RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781095|ref|YP_003065508.1|
UDP-N-acetylenolpyruvoylglucosamine reductase [Candidatus Liberibacter
asiaticus str. psy62]
(318 letters)
>gnl|CDD|31154 COG0812, MurB, UDP-N-acetylmuramate dehydrogenase [Cell envelope
biogenesis, outer membrane].
Length = 291
Score = 308 bits (791), Expect = 1e-84
Identities = 121/291 (41%), Positives = 166/291 (57%), Gaps = 3/291 (1%)
Query: 20 KFQENFPLKQITWFRTGGNAEVMFQPQDIHDLKYFLTLLPS-DIPITIVGLGSNILVRDA 78
+ + N PLK+ T FR GG AEV+ +P+DI +LK L + D+P+ I+G GSN+LVRD
Sbjct: 2 RIKTNVPLKRYTTFRIGGPAEVLVEPRDIEELKAALKYAKAEDLPVLILGGGSNLLVRDG 61
Query: 79 GIRGVVLRLSNAGFSNIEVRNHCEMIVGARCSGKSLANSALRHGIGGFHFFYGIPGSIGG 138
GI GVV++L F IE + + GA L AL +G+ G F GIPGS+GG
Sbjct: 62 GIGGVVIKLGKLNFIEIEGDDGL-IEAGAGAPWHDLVRFALENGLSGLEFLAGIPGSVGG 120
Query: 139 AAYMNAGANNCETSQYVVEVHGIDRKGNQHVIPREQLKYQYRSSEITK-DLIITHVVLRG 197
A MNAGA E S +V V +DR G + E+L + YR+S K L++ V +
Sbjct: 121 AVIMNAGAYGVEISDVLVSVEVLDRDGEVRWLSAEELGFGYRTSPFKKEYLVVLSVEFKL 180
Query: 198 FPESQNIISAAIANVCHHRETVQPIKEKTGGSTFKNPTGHSAWQLIEKSGCRGLEFGGAK 257
I AA+ + RE QPI + GS FKNP G A LIE++G +G GGA+
Sbjct: 181 TKGDPEDILAAMCAIRRRRELKQPIDLPSAGSFFKNPVGDFAGWLIEEAGLKGYRIGGAQ 240
Query: 258 ISELHCNFMINADNATGYDLEYLGEQVRKKVFNQSGILLEWEIKRLGDFFD 308
+SE H NF+IN NAT D+ L E VR++V + GI LE E+K +G+ +
Sbjct: 241 VSEKHANFLINTGNATAKDVLDLIEHVRQRVLEKFGIELEPEVKIIGESGE 291
>gnl|CDD|111727 pfam02873, MurB_C, UDP-N-acetylenolpyruvoylglucosamine reductase,
C-terminal domain. Members of this family are
UDP-N-acetylenolpyruvoylglucosamine reductase enzymes
EC:1.1.1.158. This enzyme is involved in the
biosynthesis of peptidoglycan.
Length = 103
Score = 118 bits (298), Expect = 2e-27
Identities = 47/104 (45%), Positives = 63/104 (60%), Gaps = 1/104 (0%)
Query: 201 SQNIISAAIANVCHHRETVQPIKEKTGGSTFKNPTGHSAWQLIEKSGCRGLEFGGAKISE 260
Q I+ A R++ QP K GSTFKNP G +A LIE++G +G + GGA++SE
Sbjct: 1 PQQILKAMKKIR-QTRKSTQPYKFPNAGSTFKNPEGFAAGWLIEEAGLKGYQIGGAQVSE 59
Query: 261 LHCNFMINADNATGYDLEYLGEQVRKKVFNQSGILLEWEIKRLG 304
H NF+IN NAT D+ L VR+ VF + GI LE E+K +G
Sbjct: 60 KHANFIINTGNATAEDVVDLIRHVRQTVFEKFGIWLEPEVKIIG 103
>gnl|CDD|144965 pfam01565, FAD_binding_4, FAD binding domain. This family consists
of various enzymes that use FAD as a co-factor, most of
the enzymes are similar to oxygen oxidoreductase. One of
the enzymes Vanillyl-alcohol oxidase (VAO) has a solved
structure, the alignment includes the FAD binding site,
called the PP-loop, between residues 99-110. The FAD
molecule is covalently bound in the known structure,
however the residue that links to the FAD is not in the
alignment. VAO catalyses the oxidation of a wide variety
of substrates, ranging form aromatic amines to
4-alkylphenols. Other members of this family include
D-lactate dehydrogenase, this enzyme catalyses the
conversion of D-lactate to pyruvate using FAD as a
co-factor; mitomycin radical oxidase, this enzyme
oxidizes the reduced form of mitomycins and is involved
in mitomycin resistance. This family includes MurB an
UDP-N-acetylenolpyruvoylglucosamine reductase enzyme
EC:1.1.1.158. This enzyme is involved in the
biosynthesis of peptidoglycan.
