RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17733
(388 letters)
>gnl|CDD|219043 pfam06469, DUF1088, Domain of Unknown Function (DUF1088). This
family is found in the neurobeachins. The function of
this region is not known.
Length = 169
Score = 230 bits (588), Expect = 4e-75
Identities = 95/174 (54%), Positives = 127/174 (72%), Gaps = 8/174 (4%)
Query: 63 LLSHAMKDHIVRVANEAEFILNRMRADDVLKHAEFESHCAQTLQERRDEERLCDHLISAA 122
LLSHAMKDHIVRVANEAEFILNR RA+DV KHAEFES CAQ L +RR+EE++CDHLI AA
Sbjct: 4 LLSHAMKDHIVRVANEAEFILNRQRAEDVHKHAEFESQCAQYLADRREEEKMCDHLIRAA 63
Query: 123 RRRDQGTAGRILDKVSNILSNKHGAWAYNEAARTQEFWKLDSWEDDARRRKRFVRNPRGT 182
+ RD TA ++L K+ NIL++KHGAW + +++ EFW+LD WEDD RRR+RFVRNP G+
Sbjct: 64 KYRDHVTATQLLQKIVNILTDKHGAWGDSSSSQPHEFWRLDYWEDDLRRRRRFVRNPFGS 123
Query: 183 SHPNATLEKVAQKEVPEDAIAHANQEFHAQVAVVSQSSQANGANTCSELMDDSE 236
+HP ATL+ + E+ + + + +Q A VSQ+ + +EL+ + +
Sbjct: 124 THPEATLKAAEENGSEEERVVKSKKGIRSQ-AHVSQNGE-------TELVLEGD 169
>gnl|CDD|241237 cd01201, PH_BEACH, Pleckstrin homology domain in BEACH domain
containing proteins. The BEACH domain is present in
several eukaroyotic proteins CHS, neurobeachin (Nbea),
LRBA (also called BGL, beige-like, or CDC4L), FAN,
KIAA1607, and LvsA-LvsF. CHS is a rare, autosomal
recessive disorder that can cause severe
immunodeficiency and albinism in mammals and beige is
the name for the CHS disease in mice. The CHS disease is
associated with the presence of giant, perinuclear
vesicles (lysosomes, melanosomes, and others) and CHS
protein is thought to play an important role in the
fusion, fission, or trafficking of these vesicles. All
BEACH proteins contain the following domains: PH, BEACH,
and WD40. The WD40 domain is involved in mediating
protein-protein interactions involved in targeting
proteins to subcellular compartments. The combined
PH-BEACH motifs may present a single continuous
structural unit involved in protein binding. Some
members have an additional N-terminal Laminin G-like
(LamG) domains Ca++ mediated receptors or an additional
C-terminal FYVE zinc-binding domain which targets
proteins to membrane lipids via interaction with
phosphatidylinositol-3-phosphate, PI3P. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 113
Score = 50.8 bits (122), Expect = 4e-08
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 279 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTD 322
+ +ST L++P GTL IT+T LYF DED +
Sbjct: 1 EKILLSTNCSLVTPLDVIPGTLLITTTHLYFVDDEDDSEDGKIV 44
Score = 50.8 bits (122), Expect = 4e-08
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 343 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTD 386
+ +ST L++P GTL IT+T LYF DED +
Sbjct: 1 EKILLSTNCSLVTPLDVIPGTLLITTTHLYFVDDEDDSEDGKIV 44
>gnl|CDD|239542 cd03459, 3,4-PCD, Protocatechuate 3,4-dioxygenase (3,4-PCD)
catalyzes the oxidative ring cleavage of
3,4-dihydroxybenzoate to produce
beta-carboxy-cis,cis-muconate. 3,4-PCDs are large
aggregates of 12 protomers, each composed of an alpha-
and beta-subunit and an Fe3+ ion bound in the
beta-subunit at the alpha-beta-subunit interface.
3,4-PCD is a member of the aromatic dioxygenases which
are non-heme iron intradiol-cleaving enzymes that break
the C1-C2 bond and utilize Fe3+.
Length = 158
Score = 29.2 bits (66), Expect = 2.5
Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 279 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDED---CPDFRNTDPER 325
N + RA I V A+G L T LYF D P + ER
Sbjct: 86 PWRNGAWRAPHIHVSVFARGLLERLVTRLYFPGDPANAADPVLASVPEER 135
>gnl|CDD|224822 COG1910, COG1910, Periplasmic molybdate-binding protein/domain
[Inorganic ion transport and metabolism].
Length = 223
Score = 28.9 bits (65), Expect = 3.7
Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 7/85 (8%)
Query: 155 RTQEFWKLDSWEDDARRRKRFVRNPRGTSHPNATLEK--VAQKEVPEDAIAHANQEF-HA 211
+ + S ED R+ RFV RG S L++ +P+ ++++ H
Sbjct: 82 QKGNPKNISSLEDLLRKDLRFVNRNRG-SGTRILLDELLGELNILPDSIKGYSDEATTHD 140
Query: 212 QVAVVSQSSQAN---GANTCSELMD 233
VA S +A+ G +E
Sbjct: 141 AVASAVASGRADAGVGLRHAAEKYG 165
>gnl|CDD|233190 TIGR00926, 2A1704, Peptide:H+ symporter (also transports b-lactam
antibiotics, the antitumor agent, bestatin, and various
protease inhibitors). [Transport and binding proteins,
Amino acids, peptides and amines].
