RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781011|ref|YP_003065424.1| orotate
phosphoribosyltransferase [Candidatus Liberibacter asiaticus str.
psy62]
(228 letters)
>gnl|CDD|30809 COG0461, PyrE, Orotate phosphoribosyltransferase [Nucleotide
transport and metabolism].
Length = 201
Score = 145 bits (367), Expect = 9e-36
Identities = 58/206 (28%), Positives = 95/206 (46%), Gaps = 10/206 (4%)
Query: 13 AELVAKMLFEIKAVNFSPENPYHLTSGIVSPLYIDCRKLISFVRARSMIMDLTAKTVLRN 72
+A++L E A+ F + L+SG SP Y+D R ++ +I A+ +
Sbjct: 3 KRELAELLLEKGALKFGE---FTLSSGRKSPYYVDLRLFLTGPELLQLIAFALAEIIKEA 59
Query: 73 IGFESIDIIAGGETAGIPFATLLAERLN--LPMIYVRKKSKKHGQKSQIEGHLFKGARVL 130
+ F D++AG GIP A A L PM YVRK++K HG IEG KG +V+
Sbjct: 60 LEF---DVVAGPALGGIPLAAATALALAHLPPMAYVRKEAKDHGTGGLIEGGEVKGEKVV 116
Query: 131 VIEDLVTLGNSMFEFVKVIRDSGGIIQDGIGLFFYDIFPEVPARFRENNIKLHYLATWND 190
V+ED++T G S+ E V+ +R++G + + +E +KL L T +D
Sbjct: 117 VVEDVITTGGSILEAVEALREAGAEVVGVAVIVDRQ--SGAKEVLKEYGVKLVSLVTLSD 174
Query: 191 ILTIAEKLKIFNHDVLEEVRCFLDNP 216
+L + + + L +
Sbjct: 175 LLEVLYEAGDIPLEELAIPAEAYRSR 200
>gnl|CDD|30849 COG0503, Apt, Adenine/guanine phosphoribosyltransferases and
related PRPP-binding proteins [Nucleotide transport and
metabolism].
Length = 179
Score = 58.8 bits (142), Expect = 1e-09
Identities = 28/126 (22%), Positives = 49/126 (38%), Gaps = 14/126 (11%)
Query: 47 DCRKLISFVRARSMIMDLTAKTVLRNIGFESIDIIAGGETAGIPFATLLAERLNLPMIYV 106
I+ + ++ + + ID I E GIP A +A L +P + V
Sbjct: 23 ILFVDITLLLGDPELLAKLIDELAERYKDDGIDKIVTIEARGIPLAAAVALELGVPFVPV 82
Query: 107 RKKSK-----------KHGQKSQIEGH---LFKGARVLVIEDLVTLGNSMFEFVKVIRDS 152
RKK K +E H L G RVL+++DL+ G + ++++ +
Sbjct: 83 RKKGKLPEESVVETYYLEYGSETLELHKDALKPGDRVLIVDDLLATGGTALALIELLEQA 142
Query: 153 GGIIQD 158
G +
Sbjct: 143 GAEVVG 148
>gnl|CDD|143924 pfam00156, Pribosyltran, Phosphoribosyl transferase domain. This
family includes a range of diverse phosphoribosyl
transferase enzymes. This family includes: Adenine
phosphoribosyltransferase EC:2.4.2.7.
Hypoxanthine-guanine-xanthine phosphoribosyltransferase.
Hypoxanthine phosphoribosyltransferase EC:2.4.2.8.
Ribose-phosphate pyrophosphokinase i EC:2.7.6.1.
Amidophosphoribosyltransferase EC:2.4.2.14. Orotate
phosphoribosyltransferase EC:2.4.2.10. Uracil
phosphoribosyltransferase EC:2.4.2.9. Xanthine-guanine
phosphoribosyltransferase EC:2.4.2.22. In Arabidopsis,
At the very N-terminus of this domain is the
ATP-GTP-binding domain.
