RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9483
(186 letters)
>gnl|CDD|238576 cd01171, YXKO-related, B.subtilis YXKO protein of unknown function
and related proteins. Based on the conservation of the
ATP binding site, the substrate binding site and the
Mg2+binding site and structural homology this group is a
member of the ribokinase-like superfamily.
Length = 254
Score = 128 bits (324), Expect = 4e-37
Identities = 56/176 (31%), Positives = 84/176 (47%), Gaps = 18/176 (10%)
Query: 15 YVCSEGAVPILKNYSPELIVLPHYLDRNDSVDHIMYWMNRMHSVLIGPGLGTEPLVQSNV 74
A ++K+YSPEL+V P L+ ++ ++ + R +V+IGPGLG +
Sbjct: 41 VATPPEAAAVIKSYSPELMVHP-LLE--TDIEELLELLERADAVVIGPGLGRDEEAAE-- 95
Query: 75 ISIIHKLKAANLNVPLVIDADGLKLVAEHPGLIQDYRGPVYLTPNKREYENLLSGSEVNA 134
I+ K A + PLV+DAD L L+A+ P LI+ Y PV LTP+ E+ LL
Sbjct: 96 --ILEKALAKD--KPLVLDADALNLLADEPSLIKRYG-PVVLTPHPGEFARLLGALVEEI 150
Query: 135 AYIKQGH-------PNLTVIVKGHEDVIKNNQISLT-CKEGNSWRRCGGQGDLVAG 182
+ TV++KG VI + + GN GG GD++AG
Sbjct: 151 QADRLAAAREAAAKLGATVVLKGAVTVIADPDGRVYVNPTGNPGLATGGSGDVLAG 206
>gnl|CDD|223141 COG0063, COG0063, Predicted sugar kinase [Carbohydrate transport
and metabolism].
Length = 284
Score = 103 bits (260), Expect = 2e-27
Identities = 51/185 (27%), Positives = 77/185 (41%), Gaps = 22/185 (11%)
Query: 8 ATVTLSIYVCSEGAVPILKNYSPELIVLPHYLDRNDSVDHIMYWMNRMHSVLIGPGLGTE 67
A L A LK+Y PEL+V + + + + R +V+IGPGLG +
Sbjct: 58 AGAGLVSLASPPEAASALKSYLPELMV-IEVEGKKLLEEREL--VERADAVVIGPGLGRD 114
Query: 68 PLVQSNVISIIHKLKAANLNVPLVIDADGLKLVAEHPGLIQDYRGPVYLTPNKREYENLL 127
Q + ++ PLV+DAD L L+AE P L+ + + V LTP+ E+ LL
Sbjct: 115 AEGQEALKELLSSDL-----KPLVLDADALNLLAELPDLLDERK--VVLTPHPGEFARLL 167
Query: 128 SGSEVNA---------AYIKQGHPNLTVIVKGHEDVIKNNQISL-TCKEGNSWRRCGGQG 177
+ V++KG VI + + GN GG G
Sbjct: 168 GTEVDEIEVDRLEAARELAAKY--GAVVVLKGAVTVIADPDGEVFVNPTGNPGMATGGTG 225
Query: 178 DLVAG 182
D++AG
Sbjct: 226 DVLAG 230
>gnl|CDD|189911 pfam01256, Carb_kinase, Carbohydrate kinase. This family is
related to pfam02110 and pfam00294 implying that it also
is a carbohydrate kinase. (personal obs Yeats C).
