RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1695
(202 letters)
>gnl|CDD|148114 pfam06309, Torsin, Torsin. This family consists of several
eukaryotic torsin proteins. Torsion dystonia is an
autosomal dominant movement disorder characterized by
involuntary, repetitive muscle contractions and twisted
postures. The most severe early-onset form of dystonia
has been linked to mutations in the human DYT1 (TOR1A)
gene encoding a protein termed torsinA. While causative
genetic alterations have been identified, the function
of torsin proteins and the molecular mechanism
underlying dystonia remain unknown. Phylogenetic
analysis of the torsin protein family indicates these
proteins share distant sequence similarity with the
large and diverse family of (pfam00004) proteins. It has
been suggested that torsins play a role in effectively
managing protein folding and that possible breakdown in
a neuroprotective mechanism that is, in part, mediated
by torsins may be responsible for the neuronal
dysfunction associated with dystonia.
Length = 127
Score = 121 bits (306), Expect = 1e-35
Identities = 49/128 (38%), Positives = 71/128 (55%), Gaps = 5/128 (3%)
Query: 1 EACTDKFIQSSNVRVLEEQLKQHVHGQELAISHICGALKNHFQNRYHNTKALAISLHGLP 60
E C D I S N LE L + + GQ L + ++K H++N K L +S HG
Sbjct: 5 ECCGDCRI-SFNYHGLERDLARRLFGQHLVKQLVVRSVKGHWENP-KPRKPLVLSFHGWT 62
Query: 61 GTGKNYVTDFIVSSIFKRYKDKGTSRFVHKFNSRIHFPNENHVSLYRLQLTNWIISNVTA 120
GTGKN+V + I ++ Y+D S +VH F + HFP+ +V LY+++L N I + A
Sbjct: 63 GTGKNFVAEIIADNL---YRDGLRSPYVHHFVATNHFPHPKYVELYKVELKNQIRGTLRA 119
Query: 121 CDRAIFIF 128
C R+IFIF
Sbjct: 120 CQRSIFIF 127
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 36.1 bits (84), Expect = 0.008
Identities = 37/182 (20%), Positives = 75/182 (41%), Gaps = 24/182 (13%)
Query: 13 VRVLEEQLKQHVHGQELAISHICGALKNHFQNRYH-----NTKALAISLH-GLPGTGKNY 66
+ LE +LK+ V GQ+ A+ + A++ R + + L G G GK
Sbjct: 482 LLNLERRLKKRVIGQDEAVEAVSDAIR-----RARAGLGDPNRPIGSFLFLGPTGVGKTE 536
Query: 67 VTDFIVSSIFKRYKDK---GTSRFVHKFN-SRIHFPNENHVSLY-RLQLTNWIISNVTAC 121
+ + ++F + S ++ K + SR+ +V QLT +
Sbjct: 537 LAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRK---- 592
Query: 122 DRAIFIFDEVDKFPKGLLDVIIPFIDHHAVY----NQISFQNTIFLFLSNSGGTEIMNTF 177
++ + DE++K + ++++ +D + + F+NTI + SN+G EI+
Sbjct: 593 PYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDA 652
Query: 178 LE 179
Sbjct: 653 DG 654
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 36.2 bits (84), Expect = 0.008
Identities = 21/146 (14%), Positives = 40/146 (27%), Gaps = 22/146 (15%)
Query: 37 ALKNHFQNRYHNTKALAISLHGLPGTGKNYVTDFIVSSIFKRYKDKGTSRFVHKFNSRIH 96
L + + I ++G GTGK F + + ++ + V N
Sbjct: 28 QLASFLAPALRGERPSNIIIYGPTGTGKTATVKF----VMEELEESSANVEVVYINCLEL 83
Query: 97 -------------FPNENHVSLYRLQLTNWIISNVTACD-RAIFIFDEVDKFPKGLLDVI 142
L++ + N++ I I DEVD +V+
Sbjct: 84 RTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVL 143
Query: 143 IPFIDHHAVYNQISFQNTIFLFLSNS 168
+ + +SN
Sbjct: 144 YSLLRAPGENK----VKVSIIAVSND 165
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 31.8 bits (73), Expect = 0.11
Identities = 11/54 (20%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 128 FDEVDKFPKGLLDVIIPFIDHHAVY----NQISFQNTIFLFLSNSGGTEIMNTF 177
DE++K G+ + ++ ++ + ++ F+NT+F+ N G +I +
Sbjct: 81 IDEIEKAHPGVQNDLLQILEGGTLTDKQGRKVDFRNTLFIMTGNFGSEKISDAS 134
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 31.1 bits (71), Expect = 0.13
Identities = 16/106 (15%), Positives = 27/106 (25%), Gaps = 10/106 (9%)
Query: 51 ALAISLHGLPGTGK-----NYVTDFIVSSIFKRYKDKGTSR--FVHKFNSRIHFPNENHV 103
A L G G+GK + + + K + P
Sbjct: 4 AGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGT 63
Query: 104 SLYRLQLTNWIISNVTACDRAIFIFDEVDKFPKGLLDVIIPFIDHH 149
+L I+ + R + I DE L+ + D
Sbjct: 64 ---TAELLEAILDALKRRGRPLLIIDEAQHLSLEALEELRDLYDLS 106
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 30.3 bits (69), Expect = 0.69
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 20/63 (31%)
Query: 129 DEVDK------------FPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSNSGGTEIMNT 176
DEV+K F KG+++ D I F+NT+ L SN+G IM
Sbjct: 675 DEVEKAHPDVLELFYQVFDKGVME------DGEGRE--IDFKNTVILLTSNAGSDLIMAL 726
Query: 177 FLE 179
+
Sbjct: 727 CAD 729
Score = 29.9 bits (68), Expect = 1.0
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 9 QSSNVRVLEEQLKQHVHGQELAISHICGALK 39
+ V L ++L + V GQ+ A+ I ++
Sbjct: 553 EIEAVLSLPDRLAERVIGQDHALEAIAERIR 583
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 28.1 bits (62), Expect = 1.8
Identities = 15/140 (10%), Positives = 39/140 (27%), Gaps = 5/140 (3%)
Query: 54 ISLHGLPGTGKNYVTDFIVSSIFKRYK-----DKGTSRFVHKFNSRIHFPNENHVSLYRL 108
I + G PG+GK + + + D + S
Sbjct: 5 ILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGE 64
Query: 109 QLTNWIISNVTACDRAIFIFDEVDKFPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSNS 168
++ + I DE+ + ++ ++ + + + + + L+ +
Sbjct: 65 LRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTN 124
Query: 169 GGTEIMNTFLELRKSECIEF 188
++ L R I
Sbjct: 125 DEKDLGPALLRRRFDRRIVL 144
>gnl|CDD|145924 pfam03034, PSS, Phosphatidyl serine synthase. Phosphatidyl serine
synthase is also known as serine exchange enzyme. This
family represents eukaryotic PSS I and II which are
membrane bound proteins which catalyzes the replacement
of the head group of a phospholipid (phosphotidylcholine
or phosphotidylethanolamine) by L-serine.