Length = 138
Score = 56.4 bits (137), Expect = 8e-09
Identities = 34/140 (24%), Positives = 56/140 (40%), Gaps = 11/140 (7%)
Query: 39 AEVMFQPQDIHDLKYFLTLLPS-DIPITIVGLGSNILVRDAGIRGVVLRLSNAGFSNIEV 97
+ +P+ ++ + L +P+ + G GS+ L+ DA GVVL LS + I
Sbjct: 1 PAAVVRPESEEEVAAIVRLANEHGLPVLVRGGGSS-LLGDAVTGGVVLDLSR--LNGILE 57
Query: 98 RNHCEMI--VGARCSGKSLANSALRHG-IGGFHFFYGIPGSIGGAAYMNAGANNCE---- 150
+ V A + L + G + G GIPG++GGA N G E
Sbjct: 58 IDPENGTATVEAGVTLGDLVRALAAKGLLLGLEPGSGIPGTVGGAIATNGGGYGSEKYGL 117
Query: 151 TSQYVVEVHGIDRKGNQHVI 170
T V+ + + G +
Sbjct: 118 TRDNVLSLEVVLADGEVVRL 137
>gnl|CDD|33712 COG3930, COG3930, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 434
Score = 34.6 bits (79), Expect = 0.037
Identities = 19/79 (24%), Positives = 31/79 (39%), Gaps = 9/79 (11%)
Query: 132 IPGSIGGAAYMNAGANNCETSQYVVEVHGIDRKGNQHVIPREQLKYQYRSSEITKDLIIT 191
+ + A M GA+ + ++ HG DR+ + + R YR TKD
Sbjct: 305 LANRVLACAAMLDGADFLDVFHFLTREHGFDREDAFNNVLR-----VYRGGGFTKD---- 355
Query: 192 HVVLRGFPESQNIISAAIA 210
+ LRGF + + A
Sbjct: 356 AIYLRGFILILDHLQLGGA 374
>gnl|CDD|31876 COG1690, RtcB, Uncharacterized conserved protein [Function
unknown].
Length = 432
Score = 31.1 bits (70), Expect = 0.38
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 7/65 (10%)
Query: 132 IPGSIGGAAYMNAGANNCETSQYVVEVHGIDRKGNQHVIPREQLKYQYRSSEITKDLIIT 191
IPGS+G A+Y+ G N E + HG R V+ R K + E+ L T
Sbjct: 330 IPGSMGTASYIVRGVGNEEA--FGSTSHGAGR-----VLSRTAAKRKLSGKEVQDALKAT 382
Query: 192 HVVLR 196
+V+R
Sbjct: 383 GIVVR 387
>gnl|CDD|35996 KOG0777, KOG0777, KOG0777, Geranylgeranyl pyrophosphate
synthase/Polyprenyl synthetase [Coenzyme transport and
metabolism].
Length = 322
Score = 30.0 bits (67), Expect = 0.83
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 116 NSALRHGIGGFHFFYGIPGSIGGAAYM 142
NS LR G H YG+P +I A YM
Sbjct: 80 NSPLRRGQPVAHSIYGVPSTINTANYM 106
>gnl|CDD|38076 KOG2865, KOG2865, KOG2865, NADH:ubiquinone oxidoreductase,
NDUFA9/39kDa subunit [Energy production and conversion].
Length = 391
Score = 29.5 bits (66), Expect = 1.3
Identities = 20/89 (22%), Positives = 36/89 (40%), Gaps = 14/89 (15%)
Query: 104 IVGARCSG----KSLANSALRHGIGGFHFFYGIPGSIGGAAYMNAGANNCETSQYVVEVH 159
+G + +++A++ G GG GI ++ GA +YVV
Sbjct: 30 GASNHLNGPDPCRYSSSAAMKKGTGGRSSVSGIVATVFGATGF--------LGRYVVNKL 81
Query: 160 GIDRKGNQHVIPREQLKYQYRSSEITKDL 188
+ G+Q +IP +Y R ++ DL
Sbjct: 82 A--KMGSQVIIPYRGDEYDPRHLKVMGDL 108
>gnl|CDD|153386 cd07949, PCA_45_Doxase_B_like_1, The B subunit of unknown Class III
extradiol dioxygenases with similarity to
Protocatechuate 4,5-dioxygenase. This subfamily is
composed of proteins of unknown function with similarity
to the B subunit of Protocatechuate 4,5-dioxygenase
(LigAB). LigAB belongs to the class III extradiol
dioxygenase family, a group of enzymes which use a
non-heme Fe(II) to cleave aromatic rings between a
hydroxylated carbon and an adjacent non-hydroxylated
carbon. Dioxygenases play key roles in the degradation
of aromatic compounds. LigAB-like enzymes are usually
composed of two subunits, designated A and B, which form
a tetramer composed of two copies of each subunit. This
model represents the catalytic subunit, B.