Length = 123
Score = 58.5 bits (142), Expect = 1e-09
Identities = 26/90 (28%), Positives = 46/90 (51%), Gaps = 10/90 (11%)
Query: 75 FESIDIIAGGETAGIPFATLLAERLNLPMIYVRKKSK-------KHGQKSQIEGHLF--- 124
D+I G GIP AT LA L +P++ VRK+ + G+ + L
Sbjct: 25 GIDPDVIVGIARGGIPLATALARELGIPLVLVRKRISLPSSIKSRGGESVTLLSRLPELL 84
Query: 125 KGARVLVIEDLVTLGNSMFEFVKVIRDSGG 154
KG RVL+++D++ G ++ V++++ +G
Sbjct: 85 KGKRVLIVDDVLDTGGTLRAAVELLKKAGA 114
>gnl|CDD|31197 COG0856, COG0856, Orotate phosphoribosyltransferase homologs
[Nucleotide transport and metabolism].
Length = 203
Score = 49.9 bits (119), Expect = 5e-07
Identities = 28/118 (23%), Positives = 60/118 (50%), Gaps = 9/118 (7%)
Query: 44 LYIDCRKLISFVRARSMIMDLTAKTVLRNIGFESIDIIAGGETAGIPFATLLAERLNLPM 103
+ ID R + I + A ++ + FE +D++ G +G+P AT++A L +
Sbjct: 54 IKIDWRSIGKSGSRLRYISEAMADMIMEKVSFE-VDVVVGIAISGVPLATMVAYELGKEL 112
Query: 104 -IYVRKKSKKHGQKSQIEGHL------FKGARVLVIEDLVTLGNSMFEFVKVIRDSGG 154
IY +K +K G + +G R ++++D++T G+++ E ++ +++ GG
Sbjct: 113 AIYHPRKHRKDEGA-GKGGSISSNFASVEGKRCVIVDDVITTGSTIKETIEQLKEEGG 169
>gnl|CDD|36924 KOG1712, KOG1712, KOG1712, Adenine phosphoribosyl transferases
[Nucleotide transport and metabolism].
Length = 183
Score = 43.3 bits (102), Expect = 5e-05
Identities = 29/135 (21%), Positives = 49/135 (36%), Gaps = 17/135 (12%)
Query: 70 LRNIGFESIDIIAGGETAGIPFATLLAERLNLPMIYVRKKSKKHGQKSQIE--------- 120
R ID+IAG E G F +A L + +RK K G+
Sbjct: 52 YRETFEMKIDVIAGLEARGFLFGPSIALALGAGFVPIRKPGKLPGEVISESYELEYGEDR 111
Query: 121 -----GHLFKGARVLVIEDLVTLGNSMFEFVKVIRDSGGIIQDGIGLFFYDIFPEVPARF 175
G + G RV+V++DL+ G ++ +++ G + + PE+ R
Sbjct: 112 FEMQKGAIKPGQRVVVVDDLLATGGTLAAATELLERVGAEV---VECACVIELPELKGRE 168
Query: 176 RENNIKLHYLATWND 190
+ L L +
Sbjct: 169 KLKGKPLFSLLEYQS 183
>gnl|CDD|30383 COG0034, PurF, Glutamine phosphoribosylpyrophosphate
amidotransferase [Nucleotide transport and metabolism].
Length = 470
Score = 36.3 bits (84), Expect = 0.008
Identities = 24/126 (19%), Positives = 51/126 (40%), Gaps = 23/126 (18%)
Query: 51 LISFVRARSMIMDLTAKTVLRNIGFE-------SIDIIAGGETAGIPFATLLAERLNLPM 103
+ F R S+I ++ + +G + D++ +G P A A +P
Sbjct: 250 YVYFARPDSVIDGISVYEARKRMGEKLAEEIPVEADVVIPVPDSGRPAAIGYARASGIPY 309
Query: 104 -------IYVRKKSKKHGQKSQIEG---------HLFKGARVLVIEDLVTLGNSMFEFVK 147
YV + Q+ + +G + KG RV++++D + G + V+
Sbjct: 310 EEGLIKNRYVGRTFIMPTQELREKGVRLKLNPVREVVKGKRVVLVDDSIVRGTTSRRIVQ 369
Query: 148 VIRDSG 153
++R++G
Sbjct: 370 MLREAG 375
>gnl|CDD|35792 KOG0572, KOG0572, KOG0572, Glutamine phosphoribosylpyrophosphate
amidotransferase [Nucleotide transport and metabolism].
