RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15061
(226 letters)
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 33.5 bits (77), Expect = 0.005
Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 9/53 (16%)
Query: 51 PTCELCRKDLAA-ENCIRLTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQCKT 102
C +C + E + L C HV+H CL+ + R CP C+
Sbjct: 1 DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRS--------SNTCPLCRA 45
>gnl|CDD|214546 smart00184, RING, Ring finger. E3 ubiquitin-protein ligase
activity is intrinsic to the RING domain of c-Cbl and is
likely to be a general function of this domain; Various
RING fingers exhibit binding activity towards E2
ubiquitin-conjugating enzymes (Ubc' s).
Length = 40
Score = 30.9 bits (70), Expect = 0.043
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 53 CELCRKDLAAENCIRLTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQC 100
C +C + ++ + L C H + SC+ + +T CP C
Sbjct: 1 CPIC-LEEYLKDPVILPCGHTFCRSCIRKWLESGNNT-------CPIC 40
>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a
specialized type of Zn-finger of 40 to 60 residues that
binds two atoms of zinc; defined by the 'cross-brace'
motif C-X2-C-X(9-39)-C-X(1-3)-
H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved
in mediating protein-protein interactions; identified in
a proteins with a wide range of functions such as viral
replication, signal transduction, and development; has
two variants, the C3HC4-type and a C3H2C3-type (RING-H2
finger), which have different cysteine/histidine
pattern; a subset of RINGs are associated with B-Boxes
(C-X2-H-X7-C-X7-C-X2-C-H-X2-H).
Length = 45
Score = 30.9 bits (70), Expect = 0.045
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 52 TCELCRKDLAAENCIRLTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQCKT 102
C +C + E + L C HV+ SC++ + + +T CP C+T
Sbjct: 1 ECPIC-LEEFREPVVLLPCGHVFCRSCIDKWLKSGKNT-------CPLCRT 43
>gnl|CDD|227520 COG5193, LHP1, La protein, small RNA-binding pol III transcript
stabilizing protein and related La-motif-containing
proteins involved in translation [Posttranslational
modification, protein turnover, chaperones /
Translation, ribosomal structure and biogenesis].
Length = 438
Score = 31.6 bits (71), Expect = 0.29
Identities = 28/112 (25%), Positives = 40/112 (35%), Gaps = 18/112 (16%)
Query: 109 NLVSPVADVLREKLSSVNWARVGLGLPLLNDEVEHKPSMTSAAKSF-VHTYN---KSVEP 164
N SPV+ V L ARV E S ++ ++ + + N S
Sbjct: 126 NSGSPVSAV-SGALRKSLDARVL----------EVSSSGSNKNRTEKLISNNNKSTSQMQ 174
Query: 165 ADVYTSGM---SVQNTRRVYQSVDIEEVPPSHHHHHHPVAPVSRDHDENKYK 213
DVY +G V N R Q D+E P H+H RD ++
Sbjct: 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFR 226
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet known
if PHD fingers have a common molecular function. Several
reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is a
ubiquitin ligase have been refuted as these domains were
RING fingers misidentified as PHD fingers.
