RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1694
(247 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 = 124 bits (312), Expect = 4e-36
Identities = 49/129 (37%), Positives = 71/129 (55%), Gaps = 5/129 (3%)
Query: 56 GEACTDKFIQSSNVRVLEEQLKQHVHGQELAISHICGALKNHFQNRYHNTKALAISLHGL 115
E C D I S N LE L + + GQ L + ++K H++N K L +S HG
Sbjct: 4 AECCGDCRI-SFNYHGLERDLARRLFGQHLVKQLVVRSVKGHWENP-KPRKPLVLSFHGW 61
Query: 116 PGTGKNYVTDFIVSSIFKRYKDKGTSRFVHKFNSRIHFPNENHVSLYRLQLTNWIISNVT 175
GTGKN+V + I ++ Y+D S +VH F + HFP+ +V LY+++L N I +
Sbjct: 62 TGTGKNFVAEIIADNL---YRDGLRSPYVHHFVATNHFPHPKYVELYKVELKNQIRGTLR 118
Query: 176 ACDRAIFIF 184
AC R+IFIF
Sbjct: 119 ACQRSIFIF 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 = 0.015
Identities = 37/182 (20%), Positives = 75/182 (41%), Gaps = 24/182 (13%)
Query: 69 VRVLEEQLKQHVHGQELAISHICGALKNHFQNRYH-----NTKALAISLH-GLPGTGKNY 122
+ LE +LK+ V GQ+ A+ + A++ R + + L G G GK
Sbjct: 482 LLNLERRLKKRVIGQDEAVEAVSDAIR-----RARAGLGDPNRPIGSFLFLGPTGVGKTE 536
Query: 123 VTDFIVSSIFKRYKDK---GTSRFVHKFN-SRIHFPNENHVSLY-RLQLTNWIISNVTAC 177
+ + ++F + S ++ K + SR+ +V QLT +
Sbjct: 537 LAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRK---- 592
Query: 178 DRAIFIFDEVDKFPKGLLDVIIPFIDHHAVY----NQISFQNTIFLFLSNSGGTEIMNTF 233
++ + DE++K + ++++ +D + + F+NTI + SN+G EI+
Sbjct: 593 PYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDA 652
Query: 234 LE 235
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 = 35.4 bits (82), Expect = 0.019
Identities = 21/146 (14%), Positives = 40/146 (27%), Gaps = 22/146 (15%)
Query: 93 ALKNHFQNRYHNTKALAISLHGLPGTGKNYVTDFIVSSIFKRYKDKGTSRFVHKFNSRIH 152
L + + I ++G GTGK F + + ++ + V N
Sbjct: 28 QLASFLAPALRGERPSNIIIYGPTGTGKTATVKF----VMEELEESSANVEVVYINCLEL 83
Query: 153 -------------FPNENHVSLYRLQLTNWIISNVTACD-RAIFIFDEVDKFPKGLLDVI 198
L++ + N++ I I DEVD +V+
Sbjct: 84 RTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVL 143
Query: 199 IPFIDHHAVYNQISFQNTIFLFLSNS 224
+ + +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 = 31.4 bits (72), Expect = 0.22
Identities = 11/54 (20%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 184 FDEVDKFPKGLLDVIIPFIDHHAVY----NQISFQNTIFLFLSNSGGTEIMNTF 233
DE++K G+ + ++ ++ + ++ F+NT+F+ N G +I +
Sbjct: 81 IDEIEKAHPGVQNDLLQILEGGTLTDKQGRKVDFRNTLFIMTGNFGSEKISDAS 134
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 30.7 bits (70), Expect = 0.25
Identities = 16/106 (15%), Positives = 27/106 (25%), Gaps = 10/106 (9%)
Query: 107 ALAISLHGLPGTGK-----NYVTDFIVSSIFKRYKDKGTSR--FVHKFNSRIHFPNENHV 159
A L G G+GK + + + K + P
Sbjct: 4 AGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGT 63
Query: 160 SLYRLQLTNWIISNVTACDRAIFIFDEVDKFPKGLLDVIIPFIDHH 205
+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 = 1.0
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 20/63 (31%)
Query: 185 DEVDK------------FPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSNSGGTEIMNT 232
DEV+K F KG+++ D I F+NT+ L SN+G IM
Sbjct: 675 DEVEKAHPDVLELFYQVFDKGVME------DGEGRE--IDFKNTVILLTSNAGSDLIMAL 726
Query: 233 FLE 235
+
Sbjct: 727 CAD 729
Score = 29.9 bits (68), Expect = 1.5
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 65 QSSNVRVLEEQLKQHVHGQELAISHICGALK 95
+ V L ++L + V GQ+ A+ I ++
Sbjct: 553 EIEAVLSLPDRLAERVIGQDHALEAIAERIR 583
>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 = 29.0 bits (65), Expect = 2.3
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 64 IQSSNVRVLEEQLKQHVHGQELAISHICGALKN-HFQNRYH 103
+ NVR L +H ++ + + +L+ H QN+
Sbjct: 264 LDGFNVR-LHRAFDTLLHQKKARLEQLVASLQRQHPQNKLA 303
>gnl|CDD|226998 COG4651, RosB, Kef-type K+ transport system, predicted NAD-binding
component [Inorganic ion transport and metabolism].
