RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9570
(218 letters)
>gnl|CDD|217441 pfam03232, COQ7, Ubiquinone biosynthesis protein COQ7. Members of
this family contain two repeats of about 90 amino acids,
that contains two conserved motifs. One of these DXEXXH
may be part of an enzyme active site.
Length = 170
Score = 287 bits (738), Expect = e-100
Identities = 107/165 (64%), Positives = 124/165 (75%), Gaps = 2/165 (1%)
Query: 26 RQLDEIIRVDHAGELGADRIYAGQMAVLG-NSSVAPKIQEMWDQEKAHKAKFEELIRKYR 84
+D IIRVDHAGELGA RIYAGQ+AVLG S+ P I+EMWDQEK H A F ELI + R
Sbjct: 1 ALIDRIIRVDHAGELGAVRIYAGQLAVLGPRPSLGPVIKEMWDQEKVHLATFNELILERR 60
Query: 85 VRPTALLPFWNVAGFILGAGSALLGPKGAMACTVAVESVIVDHYNEQLRALMSDPAANRE 144
VRPT LLP W+VAGF LGAG+ALLG K AMACT AVE+VI +HYN+QLR L ++E
Sbjct: 61 VRPTLLLPLWHVAGFALGAGTALLGKKAAMACTAAVETVIDEHYNDQLRELEELD-DDKE 119
Query: 145 LMDVIHKFRDEEQEHHDTGLEHGAEQAPFYKLMTDVIKVGCKVAI 189
L + I KFRDEE EH DT +EHGAEQAP Y L++ IK GC+ AI
Sbjct: 120 LKETIAKFRDEELEHRDTAIEHGAEQAPAYPLLSGAIKAGCRAAI 164
>gnl|CDD|153101 cd01042, DMQH, Demethoxyubiquinone hydroxylase, ferritin-like
diiron-binding domain. Demethoxyubiquinone hydroxylases
(DMQH) are members of the ferritin-like,
diiron-carboxylate family which are present in
eukaryotes (the CLK-1/CAT5 family) and prokaryotes (the
Coq7 family). DMQH participates in one of the last steps
of ubiquinone biosysnthesis and is responsible for DMQ
hydroxylation, resulting in the formation of
hydroxyubiquinone, a precursor of ubiquinone. CLK-1 is a
mitochondrial inner membrane protein and Coq7 is a
proposed interfacial integral membrane protein.
Mutations in the Caenorhabditis elegans gene clk-1
affect biological timing and extend longevity. The
conserved residues of a diiron center are present in
this domain.
Length = 165
Score = 240 bits (616), Expect = 6e-82
Identities = 93/162 (57%), Positives = 118/162 (72%), Gaps = 2/162 (1%)
Query: 28 LDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRP 87
L I+RV+HAGE+GA RIY GQ+AV + +V P I+EM D+EK H A FEEL+ + VRP
Sbjct: 1 LARILRVNHAGEVGAVRIYRGQLAVARDPAVRPLIKEMLDEEKDHLAWFEELLPELGVRP 60
Query: 88 TALLPFWNVAGFILGAGSALLGPKGAMACTVAVESVIVDHYNEQLRALMSDPAANRELMD 147
+ LLP W VAGF LGA +ALLG K AMACT AVE+V+ +HYN+QLR L + P ++EL
Sbjct: 61 SLLLPLWYVAGFALGALTALLGKKAAMACTAAVETVVEEHYNDQLRELPAQP--DKELRA 118
Query: 148 VIHKFRDEEQEHHDTGLEHGAEQAPFYKLMTDVIKVGCKVAI 189
+I +FRD+E EH D E GAE+AP Y L+ +IK GCKVAI
Sbjct: 119 IIEQFRDDELEHADIAEELGAEKAPLYALLKALIKAGCKVAI 160
>gnl|CDD|225492 COG2941, CAT5, Ubiquinone biosynthesis protein COQ7 [Coenzyme
metabolism].