Length = 276
Score = 29.3 bits (66), Expect = 1.5
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 10/50 (20%)
Query: 235 TGHSAWQLIEKSGCRGLEFG---------GAKISELHCNFMINADN-ATG 274
T +S +L+E +G +G+EF G ++ E+H N+ I N A G
Sbjct: 222 TKYSIEELVELAGTQGVEFLMWIAMRGALGDEVREVHRNYHIPISNTAAG 271
>gnl|CDD|143499 cd06826, PLPDE_III_AR2, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme, Alanine Racemase 2. This
subfamily is composed of bacterial alanine racemases (EC
5.1.1.1) with similarity to Yersinia pestis and Vibrio
cholerae alanine racemase (AR) 2. ARs catalyze the
interconversion between L- and D-alanine, an essential
component of the peptidoglycan layer of bacterial cell
walls. These proteins are similar to other bacterial ARs
and are fold type III PLP-dependent enzymes containing
contains an N-terminal PLP-binding TIM-barrel domain and
a C-terminal beta-sandwich domain. They exist as
homodimers with active sites that lie at the interface
between the TIM barrel domain of one subunit and the
beta-sandwich domain of the other subunit. Homodimer
formation and the presence of the PLP cofactor are
required for catalytic activity.
Length = 365
Score = 29.2 bits (66), Expect = 1.5
Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 7/74 (9%)
Query: 57 LLPSDIP--ITIVGLGSNI---LVRDAGIRGVVLRLSNAGFSNIE--VRNHCEMIVGARC 109
++PS I I VG+ SN +VR+AG G +LR+ A S IE + + E ++G+
Sbjct: 44 VMPSIIAQNIPCVGITSNEEARVVREAGFTGKILRVRTATPSEIEDALAYNIEELIGSLD 103
Query: 110 SGKSLANSALRHGI 123
+ + + A RHG
Sbjct: 104 QAEQIDSLAKRHGK 117
>gnl|CDD|173942 cd08183, Fe-ADH2, Iron-containing alcohol dehydrogenases-like.
Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol
dehydrogenase catalyzes the reduction of acetaldehyde to
alcohol with NADP as cofactor. Its activity requires
iron ions. The protein structure represents a
dehydroquinate synthase-like fold and is a member of the
iron-activated alcohol dehydrogenase-like family. They
are distinct from other alcohol dehydrogenases which
contains different protein domain. Proteins of this
family have not been characterized. Their specific
function is unknown. They are mainly found in bacteria.
Length = 374
Score = 28.3 bits (64), Expect = 2.6
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 9/45 (20%)
Query: 94 NIEVRNHCEMIVGARCSGKSLANSALRHGIGGFHFFYGIPGSIGG 138
+ R+ +M + + G +LAN+ G+G H G+ G IGG
Sbjct: 227 DAAARD--DMALASLLGGIALANA----GLGAVH---GLAGPIGG 262
>gnl|CDD|36296 KOG1080, KOG1080, KOG1080, Histone H3 (Lys4) methyltransferase
complex, subunit SET1 and related methyltransferases
[Chromatin structure and dynamics, Transcription].
Length = 1005
Score = 27.7 bits (61), Expect = 4.1
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 3/43 (6%)
Query: 277 LEYLGEQVRKKVFNQSGILLEWE-IKR--LGDFFDHQIVDATK 316
+EY GE VR + + E I L D +VDATK
Sbjct: 893 IEYRGELVRSSIADLREARYERMGIGDSYLFRIDDEVVVDATK 935
>gnl|CDD|37756 KOG2545, KOG2545, KOG2545, Conserved membrane protein [Function
unknown].
Length = 543
Score = 27.3 bits (60), Expect = 5.2
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 46 QDI-HDLKYFLTLLPSDIPITIVGLGSNILVRDAGIR 81
Q + +D +Y+ + S++ + I+ G +IL D GIR
Sbjct: 407 QKLTYDFQYYQMEVHSNVRVLILSEGRSILPADLGIR 443
>gnl|CDD|32881 COG3067, NhaB, Na+/H+ antiporter [Inorganic ion transport and
metabolism].
Length = 516
Score = 26.8 bits (59), Expect = 8.1
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 8/55 (14%)
Query: 36 GGNAEVMFQPQDI--------HDLKYFLTLLPSDIPITIVGLGSNILVRDAGIRG 82
GG ++ +PQ++ H ++FL + P +P+ I GL + +LV G
Sbjct: 216 GGVMTMVGEPQNLIIAKQAGWHFGEFFLRMAPVTVPVLICGLLTCLLVEKFRWFG 270
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
0.322 0.140 0.423
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,929,006
Number of extensions: 208348
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 436
Number of HSP's successfully gapped: 20
Length of query: 318
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 224
Effective length of database: 4,232,491
Effective search space: 948077984
Effective search space used: 948077984
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)