Length = 474
Score = 35.3 bits (81), Expect = 0.013
Identities = 26/125 (20%), Positives = 49/125 (39%), Gaps = 23/125 (18%)
Query: 52 ISFVRARSMIMDLTAKTVLRNIGF-------ESIDIIAGGETAGIPFATLLAERLNLPMI 104
+ F R S+ + TV G D++ +G A A + LP
Sbjct: 259 VYFARPDSIFEGQSVYTVRLQCGEQLATEAPVDADVVIPVPDSGTTAALGYAAKSGLPYQ 318
Query: 105 YVRKKSKKHG----QKSQIEGHL------------FKGARVLVIEDLVTLGNSMFEFVKV 148
V +++ G + +Q L F+G RV++++D + G + VK+
Sbjct: 319 EVLIRNRYVGRTFIEPNQRIRQLGVKKKLGPLRQNFEGKRVVLVDDSIVRGTTSSPIVKM 378
Query: 149 IRDSG 153
+R++G
Sbjct: 379 LREAG 383
>gnl|CDD|36591 KOG1377, KOG1377, KOG1377, Uridine 5'- monophosphate
synthase/orotate phosphoribosyltransferase [Nucleotide
transport and metabolism].
Length = 261
Score = 31.1 bits (70), Expect = 0.27
Identities = 22/121 (18%), Positives = 39/121 (32%), Gaps = 10/121 (8%)
Query: 33 PYHLTSGIVSPLYIDCRKLISFVRARSMIMDLTAKTVLRNIGFESIDIIAGGETAGIPF- 91
P+ L S S ++ D L + + + A + + F I G + G P
Sbjct: 53 PFILKSKTHSDIFFDFS-LFNSGKDLRALAQAYAFLIFEDRKFFDIGNTVGLQYKGGPLK 111
Query: 92 ATLLAERLNLPMI--------YVRKKSKKHGQKSQIEGHLFKGARVLVIEDLVTLGNSMF 143
A+ +N + RK K HG+ + L+ D ++
Sbjct: 112 IASWADLVNAHGVPGRGIIKGLNRKLLKDHGEGGVLLLAELSSKGSLITGDYTEAATAIA 171
Query: 144 E 144
E
Sbjct: 172 E 172
>gnl|CDD|32417 COG2236, COG2236, Predicted phosphoribosyltransferases [General
function prediction only].
Length = 192
Score = 30.7 bits (69), Expect = 0.31
Identities = 25/177 (14%), Positives = 59/177 (33%), Gaps = 14/177 (7%)
Query: 49 RKLISFVRARSMIMDLTAKTVLRNIGFESIDIIAGGETAGIPFATLLAERLNL-PMIYVR 107
+ +S+ + L K + I IA G G+ A +L++ L + P+ ++
Sbjct: 4 KLYVSWEEIHRLCRALAEKIRASGFKPDVIVAIARG---GLIPARILSDFLGVKPLYSIK 60
Query: 108 KKSKKHGQKSQIEGHL--------FKGARVLVIEDLVTLGNSMFEFVKVIRDSGGIIQDG 159
+ + E + G +VL+++D+V G ++ ++ ++
Sbjct: 61 VEHYDETAERDGEAKVKYPITIDPLSGKKVLIVDDIVDTGETLELALEELKKLAPAEVRT 120
Query: 160 IGLFFYDIFPEVPARFRENNIKLHYLATWNDILTIAEKLKIFNHDVLEEVRCFLDNP 216
L + + D+ + LKI E +++
Sbjct: 121 AVLQYKKSPDYYGEEVTAWAWIIFPWNRKEDLADL--ILKILPEKGDEVEDEWIEYY 175
>gnl|CDD|32248 COG2065, PyrR, Pyrimidine operon attenuation protein/uracil
phosphoribosyltransferase [Nucleotide transport and
metabolism].
Length = 179
Score = 29.0 bits (65), Expect = 1.2
Identities = 14/51 (27%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 49 RKLISFVRARSMIMDLTAKTVLRNIGFESIDIIAGGETAGIPFATLLAERL 99
++++ R I + + + RN G +++ ++ G +T G+P A LAER+
Sbjct: 4 KEILDEAAIRRTITRIAHEIIERNKGLDNL-VLVGIKTRGVPLAERLAERI 53
>gnl|CDD|48481 cd01908, YafJ, Glutamine amidotransferases class-II
(Gn-AT)_YafJ-type. YafJ is a glutamine
amidotransferase-like protein of unknown function found
in prokaryotes, eukaryotes and archaea. YafJ has a
conserved structural fold similar to those of other
class II glutamine amidotransferases including
lucosamine-fructose 6-phosphate synthase (GLMS or GFAT),
glutamine phosphoribosylpyrophosphate (Prpp)
amidotransferase (GPATase), asparagine synthetase B
(AsnB), beta lactam synthetase (beta-LS) and glutamate
synthase (GltS). The YafJ fold is also somwhat similar
to the Ntn (N-terminal nucleophile) hydrolase fold of
the proteasomal alpha and beta subunits..