Length = 204
Score = 179 bits (455), Expect = 5e-57
Identities = 74/165 (44%), Positives = 98/165 (59%), Gaps = 5/165 (3%)
Query: 25 SRQLDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYR 84
R L IIRV+HAGELGA IY GQ AV + +++EM D+E H A FE+ + +
Sbjct: 39 KRILAGIIRVNHAGELGAQAIYQGQAAVARSPEPRIQLKEMADEEIDHLAWFEQRLLELG 98
Query: 85 VRPTALLPFWNVAGFILGAGSALLGPKGAMACTVAVESVIVDHYNEQLRALMSDPAANRE 144
VRP+ L P W A F LGAG+ LLG K AM T AVE+VI HY+ QLR L P + E
Sbjct: 99 VRPSLLNPLWYAAAFALGAGAGLLGDKAAMGFTEAVETVIEKHYDGQLREL---PNLDAE 155
Query: 145 LMDVIHKFRDEEQEHHDTGLEHGAEQAPFYKLMTDVIKVGCKVAI 189
L ++ +FRD+E EH D + G A F +T +K+ C++ I
Sbjct: 156 LRAILAQFRDDELEHLDNAIAAGE--AIFPAPITKAMKLICRIMI 198
>gnl|CDD|153097 cd00657, Ferritin_like, Ferritin-like superfamily of
diiron-containing four-helix-bundle proteins.
Ferritin-like, diiron-carboxylate proteins participate
in a range of functions including iron regulation,
mono-oxygenation, and reactive radical production. These
proteins are characterized by the fact that they
catalyze dioxygen-dependent oxidation-hydroxylation
reactions within diiron centers; one exception is
manganese catalase, which catalyzes peroxide-dependent
oxidation-reduction within a dimanganese center.
Diiron-carboxylate proteins are further characterized by
the presence of duplicate metal ligands, glutamates and
histidines (ExxH) and two additional glutamates within a
four-helix bundle. Outside of these conserved residues
there is little obvious homology. Members include
bacterioferritin, ferritin, rubrerythrin, aromatic and
alkene monooxygenase hydroxylases (AAMH), ribonucleotide
reductase R2 (RNRR2), acyl-ACP-desaturases
(Acyl_ACP_Desat), manganese (Mn) catalases,
demethoxyubiquinone hydroxylases (DMQH), DNA protecting
proteins (DPS), and ubiquinol oxidases (AOX), and the
aerobic cyclase system, Fe-containing subunit (ACSF).
Length = 130
Score = 57.1 bits (138), Expect = 1e-10
Identities = 25/137 (18%), Positives = 47/137 (34%), Gaps = 8/137 (5%)
Query: 30 EIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRPTA 89
++ AGE A Y A + + ++ E+ D+E+ H E +R+ P
Sbjct: 1 RLLNDALAGEYAAIIAYGQLAARAPDPDLKDELLEIADEERRHADALAERLRELGGTPPL 60
Query: 90 LLPFWNVAGFILGAGSALLGPKGAMACTVAVESVIVDHYNEQLRALMSDPAANRELMDVI 149
P A+ + VE+ + Y E + A + EL ++
Sbjct: 61 PPAH---LLAAYALPKTSDDPAEALRAALEVEARAIAAYRELIEQ-----ADDPELRRLL 112
Query: 150 HKFRDEEQEHHDTGLEH 166
+ +EQ H +
Sbjct: 113 ERILADEQRHAAWFRKL 129
>gnl|CDD|153104 cd01045, Ferritin_like_AB, Uncharacterized family of ferritin-like
proteins found in archaea and bacteria. Ferritin-like
domain found in archaea and bacteria (Ferritin_like_AB).
