RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4370
(191 letters)
>gnl|CDD|214523 smart00119, HECTc, Domain Homologous to E6-AP Carboxyl Terminus
with. E3 ubiquitin-protein ligases. Can bind to E2
enzymes.
Length = 328
Score = 77.3 bits (191), Expect = 3e-17
Identities = 26/66 (39%), Positives = 36/66 (54%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGAK 168
G D+ L GY+ NS+ IK+ + V+ +++ E+R LQFVTGS RLPVG
Sbjct: 215 GSPEIDVDDLKSNTEYKGGYSANSQTIKWFWEVVESFTNEERRKLLQFVTGSSRLPVGGF 274
Query: 169 TKCQPK 174
PK
Sbjct: 275 AALSPK 280
>gnl|CDD|238033 cd00078, HECTc, HECT domain; C-terminal catalytic domain of a
subclass of Ubiquitin-protein ligase (E3). It binds
specific ubiquitin-conjugating enzymes (E2), accepts
ubiquitin from E2, transfers ubiquitin to substrate
lysine side chains, and transfers additional ubiquitin
molecules to the end of growing ubiquitin chains.
Length = 352
Score = 74.9 bits (185), Expect = 3e-16
Identities = 23/58 (39%), Positives = 36/58 (62%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
G D++ L + GY+ +S I++ + VL +++ E++ FLQFVTGS RLPVG
Sbjct: 238 GSEDIDLEDLKKNTEYKGGYSSDSPTIQWFWEVLESFTNEERKKFLQFVTGSSRLPVG 295
>gnl|CDD|216035 pfam00632, HECT, HECT-domain (ubiquitin-transferase). The name
HECT comes from Homologous to the E6-AP Carboxyl
Terminus.
Length = 298
Score = 71.2 bits (175), Expect = 5e-15
Identities = 25/58 (43%), Positives = 36/58 (62%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
G D++ L + D GY+ NS IK+ + VL ++ E+R FL+FVTGS RLP+G
Sbjct: 184 GSPEIDVEDLKKNTEYDGGYSKNSPTIKWFWEVLEEFTQEERRKFLKFVTGSSRLPLG 241
>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 872
Score = 59.4 bits (144), Expect = 1e-10
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 125 DHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
HGY +S I + + ++S + E+ LQFVTG+ R+P+
Sbjct: 767 YHGYTEDSPIIVWFWEIISEFDFEERAKLLQFVTGTSRIPIN 808
>gnl|CDD|227431 COG5100, NPL4, Nuclear pore protein [Nuclear structure].
Length = 571
Score = 30.4 bits (68), Expect = 0.53
Identities = 17/54 (31%), Positives = 19/54 (35%), Gaps = 6/54 (11%)
Query: 131 NSKAIKYLFHVLSCYSSP-EQRDFLQFVT---GSPRLPVGAKTKCQPKAITLGL 180
NS K + Y P E+ F T G P G KCQP I L
Sbjct: 176 NSNKNKL--GSVESYIVPLEEPSFTVKETCEDGHGPWPHGICNKCQPSNIILAP 227
>gnl|CDD|147282 pfam05020, zf-NPL4, NPL4 family, putative zinc binding region. The
HRD4 gene was identical to NPL4, a gene previously
implicated in nuclear transport. Using a diverse set of
substrates and direct ubiquitination assays, analysis
revealed that HRD4/NPL4 is required for a poorly
characterized step in ER-associated degradation after
ubiquitination of target proteins but before their
recognition by the 26S proteasome. This region of the
protein contains possibly two zinc binding motifs
(Bateman A pers. obs.). Npl4p physically associates with
Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex.
The Cdc48-Ufd1-Npl4 complex functions in the recognition
of several polyubiquitin-tagged proteins and facilitates
their presentation to the 26S proteasome for processive
degradation or even more specific processing.
Length = 147
Score = 29.2 bits (66), Expect = 0.83
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 158 TGSPRLPVGAKTKCQPKAITL 178
+G P P G +KCQP AITL
Sbjct: 96 SGHPPWPKGICSKCQPSAITL 116
>gnl|CDD|133003 cd02509, GDP-M1P_Guanylyltransferase, GDP-M1P_Guanylyltransferase
catalyzes the formation of GDP-Mannose.
GDP-mannose-1-phosphate guanylyltransferase, also
called GDP-mannose pyrophosphorylase (GDP-MP),
catalyzes the formation of GDP-Mannose from
mannose-1-phosphate and GTP. Mannose is a key
monosaccharide for glycosylation of proteins and
lipids. GDP-Mannose is the activated donor for
mannosylation of various biomolecules. This enzyme is
known to be bifunctional, as both mannose-6-phosphate
isomerase and mannose-1-phosphate guanylyltransferase.
This CD covers the N-terminal GDP-mannose-1-phosphate
guanylyltransferase domain, whereas the isomerase
function is located at the C-terminal half. GDP-MP is a
member of the nucleotidyltransferase family of enzymes.
Length = 274
Score = 27.9 bits (63), Expect = 3.5
Identities = 9/24 (37%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 11 WPFSRKHMSKQRVMSPFKPGLSLL 34
WP SR+ KQ + SLL
Sbjct: 15 WPLSRESYPKQFL--KLFGDKSLL 36
>gnl|CDD|205924 pfam13750, Big_3_3, Bacterial Ig-like domain (group 3). This
family consists of bacterial domains with an Ig-like
fold. Members of this family are found in a variety of
bacterial surface proteins.
Length = 157
Score = 26.6 bits (59), Expect = 5.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 67 PLSRSPLDPYLSDTLPPSVTITD 89
+++PL D PP+V+I+
Sbjct: 30 TTTKTPLQTIKVDNTPPTVSISF 52
>gnl|CDD|183481 PRK12376, PRK12376, putative translaldolase; Provisional.
Length = 236
Score = 26.8 bits (60), Expect = 6.7
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 16 KHMSKQRVMSPFKPGLSLLWACYR 39
M + + KPG+ LLWA R
Sbjct: 157 PLMKEALAICHSKPGVELLWASPR 180
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
0.319 0.134 0.433
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,520,338
Number of extensions: 815710
Number of successful extensions: 554
Number of sequences better than 10.0: 1
Number of HSP's gapped: 554
Number of HSP's successfully gapped: 10
Length of query: 191
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 100
Effective length of database: 6,901,388
Effective search space: 690138800
Effective search space used: 690138800
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 (21.8 bits)
S2: 56 (25.3 bits)