RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4196
(168 letters)
>gnl|CDD|218940 pfam06209, COBRA1, Cofactor of BRCA1 (COBRA1). This family
consists of several cofactor of BRCA1 (COBRA1) like
proteins. It is thought that COBRA1 along with BRCA1 is
involved in chromatin unfolding. COBRA1 is recruited to
the chromosome site by the first BRCT repeat of BRCA1,
and is itself sufficient to induce chromatin unfolding.
BRCA1 mutations that enhance chromatin unfolding also
increase its affinity for, and recruitment of, COBRA1.
It is thought that that reorganisation of higher levels
of chromatin structure is an important regulated step in
BRCA1-mediated nuclear functions.
Length = 475
Score = 39.0 bits (91), Expect = 6e-04
Identities = 7/27 (25%), Positives = 19/27 (70%)
Query: 141 VKQLRPVVMAILRNTTHIDDKYLRVLV 167
+ L+PVVM ++++ + +K L++++
Sbjct: 1 MPSLQPVVMCVMKHLPKVPEKKLKIVM 27
>gnl|CDD|143465 cd07147, ALDH_F21_RNP123, Aldehyde dehydrogenase family 21A1-like.
Aldehyde dehydrogenase ALDH21A1 (gene name RNP123) was
first described in the moss Tortula ruralis and is
believed to play an important role in the detoxification
of aldehydes generated in response to desiccation- and
salinity-stress, and ALDH21A1 expression represents a
unique stress tolerance mechanism. So far, of plants,
only the bryophyte sequence has been observed, but
similar protein sequences from bacteria and archaea are
also present in this CD.
Length = 452
Score = 30.7 bits (70), Expect = 0.39
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 91 GVRRLDFHNSVLEELRDKLVSHIKEIGQKEGRDRDRKLNEMLKKSFPLVRVKQ 143
V+R+ H SV +E + +LV+ +K + + +D + M+ +S RV+
Sbjct: 265 SVQRVLVHRSVYDEFKSRLVARVKALKTGDPKDDATDVGPMISES-EAERVEG 316
>gnl|CDD|107197 PHA02515, PHA02515, hypothetical protein; Provisional.
Length = 508
Score = 29.7 bits (66), Expect = 0.77
Identities = 17/63 (26%), Positives = 32/63 (50%)
Query: 97 FHNSVLEELRDKLVSHIKEIGQKEGRDRDRKLNEMLKKSFPLVRVKQLRPVVMAILRNTT 156
F+ V+E D+LV I+++ K R ++ L S L ++ + P+V A+ +
Sbjct: 102 FYPKVIEHALDRLVIQIQQLADKLSRTVQAPISGGLSSSEILEQLAEQLPLVSAVYGHLA 161
Query: 157 HID 159
+ID
Sbjct: 162 NID 164
>gnl|CDD|225705 COG3164, COG3164, Predicted membrane protein [Function unknown].
Length = 1271
Score = 28.2 bits (63), Expect = 2.8
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 43 LRQMLPLLDLHGVRRLDFHNSVLEVEVTETLNLLLPSLRQMLPLLDLHGVRRLD 96
LRQ+LPL++ + + D +SV + V + L S R P L+ +R D
Sbjct: 26 LRQLLPLVNRYRPQIEDKISSVTGIPV--RIAQLQGSWRNFGPTLEAQDIRAGD 77
>gnl|CDD|188998 cd06460, M32_Taq, Peptidase family M32 includes thermostable
carboxypeptidases TaqCP and PfuCP. Peptidase family M32
is a subclass of metallocarboxypeptidases which are
distributed mainly in bacteria and archaea, and contain
a HEXXH motif that coordinates a divalent cation such as
Zn2+ or Co2+, so far only observed in the active site of
neutral metallopeptidases but not in carboxypeptidases.
M32 includes the thermostable carboxypeptidases (E.C.
3.4.17.19) from Thermus aquaticus (TaqCP) and Pyrococcus
furiosus (PfuCP), which have broad specificities toward
a wide range of C-terminal substrates that include
basic, aromatic, neutral and polar amino acids. These
enzymes have a similar fold to the M3 peptidases such as
neurolysin and the M2 angiotensin converting enzyme
(ACE). Novel peptidases from protozoa Trypanosoma cruzi,
a causative agent of Chagas' disease, and Leishmania
major, a parasite that causes leishmaniasis, are the
first eukaryotic M32 enzymes identified so far, thus
making these enzymes an attractive potential target for
drug development against these organisms.
Length = 484
Score = 27.8 bits (63), Expect = 3.2
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 11/71 (15%)
Query: 86 LLDLH----GVRRLDFHNSVLEELRDKLVSHIKEIGQKEGRDRDRKLNEMLKKSFPLVRV 141
LLD + LD ++ EL+++LV + +I ++G+ D L+ FP+ +
Sbjct: 145 LLDDYEPGMTAEELD---ALFAELKEELVPLLAKI-LEKGKPPDDFF---LEGPFPVEKQ 197
Query: 142 KQLRPVVMAIL 152
K L ++ L
Sbjct: 198 KALSRELLEAL 208
>gnl|CDD|198139 smart01071, CDC37_N, Cdc37 N terminal kinase binding. Cdc37 is a
molecular chaperone required for the activity of
numerous eukaryotic protein kinases. This domain
corresponds to the N terminal domain which binds
predominantly to protein kinases.and is found N terminal
to the Hsp (Heat shocked protein) 90-binding domain.
Expression of a construct consisting of only the
N-terminal domain of Saccharomyces pombe Cdc37 results
in cellular viability. This indicates that interactions
with the cochaperone Hsp90 may not be essential for
Cdc37 function.
