RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4179
(89 letters)
>gnl|CDD|204512 pfam10557, Cullin_Nedd8, Cullin protein neddylation domain. This
is the neddylation site of cullin proteins which are a
family of structurally related proteins containing an
evolutionarily conserved cullin domain. With the
exception of APC2, each member of the cullin family is
modified by Nedd8 and several cullins function in
Ubiquitin-dependent proteolysis, a process in which the
26S proteasome recognises and subsequently degrades a
target protein tagged with K48-linked poly-ubiquitin
chains. Cullins are molecular scaffolds responsible for
assembling the ROC1/Rbx1 RING-based E3 ubiquitin
ligases, of which several play a direct role in
tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like
protein, which was originally found to be conjugated to
Cdc53, a cullin component of the SCF
(Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in
Saccharomyces cerevisiae, and Nedd8 modification has
now emerged as a regulatory pathway of fundamental
importance for cell cycle control and for embryogenesis
in metazoans. The only identified Nedd8 substrates are
cullins. Neddylation results in covalent conjugation of
a Nedd8 moiety onto a conserved cullin lysine residue.
Length = 68
Score = 91.8 bits (229), Expect = 2e-26
Identities = 45/64 (70%), Positives = 50/64 (78%)
Query: 16 IEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEKEYL 75
+EEDRKL IQAAIVRIMK RKTL H +LVAEV+ Q+ RF P V IKK I+ LIEKEYL
Sbjct: 1 VEEDRKLEIQAAIVRIMKSRKTLSHNELVAEVIEQLKKRFPPSVADIKKRIESLIEKEYL 60
Query: 76 ERTE 79
ER E
Sbjct: 61 ERDE 64
>gnl|CDD|214883 smart00884, Cullin_Nedd8, Cullin protein neddylation domain.
This is the neddylation site of cullin proteins which
are a family of structurally related proteins
containing an evolutionarily conserved cullin domain.
With the exception of APC2, each member of the cullin
family is modified by Nedd8 and several cullins
function in Ubiquitin-dependent proteolysis, a process
in which the 26S proteasome recognises and subsequently
degrades a target protein tagged with K48-linked
poly-ubiquitin chains. Cullins are molecular scaffolds
responsible for assembling the ROC1/Rbx1 RING-based E3
ubiquitin ligases, of which several play a direct role
in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like
protein, which was originally found to be conjugated to
Cdc53, a cullin component of the SCF
(Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in
Saccharomyces cerevisiae, and Nedd8 modification has
now emerged as a regulatory pathway of fundamental
importance for cell cycle control and for embryogenesis
in metazoans. The only identified Nedd8 substrates are
cullins. Neddylation results in covalent conjugation of
a Nedd8 moiety onto a conserved cullin lysine residue.
Length = 68
Score = 89.9 bits (224), Expect = 1e-25
Identities = 44/64 (68%), Positives = 51/64 (79%)
Query: 16 IEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEKEYL 75
+EEDRKL IQAAIVRIMK RKTL H +LV+EV+ Q+ RFKP V IKK I+ LIE+EYL
Sbjct: 1 VEEDRKLEIQAAIVRIMKSRKTLSHSELVSEVIEQLKKRFKPSVSDIKKRIESLIEREYL 60
Query: 76 ERTE 79
ER E
Sbjct: 61 ERDE 64
>gnl|CDD|227934 COG5647, COG5647, Cullin, a subunit of E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 773
Score = 93.7 bits (233), Expect = 5e-24
Identities = 43/88 (48%), Positives = 60/88 (68%), Gaps = 1/88 (1%)
Query: 2 KTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHV 61
++E + TH+ +EEDR+ +QA IVRIMK RK L+H LV EV+ Q RF+P+V +
Sbjct: 687 ESECMQDNLDTHETVEEDRQAELQACIVRIMKARKKLKHGDLVKEVIAQHKSRFEPKVSM 746
Query: 62 IKKCIDILIEKEYLERTETHKDMYHYLA 89
+K+ I+ LIEKEYLER ++Y YLA
Sbjct: 747 VKRAIETLIEKEYLERQA-DDEIYVYLA 773
>gnl|CDD|220401 pfam09786, CytochromB561_N, Cytochrome B561, N terminal. Members
of this family are found in the N terminal region of
cytochrome B561, as well as in various other putative
uncharacterized proteins.