Length = 47
Score = 28.7 bits (64), Expect = 0.37
Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 4/50 (8%)
Query: 52 TCELCRKDLAAENCIR-LTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQC 100
C +C K ++ C YH +CL L + CP+C
Sbjct: 1 YCSVCGKPDDGGELLQCDGCDRWYHQTCLG---PPLLEEEPDGKWYCPKC 47
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 27.8 bits (62), Expect = 0.66
Identities = 13/53 (24%), Positives = 20/53 (37%), Gaps = 9/53 (16%)
Query: 50 NPTCELCRKDLAAENCIRLTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQCKT 102
C +C L + C HV+ C+ Y ++ KCP C+T
Sbjct: 2 ELECPICLDLLRDP-VVLTPCGHVFCRECILRYLKK--------KSKCPICRT 45
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 30.3 bits (68), Expect = 0.68
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 12/58 (20%)
Query: 53 CELCRKDLAAENCIRLT-CYHVYHWSCLNHYARQLPSTTAPAGYK--CPQCKTGLFPP 107
C +C + + +R+ C H +H C++ + GY CP C+T + PP
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL---------LGYSNKCPVCRTAIPPP 374
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 30.2 bits (69), Expect = 0.96
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 6/32 (18%)
Query: 87 PSTTAPAGYKCPQCKTGLFPPNNLVSPVADVL 118
P+ P GYKCPQC + F DV+
Sbjct: 433 PTKDEPPGYKCPQCGSPGF------EGETDVM 458
>gnl|CDD|239289 cd02991, UAS_ETEA, UAS family, ETEA subfamily; composed of
proteins similar to human ETEA protein, the translation
product of a highly expressed gene in the T-cells and
eosinophils of atopic dermatitis patients compared with
those of normal individuals. ETEA shows homology to
Fas-associated factor 1 (FAF1); both containing UAS and
UBX (ubiquitin-associated) domains. Compared to FAF1,
however, ETEA lacks the ubiquitin-associated UBA domain
and a nuclear targeting domain. The function of ETEA is
still unknown. A yeast two-hybrid assay showed that it
can interact with Fas. Because of its homology to FAF1,
it is postulated that ETEA could be involved in
modulating Fas-mediated apoptosis of T-cells and
eosinophils of atopic dermatitis patients, making them
more resistant to apoptosis.
Length = 116
Score = 28.6 bits (64), Expect = 1.2
Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 9/59 (15%)
Query: 41 LQWLEDSDYNPTCELCRKDLAAENCIRLTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQ 99
L +L D+ T E CR L A I + W+C S P GY+ Q
Sbjct: 21 LVYLHGDDHQDTDEFCRNTLCAPEVIEYINTRMLFWAC---------SVAKPEGYRVSQ 70
>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component
[Posttranslational modification, protein turnover,
chaperones].
Length = 491
Score = 29.2 bits (65), Expect = 2.1
Identities = 19/80 (23%), Positives = 27/80 (33%), Gaps = 23/80 (28%)
Query: 34 KCIVQSYLQWLEDSDYNPTCELCRKDL-----------AAENCIRLTCYHVYHWSCL-NH 81
+ + L +SD TC +C ++ RL C H+ H CL N
Sbjct: 273 AMYPTATEEQLTNSD--RTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNW 330
Query: 82 YARQLPSTTAPAGYKCPQCK 101
RQ CP C+
Sbjct: 331 LERQ---------QTCPICR 341
>gnl|CDD|143446 cd07128, ALDH_MaoC-N, N-terminal domain of the monoamine oxidase C
dehydratase. The N-terminal domain of the MaoC
dehydratase, a monoamine oxidase regulatory protein.
Orthologs of MaoC include PaaZ (Escherichia coli) and
PaaN (Pseudomonas putida), which are putative
ring-opening enzymes of the aerobic phenylacetic acid
(PA) catabolic pathway. The C-terminal domain of MaoC
has sequence similarity to enoyl-CoA hydratase. Also
included in this CD is a novel Burkholderia xenovorans
LB400 ALDH of the aerobic benzoate oxidation (box)
pathway. This pathway involves first the synthesis of a
CoA thio-esterified aromatic acid, with subsequent
dihydroxylation and cleavage steps, yielding the CoA
thio-esterified aliphatic aldehyde,
3,4-dehydroadipyl-CoA semialdehyde, which is further
converted into its corresponding CoA acid by the
Burkholderia LB400 ALDH.
