RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3497
(151 letters)
>gnl|CDD|240397 PTZ00390, PTZ00390, ubiquitin-conjugating enzyme; Provisional.
Length = 152
Score = 233 bits (597), Expect = 2e-80
Identities = 99/149 (66%), Positives = 119/149 (79%)
Query: 3 ALPRRIIKETQRLMQEPVPGISAVPDESNARYFHVIVTGPEDSPFEGGLFKLELFLPEDY 62
++ +RI KETQ L +P PGI A PD N R+F +++ GP+ +P+EGG +KLELFLPE Y
Sbjct: 2 SISKRIEKETQNLANDPPPGIKAEPDPGNYRHFKILMEGPDGTPYEGGYYKLELFLPEQY 61
Query: 63 PMSAPKVRFITKIYHPNIDRLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLA 122
PM PKVRF+TKIYHPNID+LGRICLDILKDKWSPALQIRTVLLSIQALLSAP PDDPL
Sbjct: 62 PMEPPKVRFLTKIYHPNIDKLGRICLDILKDKWSPALQIRTVLLSIQALLSAPEPDDPLD 121
Query: 123 NDVAELWKVNEAEAIRNAKEWTRKYAMDN 151
VA+ +K N A+A + A+EW +KYA N
Sbjct: 122 TSVADHFKNNRADAEKVAREWNQKYAKHN 150
>gnl|CDD|227410 COG5078, COG5078, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 153
Score = 204 bits (520), Expect = 1e-68
Identities = 74/150 (49%), Positives = 106/150 (70%), Gaps = 1/150 (0%)
Query: 2 SALPRRIIKETQRLMQEPVPGISAVP-DESNARYFHVIVTGPEDSPFEGGLFKLELFLPE 60
+ +R++KE ++L ++P PGISA P D+ N ++ +TGP D+P+EGG+FKL L PE
Sbjct: 4 PSALKRLLKELKKLQKDPPPGISAGPVDDDNLFHWEATITGPPDTPYEGGIFKLTLEFPE 63
Query: 61 DYPMSAPKVRFITKIYHPNIDRLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDP 120
DYP PKVRF TKI+HPN+D G +CLDILKD+WSP + T+LLS+Q+LL +PNPD P
Sbjct: 64 DYPFKPPKVRFTTKIFHPNVDPSGNVCLDILKDRWSPVYTLETILLSLQSLLLSPNPDSP 123
Query: 121 LANDVAELWKVNEAEAIRNAKEWTRKYAMD 150
L + A L++ ++ E + +EW +KYA
Sbjct: 124 LNTEAATLYREDKEEYEKKVREWVKKYAEK 153
>gnl|CDD|215772 pfam00179, UQ_con, Ubiquitin-conjugating enzyme. Proteins destined
for proteasome-mediated degradation may be
ubiquitinated. Ubiquitination follows conjugation of
ubiquitin to a conserved cysteine residue of UBC
homologues. TSG101 is one of several UBC homologues that
lacks this active site cysteine.
Length = 139
Score = 197 bits (502), Expect = 4e-66
Identities = 75/139 (53%), Positives = 100/139 (71%), Gaps = 1/139 (0%)
Query: 7 RIIKETQRLMQEPVPGISAVPDESNARYFHVIVTGPEDSPFEGGLFKLELFLPEDYPMSA 66
R+ KE + L+++P PGISA P + N + V + GPE +P+EGG+FKL++ PEDYP
Sbjct: 1 RLQKELKELLKDPPPGISAFPVDDNLFEWEVTIIGPEGTPYEGGVFKLDIEFPEDYPFKP 60
Query: 67 PKVRFITKIYHPNIDRLGRICLDILKDK-WSPALQIRTVLLSIQALLSAPNPDDPLANDV 125
PKV+F TKIYHPN+D G ICLDILKD+ WSPAL I VLLSIQ+LLS PNP+DPL +
Sbjct: 61 PKVKFTTKIYHPNVDPSGEICLDILKDENWSPALTIEQVLLSIQSLLSEPNPEDPLNAEA 120
Query: 126 AELWKVNEAEAIRNAKEWT 144
A+L++ N E + +E+
Sbjct: 121 AKLYRKNREEFEKKVREYV 139
>gnl|CDD|238117 cd00195, UBCc, Ubiquitin-conjugating enzyme E2, catalytic (UBCc)
domain. This is part of the ubiquitin-mediated protein
degradation pathway in which a thiol-ester linkage forms
between a conserved cysteine and the C-terminus of
ubiquitin and complexes with ubiquitin protein ligase
enzymes, E3. This pathway regulates many fundamental
cellular processes. There are also other E2s which form
thiol-ester linkages without the use of E3s as well as
several UBC homologs (TSG101, Mms2, Croc-1 and similar
proteins) which lack the active site cysteine essential
for ubiquitination and appear to function in DNA repair
pathways which were omitted from the scope of this CD.
