RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9586
(233 letters)
>gnl|CDD|178174 PLN02560, PLN02560, enoyl-CoA reductase.
Length = 308
Score = 166 bits (421), Expect = 2e-50
Identities = 96/295 (32%), Positives = 130/295 (44%), Gaps = 69/295 (23%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRL-----EIKGKILKDSDDIKSLGLKNGDMVF 55
V S TV D+KK +HK K + YP RQ + L + + +L DS +K GL +G V
Sbjct: 20 VPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV 79
Query: 56 IKDLGPQIGWSTVFMAEYAGPLFVYLIFYYRPWIF-YGSEAASKPYSYVAHLAALCYIVH 114
KDLGPQ+ + T+F EY GPL +Y +FY+ P ++ Y A + V A + H
Sbjct: 80 FKDLGPQVSYRTLFFFEYLGPLLIYPLFYFFPQVYKYFGYPARRVIHPVQTYAMYYWCFH 139
Query: 115 YTKRVLETL--------------------------------------TP----------- 125
Y KR+LET TP
Sbjct: 140 YAKRILETFFVHRFSHATSPLFNVFRNCAYYWTFGAYIAYFVNHPLYTPVSETQMKVGFG 199
Query: 126 -SVFCQLGNLSIHLALRDLRPP-GTNVRRIPVATSNPFTSLFDYVSCPNYTYEFGSWLSF 183
+ CQL N H+ LR+LR P G +IP LF+YV+C NYT E WL F
Sbjct: 200 FGLVCQLANFYCHIILRNLRKPDGKGGYQIPRG------FLFNYVTCANYTTEIYQWLGF 253
Query: 184 SLLTSCFPALLFASAGMYQMTVWALGKHKNYKKEF------PDYPKQRKAIVPFV 232
++ T LF + MT WAL KH+ KK F P YP++ + PF+
Sbjct: 254 NIATQTVAGYLFLAVAAAIMTNWALAKHRRLKKLFDGKDGRPKYPRRWVILPPFL 308
>gnl|CDD|217095 pfam02544, Steroid_dh, 3-oxo-5-alpha-steroid 4-dehydrogenase. This
family consists of 3-oxo-5-alpha-steroid
4-dehydrogenases, EC:1.3.99.5 Also known as Steroid
5-alpha-reductase, the reaction catalyzed by this enzyme
is: 3-oxo-5-alpha-steroid + acceptor <=>
3-oxo-delta(4)-steroid + reduced acceptor. The Steroid
5-alpha-reductase enzyme is responsible for the
formation of dihydrotestosterone, this hormone promotes
the differentiation of male external genitalia and the
prostate during fetal development. In humans mutations
in this enzyme can cause a form of male
pseudohermaphorditism in which the external genitalia
and prostate fail to develop normally. A related enzyme
is also found in plants is DET2, a steroid reductase
from Arabidopsis. Mutations in this enzyme cause defects
in light-regulated development.
Length = 150
Score = 99.4 bits (248), Expect = 2e-26
Identities = 47/131 (35%), Positives = 62/131 (47%), Gaps = 6/131 (4%)
Query: 102 YVAHLAALCYIVHYTKRVLETLTPSVFCQLGNLSIHLALRDLRPPGTNVRRIPVATSNPF 161
Y ++ R L + V L N+ + LR LR PG +IP
Sbjct: 25 YNSYYQPYAEDWVTDPRFLIGIGLFVTGMLINIKSDIILRTLRKPGNTGYKIP------R 78
Query: 162 TSLFDYVSCPNYTYEFGSWLSFSLLTSCFPALLFASAGMYQMTVWALGKHKNYKKEFPDY 221
LF+ VSCPNY E W+ ++L T PAL FA + +T A HK Y K+F Y
Sbjct: 79 GGLFELVSCPNYFGEIMEWIGYALATWSLPALAFAFFTVCNLTPRAKAHHKWYLKKFEKY 138
Query: 222 PKQRKAIVPFV 232
PK RKA++PFV
Sbjct: 139 PKSRKALIPFV 149
>gnl|CDD|176396 cd01801, Tsc13_N, Ubiquitin-like domain of Tsc13. Tsc13_N
N-terminal domain of Tsc13. Tsc13 is an enoyl
reductase involved in elongation of long chain fatty
acids that localizes to the endoplasmic reticulum and
is highly enriched in a novel structure marking
nuclear-vacuolar junctions.