Length = 242
Score = 101 bits (254), Expect = 6e-27
Identities = 58/194 (29%), Positives = 87/194 (44%), Gaps = 25/194 (12%)
Query: 2 GGILQCATVTLSI------YVCSEGAVPILKNYSPELIVLPHYLDRNDSVDHIMYWMNRM 55
G L A L A+ +LK+ PE++V H L S+ + +R
Sbjct: 12 GAPLLAALAALRSGAGLVSVATDSEAIAVLKSPLPEVMV--HPLPETSSILEKL---SRY 66
Query: 56 HSVLIGPGLGTEPLVQSNVISIIHKLKAANLNVPLVIDADGLKLVAEHPGLIQDYRGPVY 115
+V+IGPGLG + ++ + ++ K + PLVIDAD L L+A + GP
Sbjct: 67 DAVVIGPGLGRDEKGKAALEEVLAK------DCPLVIDADALNLLAINN-EKPAREGPTV 119
Query: 116 LTPNKREYENL------LSGSEVNAAYIKQGHPNLTVIVKGHEDVIKNNQISL-TCKEGN 168
LTP+ E+E L L + AA N T+++KG+ VI + GN
Sbjct: 120 LTPHPGEFERLCGLAGILGDDRLEAARELAQKLNGTILLKGNVTVIAAPGGEVWINSTGN 179
Query: 169 SWRRCGGQGDLVAG 182
S GG GD++AG
Sbjct: 180 SALAKGGSGDVLAG 193
>gnl|CDD|232868 TIGR00196, yjeF_cterm, yjeF C-terminal region, hydroxyethylthiazole
kinase-related. E. coli yjeF has full-length orthologs
in a number of species, all of unknown function.
However, yeast YNL200C is homologous and corresponds to
the N-terminal region while yeast YKL151C and B.
subtilis yxkO correspond to this C-terminal region only
[Unknown function, General].
Length = 271
Score = 89.4 bits (222), Expect = 5e-22
Identities = 52/172 (30%), Positives = 78/172 (45%), Gaps = 19/172 (11%)
Query: 17 CSEGAVPILKNYSPELIVLPHYLDRNDSVDHIMYWMNRMHSVLIGPGLGTEPLVQSNVIS 76
E + ++ + SPELIV VD + R V+IGPGLG +P +
Sbjct: 59 APENVITLINSVSPELIVHRL----GWKVDEDEELLERYDVVVIGPGLGQDPSFK----K 110
Query: 77 IIHKLKAANLNVPLVIDADGLKLVAEHPGLIQDYRGPVYLTPNKREYENLLSGSEV---N 133
+ ++ L+ P+V+DAD L L+ G V LTP+ E++ LL +E+
Sbjct: 111 AVEEV--LELDKPVVLDADALNLLTYDS---VKREGEVILTPHPGEFKRLLGVNEIQGDR 165
Query: 134 AAYIKQGHPNL--TVIVKGHEDVIKNNQISL-TCKEGNSWRRCGGQGDLVAG 182
+ L V++KG DVI L K GN+ GG GD++AG
Sbjct: 166 LEAAQDIAQKLQAVVVLKGAADVIAAPDGDLWINKTGNAALAKGGTGDVLAG 217
>gnl|CDD|182554 PRK10565, PRK10565, putative carbohydrate kinase; Provisional.
Length = 508
Score = 37.0 bits (86), Expect = 0.004
Identities = 49/164 (29%), Positives = 74/164 (45%), Gaps = 30/164 (18%)
Query: 30 PELIVLPHYLDRNDSVDHIMYWMNRMHSVLIGPGLGTEPLVQSNVISIIHKLKAANLNVP 89
PEL+V H L DS++ + W + V+IGPGLG + + + K N P
Sbjct: 302 PELMV--HELTP-DSLEESLEWAD---VVVIGPGLGQQEWGKKAL------QKVENFRKP 349
Query: 90 LVIDADGLKLVAEHPGLIQDYRGPVYLTPNKREYENLLSGSEVNAAYIKQGHP----NLT 145
++ DAD L L+A +P D R +TP+ E LL + A I+ L
Sbjct: 350 MLWDADALNLLAINP----DKRHNRVITPHPGEAARLLG---CSVAEIESDRLLSARRLV 402
Query: 146 ------VIVKGHEDVIKNNQISLTCKE-GNSWRRCGGQGDLVAG 182
V++KG VI +L + GN+ GG GD+++G
Sbjct: 403 KRYGGVVVLKGAGTVIAAEPDALAIIDVGNAGMASGGMGDVLSG 446
>gnl|CDD|219672 pfam07969, Amidohydro_3, Amidohydrolase family.