Length = 408
Score = 29.0 bits (65), Expect = 2.3
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 23 GEFFTLSGIAIAAGIAYFSPSIINSKF 49
E FTL+ +AIA G+A+ + + F
Sbjct: 224 RELFTLAVLAIALGVAFGAAELFGVSF 250
>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 = 3.1
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 152 HFPNENHVSLYRLQLTNWIISNVTACDRAIFIFDE 186
P + + LYRL L +IS + ++I D
Sbjct: 216 WIPPSHPLVLYRLILW-GLISAPAIREYYVYITDP 249
>gnl|CDD|182633 PRK10669, PRK10669, putative cation:proton antiport protein;
Provisional.
Length = 558
Score = 27.8 bits (62), Expect = 7.0
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 15 IICISGITG--EFFTLSGIAIAAGIAY 39
I+ S TG E FTLS +A+A GIA+
Sbjct: 214 ILARSAATGSRELFTLSVLALALGIAF 240
>gnl|CDD|222065 pfam13352, DUF4100, Protein of unknown function (DUF4100). This is
a family of uncharacterized proteins found in
Physcomitrella.
Length = 212
Score = 27.2 bits (60), Expect = 7.4
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 94 LKNHFQNRYHNTKALAISLHGLPGTGKNYVTDFIVSSIFKRYKDKGTSRFVHKFNSRIHF 153
LK + R N K + +L + K D I+ SI ++ + G + H ++RI +
Sbjct: 83 LKGVLEERILNAK-VEFTLKEILEITKKEFHDVIIDSIKQKRQLMGETGMNHAIDARI-Y 140
Query: 154 PNENHVSLYRLQLTN 168
+E V Q TN
Sbjct: 141 KDEEEVDNGYKQPTN 155
>gnl|CDD|236815 PRK10997, yieM, hypothetical protein; Provisional.
Length = 487
Score = 27.6 bits (62), Expect = 7.5
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 92 GALKNHFQNRYHNTKALAISLHGLPG 117
L+ Q+R+H A+A+S HG PG
Sbjct: 440 KELQRQHQHRFH---AVAMSAHGKPG 462
>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 = 26.6 bits (58), Expect = 7.9
Identities = 14/140 (10%), Positives = 39/140 (27%), Gaps = 5/140 (3%)
Query: 110 ISLHGLPGTGKNYVTDFIVSSIFKRYK-----DKGTSRFVHKFNSRIHFPNENHVSLYRL 164
I + G PG+GK + + + D + S
Sbjct: 5 ILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGE 64
Query: 165 QLTNWIISNVTACDRAIFIFDEVDKFPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSNS 224
++ + I DE+ + ++ ++ + + + + + L+ +
Sbjct: 65 LRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTN 124
Query: 225 GGTEIMNTFLELRKSGERYI 244
++ L R +
Sbjct: 125 DEKDLGPALLRRRFDRRIVL 144
>gnl|CDD|220412 pfam09804, DUF2347, Uncharacterized conserved protein (DUF2347).
Members of this family of hypothetical proteins have no
known function.
Length = 496
Score = 27.0 bits (60), Expect = 9.6
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 185 DEVDKFPKGLLDVIIPFIDHHAVYNQISFQNTIFLFLSNSGGTEIMNTFLELRK 238
DE+ + L DV++ H + TI GT + T +LRK
Sbjct: 268 DEILAYKPELYDVLVTLPPSHTSNAKEKVWPTIE----IPSGTPLKATQRDLRK 317
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 0.141 0.423
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: 12,956,948
Number of extensions: 1250411
Number of successful extensions: 1653
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1646
Number of HSP's successfully gapped: 36
Length of query: 247
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 153
Effective length of database: 6,768,326
Effective search space: 1035553878
Effective search space used: 1035553878
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: 58 (26.6 bits)