Length = 141
Score = 190 bits (486), Expect = 1e-63
Identities = 76/141 (53%), Positives = 100/141 (70%), Gaps = 1/141 (0%)
Query: 5 PRRIIKETQRLMQEPVPGISAVPDESNARYFHVIVTGPEDSPFEGGLFKLELFLPEDYPM 64
+R+ KE + L ++P GISA P E N +H + GP D+P+EGG+FKL++ PEDYP
Sbjct: 1 SKRLQKELKDLKKDPPSGISAEPVEENLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPF 60
Query: 65 SAPKVRFITKIYHPNIDRLGRICLDILKD-KWSPALQIRTVLLSIQALLSAPNPDDPLAN 123
PKVRF+TKIYHPN+D G+ICL ILK WSPA +RTVLLS+Q+LL+ PNP DPL
Sbjct: 61 KPPKVRFVTKIYHPNVDENGKICLSILKTHGWSPAYTLRTVLLSLQSLLNEPNPSDPLNA 120
Query: 124 DVAELWKVNEAEAIRNAKEWT 144
+ A+L+K N E + A+EWT
Sbjct: 121 EAAKLYKENREEFKKKAREWT 141
>gnl|CDD|214562 smart00212, UBCc, Ubiquitin-conjugating enzyme E2, catalytic domain
homologues. Proteins destined for proteasome-mediated
degradation may be ubiquitinated. Ubiquitination follows
conjugation of ubiquitin to a conserved cysteine residue
of UBC homologues. This pathway functions in regulating
many fundamental processes required for cell
viability.TSG101 is one of several UBC homologues that
lacks this active site cysteine.
Length = 145
Score = 189 bits (481), Expect = 9e-63
Identities = 81/145 (55%), Positives = 104/145 (71%), Gaps = 2/145 (1%)
Query: 7 RIIKETQRLMQEPVPGISAVP-DESNARYFHVIVTGPEDSPFEGGLFKLELFLPEDYPMS 65
R++KE + L ++P PG +A P D+ N + + GP +P+EGG+FKL + PEDYP
Sbjct: 1 RLLKELKELRKDPPPGFTAYPVDDENLLEWTGTIVGPPGTPYEGGVFKLTIEFPEDYPFK 60
Query: 66 APKVRFITKIYHPNIDRLGRICLDILK-DKWSPALQIRTVLLSIQALLSAPNPDDPLAND 124
PKV+FITKIYHPN+D G ICLDILK +KWSPAL + TVLLS+Q+LLS PNPD PL D
Sbjct: 61 PPKVKFITKIYHPNVDSSGEICLDILKQEKWSPALTLETVLLSLQSLLSEPNPDSPLNAD 120
Query: 125 VAELWKVNEAEAIRNAKEWTRKYAM 149
AEL+K N E + A+EWT+KYA
Sbjct: 121 AAELYKKNREEFKKKAREWTKKYAE 145
>gnl|CDD|177768 PLN00172, PLN00172, ubiquitin conjugating enzyme; Provisional.
Length = 147
Score = 144 bits (364), Expect = 3e-45
Identities = 71/143 (49%), Positives = 97/143 (67%)
Query: 6 RRIIKETQRLMQEPVPGISAVPDESNARYFHVIVTGPEDSPFEGGLFKLELFLPEDYPMS 65
+RI KE + L+++P SA P + N + + GP DSP+ GG+F L + P DYP
Sbjct: 4 KRIQKEHKDLLKDPPSNCSAGPSDENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYPFK 63
Query: 66 APKVRFITKIYHPNIDRLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLANDV 125
PKV+F TKIYHPNI+ G ICLDIL+D+WSPAL + VLLSI +LL+ PNPDDPL ++
Sbjct: 64 PPKVQFTTKIYHPNINSNGSICLDILRDQWSPALTVSKVLLSISSLLTDPNPDDPLVPEI 123
Query: 126 AELWKVNEAEAIRNAKEWTRKYA 148
A ++K N + A+EWT++YA
Sbjct: 124 ARVFKENRSRYEATAREWTQRYA 146
>gnl|CDD|218742 pfam05773, RWD, RWD domain. This domain was identified in WD40
repeat proteins and Ring finger domain proteins. The
function of this domain is unknown. GCN2 is the
alpha-subunit of the only translation initiation factor
(eIF2 alpha) kinase that appears in all eukaryotes. Its
function requires an interaction with GCN1 via the
domain at its N-terminus, which is termed the RWD
domain after three major RWD-containing proteins: RING
finger-containing proteins, WD-repeat-containing
proteins, and yeast DEAD (DEXD)-like helicases. The
structure forms an alpha + beta sandwich fold
consisting of two layers: a four-stranded antiparallel
beta-sheet, and three side-by-side alpha-helices.