Length = 257
Score = 28.8 bits (64), Expect = 1.2
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 158 DGIGLFFYDIFPEVPARFRENNIKLHYLATWNDILTIAEKLKIFNHDVLEEVR 210
DG G+ +Y+ P R+R L W+DI + I + VL VR
Sbjct: 42 DGWGIGWYEGKGGRPFRYRSP------LPAWSDINLESLARPIKSPLVLAHVR 88
>gnl|CDD|30915 COG0569, TrkA, K+ transport systems, NAD-binding component
[Inorganic ion transport and metabolism].
Length = 225
Score = 27.9 bits (62), Expect = 2.5
Identities = 12/56 (21%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 63 DLTAKTVLRNIGFESIDIIA---GGETAGIPFATLLAERLNLPMIYVRKKSKKHGQ 115
D T + VL G + D + G + A L + +P + R ++ +H +
Sbjct: 52 DATDEDVLEEAGIDDADAVVAATGNDEVNSVLALLALKEFGVPRVIARARNPEHEK 107
>gnl|CDD|38577 KOG3367, KOG3367, KOG3367, Hypoxanthine-guanine
phosphoribosyltransferase [Nucleotide transport and
metabolism].
Length = 216
Score = 27.4 bits (60), Expect = 3.2
Identities = 29/104 (27%), Positives = 44/104 (42%), Gaps = 17/104 (16%)
Query: 66 AKTVLRNIGFESIDIIAGGETAGIPFATLLAERL-------NLPMIY--VRKKSKKHGQK 116
AK +++ IG + I I G F L ERL LPM +R KS + Q
Sbjct: 50 AKDIMKEIGNKPI-IFLCVLKGGYKFFADLVERLKNRNSDRPLPMTVDFIRAKSYCNDQS 108
Query: 117 S---QIEG----HLFKGARVLVIEDLVTLGNSMFEFVKVIRDSG 153
+ QI G G VL++ED+V G ++ + ++
Sbjct: 109 TGDIQIIGGDDLSTLTGKNVLIVEDIVDTGRTLSTLLSHMKAYK 152
>gnl|CDD|176470 cd01598, PurB, PurB_like adenylosuccinases (adenylsuccinate lyase,
ASL). This subgroup contains EcASL, the product of the
purB gene in Escherichia coli, and related proteins. It
is a member of the Lyase class I family of the Lyase_I
superfamily. Members of the Lyase class I family
function as homotetramers to catalyze similar
beta-elimination reactions in which a Calpha-N or
Calpha-O bond is cleaved with the subsequent release of
fumarate as one of the products. The four active sites
of the homotetrameric enzyme are each formed by residues
from three different subunits. ASL catalyzes two
non-sequential steps in the de novo purine biosynthesis
pathway: the conversion of
5-aminoimidazole-(N-succinylocarboxamide) ribotide
(SAICAR) into 5-aminoimidazole-4-carboxamide ribotide
(AICAR) and; the conversion of adenylsuccinate (SAMP)
into adenosine monophosphate (AMP).
Length = 425
Score = 26.4 bits (59), Expect = 6.7
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 63 DLTAKTVLRNIG 74
DLT TVLRNIG
Sbjct: 314 DLTDSTVLRNIG 325
>gnl|CDD|33202 COG3395, COG3395, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 413
Score = 26.5 bits (58), Expect = 6.7
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 56 RARSMIMDLTAKTVLRNIGFESIDIIAGGETAGIPFATLLAERLNLP 102
+++ DL + V R + I+AGGET+G L A +
Sbjct: 330 AVEALLGDLARRLVARGVRRL---IVAGGETSGAVLGQLGATGFRIG 373
>gnl|CDD|107251 cd01538, PBP1_ABC_xylose_binding, Periplasmic xylose-binding
component of the ABC-type transport systems that belong
to a family of pentose/hexose sugar-binding proteins of
the type I periplasmic binding protein (PBP1)
superfamily. Periplasmic xylose-binding component of
the ABC-type transport systems that belong to a family
of pentose/hexose sugar-binding proteins of the type I
periplasmic binding protein (PBP1) superfamily, which
consists of two alpha/beta globular domains connected by
a three-stranded hinge. This Venus flytrap-like domain
undergoes a transition from an open to a closed
conformational state upon ligand binding. Moreover, the
periplasmic xylose-binding protein is homologous to the
ligand-binding domain of eukaryotic receptors such as
glutamate receptor (GluR) and DNA-binding
transcriptional repressors such as LacI and GalR.