Length = 392
Score = 30.1 bits (68), Expect = 0.60
Identities = 22/106 (20%), Positives = 36/106 (33%), Gaps = 2/106 (1%)
Query: 78 IHKLKAANLNVPLVIDADGLKLVAEHPGLIQDY-RGPVYLTPNKREYENLLSGSEVNAAY 136
H L LN+ +D G VA L++D G + E +G+++
Sbjct: 11 TH-LDGTGLNLGRELDLSGTGSVAGGLALLRDAAVGHGWDEAQWAERRYPETGADLVWDA 69
Query: 137 IKQGHPNLTVIVKGHEDVIKNNQISLTCKEGNSWRRCGGQGDLVAG 182
+P L GH ++ + + L R DL G
Sbjct: 70 ASPDNPVLLHRECGHLALLNSAALDLAAGNPTGALRENAFVDLGLG 115
>gnl|CDD|238578 cd01173, pyridoxal_pyridoxamine_kinase, Pyridoxal kinase plays a
key role in the synthesis of the active coenzyme
pyridoxal-5'-phosphate (PLP), by catalyzing the
phosphorylation of the precursor vitamin B6 in the
presence of Zn2+ and ATP. Mammals are unable to
synthesize PLP de novo and require its precursors in the
form of vitamin B6 (pyridoxal, pyridoxine, and
pyridoxamine) from their diet. Pyridoxal kinase encoding
genes are also found in many other species including
yeast and bacteria.
Length = 254
Score = 29.5 bits (67), Expect = 0.85
Identities = 39/146 (26%), Positives = 58/146 (39%), Gaps = 31/146 (21%)
Query: 64 LGTEPLVQSNVISIIHKLKAANLNVPLVID---ADGLKLVAEHPGLIQDYRGPV-----Y 115
LG+ V++ V I+ +LK N N+ V D D KL ++ YR +
Sbjct: 81 LGSAEQVEA-VAEIVKRLKEKNPNLLYVCDPVMGDNGKLYVVAEEIVPVYRDLLVPLADI 139
Query: 116 LTPNKREYENLLSGSEVN---------AAYIKQGHPNLTVIVKGHEDVIKN--NQISLTC 164
+TPN+ E E LL+G ++N A +G TV+V E + + T
Sbjct: 140 ITPNQFELE-LLTGKKINDLEDAKAAARALHAKGPK--TVVVTSVELADDDRIEMLGSTA 196
Query: 165 KEGNSWRRCG--------GQGDLVAG 182
E +R G GDL A
Sbjct: 197 TEAWLVQRPKIPFPAYFNGTGDLFAA 222
>gnl|CDD|234708 PRK00274, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Reviewed.
Length = 272
Score = 28.9 bits (66), Expect = 1.5
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 17/54 (31%)
Query: 60 IGPGLG--TEPLVQSN--VISI-I---------HKLKAANLNVPLVIDADGLKL 99
IGPGLG TEPL++ V ++ I NL +I+ D LK+
Sbjct: 49 IGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLT---IIEGDALKV 99
>gnl|CDD|193137 pfam12660, zf-TFIIIC, Putative zinc-finger of transcription factor
IIIC complex. This zinc-finger domain is at the very
C-terminus of a number of different TFIIIC subunit
proteins. This domain might be involved in protein-DNA
and/or protein-protein interactions.
Length = 92
Score = 27.4 bits (61), Expect = 1.8
Identities = 5/12 (41%), Positives = 6/12 (50%)
Query: 163 TCKEGNSWRRCG 174
C G+ W RC
Sbjct: 29 QCANGHVWLRCA 40
>gnl|CDD|132415 TIGR03372, putres_am_tran, putrescine aminotransferase. Members of
this family are putrescine aminotransferase, as found in
Escherichia coli, Erwinia carotovora subsp. atroseptica,
and closely related species. This pyridoxal phosphate
enzyme, as characterized in E. coli, can act also on
cadaverine and, more weakly, spermidine [Central
intermediary metabolism, Polyamine biosynthesis].