Length = 641
Score = 29.4 bits (66), Expect = 3.9
Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 3/63 (4%)
Query: 203 AHANQEFHAQVAVVSQSSQANGANTCSELMDDSELIEGEVAVVSQSSQANGANTCSELMD 262
AH ++ V + SQ A T +E G V +V+ NG S
Sbjct: 419 AHEVEKKIIYVLLGSQGYYQLTAVTDKPTDAKTEFGMGIVRLVNTL---NGGAMISLSTS 475
Query: 263 DSE 265
D +
Sbjct: 476 DFD 478
>gnl|CDD|131685 TIGR02637, RhaS, rhamnose ABC transporter, rhamnose-binding
protein. This sugar-binding component of ABC
transporter complexes is found in rhamnose catabolism
operon contexts. Mutation of this gene in Rhizobium
leguminosarum abolishes rhamnose transport and prevents
growth on rhamnose as a carbon source.
Length = 302
Score = 29.1 bits (65), Expect = 4.0
Identities = 13/48 (27%), Positives = 23/48 (47%)
Query: 216 VSQSSQANGANTCSELMDDSELIEGEVAVVSQSSQANGANTCSELMDD 263
++Q+S T +L + GE+A++S +S A N E+M
Sbjct: 100 LNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKK 147
>gnl|CDD|222904 PHA02601, int, integrase; Provisional.
Length = 333
Score = 28.9 bits (65), Expect = 4.7
Identities = 19/75 (25%), Positives = 26/75 (34%), Gaps = 8/75 (10%)
Query: 167 DDARRRKRFVRNPRGTSHPNATLEKVAQKE---VPED-----AIAHANQEFHAQVAVVSQ 218
D R RKRF + N T+ +V KE ED + + H Q +
Sbjct: 21 DGKRIRKRFATKGEALAFENYTMAEVDDKEWVGEKEDRRRLSELLQIWWDLHGQTLEDGK 80
Query: 219 SSQANGANTCSELMD 233
+ A C L D
Sbjct: 81 ARLAKLLILCKGLGD 95
>gnl|CDD|99970 cd03796, GT1_PIG-A_like, This family is most closely related to the
GT1 family of glycosyltransferases. Phosphatidylinositol
glycan-class A (PIG-A), an X-linked gene in humans, is
necessary for the synthesis of
N-acetylglucosaminyl-phosphatidylinositol, a very early
intermediate in glycosyl phosphatidylinositol
(GPI)-anchor biosynthesis. The GPI-anchor is an
important cellular structure that facilitates the
attachment of many proteins to cell surfaces. Somatic
mutations in PIG-A have been associated with Paroxysmal
Nocturnal Hemoglobinuria (PNH), an acquired
hematological disorder.
Length = 398
Score = 28.7 bits (65), Expect = 4.9
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 112 ERLCDHLISAARRRDQGTAGRILDKVSNILSNKHGAWAYNEAARTQEFWKLDSWEDDARR 171
E L +I A + ++ + +S + + KH W+++ + K+ SWED A+R
Sbjct: 306 EVLPPDMILLAEPDVESIVRKLEEAISILRTGKHDPWSFHNRVK-----KMYSWEDVAKR 360
Query: 172 RKR 174
++
Sbjct: 361 TEK 363
>gnl|CDD|226951 COG4585, COG4585, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 365
Score = 28.2 bits (63), Expect = 7.9
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 9/59 (15%)
Query: 56 DVLKHAELLSHAMKDHIVRVANEAEFILNRMRADDVLKHAEFESHCAQTLQERRDEERL 114
+ E L +D + R+ EA + N ++HA+ + TL+ DE RL
Sbjct: 264 SLGSELERLPPEAEDALFRIVQEA--LTN------AIRHAQ-ATEVRVTLERTDDELRL 313
>gnl|CDD|192714 pfam11155, DUF2935, Domain of unknown function (DUF2935). This
family of proteins with unknown function appears to be
restricted to Firmicutes. The structure of this protein
has been solved and each domain is composed of four
alpha helices. A metal cluster composed of iron and
magnesium lies between the two domains.
Length = 124
Score = 27.2 bits (61), Expect = 8.2
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 21 IELINEGRLLSH---AMKDHIVRVANEAEFILNR 51
+ELI ++ S + DH++R A IL +
Sbjct: 91 LELILSCKIKSIIYPLLADHMLREAEYYLRILAQ 124
>gnl|CDD|177697 PLN00067, PLN00067, PsbP domain-containing protein 6; Provisional.
Length = 263
Score = 27.9 bits (62), Expect = 8.6
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 11/70 (15%)
Query: 136 KVSNILSNKHGAWAYNEAARTQEFWKLDSWEDDARRRKRFVRNP--RGTSHPNATLEKVA 193
+V+NILS G + + A E W +ED+ + + + V +P R T+ PNAT+E++
Sbjct: 119 RVANILS---GNYCQPKCA---EPWVEVKFEDEKQGKVQVVASPLIRLTNKPNATIEEIG 172
Query: 194 QKEVPEDAIA 203
PE IA
Sbjct: 173 S---PEKLIA 179
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
0.315 0.130 0.372
Gapped
Lambda K H
0.267 0.0708 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,612,318
Number of extensions: 1895068
Number of successful extensions: 1664
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1662
Number of HSP's successfully gapped: 32
Length of query: 388
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 289
Effective length of database: 6,546,556
Effective search space: 1891954684
Effective search space used: 1891954684
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.9 bits)