Length = 77
Score = 69.8 bits (171), Expect = 7e-16
Identities = 26/58 (44%), Positives = 39/58 (67%)
Query: 2 SGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDL 59
SG T+ D+KK + K+ QL +RQ++RLE KGK LKD D + LG+ G ++++DL
Sbjct: 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYVRDL 77
>gnl|CDD|178015 PLN02392, PLN02392, probable steroid reductase DET2.
Length = 260
Score = 51.4 bits (123), Expect = 7e-08
Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 7/78 (8%)
Query: 160 PFTSLFDYVSCPNYTYEFGSWLSFSLLT---SCFPALLFASAGMYQMTVWALGKHKNYKK 216
P F+ VSCPNY E WL ++++T + F L+ + + A HK Y +
Sbjct: 186 PRGGWFELVSCPNYFGEIVEWLGWAVMTWSWAGFGFFLYTCSNLVPR---ACANHKWYLE 242
Query: 217 EF-PDYPKQRKAIVPFVI 233
+F DYPK RKA++PF+
Sbjct: 243 KFGEDYPKGRKAVIPFLY 260
>gnl|CDD|215610 PLN03164, PLN03164, 3-oxo-5-alpha-steroid 4-dehydrogenase,
C-terminal domain containing protein; Provisional.
Length = 323
Score = 47.1 bits (112), Expect = 2e-06
Identities = 27/86 (31%), Positives = 39/86 (45%), Gaps = 24/86 (27%)
Query: 160 PFTSLFDYVSCPNYTYEFGSWLSFSLLTSCFPALLFASAGMYQMTVW------------- 206
P+ F+ VSCP+Y E + LL AS G +T+W
Sbjct: 248 PYGDWFEMVSCPHYLAEIVIYA----------GLLIASGGT-DLTIWLLFGFVVANLTFA 296
Query: 207 ALGKHKNYKKEFPDYPKQRKAIVPFV 232
A H+ Y ++F +YP+ R AI+PFV
Sbjct: 297 AAETHRWYLQKFENYPRNRYAIIPFV 322
>gnl|CDD|176364 cd01769, UBL, Ubiquitin-like domain of UBL. UBLs function by
remodeling the surface of their target proteins,
changing their target's half-life, enzymatic activity,
protein-protein interactions, subcellular localization
or other properties. At least 10 different
ubiquitin-like modifications exist in mammals, and
attachment of different ubls to a target leads to
different biological consequences. Ubl-conjugation
cascades are initiated by activating enzymes, which
also coordinate the ubls with their downstream
pathways.
Length = 69
Score = 43.0 bits (102), Expect = 3e-06
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDL 59
VS TV ++K ++ K + P++Q RL GKILKD + G+++G + +
Sbjct: 14 VSPDDTVAELKAKIAA-KEGVPPEQQ--RLIYAGKILKDDKTLSDYGIQDGSTLHLVLR 69
>gnl|CDD|176400 cd01805, RAD23_N, Ubiquitin-like domain of RAD23. RAD23 belongs
to a family of adaptor molecules having affinity for
both the proteasome and ubiquitinylated proteins and
thought to shuttle these ubiquitinylated proteins to
the proteasome for destruction. RAD23 interacts with
ubiquitin through its C-terminal ubiquitin-associated
domains (UBA) and with the proteasome through its
N-terminal ubiquitin-like domain (UBL).
Length = 77
Score = 36.5 bits (85), Expect = 9e-04
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYP-DRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFI 56
V TV ++K+++ + K YP ++Q +L GKILKD ++ + D V +
Sbjct: 17 VDPDDTVAELKEKIEEEKGCDYPPEQQ--KLIYSGKILKDDTTLEEYKIDEKDFVVV 71
>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins. Ubiquitin homologs;
Includes ubiquitin and ubiquitin-like proteins.
Ubiquitin-mediated proteolysis is part of the regulated
turnover of proteins required for controlling cell
cycle progression. Other family members are protein
modifiers that perform a wide range of functions.
