RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1912
(77 letters)
>gnl|CDD|178405 PLN02809, PLN02809, 4-hydroxybenzoate nonaprenyltransferase.
Length = 289
Score = 90.5 bits (225), Expect = 6e-24
Identities = 28/44 (63%), Positives = 39/44 (88%)
Query: 1 MTFNYGALMGYSAVTGCVDWSLCLPLYLSGICWTIIYDTIYAHQ 44
+TFN+GAL+G++AV G +D ++ LPLY SG+CWT++YDTIYAHQ
Sbjct: 146 LTFNWGALLGWAAVKGSLDPAVVLPLYASGVCWTLVYDTIYAHQ 189
>gnl|CDD|183808 PRK12878, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
Length = 314
Score = 67.3 bits (165), Expect = 3e-15
Identities = 23/44 (52%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 1 MTFNYGALMGYSAVTGCVDWSLCLPLYLSGICWTIIYDTIYAHQ 44
+ F++GALMG++A G + + L LY I WTI YDTIYAHQ
Sbjct: 173 LAFSWGALMGWAAHFGSLSLAAVL-LYAGSIAWTIGYDTIYAHQ 215
>gnl|CDD|130539 TIGR01474, ubiA_proteo, 4-hydroxybenzoate polyprenyl transferase,
proteobacterial. This model represents a family of
integral membrane proteins that condenses
para-hydroxybenzoate with any of several
polyprenyldiphosphates. Heterologous expression studies
suggest that for, many but not all members, the activity
seen (e.g. octaprenyltransferase in E. coli) reflects
available host isoprenyl pools rather than enzyme
specificity. A fairly deep split by both clustering
(UPGMA) and phylogenetics (NJ tree) separates this group
(mostly Proteobacterial and mitochondrial), with several
characterized members, from another group (mostly
archaeal and Gram-positive bacterial) lacking
characterized members [Biosynthesis of cofactors,
prosthetic groups, and carriers, Menaquinone and
ubiquinone].
Length = 281
Score = 66.2 bits (162), Expect = 8e-15
Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 3/46 (6%)
Query: 2 TFNYGALMGYSAVTGCVDWSLCLP-LYLSGICWTIIYDTIYAHQVR 46
F +GALMG++AVTG D S LYL+ I WT+ YDTIYA Q +
Sbjct: 142 AFGWGALMGWAAVTG--DLSTAAWVLYLANILWTLGYDTIYAMQDK 185
>gnl|CDD|237228 PRK12847, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
Length = 285
Score = 53.4 bits (129), Expect = 4e-10
Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 2 TFNYGALMGYSAVTGCVDWSLCLPLYLSGICWTIIYDTIYAHQ 44
TFN G LM ++AV +D + LY+ I WTI YDTIYA+Q
Sbjct: 147 TFNMGILMAFAAVQNQLDIE-AILLYIGCIFWTIGYDTIYAYQ 188
>gnl|CDD|237229 PRK12848, ubiA, 4-hydroxybenzoate octaprenyltransferase; Reviewed.
Length = 282
Score = 48.3 bits (116), Expect = 2e-08
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 1 MTFNYGALMGYSAVTGCVDWSLCLPLYLSGICWTIIYDTIYA 42
F +G M ++AV G V L+L+ I WT+ YDT YA
Sbjct: 143 AAFGWGIPMAFAAVQGSVPL-EAWLLFLANILWTVAYDTQYA 183
>gnl|CDD|237240 PRK12870, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
Length = 290
Score = 45.0 bits (107), Expect = 3e-07
Identities = 15/40 (37%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 3 FNYGALMGYSAVTGCVDWSLCLPLYLSGICWTIIYDTIYA 42
+ + L+ +SAVTG +D L L+ + + WT+ +DT+YA
Sbjct: 149 WGFAVLISWSAVTGHLDLGTWL-LWAATVFWTLGFDTVYA 187
>gnl|CDD|223459 COG0382, UbiA, 4-hydroxybenzoate polyprenyltransferase and related
prenyltransferases [Coenzyme metabolism].