This uncharacterized domain is a member of a broad
superfamily of ferritin-like diiron-carboxylate proteins
whose function is unknown. This family includes unknown
or hypothetical proteins which were sequenced from
mostly anaerobic or microaerophilic metal-metabolizing
and/or nitrogen-fixing microbes. The family includes
sequences from ferric-, sulfate-, and arsenic-reducing
bacteria, Geobacter, Magnetospirillum, Desulfovibrio,
and Desulfitobacterium. Also included are several
nitrogen-fixing endosymbiotic bacteria, Rhizobium,
Mesorhizobium, and Bradyrhizobium; also phototrophic
purple nonsulfur bacteria, Rhodobacter and
Rhodopseudomonas, as well as, obligate thermophiles,
Thermotoga, Thermoanaerobacter, and Pyrococcus. The
conserved residues of a diiron center are present in
this uncharacterized domain.
Length = 139
Score = 36.9 bits (86), Expect = 0.002
Identities = 28/136 (20%), Positives = 53/136 (38%), Gaps = 11/136 (8%)
Query: 30 EIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRPTA 89
EI+ + E A Y + + +E+ ++EK H + EEL K
Sbjct: 1 EILALAIKMEEEAAEFYLELAEKAKDPELKKLFEELAEEEKEHAERLEELYEKLFGEELP 60
Query: 90 LLPFWNVAGFILG------AGSALLGPKGAMACTVAVESVIVDHYNEQLRALMSDPAANR 143
L + + A +L+ P A+ + +E ++ Y E+L DP +
Sbjct: 61 ELEPEDYKEEVEEEPEFKKALESLMDPLEALRLAIEIEKDAIEFY-EELAEKAEDPEV-K 118
Query: 144 ELMDVIHKFRDEEQEH 159
+L + + +EE+ H
Sbjct: 119 KLFE---ELAEEERGH 131
>gnl|CDD|224548 COG1633, COG1633, Uncharacterized conserved protein [Function
unknown].
Length = 176
Score = 33.6 bits (77), Expect = 0.043
Identities = 14/62 (22%), Positives = 29/62 (46%)
Query: 22 KRVSRQLDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIR 81
++E++ + GEL A + Y + + + +++ D+E H KFE+L+
Sbjct: 19 LVKELSIEELLAIAIRGELEAIKFYEELAERIEDEEIRKLFEDLADEEMRHLRKFEKLLE 78
Query: 82 KY 83
K
Sbjct: 79 KL 80
>gnl|CDD|221188 pfam11725, AvrE, Pathogenicity factor. This family is secreted by
gram-negative Gammaproteobacteria such as Pseudomonas
syringae of tomato and the fire blight plant pathogen
Erwinia amylovora, amongst others. It is an essential
pathogenicity factor of approximately 198 kDa. Its
injection into the host-plant is dependent upon the
bacterial type III or Hrp secretion system. The family
is long and carries a number of predicted functional
regions, including an ERMS or endoplasmic reticulum
membrane retention signal at both the C- and the
N-termini, a leucine-zipper motif from residues 539-560,
and a nuclear localisation signal at 1358-1361. this
conserved AvrE-family of effectors is among the few that
are required for full virulence of many phytopathogenic
pseudomonads, erwinias and pantoeas.
Length = 1771
Score = 31.7 bits (72), Expect = 0.37
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 67 DQEKAHKAKFEELIRKYRVRPTALLPFW--NVAGFI 100
+EK+ K+KF E IR + +PT P NVA I
Sbjct: 874 GREKSKKSKFSEFIRAHVFKPTMETPRPLKNVAYNI 909
>gnl|CDD|239090 cd02406, CRS2, Chloroplast RNA splicing 2 (CRS2) is a
nuclear-encoded protein required for the splicing of
group II introns in the chloroplast. CRS2 forms stable
complexes with two CRS2-associated factors, CAF1 and
CAF2, which are required for the splicing of distinct
subsets of CRS2-dependent introns. CRS2 is closely
related to bacterial peptidyl-tRNA hydrolases (PTH).