Length = 113
Score = 34.6 bits (80), Expect = 0.004
Identities = 17/72 (23%), Positives = 26/72 (36%), Gaps = 4/72 (5%)
Query: 26 VPDESNARYFHVIVTGPEDSPFEGGL--FKLELFLPEDYPMSAPKVRFITKIYHPNIDRL 83
ES+ F + + L L LPEDYP PK+ + + D+L
Sbjct: 24 EVKESSPPTFTIKLKLLTSEAESSPLVSLVLTFTLPEDYPDEPPKISLSSPWLLRDQDKL 83
Query: 84 GRICLDILKDKW 95
L L++
Sbjct: 84 --QLLKELEELA 93
>gnl|CDD|183636 PRK12631, flgC, flagellar basal body rod protein FlgC; Provisional.
Length = 138
Score = 29.5 bits (66), Expect = 0.42
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 96 SPALQIRTVLLSIQALLSAPNPDDPLANDVAELWK--VNEAEAIRNAKEWTRKYAMD 150
S + ++ ++ S + LL +PD P+A+ ++K VN E + + +R Y M+
Sbjct: 63 SQGVAVKGIVESDKPLLKEYSPDHPMADADGFIYKPNVNVMEEMADMISASRSYQMN 119
>gnl|CDD|214735 smart00591, RWD, domain in RING finger and WD repeat containing
proteins and DEXDc-like helicases subfamily related to
the UBCc domain.
Length = 107
Score = 28.9 bits (65), Expect = 0.43
Identities = 12/70 (17%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 28 DESNARYFHVIVTGPEDSPFEGGL-FKLELFLPEDYPMSAPKVRFITKIYHPNIDRLGRI 86
+++ + ++ D + + L++ LPE+YP AP + + + ++L
Sbjct: 18 EDARIPEITIKLSPSSDEGEDQYVSLTLQVKLPENYPDEAPPI-SLLNSEGLSDEQL-AE 75
Query: 87 CLDILKDKWS 96
L L++
Sbjct: 76 LLKKLEEIAE 85
>gnl|CDD|149675 pfam08694, UFC1, Ubiquitin-fold modifier-conjugating enzyme 1.
Ubiquitin-like (UBL) post-translational modifiers are
covalently linked to most, if not all, target protein(s)
through an enzymatic cascade analogous to
ubiquitylation, consisting of E1 (activating), E2
(conjugating), and E3 (ligating) enzymes. Ubiquitin-fold
modifier 1 (Ufm1) a ubiquitin-like protein is activated
by a novel E1-like enzyme, Uba5, by forming a
high-energy thioester bond. Activated Ufm1 is then
transferred to its cognate E2-like enzyme, Ufc1, in a
similar thioester linkage. This family represents the
E2-like enzyme.
Length = 161
Score = 28.2 bits (63), Expect = 1.2
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 14/53 (26%)
Query: 52 FKLELFLPEDYPMSAPKVRFITKIYHPNID-------RLGRICLDI-LKDKWS 96
F LE +P YP + P +I P +D R G+ICL I K W+
Sbjct: 77 FDLEFDIPVTYPATPP------EIALPELDGKTAKMYRGGKICLTIHFKPLWA 123
>gnl|CDD|177901 PLN02259, PLN02259, branched-chain-amino-acid aminotransferase 2.
Length = 388
Score = 28.5 bits (63), Expect = 1.4
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 10/71 (14%)
Query: 19 PVPGISAVPDESNARYFHVIVTGPEDSPFEGGLFKLELFLPEDYPMSAP----KVRFITK 74
P+ G+ P+ Y ++ P + F+ G+ L L++ E+Y +AP V+ IT
Sbjct: 185 PILGLGPAPE-----YTFIVYASPVGNYFKEGMAALNLYVEEEYVRAAPGGAGGVKSITN 239
Query: 75 IYHPNIDRLGR 85
Y P + L R
Sbjct: 240 -YAPVLKALSR 249
>gnl|CDD|203324 pfam05743, UEV, UEV domain. This family includes the eukaryotic
tumour susceptibility gene 101 protein (TSG101). Altered
transcripts of this gene have been detected in sporadic
breast cancers and many other human malignancies.
