RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7937
(152 letters)
>gnl|CDD|237366 PRK13370, mhpB, 3-(2,3-dihydroxyphenyl)propionate dioxygenase;
Provisional.
Length = 313
Score = 31.5 bits (72), Expect = 0.14
Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 26 QRRQRRVLDTSSTYVRGEENLHGWRPRGDSLIFDH--QWELEKLTRL 70
RQ+RV+ + + G+ LH P D D +L L
Sbjct: 209 AARQQRVIAAARIFAAGQSALHPLNPEWDRAFLDLLESGDLAALDAW 255
>gnl|CDD|237549 PRK13897, PRK13897, type IV secretion system component VirD4;
Provisional.
Length = 606
Score = 29.0 bits (65), Expect = 1.1
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 39 YVRGEENLHGWRP--RGDSLIFDHQWELEKLTRLQAVERVRHMLLVKDKLGY 88
Y++ E + WRP + + + D +W E R + + MLL KDK GY
Sbjct: 101 YIKLRERIKSWRPFKKKEKVHGDARWASESDIRKAGLRSKKGMLLGKDKGGY 152
>gnl|CDD|233197 TIGR00937, 2A51, chromate transporter, chromate ion transporter
(CHR) family. Members of this family probably act as
chromate transporters, and are found in Pseudomonas
aeruginosa, Alcaligenes eutrophus, Vibrio cholerae,
Bacillus subtilis, cyanobacteria and archaea. The
protein reduces chromate accumulation and is essential
for chromate resistance. Cutoffs for this model have
now been lowered, compared to a previous version,
giving the model a scope more similar to that of
pfam02417. Members of the original, more narrowly
defined family score above 500.00 bits [Transport and
binding proteins, Anions].
Length = 368
Score = 27.7 bits (62), Expect = 2.9
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 3/25 (12%)
Query: 8 LVLLAFPGPTSHA---HRLCVQRRQ 29
L LL+F GP +HA V RQ
Sbjct: 4 LGLLSFGGPVAHAGYMREELVDERQ 28
>gnl|CDD|235651 PRK05940, PRK05940, anthranilate synthase component I-like protein;
Validated.
Length = 463
Score = 27.0 bits (60), Expect = 4.0
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 48 GWRPRGDSLIFDHQWELEKLTRLQAVERVRHMLLV 82
G RPRG + D Q E L+ ++ ER H++LV
Sbjct: 274 GTRPRGKTPAEDQQLAEELLSNIK--ERAEHIMLV 306
>gnl|CDD|153377 cd07365, MhpB_like, Subunit B of the Class III Extradiol
ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate
1,2-dioxygenase (MhpB), which catalyzes the oxidization
and subsequent ring-opening of
2,3-dihydroxyphenylpropionate.
2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB)
catalyzes the oxidization and subsequent ring-opening of
2,3-dihydroxyphenylpropionate, yielding the product
2-hydroxy-6-oxo-nona-2,4-diene 1,9-dicarboxylate. It is
an essential enzyme in the beta-phenylpropionic
degradation pathway, in which beta-phenylpropionic is
first hydrolyzed to produce
2,3-dihydroxyphenylpropionate. The enzyme is a member of
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. LigAB-like class III 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.
MhpB is likely to be a tetramer.
Length = 310
Score = 26.9 bits (60), Expect = 4.4
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 2/44 (4%)
Query: 26 QRRQRRVLDTSSTYVRGEENLHGWRPRGDSLIFD--HQWELEKL 67
RQ+RV+ + + G+ L P D D +L L
Sbjct: 209 AARQQRVIAAAKAFAAGDSTLMPLNPEWDRAFLDLLASGDLAAL 252
>gnl|CDD|218251 pfam04762, IKI3, IKI3 family. Members of this family are
components of the elongator multi-subunit component of a
novel RNA polymerase II holoenzyme for transcriptional
elongation. This region contains WD40 like repeats.
Length = 903
Score = 26.9 bits (60), Expect = 6.2
Identities = 16/37 (43%), Positives = 18/37 (48%), Gaps = 7/37 (18%)
Query: 27 RRQRRV------LDTSSTYVRGEENLHGWRPRGDSLI 57
RR RV LD+ S V G E WRP G +LI
Sbjct: 222 RRVIRVYSREGALDSVSEPVDGLEGALSWRPSG-NLI 257
>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 26.0 bits (58), Expect = 8.8
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 28 RQRRVLDTSSTYVRGEENLHGWRPRGDSL 56
++ +VL YV GEE+L + R D L
Sbjct: 119 KRGKVL-----YVSGEESLQQIKLRADRL 142
>gnl|CDD|178383 PLN02786, PLN02786, isochorismate synthase.
Length = 533
Score = 25.9 bits (57), Expect = 10.0
Identities = 16/40 (40%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 29 QRRVLDTSSTYVRGEENLHGWRPRGDSLIFDHQWELEKLT 68
R+ L S E L RPRG S D Q EL+ LT
Sbjct: 336 HRKGLGVCS------EALAATRPRGGSSARDLQIELDLLT 369
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
0.323 0.137 0.412
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,684,459
Number of extensions: 672845
Number of successful extensions: 504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 504
Number of HSP's successfully gapped: 13
Length of query: 152
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 64
Effective length of database: 7,034,450
Effective search space: 450204800
Effective search space used: 450204800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (24.9 bits)