Length = 513
Score = 28.4 bits (64), Expect = 3.9
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 10/45 (22%)
Query: 90 TAPAGYKCPQCKTGL---FPPNNLVSPVADVLREKLSSVNWARVG 131
T AG KC T + F P V V + L+ +L+ V VG
Sbjct: 285 TVKAGQKC----TAIRRAFVPEARVDAVIEALKARLAKV---VVG 322
>gnl|CDD|236931 PRK11563, PRK11563, bifunctional aldehyde dehydrogenase/enoyl-CoA
hydratase; Provisional.
Length = 675
Score = 28.3 bits (64), Expect = 4.3
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 7/39 (17%)
Query: 90 TAPAGYKCPQCKTGL---FPPNNLVSPVADVLREKLSSV 125
T AG KC T + P LV V + LR +L+ V
Sbjct: 289 TVKAGQKC----TAIRRAIVPRALVDAVIEALRARLAKV 323
>gnl|CDD|223858 COG0787, Alr, Alanine racemase [Cell envelope biogenesis, outer
membrane].
Length = 360
Score = 27.9 bits (63), Expect = 4.9
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 5/63 (7%)
Query: 101 KTGLFPPNNLVSPVADVLREKLSSVNWARVGLGL----PLLNDEVEHKPSMT-SAAKSFV 155
K GL + ++ A +L + R G+ L P + KP MT A V
Sbjct: 186 KQGLPGELSHLANSAGLLLGPDYHFDMVRPGIALYGLSPSGGLDNGLKPVMTLKARIIQV 245
Query: 156 HTY 158
T
Sbjct: 246 RTV 248
>gnl|CDD|217089 pfam02535, Zip, ZIP Zinc transporter. The ZIP family consists of
zinc transport proteins and many putative metal
transporters. The main contribution to this family is
from the Arabidopsis thaliana ZIP protein family these
proteins are responsible for zinc uptake in the plant.
Also found within this family are C. elegans proteins of
unknown function which are annotated as being similar to
human growth arrest inducible gene product, although
this protein in not found within this family.
Length = 314
Score = 27.7 bits (62), Expect = 5.7
Identities = 6/28 (21%), Positives = 10/28 (35%)
Query: 191 PSHHHHHHPVAPVSRDHDENKYKRRSIV 218
P HHHH S + + + +
Sbjct: 143 PHHHHHEGHEKGESDKESGLRVRDIAWL 170
>gnl|CDD|219792 pfam08318, COG4, COG4 transport protein. This region is found in
yeast oligomeric golgi complex component 4 which is
involved in ER to Golgi an intra Golgi transport.
Length = 330
Score = 27.3 bits (61), Expect = 6.6
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 177 TRRVYQSVDIEEVPPSHHHHHHPVAPVS 204
R +++ +EE+P + P P S
Sbjct: 253 RRSFEKAIQLEELPSLNDSLEEPQQPTS 280
>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger). The
C3HC4 type zinc-finger (RING finger) is a cysteine-rich
domain of 40 to 60 residues that coordinates two zinc
ions, and has the consensus sequence:
C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C
where X is any amino acid. Many proteins containing a
RING finger play a key role in the ubiquitination
pathway.
Length = 40
Score = 24.7 bits (54), Expect = 6.6
Identities = 9/48 (18%), Positives = 16/48 (33%), Gaps = 8/48 (16%)
Query: 53 CELCRKDLAAENCIRLTCYHVYHWSCLNHYARQLPSTTAPAGYKCPQC 100
C +C + + L C H++ C+ + CP C
Sbjct: 1 CPICL-EEPKDPVTILPCGHLFCSKCILSWLES-------GNVTCPLC 40
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
0.320 0.133 0.448
Gapped
Lambda K H
0.267 0.0598 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,148,423
Number of extensions: 965607
Number of successful extensions: 1007
Number of sequences better than 10.0: 1
Number of HSP's gapped: 994
Number of HSP's successfully gapped: 30
Length of query: 226
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 133
Effective length of database: 6,812,680
Effective search space: 906086440
Effective search space used: 906086440
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: 57 (26.0 bits)