Length = 289
Score = 39.2 bits (92), Expect = 4e-05
Identities = 20/44 (45%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 1 MTFNYGALMGYSAVTGCVDWSLCLPLYLSGICWTIIYDTIYAHQ 44
+ F GAL G +AV G + L L L+ I WT+ YD IYA Q
Sbjct: 148 LAFGLGALAGAAAVGGSLPL-LAWLLLLAAILWTLGYDIIYAIQ 190
>gnl|CDD|233428 TIGR01473, cyoE_ctaB, protoheme IX farnesyltransferase. This model
describes protoheme IX farnesyltransferase, also called
heme O synthase, an enzyme that creates an intermediate
in the biosynthesis of heme A. Prior to the description
of its enzymatic function, this protein was often called
a cytochrome o ubiquinol oxidase assembly factor
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Heme, porphyrin, and cobalamin].
Length = 280
Score = 26.8 bits (60), Expect = 1.1
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 7 ALMGYSAVTGCVDW-SLCLPLYLSGICWTII 36
L+G++AVTG + + L + W
Sbjct: 145 PLIGWAAVTGSISLGAWLLFAII--FLWQPP 173
>gnl|CDD|236537 PRK09481, sspA, stringent starvation protein A; Provisional.
Length = 211
Score = 26.6 bits (59), Expect = 1.1
Identities = 11/22 (50%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 38 DTIYAHQVRIHLIDLCENGVNF 59
IY+HQVRI L E GV+
Sbjct: 18 TDIYSHQVRIV---LAEKGVSV 36
>gnl|CDD|171787 PRK12873, ubiA, prenyltransferase; Reviewed.
Length = 294
Score = 26.2 bits (58), Expect = 1.5
Identities = 11/36 (30%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 8 LMGYSAVTGCVDWSLCL-PLYLSGICWTIIYDTIYA 42
L+ ++A G ++ L +L+ + WT +DT+YA
Sbjct: 156 LIPWAAAEGSLNGGWPLLFCWLATLLWTFGFDTVYA 191
>gnl|CDD|223187 COG0109, CyoE, Polyprenyltransferase (cytochrome oxidase assembly
factor) [Posttranslational modification, protein
turnover, chaperones].
Length = 304
Score = 26.1 bits (58), Expect = 2.1
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 7 ALMGYSAVTGCVDWSLCLPLYLSGI--CWT 34
L+G++AVTG + + L I WT
Sbjct: 162 PLIGWAAVTGSISLG---AILLFAIIFLWT 188
>gnl|CDD|234806 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 25.6 bits (56), Expect = 3.5
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 41 YAHQVRIH---LIDLCENGVNFISK 62
YAH VRIH L D+ + V F+ K
Sbjct: 1323 YAHCVRIHNTSLSDIYQEDVTFLKK 1347
>gnl|CDD|225226 COG2351, COG2351, Transthyretin-like protein [General function
prediction only].
Length = 124
Score = 25.0 bits (55), Expect = 4.2
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 3/47 (6%)
Query: 25 PLYLSGICWTIIYDT---IYAHQVRIHLIDLCENGVNFISKSITNID 68
P SG T + DT A V++ L L N + +TN D
Sbjct: 4 PPQASGRLTTHVLDTASGKPAAGVKVELYRLEGNQWELLKTVVTNAD 50
>gnl|CDD|233429 TIGR01475, ubiA_other, putative 4-hydroxybenzoate
polyprenyltransferase. A fairly deep split separates
this polyprenyltransferase subfamily from the set of
mitochondrial and proteobacterial 4-hydroxybenzoate
polyprenyltransferases, described in TIGR01474.
Protoheme IX farnesyltransferase (heme O synthase)
(TIGR01473) is more distantly related. Because no
species appears to have both this protein and a member
of TIGR01474, it is likely that This model represents
4-hydroxybenzoate polyprenyltransferase, a critical
enzyme of ubiquinone biosynthesis, in the Archaea,
Gram-positive bacteria, Aquifex aeolicus, the
Chlamydias, etc [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 282
Score = 24.6 bits (54), Expect = 6.8
Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 11/51 (21%)
Query: 1 MTFNYG--ALMGYSAVTG-----CVDWSLCLPLYLSGICWTIIYDTIYAHQ 44
+ YG L G+ AV G V W L + W +D IYA Q
Sbjct: 135 LGSTYGLAPLAGWVAVIGTISFFLVAWLLGI----GVGFWIAGFDLIYAIQ 181
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
0.327 0.143 0.477
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,851,635
Number of extensions: 286418
Number of successful extensions: 284
Number of sequences better than 10.0: 1
Number of HSP's gapped: 278
Number of HSP's successfully gapped: 20
Length of query: 77
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 31
Effective length of database: 8,897,318
Effective search space: 275816858
Effective search space used: 275816858
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)