Length = 442
Score = 28.5 bits (63), Expect = 2.2
Identities = 30/111 (27%), Positives = 47/111 (42%), Gaps = 18/111 (16%)
Query: 64 LGTEPLVQSNVISIIHKLKAANLNVPLVIDADGL-----KLVAEHPGLIQDYRG-----P 113
G PL + ++ I++L NL I D L +L AE+P LI + RG
Sbjct: 326 FGGNPLACAAALATINELLEKNLPAQAAIKGDFLLDGFQQLAAEYPDLIIEARGKGLLMA 385
Query: 114 VYLTPNKREY--------ENLLSGSEVNAAYIKQGHPNLTVIVKGHEDVIK 156
+ N+ Y +N+L +N A + P LT+ ++ VIK
Sbjct: 386 IEFRDNEIGYAFAKELFQQNILVAGTLNNAKSIRIEPPLTITIEQCALVIK 436
>gnl|CDD|239332 cd03034, ArsC_ArsC, Arsenate Reductase (ArsC) family, ArsC
subfamily; arsenic reductases similar to that encoded by
arsC on the R733 plasmid of Escherichia coli. E. coli
ArsC catalyzes the reduction of arsenate [As(V)] to
arsenite [As(III)], the first step in the detoxification
of arsenic, using reducing equivalents derived from
glutathione (GSH) via glutaredoxin (GRX). ArsC contains
a single catalytic cysteine, within a thioredoxin fold,
that forms a covalent thiolate-As(V) intermediate, which
is reduced by GRX through a mixed GSH-arsenate
intermediate. This family of predominantly bacterial
enzymes is unrelated to two other families of arsenate
reductases which show similarity to low-molecular-weight
acid phosphatases and phosphotyrosyl phosphatases.
Length = 112
Score = 27.2 bits (61), Expect = 3.1
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 82 KAANLNVPLVIDADGLKLVAEHPGLIQDYRGPVYLTPNK----REYENLLS 128
K L P + D + + +A HP LI+ R P+ +T + R E +L
Sbjct: 64 KELGLADPELSDEELIDAMAAHPILIE--R-PIVVTGDGAVLGRPPEAVLE 111
>gnl|CDD|226179 COG3653, COG3653, N-acyl-D-aspartate/D-glutamate deacylase
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 579
Score = 27.6 bits (61), Expect = 4.7
Identities = 17/65 (26%), Positives = 24/65 (36%), Gaps = 6/65 (9%)
Query: 61 GPGLGTEPLVQSNVISIIHKLKAANLNVPLVIDADGLKLVAEHPGLIQ---DYRGPVYLT 117
P T+ ++ VI+ + K P +DA G + PG I Y V L
Sbjct: 21 NPPFTTDVGIRDGVIAAVAKGALDGTGCPEEVDAAGRIVA---PGFIDVHTHYDAEVLLD 77
Query: 118 PNKRE 122
P R
Sbjct: 78 PGLRP 82
>gnl|CDD|238570 cd01164, FruK_PfkB_like, 1-phosphofructokinase (FruK), minor
6-phosphofructokinase (pfkB) and related sugar kinases.
FruK plays an important role in the predominant pathway
for fructose utilisation.This group also contains
tagatose-6-phophate kinase, an enzyme of the tagatose
6-phosphate pathway, which responsible for breakdown of
the galactose moiety during lactose metabolism by
bacteria such as L. lactis.