Ubiquitination usually results in a covalent bond
between the C-terminus of ubiquitin and the
epsilon-amino group of a substrate lysine. The
three-step mechanism requires an activating enzyme (E1)
that forms a thiol ester with the C-terminal carboxy
group, a conjugating enzyme (E2) that transiently
carries the activated ubiquitin molecule as a thiol
ester, and a ligase (E3) that transfers the activated
ubiquitin from the E2 to the substrate lysine residue.
In poly-ubiquitination, ubiquitin itself is the
substrate.
Length = 69
Score = 35.2 bits (81), Expect = 0.002
Identities = 22/56 (39%), Positives = 35/56 (62%), Gaps = 3/56 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFI 56
V TV D+K+++ K K L P++Q RL + GKIL DS ++ GL++GD + +
Sbjct: 14 VPSGTTVADLKEKLAK-KLGLPPEQQ--RLLVNGKILPDSLTLEDYGLQDGDELVL 66
>gnl|CDD|176407 cd01812, BAG1_N, Ubiquitin-like domain of BAG1. BAG1_N
N-terminal ubiquitin-like (Ubl) domain of the BAG1
protein. This domain occurs together with the BAG
domain and is closely related to the Ubl domain of a
family of deubiquitinases that includes Rpn11, UBP6
(USP14), USP7 (HAUSP).
Length = 71
Score = 35.0 bits (81), Expect = 0.003
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFI 56
+S T D+KK + + + P Q +L KGK D++ + G+K+G V +
Sbjct: 16 ISSQATFGDLKKML-APVTGVEPRDQ--KLIFKGKERDDAETLDMSGVKDGSKVML 68
>gnl|CDD|214563 smart00213, UBQ, Ubiquitin homologues. Ubiquitin-mediated
proteolysis is involved in the regulated turnover of
proteins required for controlling cell cycle
progression.
Length = 72
Score = 34.2 bits (79), Expect = 0.006
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 3/52 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD 52
V S TV ++K+++ + + P++Q RL KGK+L+D + G+++G
Sbjct: 17 VKPSDTVSELKEKIAELT-GIPPEQQ--RLIYKGKVLEDDRTLADYGIQDGS 65
>gnl|CDD|192903 pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-like. The
small ubiquitin-related modifier SUMO-1 is a Ub/Ubl
family member, and although SUMO-1 shares structural
similarity to Ub, SUMO's cellular functions remain
distinct insomuch as SUMO modification alters protein
function through changes in activity, cellular
localisation, or by protecting substrates from
ubiquitination. Rad60 family members contain
functionally enigmatic, integral SUMO-like domains
(SLDs). Despite their divergence from SUMO, each Rad60
SLD interacts with a subset of SUMO pathway enzymes:
SLD2 specifically binds the SUMO E2 conjugating enzyme
(Ubc9)), whereas SLD1 binds the SUMO E1 (Fub2, also
called Uba2) activating and E3 (Pli1, also called Siz1
and Siz2) specificity enzymes. Structural analysis of
PDB:2uyz reveals a mechanistic basis for the
near-synonymous roles of Rad60 and SUMO in survival of
genotoxic stress and suggest unprecedented
DNA-damage-response functions for SLDs in regulating
SUMOylation. The Rad60 branch of this family is also
known as RENi (Rad60-Esc2-Nip45), and biologically it
should be two distinct families SUMO and RENi
(Rad60-Esc2-Nip45).
Length = 72
Score = 33.7 bits (78), Expect = 0.009
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V + T+ + K + P Q VRL G+ L +D + +++GD +
Sbjct: 17 VKPTTTLSKLINAYRKKRGI--PADQQVRLIFDGERLDPNDTVADYDIEDGDTI 68
>gnl|CDD|215813 pfam00240, ubiquitin, Ubiquitin family. This family contains a
number of ubiquitin-like proteins: SUMO (smt3
homologue), Nedd8, Elongin B, Rub1, and Parkin. A
number of them are thought to carry a distinctive
five-residue motif termed the proteasome-interacting
motif (PIM), which may have a biologically significant
role in protein delivery to proteasomes and recruitment
of proteasomes to transcription sites.