Length = 278
Score = 28.4 bits (64), Expect = 2.1
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 96 HFPNENHVSLYRLQLTNWIISNVTACDRAIFIFDE 130
P + + LYRL L +IS + ++I D
Sbjct: 216 WIPPSHPLVLYRLILW-GLISAPAIREYYVYITDP 249
>gnl|CDD|161783 TIGR00237, xseA, exodeoxyribonuclease VII, large subunit. This
family consist of exodeoxyribonuclease VII, large
subunit XseA which catalyses exonucleolytic cleavage in
either the 5'->3' or 3'->5' direction to yield
5'-phosphomononucleotides. Exonuclease VII consists of
one large subunit and four small subunits [DNA
metabolism, Degradation of DNA].
Length = 432
Score = 28.3 bits (63), Expect = 3.0
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 8 IQSSNVRVLEEQLKQHVHGQELAISHICGALKN-HFQNRYH 47
+ NVR L +H ++ + + +L+ H QN+
Sbjct: 264 LDGFNVR-LHRAFDTLLHQKKARLEQLVASLQRQHPQNKLA 303
>gnl|CDD|220412 pfam09804, DUF2347, Uncharacterized conserved protein (DUF2347).
Members of this family of hypothetical proteins have no
known function.
Length = 496
Score = 27.4 bits (61), Expect = 6.1
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 129 DEVDKFPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSNSGGTEIMNTFLELRK 182
DE+ + L DV++ H + TI GT + T +LRK
Sbjct: 268 DEILAYKPELYDVLVTLPPSHTSNAKEKVWPTIE----IPSGTPLKATQRDLRK 317
>gnl|CDD|201253 pfam00480, ROK, ROK family.
Length = 181
Score = 26.9 bits (60), Expect = 7.0
Identities = 3/39 (7%), Positives = 10/39 (25%)
Query: 30 AISHICGALKNHFQNRYHNTKALAISLHGLPGTGKNYVT 68
L ++ + + I G+ + +
Sbjct: 35 ETLDALVDLVEEAITQFGASLGIGIGSPGIIDDDQGTIA 73
>gnl|CDD|238701 cd01410, SIRT7, SIRT7: Eukaryotic and prokaryotic group (class4)
which includes human sirtuin SIRT6, SIRT7, and several
bacterial homologs; and are members of the SIR2 family
of proteins, silent information regulator 2 (Sir2)
enzymes which catalyze NAD+-dependent protein/histone
deacetylation. Sir2 proteins have been shown to regulate
gene silencing, DNA repair, metabolic enzymes, and life
span.
Length = 206
Score = 26.9 bits (60), Expect = 7.6
Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 10/47 (21%)
Query: 56 LHG------LPGTGKNYVTDFIVSSIFKRYKDKGTSRFVHKFNSRIH 96
LHG G YV D +V + DK T R H +
Sbjct: 89 LHGNMFIEVCKSCGPEYVRDDVVETRG----DKETGRRCHACGGILK 131
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 26.3 bits (58), Expect = 7.8
Identities = 7/43 (16%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 125 IFIFDEVDKFPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSN 167
+ DE+D +G + ++ + +I +N + +N
Sbjct: 87 VLFIDEIDSLSRGAQNALLRVL-ETLNDLRIDRENVRVIGATN 128
>gnl|CDD|236815 PRK10997, yieM, hypothetical protein; Provisional.
Length = 487
Score = 26.8 bits (60), Expect = 8.2
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 36 GALKNHFQNRYHNTKALAISLHGLPG 61
L+ Q+R+H A+A+S HG PG
Sbjct: 440 KELQRQHQHRFH---AVAMSAHGKPG 462
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
0.326 0.140 0.422
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,278,266
Number of extensions: 959479
Number of successful extensions: 1083
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1075
Number of HSP's successfully gapped: 33
Length of query: 202
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 110
Effective length of database: 6,857,034
Effective search space: 754273740
Effective search space used: 754273740
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: 56 (25.8 bits)