However, the involvement of this gene in neoplastic
transformation and tumorigenesis is still elusive.
TSG101 is required for normal cell function of embryonic
and adult tissues but that this gene is not a tumour
suppressor for sporadic forms of breast cancer. This
family is related to the ubiquitin conjugating enzymes.
Length = 119
Score = 26.8 bits (60), Expect = 3.1
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 54 LELFLPEDYPMSAPKV-----RFITKIYHPNIDRLGRICLDILKDKWSPA 98
+ ++LP+ YP S P + + ++D GR+ L L W+
Sbjct: 52 ILIWLPDTYPFSPPICFVKPTPDMVIKVNHHVDAQGRVYLPYL-HNWNHP 100
>gnl|CDD|239440 cd03324, rTSbeta_L-fuconate_dehydratase, Human rTS beta is encoded
by the rTS gene which, through alternative RNA splicing,
also encodes rTS alpha whose mRNA is complementary to
thymidylate synthase mRNA. rTS beta expression is
associated with the production of small molecules that
appear to mediate the down-regulation of thymidylate
synthase protein by a novel intercellular signaling
mechanism. A member of this family, from Xanthomonas,
has been characterized to be a L-fuconate dehydratase.
rTS beta belongs to the enolase superfamily of enzymes,
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 415
Score = 27.3 bits (61), Expect = 3.8
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 19/77 (24%)
Query: 81 DRLGRICLDILKDKW---------SPALQIRTVLLSIQALLSAPNPDDPLANDVAELWKV 131
++L R+C + L + IR L+ + + PD+ L D + W V
Sbjct: 198 EKLRRLCKEALAQGFTHFKLKVGADLEDDIRRCRLAREVI----GPDNKLMIDANQRWDV 253
Query: 132 NEAEAIRNAKEWTRKYA 148
E A EW ++ A
Sbjct: 254 PE------AIEWVKQLA 264
>gnl|CDD|216140 pfam00828, Ribosomal_L18e, Ribosomal protein L18e/L15. This
family includes eukaryotic L18 as well as prokaryotic
L15.
Length = 122
Score = 26.0 bits (58), Expect = 5.0
Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 6/47 (12%)
Query: 41 GPEDSPFEGGLFKLELFLPEDYPMSAPKVRFITKIYHP--NIDRLGR 85
G + FEGG L L + F ++ P N+ +L R
Sbjct: 19 GGQKHHFEGGQVPLYRRLGK-RGFRKL---FKSRKNRPPVNLSKLDR 61
>gnl|CDD|113512 pfam04745, Pox_A8, VITF-3 subunit protein. Family of
Chordopoxvirus proteins composing one of the two
subunits that make up VITF-3, a virally encoded complex
necessary for intermediate stage transcription.
Length = 288
Score = 26.7 bits (59), Expect = 5.2
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 54 LELFLPEDYPMSAPKVRFITKI 75
+E+F PE Y S+ K RF ++I
Sbjct: 114 IEMFFPELYNESSKKFRFNSQI 135
>gnl|CDD|173812 cd07487, Peptidases_S8_1, Peptidase S8 family domain,
uncharacterized subfamily 1. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 264
Score = 26.8 bits (60), Expect = 5.3
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 101 IRTVLLSIQALLSAPNPDDPLANDVAELWK 130
IR V LS+ A +DPL V LW
Sbjct: 107 IRVVNLSLGAPPDPSYGEDPLCQAVERLWD 136
>gnl|CDD|227147 COG4810, EutS, Ethanolamine utilization protein [Amino acid
transport and metabolism].
Length = 121
Score = 26.0 bits (57), Expect = 5.3
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 1 MSALPRRIIKETQRLMQEPVPG 22
M RR + + +R++QE VPG
Sbjct: 1 MKVFERRRLMDKERIIQEYVPG 22
>gnl|CDD|99856 cd06102, citrate_synt_like_2, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism. This subgroup includes both
gram-positive and gram-negative bacteria.
Length = 282
Score = 26.5 bits (59), Expect = 5.4
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 95 WSPALQIRTVLLSIQALLSAPNPDDPLANDVAELWKV--NEAEAIRNA 140
W R + L ALL A D P+ +A W + A+ +R A
Sbjct: 57 WDGDEAARLLRLLAAALLGAAPSDAPVHRRLARAWGLDPAAADLLRRA 104
>gnl|CDD|150726 pfam10084, DUF2322, Uncharacterized protein conserved in bacteria
(DUF2322). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 100
Score = 25.3 bits (56), Expect = 7.0
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 6/28 (21%)
Query: 77 HPNIDRLGRICLDILKDKWSPALQIRTV 104
HPNIDRL L +++ AL++R V
Sbjct: 79 HPNIDRL----LAVIEG--GEALRLRPV 100
>gnl|CDD|145644 pfam02605, PsaL, Photosystem I reaction centre subunit XI. This
family consists of the photosystem I reaction centre
subunit XI, PsaL, from plants and bacteria. PsaL is one
of the smaller subunits in photosystem I with only two
transmembrane alpha helices and interacts closely with
PsaI.