Length = 69
Score = 33.4 bits (77), Expect = 0.011
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVF 55
V S TV ++K+++ K + D+Q RL GK+L+D + G+++G +
Sbjct: 12 VDPSDTVSELKEKIED-KEGIPVDQQ--RLIFSGKVLEDDTTLSEYGIQDGSTLH 63
>gnl|CDD|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein.
Scythe protein (also known as Bat3) is an apoptotic
regulator that is highly conserved in eukaryotes and
contains a ubiquitin-like domain near its N-terminus.
Scythe binds reaper, a potent apoptotic inducer, and
Scythe/Reaper are thought to signal apoptosis, in part
through regulating the folding and activity of
apoptotic signaling molecules.
Length = 72
Score = 33.0 bits (76), Expect = 0.015
Identities = 13/51 (25%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNG 51
V TV D+K+++ + + + ++Q RL G++LKD + + +++G
Sbjct: 17 VEEEITVLDLKEKIAE-EVGIPVEQQ--RLIYSGRVLKDDETLSEYKVEDG 64
>gnl|CDD|176408 cd01813, UBP_N, UBP ubiquitin processing protease. The UBP
(ubiquitin processing protease) domain (also referred
to as USP which stands for "ubiquitin-specific
protease") is present at in a large family of cysteine
proteases that specifically cleave ubiquitin
conjugates. This family includes Rpn11, UBP6 (USP14),
USP7 (HAUSP). This domain is closely related to the
amino-terminal ubiquitin-like domain of BAG1
(Bcl2-associated anthanogene1) protein and is found
only in eukaryotes.
Length = 74
Score = 31.7 bits (72), Expect = 0.055
Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 2/45 (4%)
Query: 6 TVKDIKKEVHKAKSQLYPDRQAV-RLEIKGKILKDSDDIKSLGLK 49
TV D+K+ + K + + P+RQ + L++KGK +D I +L LK
Sbjct: 21 TVLDLKQFI-KTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLK 64
>gnl|CDD|216993 pfam02359, CDC48_N, Cell division protein 48 (CDC48), N-terminal
domain. This domain has a double psi-beta barrel fold
and includes VCP-like ATPase and N-ethylmaleimide
sensitive fusion protein N-terminal domains. Both the
VAT and NSF N-terminal functional domains consist of
two structural domains of which this is at the
N-terminus. The VAT-N domain found in AAA ATPases
pfam00004 is a substrate 185-residue recognition
domain.
Length = 84
Score = 29.1 bits (66), Expect = 0.44
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 8/44 (18%)
Query: 14 VHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIK 57
V +A + R RL D+ LGL GD+V IK
Sbjct: 3 VAEAPNDRDVGRGIARL--------SPKDMDELGLFPGDIVEIK 38
>gnl|CDD|235229 PRK04156, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 567
Score = 31.4 bits (72), Expect = 0.45
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 8/64 (12%)
Query: 16 KAKSQLYPDRQA--VR-LEIKGKILKDSDDIKSLGLKNGDMVFIKDLGP-QIGWSTVFMA 71
+AK L+PDR R + + GK+ SDD+++ G MV + DL +I +V A
Sbjct: 431 EAKIPLHPDRPERGEREIPVGGKVYVSSDDLEAE----GKMVRLMDLFNVEITGVSVDKA 486
Query: 72 EYAG 75
Y
Sbjct: 487 RYHS 490
>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23. All proteins
in this family for which functions are known are
components of a multiprotein complex used for targeting
nucleotide excision repair to specific parts of the
genome. In humans, Rad23 complexes with the XPC
protein. This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 378
Score = 31.0 bits (70), Expect = 0.51
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 1 VSGSFTVKDIKKEVHKAKSQ-LYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
+ TVK++K+++ + + YP Q +L GKIL D +K +K D V
Sbjct: 17 MEPDETVKELKEKIEAEQGKDAYPVAQ-QKLIYSGKILSDDKTVKEYKIKEKDFV 70
>gnl|CDD|176403 cd01808, hPLIC_N, Ubiquitin-like domain of hPLIC-1 and hPLIC2.
hPLIC-1 and hPLIC-2 (human homologs of the yeast
ubiquitin-like Dsk2 protein) are type2 UBL's
(ubiquitin-like) proteins that are thought to serve as
adaptors that link the ubiquitination machinery to the
proteasome. The hPLIC's have an N-terminal UBL domain
that binds the S5a subunit of the proteasome and a
C-terminal UBA (ubiquitin-associated) domain that binds
a ubiquitylated protein.