Length = 154
Score = 27.0 bits (60), Expect = 3.5
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 53 HGVRRLDFHNSVLEVEVTETLNLLLPSLRQMLPLLDLHGVRRLDFHNSVLEELRDKLVSH 112
H +R+D L E L+ P+ +ML L + L+ N E L ++L H
Sbjct: 60 HLNKRIDKLLKGLR---EEELSPETPTYNEMLAELQDQLKKELEEANGDSEGLLEELKKH 116
Query: 113 IKEIGQKEGRDRDRKLNEMLKK 134
++ +KE ++ +KL+E+ K+
Sbjct: 117 RDKL-KKEQKELRKKLDELEKE 137
>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 491
Score = 27.4 bits (61), Expect = 4.3
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 4/28 (14%)
Query: 94 RLDFHNSVLEELRDKLVSHIKEIGQKEG 121
R D DKLV H+ +I +KE
Sbjct: 169 RFDLQKIPT----DKLVEHLVDIAKKEN 192
>gnl|CDD|235849 PRK06666, fliM, flagellar motor switch protein FliM; Validated.
Length = 337
Score = 27.1 bits (61), Expect = 5.2
Identities = 10/35 (28%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 100 SVLEELRDKLVSHIKEIGQKEGRDRDRKLNEMLKK 134
S++E +R+KL S + RD+D++ + L++
Sbjct: 222 SMIEPIREKLSSPYW---MSDSRDKDKRWRKELEQ 253
>gnl|CDD|179241 PRK01185, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 271
Score = 26.7 bits (59), Expect = 5.7
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 91 GVRRLDFHNSVLEELRDKLVSHI 113
R + F S + +R+KL+ H+
Sbjct: 247 YARFISFRESPYDRIREKLIKHV 269
>gnl|CDD|219621 pfam07890, Rrp15p, Rrp15p. Rrp15p is required for the formation of
60S ribosomal subunits.
Length = 132
Score = 25.8 bits (57), Expect = 7.7
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 113 IKEIGQKEGRDRDRKLNEMLKKSF 136
+KE G+K R+ L E+ K+ F
Sbjct: 103 VKEAGKKARVKREELLKEVSKEKF 126
>gnl|CDD|217443 pfam03234, CDC37_N, Cdc37 N terminal kinase binding. Cdc37 is a
molecular chaperone required for the activity of
numerous eukaryotic protein kinases. This domain
corresponds to the N terminal domain which binds
predominantly to protein kinases and is found N terminal
to the Hsp (Heat shocked protein) 90-binding domain
pfam08565. Expression of a construct consisting of only
the N-terminal domain of Saccharomyces pombe Cdc37
results in cellular viability. This indicates that
interactions with the cochaperone Hsp90 may not be
essential for Cdc37 function.
Length = 172
Score = 25.9 bits (57), Expect = 9.3
Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 6/108 (5%)
Query: 31 EFQLD-NGILLPSLRQMLPLLDLHGVRRLDFHNSVLEVEVTETLNLL--LPSLRQMLPLL 87
E + N LL + ++L L + L T+ N+ P+ +M+ L
Sbjct: 52 EKERIMNDRLLERVDKLLSELKEESLDSSQAVMKSLNENFTDKENVEPEQPTYNEMVEDL 111
Query: 88 DLHGVRRLDFHNSVLEELRDKLVSHIKEIGQKEGRDRDRKLNEMLKKS 135
+D N L ++L H ++ +KE ++ +KL+E+ K+
Sbjct: 112 FDQVKDEVDEKNG--AALIEELQKHRDKL-KKEQKELLKKLDELEKEE 156
>gnl|CDD|172630 PRK14141, PRK14141, heat shock protein GrpE; Provisional.
Length = 209
Score = 26.2 bits (58), Expect = 9.4
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 18/46 (39%)
Query: 67 VEVTETLNLLLPSLRQMLPLLDLHGVRRLD---------FHNSVLE 103
VE+TE R ML L+ HGV++LD FH ++ E
Sbjct: 120 VEMTE---------RAMLNALERHGVKKLDPEGQKFDPNFHQAMFE 156
>gnl|CDD|133117 cd06907, M14_AGBL2-3_like, Peptidase M14-like domain of ATP/GTP
binding protein AGBL-2 and AGBL-3, and related proteins.
Peptidase M14-like domain of ATP/GTP binding
protein_like (AGBL)-2, and related proteins. The
Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This subgroup includes the human AGBL-2,
and -3, and the mouse cytosolic carboxypeptidase
(CCPs)-2, and -3. ATP/GTP binding protein
(AGTPBP-1/Nna1)-like proteins are active
metallopeptidases that are thought to act on cytosolic
proteins such as alpha-tubulin, to remove a C-terminal
tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell
degeneration (pcd). AGTPBP-1/Nna1 however does not
belong to this subgroup. AGTPBP-1/Nna1-like proteins
from the different phyla are highly diverse, but they
all contain a unique N-terminal conserved domain right
before the CP domain. It has been suggested that this
N-terminal domain might act as a folding domain.
Length = 261
Score = 26.2 bits (58), Expect = 9.5
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 8/37 (21%)
Query: 121 GRDRDRKLNEMLKKSFPLV--------RVKQLRPVVM 149
GRD +R LK SFP + R+ + R V++
Sbjct: 111 GRDLNRNYKTPLKDSFPTIWYTKNMVKRLLEEREVIL 147
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
0.322 0.141 0.394
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,029,574
Number of extensions: 873235
Number of successful extensions: 957
Number of sequences better than 10.0: 1
Number of HSP's gapped: 957
Number of HSP's successfully gapped: 36
Length of query: 168
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 78
Effective length of database: 6,945,742
Effective search space: 541767876
Effective search space used: 541767876
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 (21.9 bits)
S2: 55 (25.1 bits)