Length = 154
Score = 25.8 bits (57), Expect = 8.0
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 98 ALQIRTVLLSIQALLSAPNPDDPLANDVAELWKVNEAEAIRNAKEW 143
+ I T LS+ +S N + P A N +A++ ++ W
Sbjct: 84 LVLILTACLSLYGSVSFGNGEAP----TATPTTPNPPDALQTSEGW 125
>gnl|CDD|223068 PHA03384, PHA03384, early DNA-binding protein E2A; Provisional.
Length = 445
Score = 26.2 bits (58), Expect = 8.4
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 61 DYPMSAPKVR----FITKIYHPNIDRLGRICLDILKDKWSPALQIRTVLLSIQALLSAPN 116
D+ +SAP + +++ N+ L I + KWSP Q + +L S N
Sbjct: 384 DFKISAPDLLGALQLARQLWQENMGEPPP--LVIPEFKWSPRYQFKNTVLPSGHEDSDDN 441
Query: 117 P 117
P
Sbjct: 442 P 442
>gnl|CDD|218591 pfam05443, ROS_MUCR, ROS/MUCR transcriptional regulator protein.
This family consists of several ROS/MUCR transcriptional
regulator proteins. The ros chromosomal gene is present
in octopine and nopaline strains of Agrobacterium
tumefaciens as well as in Rhizobium meliloti. This gene
encodes a 15.5-kDa protein that specifically represses
the virC and virD operons in the virulence region of the
Ti plasmid and is necessary for succinoglycan
production. Sinorhizobium meliloti can produce two types
of acidic exopolysaccharides, succinoglycan and
galactoglucan, that are interchangeable for infection of
alfalfa nodules. MucR from Sinorhizobium meliloti acts
as a transcriptional repressor that blocks the
expression of the exp genes responsible for
galactoglucan production therefore allowing the
exclusive production of succinoglycan.
Length = 130
Score = 25.6 bits (57), Expect = 8.5
Identities = 8/10 (80%), Positives = 8/10 (80%)
Query: 58 LPEDYPMSAP 67
LP DYPM AP
Sbjct: 104 LPADYPMVAP 113
>gnl|CDD|215143 PLN02255, PLN02255, H(+) -translocating inorganic pyrophosphatase.
Length = 765
Score = 26.3 bits (58), Expect = 8.7
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 89 DILKDKWSPALQIRTVLLSIQALLSAP 115
D LKD P+L I L+++++L+ AP
Sbjct: 726 DPLKDTSGPSLNILIKLMAVESLVFAP 752
>gnl|CDD|212127 cd10816, GH57N_BE_TK1436_like, N-terminal catalytic domain of Gh57
branching enzyme TK 1436 and similar proteins. The
subfamily is represented by a novel branching-enzyme
TK1436 of hyperthermophilic archaeon Thermococcus
kodakaraensis KOD1. Branching enzymes (BEs, EC 2.4.1.18)
play a key role in synthesis of alpha-glucans and they
generally are classified into glycoside hydrolase family
13 (GH13). However, TK1436 belongs to the GH57 family.
It functions as a monomer and possesses BE activity.
TK1436 is composed of a distorted N-terminal
(beta/alpha)7-barrel domain and a C-terminal five
alpha-helical domain, both of which participate in the
formation of the active-site cleft.
Length = 423
Score = 25.9 bits (57), Expect = 9.3
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 21 PGISAVPDESNARYF----HVIVTGPEDSPFEGGLFKLE 55
PGI +ES RYF H+I G SP+ G L
Sbjct: 206 PGIEEFLEESGIRYFFVDTHLIEGGQILSPYGEGNRHLV 244
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
0.319 0.137 0.414
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,065,998
Number of extensions: 742037
Number of successful extensions: 683
Number of sequences better than 10.0: 1
Number of HSP's gapped: 676
Number of HSP's successfully gapped: 40
Length of query: 151
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 63
Effective length of database: 7,034,450
Effective search space: 443170350
Effective search space used: 443170350
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 (21.7 bits)
S2: 54 (24.6 bits)