Length = 288
Score = 26.4 bits (59), Expect = 6.7
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 115 QKSQIEGHLFKGARVLVI 132
Q SQIE + KG VLVI
Sbjct: 44 QISQIENMIAKGVDVLVI 61
>gnl|CDD|30979 COG0634, Hpt, Hypoxanthine-guanine phosphoribosyltransferase
[Nucleotide transport and metabolism].
Length = 178
Score = 26.2 bits (58), Expect = 7.2
Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 9/75 (12%)
Query: 88 GIPFATLLAERLNLPMI--YVRKKSKKHGQKSQIE-------GHLFKGARVLVIEDLVTL 138
PF L ++ P+ ++ S G S E KG VL++ED++
Sbjct: 46 SFPFMADLIRAIDFPLEVDFMHVSSYGGGTSSSGEVKILKDLDEDIKGRDVLIVEDIIDS 105
Query: 139 GNSMFEFVKVIRDSG 153
G ++ + ++++ G
Sbjct: 106 GLTLSKVRDLLKERG 120
>gnl|CDD|30169 cd01714, ETF_beta, The electron transfer flavoprotein (ETF) serves
as a specific electron acceptor for various
mitochondrial dehydrogenases. ETF transfers electrons to
the main respiratory chain via ETF-ubiquinone
oxidoreductase. ETF is an heterodimer that consists of
an alpha and a beta subunit which binds one molecule of
FAD per dimer . A similar system also exists in some
bacteria. The homologous pair of proteins (FixA/FixB)
are essential for nitrogen fixation. The beta subunit
protein is distantly related to and forms a heterodimer
with the alpha subunit..
Length = 202
Score = 25.9 bits (57), Expect = 8.6
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 8/72 (11%)
Query: 65 TAKTVLRNIGFESIDIIAGG------ETAGIPFATLLAERLNLPMIYVRKKSKKHGQKSQ 118
TAK + I +D+I G +T + LLAE L P I K + G K
Sbjct: 96 TAKALAAAIKKIGVDLILTGKQSIDGDTGQVGP--LLAELLGWPQITYVSKIEIEGGKVT 153
Query: 119 IEGHLFKGARVL 130
+E L G +
Sbjct: 154 VERELEGGVETV 165
>gnl|CDD|153087 cd01678, PFL1, Pyruvate formate lyase 1. Pyruvate formate lyase
catalyzes a key step in anaerobic glycolysis, the
conversion of pyruvate and CoenzymeA to formate and
acetylCoA. The PFL mechanism involves an unusual radical
cleavage of pyruvate in which two cysteines and one
glycine form radicals that are required for catalysis.
PFL has a ten-stranded alpha/beta barrel domain that is
structurally similar to those of all three
ribonucleotide reductase (RNR) classes as well as
benzylsuccinate synthase and B12-independent glycerol
dehydratase.
Length = 738
Score = 26.2 bits (58), Expect = 8.8
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 7/43 (16%)
Query: 146 VKVIRDSGGIIQDGIGLFFYDIFPEVPARFRENNIKLHYLATW 188
VK IRD G+ D ++I + P R+ ++ + +A W
Sbjct: 531 VKPIRDEDGLAVD------FEIEGDFP-RYGNDDDRADDIAVW 566
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
0.325 0.142 0.418
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,862,195
Number of extensions: 153326
Number of successful extensions: 497
Number of sequences better than 10.0: 1
Number of HSP's gapped: 491
Number of HSP's successfully gapped: 26
Length of query: 228
Length of database: 6,263,737
Length adjustment: 90
Effective length of query: 138
Effective length of database: 4,318,927
Effective search space: 596011926
Effective search space used: 596011926
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.4 bits)