Length = 71
Score = 28.6 bits (64), Expect = 0.57
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 7 VKDIKKEV-HKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFI 56
VKD K+ V K K+ ++ + L GKILKD+D + +K+G V +
Sbjct: 22 VKDFKEAVSKKFKAN----QEQLVLIFAGKILKDTDTLTQHNIKDGLTVHL 68
>gnl|CDD|101162 PRK03002, prsA, peptidylprolyl isomerase; Reviewed.
Length = 285
Score = 29.1 bits (65), Expect = 1.6
Identities = 18/37 (48%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 9 DIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKS 45
D+ KEV KAKSQ Y D+ L+ G LKD D K+
Sbjct: 75 DVDKEVQKAKSQ-YGDQFKNVLKNNG--LKDEADFKN 108
>gnl|CDD|221132 pfam11543, UN_NPL4, Nuclear pore localisation protein NPL4. Npl4
is part of the heterodimer UN along with Ufd1 which is
involved in the recruitment of p97, an AAA ATPase, for
tasks involving the ubiquitin pathway. Npl4 has a
ubiquitin-like domain which has within its structure a
beta-grasp fold with a helical insert.
Length = 80
Score = 27.4 bits (61), Expect = 2.0
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 6 TVKDIKKEVHKAKSQLYPDRQ-AVRLEIKGKIL---KDSDDIKSLGLKNGDMVFIK 57
T+ + +V + +P+ ++ LE S + LGLK+GDM+++
Sbjct: 25 TLSTLLSKVAEELG--FPNNGFSLYLERNKTTELVSSGSKSVSELGLKHGDMLYLF 78
>gnl|CDD|212152 cd11545, NTP-PPase_YP_001813558, Nucleoside Triphosphate
Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found
in Exiguobacterium sibiricum YP_001813558.1 protein and
its bacterial homologs. This family contains a putative
NTP_PPase (YP_001813558.1) from Exiguobacterium
sibiricum and its bacterial homologs. Unlike normal
dimeric dUTPase-like proteins with a central four-helix
bundle forming the active site, YP_001813558.1 displays
a very unusual interlaced segment-swapped dimer that
might be important for it to adapt to an extremely cold
environment. Moreover, structural analysis and
comparisons indicate that YP_001813558.1 potentially
prefers to hydrolyze dCTPs or its derivatives.
Length = 115
Score = 27.7 bits (62), Expect = 2.3
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 3 GSFTVKDIKKE-----VHKAK-SQLYPDRQAVRLEIKGKILK 38
GSF ++ + VHKA +L+PD + GKILK
Sbjct: 60 GSFVEMGVEPDPLFEIVHKANMGKLFPDGKPRYDPEDGKILK 101
>gnl|CDD|236137 PRK07956, ligA, NAD-dependent DNA ligase LigA; Validated.
Length = 665
Score = 28.9 bits (66), Expect = 2.4
Identities = 7/26 (26%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 41 DDIKSLGLKNGDMVFIK---DLGPQI 63
D+I+ ++ GD V ++ D+ P++
Sbjct: 361 DEIERKDIRIGDTVVVRRAGDVIPEV 386
>gnl|CDD|226275 COG3752, COG3752, Steroid 5-alpha reductase family enzyme [General
function prediction only].
Length = 272
Score = 28.5 bits (64), Expect = 2.7
Identities = 21/81 (25%), Positives = 29/81 (35%), Gaps = 11/81 (13%)
Query: 162 TSLFDYVSCPNYTYEFGSWLSFSLLTSCFPALLFASAGMYQMTVWALGK---------HK 212
T L+ + PNY E W F L+ LL+A A MT W L
Sbjct: 187 TGLWRWTRHPNYFGEALVWWGFYLIAISEWLLLWAVASPLLMT-WLLVHVSGVPPLEEKM 245
Query: 213 NYKKE-FPDYPKQRKAIVPFV 232
+ F +Y ++ A P
Sbjct: 246 LKSRPGFREYQRRTNAFFPRP 266
>gnl|CDD|215012 smart01073, CDC48_N, Cell division protein 48 (CDC48) N-terminal
domain. This domain has a double psi-beta barrel fold
and includes VCP-like ATPase and N-ethylmaleimide
sensitive fusion protein N-terminal domains. Both the
VAT and NSF N-terminal functional domains consist of
two structural domains of which this is at the
N-terminus. The VAT-N domain found in AAA ATPases is a
substrate 185-residue recognition domain.
