26.9 bits (60), Expect = 9.4
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 91 NPLIIVISGPSGVGKDTVIKKLRE 114
LII ++G G GK TV K L E
Sbjct: 1 MMLIIGLTGGIGSGKSTVAKILAE 24
>gnl|CDD|145542 pfam02456, Adeno_IVa2, Adenovirus IVa2 protein. IVa2 protein can
interact with the adenoviral packaging signal and that
this interaction involves DNA sequences that have
previously been demonstrated to be required for
packaging. During the course of lytic infection, the
adenovirus major late promoter (MLP) is induced to high
levels after replication of viral DNA has started. IVa2
is a transcriptional activator of the major late
promoter.
Length = 370
Score = 27.3 bits (61), Expect = 9.4
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 91 NPLIIVISGPSGVGKDTVIKKL 112
P+I V+ GP+G GK +++ L
Sbjct: 86 QPVIGVVYGPTGCGKSQLLRNL 107
>gnl|CDD|213189 cd03222, ABC_RNaseL_inhibitor, ATP-binding cassette domain of RNase
L inhibitor. The ABC ATPase RNase L inhibitor (RLI) is
a key enzyme in ribosomal biogenesis, formation of
translation preinitiation complexes, and assembly of HIV
capsids. RLI's are not transport proteins, and thus
cluster with a group of soluble proteins that lack the
transmembrane components commonly found in other members
of the family. Structurally, RLI's have an N-terminal
Fe-S domain and two nucleotide-binding domains, which
are arranged to form two composite active sites in their
interface cleft. RLI is one of the most conserved
enzymes between archaea and eukaryotes with a sequence
identity more than 48%. The high degree of evolutionary
conservation suggests that RLI performs a central role
in archaeal and eukaryotic physiology.
Length = 177
Score = 26.8 bits (59), Expect = 9.4
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
+I I GP+G GK T +K L
Sbjct: 27 VIGIVGPNGTGKTTAVKIL 45
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
domain 2 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI's are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLI's have an N-terminal Fe-S domain and
two nucleotide-binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity of more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 246
Score = 27.4 bits (61), Expect = 9.6
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
+I I GP+G+GK T IK L
Sbjct: 27 VIGILGPNGIGKTTFIKML 45
>gnl|CDD|213229 cd03262, ABC_HisP_GlnQ, ATP-binding cassette domain of the
histidine and glutamine transporters. HisP and GlnQ are
the ATP-binding components of the bacterial periplasmic
histidine and glutamine permeases, respectively.
Histidine permease is a multi-subunit 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 prokaryotic 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 = 27.1 bits (61), Expect = 9.7
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 94 IIVISGPSGVGKDTVIK 110
++VI GPSG GK T+++
Sbjct: 28 VVVIIGPSGSGKSTLLR 44
>gnl|CDD|235450 PRK05416, PRK05416, glmZ(sRNA)-inactivating NTPase; Provisional.
Length = 288
Score = 27.4 bits (62), Expect = 9.7
Identities = 6/19 (31%), Positives = 13/19 (68%)
Query: 94 IIVISGPSGVGKDTVIKKL 112
+++++G SG GK ++ L
Sbjct: 8 LVIVTGLSGAGKSVALRAL 26
>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain.
Length = 285
Score = 27.3 bits (61), Expect = 9.8
Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 20/104 (19%)
Query: 90 PNPLIIVISGPSGVGKDTVIKK-LRESRDSLHFVVTATSRPMRPGEVNGKDYFFVSKE-- 146
N ++ I G GVGK T+ K+ + HF A + VSK
Sbjct: 17 DNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVA--------------WVVVSKTYT 62
Query: 147 --EFLQMVDKNELLEYALVYGDYKGIPKKQIREYM-AKGYDIVL 187
+ + + L+ + + +I+E + K + +VL
Sbjct: 63 EFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVL 106
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase;
Reviewed.
Length = 307
Score = 27.4 bits (62), Expect = 9.9
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 89 PPNPLIIVISGPSGVGK 105
P +IVI GP+ GK
Sbjct: 1 MMKPKVIVIVGPTASGK 17
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.135 0.372
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: 14,740,153
Number of extensions: 1454299
Number of successful extensions: 2477
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2453
Number of HSP's successfully gapped: 204
Length of query: 286
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 190
Effective length of database: 6,679,618
Effective search space: 1269127420
Effective search space used: 1269127420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (25.8 bits)