Length = 191
Score = 27.8 bits (62), Expect = 3.4
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 13/71 (18%)
Query: 108 LGPKGAMACTVAVESVIVDHYNE-----QLRALMSDPAANRELMD----VIHKFRDEEQE 158
L PKG ++SVI +H + +L + P MD ++ KF EE+E
Sbjct: 103 LQPKGGHGRHNGLQSVI-EHLDGSREFPRLSIGIGSPPGK---MDPRAFLLQKFSSEERE 158
Query: 159 HHDTGLEHGAE 169
DT LE G +
Sbjct: 159 QIDTALEQGVD 169
>gnl|CDD|237347 PRK13318, PRK13318, pantothenate kinase; Reviewed.
Length = 258
Score = 27.4 bits (62), Expect = 4.8
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 32 IRVDHAGELGADRI 45
I+VD+ E+GADRI
Sbjct: 99 IKVDNPKEVGADRI 112
>gnl|CDD|226640 COG4171, SapC, ABC-type antimicrobial peptide transport system,
permease component [Defense mechanisms].
Length = 296
Score = 27.4 bits (61), Expect = 5.2
Identities = 11/43 (25%), Positives = 15/43 (34%), Gaps = 3/43 (6%)
Query: 68 QEKAHKAKFEELIRKYRVRPTALLPFWNVAGFILGAGSALLGP 110
EK RK+R A+ + +AG L L G
Sbjct: 8 SEKRPPTTLRTAWRKFRSDAIAMFGLYGLAGLAL---LCLFGG 47
>gnl|CDD|227500 COG5173, SEC6, Exocyst complex subunit SEC6 [Intracellular
trafficking and secretion].
Length = 742
Score = 28.0 bits (62), Expect = 5.3
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 130 EQLRALMSDPAANRELMDVIHKFRDEEQ-EHHDTGLEHGAEQAPFYKLMTDVIK 182
QL + + + ++D+I + E EHHD L AE + + ++ K
Sbjct: 6 TQLSETLRHDSDLQTVLDIIEQSTKFEALEHHDGNLS--AEISKCLNNILNISK 57
>gnl|CDD|220555 pfam10079, DUF2317, Uncharacterized protein conserved in bacteria
(DUF2317). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 541
Score = 27.5 bits (62), Expect = 5.5
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 69 EKAHKAKFEELIRKYRVRPTALLPF-------WNVAGFILGAGSALL 108
KA + K EEL+R++ TAL P WN+ F+ G L+
Sbjct: 475 LKAQRRKHEELLRQFDRLQTALFPNGAPQERVWNIFYFLNKYGPDLI 521
>gnl|CDD|143455 cd07137, ALDH_F3FHI, Plant aldehyde dehydrogenase family 3 members
F1, H1, and I1 and related proteins. Aldehyde
dehydrogenase family members 3F1, 3H1, and 3I1 (ALDH3F1,
ALDH3H1, and ALDH3I1), and similar plant sequences, are
in this CD. In Arabidopsis thaliana, stress-regulated
expression of ALDH3I1 was observed in leaves and
osmotic stress expression of ALDH3H1 was observed in
root tissue, whereas, ALDH3F1 expression was not stress
responsive. Functional analysis of ALDH3I1 suggest it
may be involved in a detoxification pathway in plants
that limits aldehyde accumulation and oxidative stress.
Length = 432
Score = 27.4 bits (61), Expect = 7.7
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 14 RLVRNLHQKRVSRQLDEIIRVD---HAGELGADRIY 46
R+V + H +R+SR LD+ D H GE +Y
Sbjct: 282 RIVNSHHFQRLSRLLDDPSVADKIVHGGERDEKNLY 317
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
0.321 0.135 0.397
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,171,387
Number of extensions: 1072302
Number of successful extensions: 1109
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1099
Number of HSP's successfully gapped: 31
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
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)