RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7987
(112 letters)
>gnl|CDD|215866 pfam00339, Arrestin_N, Arrestin (or S-antigen), N-terminal
domain. Ig-like beta-sandwich fold. Scop reports
duplication with C-terminal domain.
Length = 148
Score = 44.6 bits (106), Expect = 6e-07
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 11 DGVVLIDSD-YLKDRKVFGHVLAAFRYGREDLDVLGLTFRKELF 53
G VL+ + +K R V + R G E+ +V+GLTFRK+++
Sbjct: 19 SGKVLLTTKKPIKARAVKITLKGRARTGWEESEVMGLTFRKQIY 62
>gnl|CDD|236989 PRK11809, putA, trifunctional transcriptional regulator/proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1318
Score = 33.8 bits (78), Expect = 0.011
Identities = 20/43 (46%), Positives = 22/43 (51%), Gaps = 11/43 (25%)
Query: 16 IDS-DYLKDRKVFGHVLAAFRYGREDLDVL---------GLTF 48
+DS D LK R+VFG VL RY R LD L GLT
Sbjct: 1006 LDSFDELK-REVFGPVLHVVRYNRNQLDELIEQINASGYGLTL 1047
>gnl|CDD|226683 COG4230, COG4230, Delta 1-pyrroline-5-carboxylate dehydrogenase
[Energy production and conversion].
Length = 769
Score = 30.8 bits (70), Expect = 0.12
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 11/46 (23%)
Query: 14 VLIDSDYLKD--RKVFGHVLAAFRYGREDLDVL---------GLTF 48
LI+ + L + R+VFG VL RY R++LD + GLT
Sbjct: 465 TLIELENLDELQREVFGPVLHVVRYKRDELDEVIDQINATGYGLTL 510
>gnl|CDD|237018 PRK11905, PRK11905, bifunctional proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1208
Score = 29.8 bits (68), Expect = 0.27
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 9/35 (25%)
Query: 23 DRKVFGHVLAAFRYGREDLDVL---------GLTF 48
+R+VFG VL R+ ++LD + GLTF
Sbjct: 916 EREVFGPVLHVVRFKADELDRVIDDINATGYGLTF 950
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 29.4 bits (66), Expect = 0.34
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 20 YLKDRKVFGHVLAAFRYGREDL 41
YLK+RK FG LAAF+ +E L
Sbjct: 283 YLKERKQFGAPLAAFQINQEKL 304
>gnl|CDD|143443 cd07125, ALDH_PutA-P5CDH, Delta(1)-pyrroline-5-carboxylate
dehydrogenase, PutA. The proline catabolic enzymes of
the aldehyde dehydrogenase (ALDH) protein superfamily,
proline dehydrogenase and
Delta(1)-pyrroline-5-carboxylate dehydrogenase (P5CDH,
(EC=1.5.1.12 )), catalyze the two-step oxidation of
proline to glutamate; P5CDH catalyzes the oxidation of
glutamate semialdehyde, utilizing NAD+ as the electron
acceptor. In some bacteria, the two enzymes are fused
into the bifunctional flavoenzyme, proline utilization A
(PutA) These enzymes play important roles in cellular
redox control, superoxide generation, and apoptosis. In
certain prokaryotes such as Escherichia coli, PutA is
also a transcriptional repressor of the proline
utilization genes.
Length = 518
Score = 29.1 bits (66), Expect = 0.39
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 9/46 (19%)
Query: 12 GVVLIDSDYLKDRKVFGHVLAAFRYGREDLDVL---------GLTF 48
G++ I + +VFG +L R+ EDLD GLT
Sbjct: 394 GIIEIVGIFDLTTEVFGPILHVIRFKAEDLDEAIEDINATGYGLTL 439
>gnl|CDD|237017 PRK11904, PRK11904, bifunctional proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1038
Score = 27.9 bits (63), Expect = 1.3
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 11/43 (25%)
Query: 16 IDS-DYLKDRKVFGHVLAAFRYGREDLDVL---------GLTF 48
IDS L+ R+VFG +L RY DLD + GLT
Sbjct: 917 IDSISQLE-REVFGPILHVIRYKASDLDKVIDAINATGYGLTL 958
>gnl|CDD|173840 cd01151, GCD, Glutaryl-CoA dehydrogenase. Glutaryl-CoA
dehydrogenase (GCD). GCD is an acyl-CoA dehydrogenase,
which catalyzes the oxidative decarboxylation of
glutaryl-CoA to crotonyl-CoA and carbon dioxide in the
catabolism of lysine, hydroxylysine, and tryptophan. It
uses electron transfer flavoprotein (ETF) as an electron
acceptor. GCD is a homotetramer. GCD deficiency leads to
a severe neurological disorder in humans.