Length = 559
Score = 31.7 bits (72), Expect = 0.034
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 10/73 (13%)
Query: 5 LKLEQETTHKHIEEDRKLLIQAAI--VRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVI 62
L QE HI+ ++ I V + +++K ++QQ VA QI P + ++
Sbjct: 344 QPLVQEIETVHIQVRQRGAPDIQIGSVGLEQLKKAAENQQQVAL---QI-----PLLPLL 395
Query: 63 KKCIDILIEKEYL 75
+ +D + +EYL
Sbjct: 396 QPFLDAITNQEYL 408
>gnl|CDD|226652 COG4189, COG4189, Predicted transcriptional regulator
[Transcription].
Length = 308
Score = 28.3 bits (63), Expect = 0.38
Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 3 TELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPR 58
L L Q T +I K+L +A ++R ++ Q++ ++I + F R
Sbjct: 45 EALGLPQSTMSANI----KVLEKAGLIRTETVKARKGSQKICISTTDEIEINFPDR 96
>gnl|CDD|170092 PRK09781, PRK09781, hypothetical protein; Provisional.
Length = 181
Score = 26.2 bits (57), Expect = 2.1
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 26 AAIVRIMKMRKTLQHQQLVAEVLNQI 51
A +RI + T H+ +VAE++NQ+
Sbjct: 18 GADIRIARRESTSWHKDIVAELINQV 43
>gnl|CDD|181457 PRK08526, PRK08526, threonine dehydratase; Provisional.
Length = 403
Score = 25.4 bits (56), Expect = 4.1
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 15 HIEEDR---KLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFK 56
I+ DR KL A++ I K +HQ+ + ++L + F
Sbjct: 356 KIDYDRFSTKLDYGDAMISITLETKGKEHQEEIRKILTEKGFNFY 400
>gnl|CDD|213361 cd12827, EcCorA_ZntB-like_u2, uncharacterized bacterial subfamily
of the Escherichia coli CorA-Salmonella typhimurium ZntB
family. A uncharacterized subfamily of the Escherichia
coli CorA-Salmonella typhimurium ZntB (EcCorA-ZntB_like)
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes.The EcCorA-ZntB-like
family includes the Mg2+ transporters Escherichia coli
and Salmonella typhimurium CorAs, which can also
transport Co2+, and Ni2+. Structures of the
intracellular domain of EcCorA-ZntB-like family members,
Vibrio parahaemolyticus and Salmonella typhimurium ZntB,
form funnel-shaped homopentamers, the tip of the funnel
is formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA. Natural
variants such as GVN and GIN, such as occur in some ZntB
family proteins, may be associated with the transport of
different divalent cations, such as zinc and cadmium.
The functional diversity of MIT transporters may also be
due to minor structural differences regulating gating,
substrate selection, and transport.
Length = 289
Score = 24.4 bits (54), Expect = 9.7
Identities = 11/63 (17%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 23 LIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEKEYLERTETHK 82
L+ + +K T + + ++L +I+ + + I K D L ++ L ++ +K
Sbjct: 88 LLDDFLEGRVKNFDTSSKTRFLLQILYRIATSYLKYLRQINKERDELEQE--LRKSTKNK 145
Query: 83 DMY 85
+++
Sbjct: 146 ELF 148
>gnl|CDD|99991 cd03821, GT1_Bme6_like, This family is most closely related to the
GT1 family of glycosyltransferases. Bme6 in Brucella
melitensis has been shown to be involved in the
biosynthesis of a polysaccharide.
Length = 375
Score = 24.6 bits (54), Expect = 9.7
Identities = 13/56 (23%), Positives = 18/56 (32%), Gaps = 3/56 (5%)
Query: 13 HKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDI 68
HK + +K L R + H E L K + VI +DI
Sbjct: 130 HKAL---KKRLAWFLFERRLLQAAAAVHATSEQEAAEIRRLGLKAPIAVIPNGVDI 182
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
0.323 0.135 0.368
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,407,885
Number of extensions: 362698
Number of successful extensions: 367
Number of sequences better than 10.0: 1
Number of HSP's gapped: 366
Number of HSP's successfully gapped: 26
Length of query: 89
Length of database: 10,937,602
Length adjustment: 57
Effective length of query: 32
Effective length of database: 8,409,424
Effective search space: 269101568
Effective search space used: 269101568
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.0 bits)