RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11205
(315 letters)
>gnl|CDD|239457 cd03341, TCP1_theta, TCP-1 (CTT or eukaryotic type II) chaperonin
family, theta subunit. Chaperonins are involved in
productive folding of proteins. They share a common
general morphology, a double toroid of 2 stacked rings.
In contrast to bacterial group I chaperonins (GroEL),
each ring of the eukaryotic cytosolic chaperonin (CTT)
consists of eight different, but homologous subunits.
Their common function is to sequester nonnative proteins
inside their central cavity and promote folding by using
energy derived from ATP hydrolysis. The best studied in
vivo substrates of CTT are actin and tubulin.
Length = 472
Score = 32.2 bits (74), Expect = 0.31
Identities = 27/76 (35%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 187 EMQQ--------LVMVLFSETLQRA---LRVGLLSQEMIEAYEPSLMFTIPRLAIVTGLL 235
+MQ+ LV+VL E L++A LR+GL E+IE YE +L L I+ L+
Sbjct: 72 QMQEEEIGDGTNLVVVLAGELLEKAEELLRMGLHPSEIIEGYEKALKKA---LEILEELV 128
Query: 236 VYPSGPLSLDKEPSEM 251
VY L +E S+
Sbjct: 129 VYKIEDLRNKEEVSKA 144
>gnl|CDD|233826 TIGR02346, chap_CCT_theta, T-complex protein 1, theta subunit.
Members of this family, all eukaryotic, are part of the
group II chaperonin complex called CCT (chaperonin
containing TCP-1) or TRiC. The archaeal equivalent group
II chaperonin is often called the thermosome. Both are
somewhat related to the group I chaperonin of bacterial,
GroEL/GroES. This family consists exclusively of the CCT
alpha chain (part of a paralogous family) from animals,
plants, fungi, and other eukaryotes.
Length = 531
Score = 31.2 bits (71), Expect = 0.74
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 165 LLAEFELGYVTAMVPVKTAK--EYEM---QQLVMVLFSETLQRA---LRVGLLSQEMIEA 216
+L E E+ + A + V ++ E E+ LV+VL E L +A +R+GL E+I+
Sbjct: 63 ILRELEVQHPAAKLLVMASEMQENEIGDGTNLVIVLAGELLNKAEELIRMGLHPSEIIKG 122
Query: 217 YEPSLMFTIPRL 228
YE +L + L
Sbjct: 123 YEMALKKAMEVL 134
>gnl|CDD|149788 pfam08841, DDR, Diol dehydratase reactivase ATPase-like domain.
Diol dehydratase (DDH, EC:4.2.1.28) and its
isofunctional homologue glycerol dehydratase (GDH,
EC.4.2.1.30) are enzymes which catalyze the conversion
of glycerol 1,2-propanediol, and 1,2-ethanediol to
aldehydes. These reactions require coenzyme B12.
Cleavage of the Co-C bond of coenzyme B12 by substrates
or coenzyme analogues results in inactivation during
which coenzyme B12 remains tightly bound to the
apoenzyme. This family comprises of the large subunit of
the diol dehydratase and glycerol dehydratase
reactivating factors whose function is to reactivate the
holoenzyme by exchange of a damaged cofactor for intact
coenzyme.
Length = 332
Score = 29.7 bits (67), Expect = 2.0
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 124 LENVRNLLREYSLRSTHPSDIFFTDDLYIDRIFESLKVFDRLLAEFELGYVTAMVPVKTA 183
LE VR ++ L + SDIF D L +D F +KV L EF + + + A
Sbjct: 36 LERVRQVMAA--LTNKAVSDIFIQDLLAVDT-FVPVKVRGGLAGEFSMEQAVGIAAMVKA 92
Query: 184 KEYEMQQLVMVLFSETLQRALRVGLLSQEM 213
+M + L E L + +G + E
Sbjct: 93 DHLQMAIIAAEL-EEELGVPVEIGGVEAEA 121
>gnl|CDD|219490 pfam07627, PSCyt3, Protein of unknown function (DUF1588). A region
of similarity shared by several Rhodopirellula baltica
cytochrome-like proteins that are predicted to be
secreted. These proteins also match pfam07626 and
pfam07624.
Length = 102
Score = 27.5 bits (62), Expect = 3.9
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 3/26 (11%)
Query: 280 LERLLCSVDEPTPPPVPAVNTTPDEE 305
LERLL P PPP P V ++
Sbjct: 31 LERLLGD---PPPPPPPNVPALEPDD 53
>gnl|CDD|237451 PRK13631, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 320
Score = 28.3 bits (63), Expect = 5.2
Identities = 12/42 (28%), Positives = 20/42 (47%)
Query: 258 FRTLLGKIREVLWRLNEDEIARLERLLCSVDEPTPPPVPAVN 299
+ K +V L++D I R++ L C DE + A+N
Sbjct: 2 MDYFMKKKLKVPNPLSDDIILRVKNLYCVFDEKQENELVALN 43
>gnl|CDD|200475 cd11336, AmyAc_MTSase, Alpha amylase catalytic domain found in
maltooligosyl trehalose synthase (MTSase).
Maltooligosyl trehalose synthase (MTSase) domain. MTSase
and maltooligosyl trehalose trehalohydrolase (MTHase)
work together to produce trehalose. MTSase is
responsible for converting the alpha-1,4-glucosidic
linkage to an alpha,alpha-1,1-glucosidic linkage at the
reducing end of the maltooligosaccharide through an
intramolecular transglucosylation reaction, while MTHase
hydrolyzes the penultimate alpha-1,4 linkage of the
reducing end, resulting in the release of trehalose. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 660
Score = 28.6 bits (65), Expect = 5.8
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 228 LAIVTGLLVYPSGPLSLDKEPSEMSEMFRPFRTLL-GKIREVLWRLNEDEIARLERLL 284
L V GL V P+G +L + + F L+ R VL E+ RL RLL
Sbjct: 283 LNEVNGLFVDPAGEAALTRLYRRFTGDPGDFAELVREAKRLVLDTSLAGELNRLARLL 340
>gnl|CDD|227289 COG4953, PbpC, Membrane carboxypeptidase/penicillin-binding protein
PbpC [Cell envelope biogenesis, outer membrane].
Length = 733
Score = 28.1 bits (63), Expect = 8.1
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 6/25 (24%)
Query: 259 RTLLGKIREVL------WRLNEDEI 277
RTL GKIR++ RL++ EI
Sbjct: 126 RTLGGKIRQIWRAIQLESRLSKREI 150
>gnl|CDD|187724 cd08822, FMT_core_like_2, Formyl transferase catalytic core
domain found in a group of proteins with unknown
functions. Formyl transferase catalytic core domain
found in a group of proteins with unknown functions.
Formyl transferase catalyzes the transfer of one-carbon
groups, specifically the formyl- or hydroxymethyl-
group. This domain contains a Rossmann fold and it is
the catalytic domain of the enzyme.
Length = 192
Score = 27.4 bits (61), Expect = 9.1
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 82 MQDNLAGQLWFGAECLAA 99
M+ +AGQ WFG L A
Sbjct: 1 MKIAIAGQKWFGTAVLEA 18
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 0.136 0.398
Gapped
Lambda K H
0.267 0.0754 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,630,111
Number of extensions: 1635227
Number of successful extensions: 1799
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1797
Number of HSP's successfully gapped: 25
Length of query: 315
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 218
Effective length of database: 6,635,264
Effective search space: 1446487552
Effective search space used: 1446487552
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: 59 (26.5 bits)