Length = 289
Score = 27.1 bits (61), Expect = 5.0
Identities = 25/125 (20%), Positives = 44/125 (35%), Gaps = 40/125 (32%)
Query: 62 PGLGTEPLVQSNVISIIHKLKAANLNVPLVIDADG---LKLVAEHPGLIQDYRGPVYLTP 118
PG+ + + ++ + +++D G L +A P LI+ P
Sbjct: 140 PGVPADFYAE-----LVRLAREKG--ARVILDTSGEALLAALAAKPFLIK---------P 183
Query: 119 NKREYENLLSGSEVN--AAYIKQGHPNLTVIVKGHEDVIKNNQISLTCKEGNSWRRCGGQ 176
N+ E E L G + I +I +G E+V+ +SL G
Sbjct: 184 NREELEELF-GRPLGDEEDVIAAAR---KLIERGAENVL----VSL-----------GAD 224
Query: 177 GDLVA 181
G L+
Sbjct: 225 GALLV 229
>gnl|CDD|188250 TIGR02802, Pal_lipo, peptidoglycan-associated lipoprotein. Members
of this protein are Pal (also called OprL), the
Peptidoglycan-Associated Lipoprotein of the Tol-Pal
system. The system appears to be involved both in the
maintenance of outer membrane integrity and in the
import of certain organic molecules as nutrients.
Members of this family contain a hydrodrophobic
lipoprotein signal sequence, a conserved N-terminal
cleavage and modification site, a poorly conserved
low-complexity region, together comprising about 65
amino acids, and a well-conserved C-terminal domain. The
seed alignment for this model includes only the
conserved C-terminal domain.
Length = 104
Score = 26.4 bits (59), Expect = 5.2
Identities = 11/34 (32%), Positives = 21/34 (61%), Gaps = 4/34 (11%)
Query: 120 KREYENLLSGSEVNAAYIKQGHPNLTVIVKGHED 153
K E + +L +A Y+K+ +P++ V ++GH D
Sbjct: 12 KSEAQAILDA---HAQYLKK-NPSVRVTIEGHTD 41
>gnl|CDD|226168 COG3642, COG3642, Mn2+-dependent serine/threonine protein kinase
[Signal transduction mechanisms].
Length = 204
Score = 26.5 bits (59), Expect = 6.9
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 77 IIHKLKAANLNVPLV--IDADGLKLVAEH 103
I+ K + A + VP+V +D D +V E+
Sbjct: 52 ILAKAREAGVPVPIVYDVDPDNGLIVMEY 80
>gnl|CDD|185342 PRK15445, PRK15445, arsenical pump membrane protein; Provisional.
Length = 427
Score = 26.7 bits (60), Expect = 8.9
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 9/33 (27%)
Query: 52 MNRMHSVLIG---------PGLGTEPLVQSNVI 75
MN M +VLIG G+ E ++ +NVI
Sbjct: 334 MNNMPTVLIGALAIDGSNATGVIKEAMIYANVI 366
>gnl|CDD|182388 PRK10337, PRK10337, sensor protein QseC; Provisional.
Length = 449
Score = 26.5 bits (59), Expect = 9.3
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 67 EPLVQSNVISIIHKLKAANLNVPLVIDADGLK 98
E L+QS V+ I H + A ++V L ++A +
Sbjct: 314 EDLLQSAVMDIYHTAQQAGIDVRLTLNAHPVI 345
>gnl|CDD|202832 pfam03960, ArsC, ArsC family. This family is related to
glutaredoxins pfam00462.
Length = 109
Score = 25.6 bits (57), Expect = 9.5
Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 14/81 (17%)
Query: 27 NYSPELIVLPHYLDRNDSVDHIMYWMNRMHSVLIGPGLGTEPLVQSNVISIIHKLKAANL 86
+ I YL+ S + + +++ G G E L+ + + + NL
Sbjct: 20 GIEYQEI---DYLETPPSKEELKDILSKT-------GDGWEELLNTRGTTY----RELNL 65
Query: 87 NVPLVIDADGLKLVAEHPGLI 107
+V + + + ++L+ E+P LI
Sbjct: 66 DVEELSEDELIELMLENPSLI 86
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 0.139 0.421
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,433,134
Number of extensions: 860864
Number of successful extensions: 803
Number of sequences better than 10.0: 1
Number of HSP's gapped: 785
Number of HSP's successfully gapped: 32
Length of query: 186
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 95
Effective length of database: 6,901,388
Effective search space: 655631860
Effective search space used: 655631860
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 (21.7 bits)
S2: 56 (25.3 bits)