Length = 82
Score = 26.8 bits (60), Expect = 2.9
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 33 KGKILKDSDDIKSLGLKNGDMVFIK 57
+G +D+ LGL GD V I
Sbjct: 14 RGIARLSPEDMDELGLFPGDYVLIT 38
>gnl|CDD|239180 cd02779, MopB_CT_Arsenite-Ox, This CD contains the
molybdopterin_binding C-terminal (MopB_CT) region of
Arsenite oxidase (Arsenite-Ox) and related proteins.
Arsenite oxidase oxidizes arsenite to the less toxic
arsenate; it transfers the electrons obtained from the
oxidation of arsenite towards the soluble periplasmic
electron carriers cytochrome c and/or amicyanin.
Length = 115
Score = 27.0 bits (60), Expect = 4.3
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 9/49 (18%)
Query: 41 DDIKSLGLKNGDMVFI-KDLGPQIGWSTVFMA---EYAGPLFVYLIFYY 85
+D K GLKNGD+V + D G ST MA P +++ +
Sbjct: 40 EDAKREGLKNGDLVEVYNDYG-----STTAMAYVTNTVKPGQTFMLMAH 83
>gnl|CDD|223311 COG0233, Frr, Ribosome recycling factor [Translation, ribosomal
structure and biogenesis].
Length = 187
Score = 27.5 bits (62), Expect = 4.5
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 11/47 (23%)
Query: 7 VKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKD-------SDDIKSL 46
VK KK +AK + + +R + KI K D++K
Sbjct: 116 VKVAKKYAEEAKVAV----RNIRRDANDKIKKLEKDKEISEDEVKKA 158
>gnl|CDD|239176 cd02775, MopB_CT, Molybdopterin-Binding, C-terminal (MopB_CT)
domain of the MopB superfamily of proteins, a large,
diverse, heterogeneous superfamily of enzymes that, in
general, bind molybdopterin as a cofactor. The MopB
domain is found in a wide variety of molybdenum- and
tungsten-containing enzymes, including formate
dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms
of nitrate reductase (Nap, Nas, NarG),
dimethylsulfoxide reductase (DMSOR), thiosulfate
reductase, formylmethanofuran dehydrogenase, and
arsenite oxidase. Molybdenum is present in most of
these enzymes in the form of molybdopterin, a modified
pterin ring with a dithiolene side chain, which is
responsible for ligating the Mo. In many bacterial and
archaeal species, molybdopterin is in the form of a
dinucleotide, with two molybdopterin dinucleotide units
per molybdenum. These proteins can function as
monomers, heterodimers, or heterotrimers, depending on
the protein and organism. Also included in the MopB
superfamily is the eukaryotic/eubacterial protein
domain family of the 75-kDa subunit/Nad11/NuoG (second
domain) of respiratory complex 1/NADH-quinone
oxidoreductase which is postulated to have lost an
ancestral formate dehydrogenase activity and only
vestigial sequence evidence remains of a molybdopterin
binding site. This hierarchy is of the conserved
MopB_CT domain present in many, but not all, MopB
homologs.
Length = 101
Score = 26.5 bits (59), Expect = 4.7
Identities = 7/14 (50%), Positives = 12/14 (85%)
Query: 41 DDIKSLGLKNGDMV 54
+D +LG+K+GD+V
Sbjct: 30 EDAAALGIKDGDLV 43
>gnl|CDD|215198 PLN02348, PLN02348, phosphoribulokinase.
