RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10776
(803 letters)
>gnl|CDD|214982 smart01026, Beach, Beige/BEACH domain. The BEACH domain was
described in the BEIGE protein (D1035670) and in the
highly homologous CHS protein. The BEACH domain is
usually followed by a series of WD repeats. The function
of the BEACH domain is unknown.
Length = 280
Score = 446 bits (1149), Expect = e-152
Identities = 155/285 (54%), Positives = 199/285 (69%), Gaps = 10/285 (3%)
Query: 514 QLWREGHLTNWAYLMILNKMAGRSYNDLMQYPVLPFILSDYKSATLDLTDPKSFRNLKKP 573
Q W+ G ++N+ YLM LN +AGRSYNDL QYPV P++L+DY S TLDL++P +FR+L KP
Sbjct: 2 QKWQNGEISNFEYLMHLNTLAGRSYNDLTQYPVFPWVLADYTSETLDLSNPSTFRDLSKP 61
Query: 574 MAVQDKKNESHYVNNYNYLAREMCDAVGGVNQEPYHYGSHYSNSGTVLHFLVRIPPFTSM 633
+ + + + Y E+ D P+HYG+HYS++G VL++L+R+ PFT++
Sbjct: 62 IGALNPERLEFFYERYE----ELEDPD----IPPFHYGTHYSSAGIVLYYLIRLEPFTTL 113
Query: 634 FLNYQDNNFDLPDRTFHNLATTWRLTSSESTTDVKELIPELFYLADILVNNEGFDFGVRQ 693
FL Q FD DR FH++A TWR S ES TDVKELIPE FYL + LVN GFDFG RQ
Sbjct: 114 FLQLQGGRFDHADRLFHSVAATWRSASLESMTDVKELIPEFFYLPEFLVNINGFDFGTRQ 173
Query: 694 NGQRVDSVILPPWAP-DPRTFIMVHRQSLESELVSENLPHWIDLVFGYKQSGKAAVDAIN 752
+G+ VD V LPPWA P FI HR++LESE VS++L HWIDL+FGYKQ GK AV+A+N
Sbjct: 174 DGEDVDDVELPPWAKGSPEEFIRKHREALESEYVSQHLHHWIDLIFGYKQRGKEAVEALN 233
Query: 753 VFHPATYYG-FDIAAIPDPLERTAWETMIRTYGQTPRQLFKSAHP 796
VFHP TY G D+ +I DP+ER A E I +GQTP+QLFK HP
Sbjct: 234 VFHPLTYEGAVDLDSIEDPVERKALEGQIHNFGQTPKQLFKEPHP 278
>gnl|CDD|216896 pfam02138, Beach, Beige/BEACH domain.
Length = 274
Score = 377 bits (970), Expect = e-126
Identities = 136/283 (48%), Positives = 185/283 (65%), Gaps = 12/283 (4%)
Query: 514 QLWREGHLTNWAYLMILNKMAGRSYNDLMQYPVLPFILSDYKSATLDLTDPKSFRNLKKP 573
+ W+ G ++N+ YLM+LN +AGRS+NDL QYPV P++L+DY S TLDL DP ++R+L KP
Sbjct: 2 EKWQNGEISNFEYLMLLNTLAGRSFNDLSQYPVFPWVLADYTSETLDLNDPSTYRDLSKP 61
Query: 574 MAVQDKKNESHYVNNYNYLAREMCDAVGGVNQEPYHYGSHYSNSGTVLHFLVRIPPFTSM 633
+ +++ + Y L P+HYGSHYS+ G+VLH+L+R+ PFT++
Sbjct: 62 IGALNEERLKKFKERYEELD---------EVGPPFHYGSHYSSPGSVLHYLIRLEPFTTL 112
Query: 634 FLNYQDNNFDLPDRTFHNLATTWRLTSSESTTDVKELIPELFYLADILVNNEGFDFGVRQ 693
+ Q FD DR F ++ W+ SES DVKELIPE FYL + L N FD G R
Sbjct: 113 HIELQGGKFDHADRLFSSIEEAWKS-VSESMNDVKELIPEFFYLPEFLKNINNFDLGKR- 170
Query: 694 NGQRVDSVILPPWAPDPRTFIMVHRQSLESELVSENLPHWIDLVFGYKQSGKAAVDAINV 753
+G++VD V LPPWA P F+ +R++LES+ VSENL +WIDL+FGYKQ G+ A++A NV
Sbjct: 171 DGEKVDDVELPPWAKSPEEFVYKNRKALESDYVSENLHNWIDLIFGYKQRGEEAIEAKNV 230
Query: 754 FHPATYYGFDIAAIPDPLERTAWETMIRTYGQTPRQLFKSAHP 796
FHP TY + I DP+ER A E I +GQTP+QLF HP
Sbjct: 231 FHPLTYEDI-VDKIKDPVEREAIEAQISNFGQTPKQLFTEPHP 272
>gnl|CDD|100117 cd06071, Beach, BEACH (Beige and Chediak-Higashi) domains,
implicated in membrane trafficking, are present in a
family of proteins conserved throughout eukaryotes. This
group contains human lysosomal trafficking regulator
(LYST), LPS-responsive and beige-like anchor (LRBA) and
neurobeachin. Disruption of LYST leads to
Chediak-Higashi syndrome, characterized by severe
immunodeficiency, albinism, poor blood coagulation and
neurologic problems. Neurobeachin is a candidate gene
linked to autism. LBRA seems to be upregulated in
several cancer types. It has been shown that the BEACH
domain itself is important for the function of these
proteins.
