RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4084
(86 letters)
>gnl|CDD|188714 cd09328, LIM2_abLIM, The second LIM domain on actin binding LIM
(abLIM) proteins. The second LIM domain of actin
binding LIM (abLIM) proteins: Three homologous members
of the abLIM protein family have been identified;
abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM
consists of four tandem repeats of LIM domains and the
C-terminal of acting binding LIM protein is a villin
headpiece domain, which has strong actin binding
activity. The abLIM-1, which is expressed in retina,
brain, and muscle tissue, has been indicated to
function as a tumor suppressor. AbLIM-2 and -3, mainly
expressed in muscle and neuronal tissue, bind to
F-actin strongly. They may serve as a scaffold for
signaling modules of the actin cytoskeleton and thereby
modulate transcription. It has shown that LIM domains
of abLIMs interact with STARS (striated muscle
activator of Rho signaling), which directly binds actin
and stimulates serum-response factor (SRF)-dependent
transcription. All LIM domains are 50-60 amino acids in
size and share two characteristic highly conserved zinc
finger motifs. The two zinc fingers contain eight
conserved residues, mostly cysteines and histidines,
which coordinately bond to two zinc atoms. LIM domains
function as adaptors or scaffolds to support the
assembly of multimeric protein complexes.
Length = 56
Score = 27.7 bits (62), Expect = 0.21
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 6 GKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFACHMC 57
F E +V+ +T+H + F C +C + FP D++ + ++ C C
Sbjct: 8 QDFVEGEVVSALGKTYHP-KCFVCSVCRQPFPPGDRV---TFNGKECLCQKC 55
>gnl|CDD|220378 pfam09749, HVSL, Uncharacterized conserved protein. This entry
is of proteins of approximately 300 residues conserved
from plants to humans. It contains two conserved
motifs, HxSL and FHVSL. The function is unknown.
Length = 238
Score = 28.1 bits (63), Expect = 0.40
Identities = 8/28 (28%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 18 IRTF-HSDRQFACHMCIKVFPSQDKLRM 44
+R+F H + +A H+ ++ PS +L +
Sbjct: 29 VRSFPHVEGNWATHVYLEWRPSSAELEL 56
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 27.7 bits (61), Expect = 0.64
Identities = 17/53 (32%), Positives = 21/53 (39%), Gaps = 5/53 (9%)
Query: 14 IRKHIRTFHSDRQFA----CHMCIKVFPSQDKLRMHMLSDRQFACHMCIKVFP 62
+R H + F C C F D+LR H R ACH+C V P
Sbjct: 204 LRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHC-RLRHEACHICDMVGP 255
Score = 24.6 bits (53), Expect = 9.4
Identities = 22/86 (25%), Positives = 30/86 (34%), Gaps = 18/86 (20%)
Query: 2 SECMGKFTEYQVIRKHIRTFHSDRQFACHMCI---KVFP------SQDKLRMHM---LSD 49
S+C + + ++KH + H C CI K F LR H L +
Sbjct: 157 SKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEE 214
Query: 50 RQFA----CHMCIKVFPSQDKLRMHM 71
F C C F D+LR H
Sbjct: 215 EGFKGHPLCIFCKIYFYDDDELRRHC 240
>gnl|CDD|233481 TIGR01582, FDH-beta, formate dehydrogenase, beta subunit, Fe-S
containing. This model represents the beta subunit of
the gamma-proteobacterial formate dehydrogenase. This
subunit contains four 4Fe-4S clusters and is involved in
transmitting electrons from the alpha subunit
(TIGR01553) at the periplasmic space to the gamma
subunit which spans the cytoplasmic membrane. In
addition to the gamma proteobacteria, a sequence from
Aquifex aolicus falls within the scope of this model.
This appears to be the case for the alpha, gamma and
epsilon (accessory protein TIGR01562) chains as well
[Energy metabolism, Anaerobic, Energy metabolism,
Electron transport].
Length = 283
Score = 25.6 bits (56), Expect = 3.2
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 18 IRTFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFACHMCI 58
I F + C CI P + R + +R + C +CI
Sbjct: 118 IVDFDHSKCIGCGYCIVGCPF-NIPRYDKVDNRPYKCTLCI 157
>gnl|CDD|239461 cd03345, eu_TyrOH, Eukaryotic tyrosine hydroxylase (TyrOH); a
member of the biopterin-dependent aromatic amino acid
hydroxylase family of non-heme, iron(II)-dependent
enzymes that also includes prokaryotic and eukaryotic
phenylalanine-4-hydroxylase (PheOH) and eukaryotic
tryptophan hydroxylase (TrpOH). TyrOH catalyzes the
conversion of tyrosine to L-dihydroxyphenylalanine
(L-DOPA), the rate-limiting step in the biosynthesis of
the catecholamines dopamine, noradrenaline, and
adrenaline.
Length = 298
Score = 25.5 bits (56), Expect = 3.5
Identities = 14/46 (30%), Positives = 16/46 (34%), Gaps = 8/46 (17%)
Query: 8 FTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFA 53
F Q IR HS CH + P ML+D FA
Sbjct: 144 FQCTQYIRHASSPMHSPEPDCCHELLGHVP--------MLADPTFA 181
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 25.2 bits (55), Expect = 3.9
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 26 QFACHMCIKVFPSQDKLRMHM-LSDRQFACHMCIKVFPSQDKLRMHM 71
+ C +C+ F S L+ H+ ++ C +C K F + D H+
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLDHV 119
Score = 25.2 bits (55), Expect = 4.4
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 4 CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM 46
C+ F+ +++HIR +++ C +C K F + D H+
Sbjct: 79 CLMPFSSSVSLKQHIR--YTEHSKVCPVCGKEFRNTDSTLDHV 119
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 23.6 bits (51), Expect = 5.2
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 27 FACHMCIKVFPSQDKLRMHMLS 48
+ C C KVF S+ LR HM +
Sbjct: 1 YRCPECGKVFKSKSALREHMRT 22
Score = 23.6 bits (51), Expect = 5.2
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 52 FACHMCIKVFPSQDKLRMHMLS 73
+ C C KVF S+ LR HM +
Sbjct: 1 YRCPECGKVFKSKSALREHMRT 22
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 23.1 bits (50), Expect = 6.1
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 15 RKHIRTFHSDRQFACHMCIKVF 36
R+H+RT ++ + C +C K F
Sbjct: 3 RRHMRTHTGEKPYKCPVCGKSF 24
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 24.7 bits (53), Expect = 8.1
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 43 RMHMLSDRQFACHM--CIKVFPSQDKLRMHMLSGLQT 77
+ + + + C + C K + +Q+ L+ HML G Q
Sbjct: 341 MLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQN 377
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
0.334 0.138 0.448
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,930,857
Number of extensions: 283177
Number of successful extensions: 351
Number of sequences better than 10.0: 1
Number of HSP's gapped: 346
Number of HSP's successfully gapped: 29
Length of query: 86
Length of database: 10,937,602
Length adjustment: 54
Effective length of query: 32
Effective length of database: 8,542,486
Effective search space: 273359552
Effective search space used: 273359552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 53 (24.3 bits)