Length = 395
Score = 27.9 bits (62), Expect = 5.0
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 15/81 (18%)
Query: 19 SQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDLGPQIGW---STVFMAEYAG 75
+QL PD +GK+L+ +K G+KN D V++ D G I W Y G
Sbjct: 246 TQLIPDDN------EGKVLRVRLIMKE-GVKNFDPVYLFDEGSTISWIPCGRKLTCSYPG 298
Query: 76 PLFVYLIFYYRPWIFYGSEAA 96
+ F+Y P ++G E +
Sbjct: 299 -----IKFFYGPDTYFGHEVS 314
>gnl|CDD|234659 PRK00137, rplI, 50S ribosomal protein L9; Reviewed.
Length = 147
Score = 27.0 bits (61), Expect = 6.4
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 11/46 (23%)
Query: 3 GSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGL 48
GS T KDI + + K ++ D++ + L IK+LG
Sbjct: 91 GSVTTKDIAEALKKQGIEI--DKRKIELP---------GPIKTLGE 125
>gnl|CDD|223918 COG0849, ftsA, Cell division ATPase FtsA [Cell division and
chromosome partitioning].
Length = 418
Score = 27.6 bits (62), Expect = 6.6
Identities = 12/46 (26%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 6 TVKDIKKEVHKAKSQ-LYPDRQAVRLEIKGKILKDSDDIKS-LGLK 49
T +DI++ + AK+ + P+R+ + + + I+ + IK LG+
Sbjct: 104 TQEDIERVLEAAKAVAIPPEREILHVIPQEYIVDGQEGIKDPLGMS 149
>gnl|CDD|131740 TIGR02693, arsenite_ox_L, arsenite oxidase, large subunit. This
model represents the large subunit of an arsenite
oxidase complex. The small subunit is a Rieske protein.
Homologs to both large and small subunits that score in
the gray zone between the set trusted and noise bit
score cutoffs for the respective models are found in
Aeropyrum pernix K1 and in Sulfolobus tokodaii str. 7.
This enzyme acts in energy metabolim by arsenite
oxidation, rather than detoxification by reduction of
arsenate to arsenite prior to export [Energy metabolism,
Electron transport].
Length = 806
Score = 27.6 bits (61), Expect = 6.7
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 9/49 (18%)
Query: 41 DDIKSLGLKNGDMVFI-KDLGPQIGWSTVFMA---EYAGPLFVYLIFYY 85
+D K LGLK+GD+V + D G +T MA + P +++F +
Sbjct: 732 EDAKRLGLKSGDLVEVYNDEG-----NTTAMAYPTDAVKPGTTFMLFGH 775
>gnl|CDD|235115 PRK03317, PRK03317, histidinol-phosphate aminotransferase;
Provisional.
Length = 368
Score = 27.5 bits (62), Expect = 6.9
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 7 VKDIKKEVHKAKSQL--YPDRQAVRL 30
V DI + V +A + L YPDR AV L
Sbjct: 45 VADIAEAVAEAAAGLNRYPDRDAVAL 70
>gnl|CDD|227704 COG5417, COG5417, Uncharacterized small protein [Function
unknown].
Length = 81
Score = 25.9 bits (57), Expect = 7.2
Identities = 10/58 (17%), Positives = 26/58 (44%), Gaps = 2/58 (3%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQA--VRLEIKGKILKDSDDIKSLGLKNGDMVFI 56
+ +K + V ++ DR+ +++ K ++L D + + +GD++ I
Sbjct: 23 LPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80
>gnl|CDD|220681 pfam10302, DUF2407, DUF2407 ubiquitin-like domain. This is a
family of proteins found in fungi. The function is not
known. This domain is related to the ubiquitin domain.
Length = 90
Score = 25.7 bits (57), Expect = 7.8
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 4 SFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDLGPQI 63
S TV +KK + +++ + +RL G++L DS + S+ G +I
Sbjct: 23 STTVAWLKKLI-RSRLPQELSNRRLRLIYAGRLLNDSSKLASILKLPGKGKGKAPERVRI 81
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
0.324 0.139 0.436
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,196,858
Number of extensions: 1149884
Number of successful extensions: 1105
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1097
Number of HSP's successfully gapped: 49
Length of query: 233
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 139
Effective length of database: 6,768,326
Effective search space: 940797314
Effective search space used: 940797314
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.6 bits)