Length = 386
Score = 26.9 bits (60), Expect = 2.4
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 19 DYLKDRKVFGHVLAAF 34
Y+ DRK FG LAAF
Sbjct: 266 QYVLDRKQFGRPLAAF 281
>gnl|CDD|188311 TIGR03381, agmatine_aguB, N-carbamoylputrescine amidase. Members
of this family are N-carbamoylputrescine amidase
(3.5.1.53). Bacterial genes are designated AguB. The
AguAB pathway replaces SpeB for conversion of agmatine
to putrescine in two steps rather than one [Central
intermediary metabolism, Polyamine biosynthesis].
Length = 279
Score = 26.5 bits (59), Expect = 3.2
Identities = 10/26 (38%), Positives = 12/26 (46%)
Query: 30 VLAAFRYGREDLDVLGLTFRKELFVT 55
V+AA R G E D TF F+
Sbjct: 206 VVAANRIGTEIGDGGEQTFYGSSFIA 231
>gnl|CDD|143597 cd07573, CPA, N-carbamoylputrescine amidohydrolase (CPA) (class 11
nitrilases). CPA (EC 3.5.1.53, also known as
N-carbamoylputrescine amidase and carbamoylputrescine
hydrolase) converts N-carbamoylputrescine to putrescine,
a step in polyamine biosynthesis in plants and bacteria.
This subgroup includes Arabidopsis thaliana CPA, also
known as nitrilase-like 1 (NLP1), and Pseudomonas
aeruginosa AguB. This subgroup belongs to a larger
nitrilase superfamily comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13),
this subgroup corresponds to class 11. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer; P.
aeruginosa AugB is a homohexamer, Arabidopsis thaliana
NLP1 is a homooctomer.
Length = 284
Score = 26.4 bits (59), Expect = 3.5
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 29 HVLAAFRYGREDLDVLGLTF 48
V A R G E G+TF
Sbjct: 208 PVAAVNRVGVEGDPGSGITF 227
>gnl|CDD|219945 pfam08634, Pet127, Mitochondrial protein Pet127. Pet127 has been
implicated in mitochondrial RNA stability and/or
processing and is localised to the mitochondrial
membrane. The Pet127 family is part of the PD-(D/E)XK
nuclease superfamily including a full set of active site
residues.
Length = 274
Score = 26.5 bits (59), Expect = 3.5
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 2 TNMFVHVNGDGVVLIDSDYLKDRK----VFGHVLAAF 34
+++ + DG+ IDSD DR+ GH L
Sbjct: 69 SSVILRRYKDGIYAIDSDKSADREIILSNLGHSLEKL 105
>gnl|CDD|235085 PRK02910, PRK02910, light-independent protochlorophyllide reductase
subunit B; Provisional.
Length = 519
Score = 26.4 bits (59), Expect = 3.6
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 8/45 (17%)
Query: 16 IDSDYLKDRK--VFG---HVLAAFRYGREDL--DVLGL-TFRKEL 52
+DS YL ++ VFG H +AA R ++L +V+G T+ +E
Sbjct: 286 VDSTYLTGKRVFVFGDATHAVAAARILSDELGFEVVGAGTYLRED 330
>gnl|CDD|235985 PRK07309, PRK07309, aromatic amino acid aminotransferase;
Validated.
Length = 391
Score = 26.2 bits (58), Expect = 3.6
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 36 YGREDLDVLGLTFRK-ELFVTSDQIFPPLNST 66
Y RE + L +K ++FV SD+++ L T
Sbjct: 183 YSREQIKALADVLKKYDIFVISDEVYSELTYT 214
>gnl|CDD|221046 pfam11251, DUF3050, Protein of unknown function (DUF3050). This
bacterial family of proteins has no known function.
Length = 232
Score = 26.0 bits (58), Expect = 4.1
Identities = 9/14 (64%), Positives = 11/14 (78%), Gaps = 1/14 (7%)
Query: 29 HVLAA-FRYGREDL 41
H +AA F +GREDL
Sbjct: 142 HEIAAAFTFGREDL 155
>gnl|CDD|173851 cd01162, IBD, Isobutyryl-CoA dehydrogenase. Isobutyryl-CoA
dehydrogenase (IBD) catalyzes the alpha, beta-
dehydrogenation of short branched chain acyl-CoA
intermediates in valine catabolism. It is predicted to
be a homotetramer.
Length = 375
Score = 26.3 bits (58), Expect = 4.4
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 19 DYLKDRKVFGHVLAAFRY 36
YL++RK FG LA F+
Sbjct: 257 AYLEERKQFGKPLADFQA 274
>gnl|CDD|163694 cd08063, MPN_CSN6, Mpr1p, Pad1p N-terminal (MPN) domains without
catalytic isopeptidase activity, found in COP9
signalosome complex subunit 6. CSN6 (COP9 signalosome
subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one
of the eight subunits of COP9 signalosome, a highly
conserved protein complex with diverse functions,
including several important intracellular pathways such
as the ubiquitin/proteasome system, DNA repair, cell
cycle, developmental changes, and some aspects of
immune responses. CSN6 is an MPN-domain protein that
directly interacts with the MPN+-domain subunit CSN5.
It is cleaved during apoptosis by activated caspases.
CSN6 processing occurs in CSN/CRL (cullin-RING Ub
ligase) complexes and is followed by the cleavage of
Rbx1, the direct interaction partner of CSN6. CSN6
cleavage enhances CSN-mediated deneddylating activity
(i.e. cleavage of ubiquitin-like protein Nedd8 (neural
precursor cell expressed, developmentally downregulated
8)) in the cullin 1 in cells. The cleavage of Rbx1 and
increased deneddylation of cullins inactivate CRLs and
presumably stabilize pro-apoptotic factors for final
apoptotic steps. While CSN6 shows a typical MPN
metalloprotease fold, it lacks the canonical JAMM
motif, and therefore does not show catalytic
isopeptidase activity.
Length = 288
Score = 26.1 bits (58), Expect = 4.6
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 8/40 (20%)
Query: 7 HVNGDGVVLIDSDYLKDRKV-FGHVLAAFRYGREDLDVLG 45
N DG +++D ++L+ R F V DLD +G
Sbjct: 55 DTNEDGEIVLDKEFLETRLEQFKQVFK-------DLDFVG 87
>gnl|CDD|181327 PRK08256, PRK08256, lipid-transfer protein; Provisional.
Length = 391
Score = 26.0 bits (58), Expect = 4.6
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 9/45 (20%)
Query: 48 FRKELFVTSDQIFPPLNSTTPNKPLTRLQKVLGLIPGSCTVGADI 92
FR E T + + L S PLTRLQ P +C A I
Sbjct: 186 FRDE--YTLEDV---LASPMIWGPLTRLQCC----PPTCGAAAAI 221
>gnl|CDD|235291 PRK04358, PRK04358, hypothetical protein; Provisional.
Length = 217
Score = 25.6 bits (57), Expect = 6.2
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 9/34 (26%)
Query: 32 AAFRYG----REDLDVLGLTFRKEL---FVTSDQ 58
A R G EDLDVL L KEL V++D+
Sbjct: 152 EALRKGILDSAEDLDVLLLA--KELDAAVVSADE 183
>gnl|CDD|181631 PRK09059, PRK09059, dihydroorotase; Validated.
Length = 429
Score = 25.8 bits (57), Expect = 6.2
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 73 TRLQKVLGLIPGSCTVG--ADISLIDID 98
TR ++ GL G+ G ADI +ID+D
Sbjct: 361 TRPAEIFGLPAGTLKPGAPADIIVIDLD 388
>gnl|CDD|227882 COG5595, COG5595, Zn-ribbon-containing, possibly
nucleic-acid-binding protein [General function
prediction only].
Length = 256
Score = 25.6 bits (56), Expect = 6.3
Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 7/76 (9%)
Query: 25 KVFGHVLAAFRY-----GREDLDVLGLTFRKELFVTSDQ--IFPPLNSTTPNKPLTRLQK 77
K+ ++ +RY GRE LG + +Q + P N+ L+R K
Sbjct: 21 KLLNGLIDQWRYNGQIIGREIPLYLGDGVGYVRAICPEQESLHPKFNNEYVEAALSRASK 80
Query: 78 VLGLIPGSCTVGADIS 93
+ G VG D +
Sbjct: 81 CGLIFDGFQLVGDDFN 96
>gnl|CDD|217680 pfam03702, UPF0075, Uncharacterized protein family (UPF0075). The
proteins is this family are about 370 amino acids long
and have no known function.
Length = 365
Score = 25.4 bits (56), Expect = 7.5
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 76 QKVLGLIPGSCTVGADISLIDIDRGDCL 103
+ +GL+ G+ G D +L+DI
Sbjct: 1 MRYIGLMSGTSLDGVDAALVDIGDAKIE 28
>gnl|CDD|225252 COG2377, COG2377, Predicted molecular chaperone distantly related
to HSP70-fold metalloproteases [Posttranslational
modification, protein turnover, chaperones].
Length = 371
Score = 25.3 bits (56), Expect = 8.0
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 74 RLQKVLGLIPGSCTVGADISLIDIDR 99
+ +GL+ G+ G D +L+ ID
Sbjct: 3 EPARYIGLMSGTSLDGIDAALVRIDG 28
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 25.4 bits (55), Expect = 10.0
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 11 DGVVLIDSDYLKDRKVFGHVLAAFRYGR 38
D + ++DR+ F + + YGR
Sbjct: 176 DVLYHELLSSVEDRRKFSKEESEWLYGR 203
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
0.325 0.145 0.465
Gapped
Lambda K H
0.267 0.0776 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,944,352
Number of extensions: 521633
Number of successful extensions: 647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 647
Number of HSP's successfully gapped: 32
Length of query: 112
Length of database: 10,937,602
Length adjustment: 76
Effective length of query: 36
Effective length of database: 7,566,698
Effective search space: 272401128
Effective search space used: 272401128
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: 40 (21.6 bits)
S2: 53 (24.1 bits)