Length = 275
Score = 361 bits (928), Expect = e-119
Identities = 136/283 (48%), Positives = 187/283 (66%), Gaps = 11/283 (3%)
Query: 514 QLWREGHLTNWAYLMILNKMAGRSYNDLMQYPVLPFILSDYKSATLDLTDPKSFRNLKKP 573
+ W+ G ++N+ YLM LN +AGRS+NDL QYP+ P+++SDY S LDL DP ++R+L KP
Sbjct: 2 KKWQNGEISNFEYLMYLNTLAGRSFNDLSQYPIFPWVISDYTSEELDLNDPSTYRDLSKP 61
Query: 574 MAVQDKKNESHYVNNYNYLAREMCDAVGGVNQEPYHYGSHYSNSGTVLHFLVRIPPFTSM 633
+ +K+ Y + + + P+HYGSHYSN VL++LVR+ PFT++
Sbjct: 62 IGALNKERLQLLKERYESDSDD--------SDPPFHYGSHYSNPAIVLYYLVRLEPFTTL 113
Query: 634 FLNYQDNNFDLPDRTFHNLATTWRLTSSESTTDVKELIPELFYLADILVNNEGFDFGVRQ 693
L+ Q +FD DR F+++ ++WR ++SE+ +DVKELIPE +YL + +N FDFG Q
Sbjct: 114 HLSLQGGHFDAADRLFNSIPSSWR-SASENPSDVKELIPEFYYLPEFFLNINKFDFGK-Q 171
Query: 694 NGQRVDSVILPPWAPDPRTFIMVHRQSLESELVSENLPHWIDLVFGYKQSGKAAVDAINV 753
+G++V+ V LPPWA P FI HR++LESE VS+NL HWIDL+FGYKQ G+ AV A NV
Sbjct: 172 DGEKVNDVELPPWAKSPEEFIRKHREALESEYVSKNLHHWIDLIFGYKQRGEEAVKAKNV 231
Query: 754 FHPATYYGFDIAAIPDPLERTAWETMIRTYGQTPRQLFKSAHP 796
FHP TY G D +ER A E I +GQTP QLF HP
Sbjct: 232 FHPLTYEGSVDLDSID-VEREAIEAQINNFGQTPVQLFTKPHP 273
>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 = 76.2 bits (188), Expect = 1e-16
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 425 TKTKKNVSPDTEGIVYRTDDIISVQFTNIKEIHNRRYNLQEKAIELFLINGKNYLFAFEN 484
++ K VS S + I+E+H RRY L+ A+E+FL +G+NY F +
Sbjct: 38 SEDGKIVSQKVLSKGEHLVFKWS--LSEIREVHKRRYLLRPTALEIFLADGRNYFLNFPS 95
Query: 485 HNDREHFLNELSTCNLPN 502
+DR+ ++L + PN
Sbjct: 96 QSDRDKVYSKLLSLLPPN 113
Score = 33.4 bits (77), Expect = 0.11
Identities = 12/40 (30%), Positives = 17/40 (42%)
Query: 307 ESVTYMCCTHLITPSKQIQGELLITSAGLKFIPFNESHNF 346
E + L+TP I G LLIT+ L F+ +
Sbjct: 1 EKILLSTNCSLVTPLDVIPGTLLITTTHLYFVDDEDDSED 40
>gnl|CDD|187865 cd09734, Csb2_I-U, CRISPR/Cas system-associated protein Csb2.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Duplicated RAMP domains; also known as GSU0054 family.
Length = 495
Score = 35.0 bits (80), Expect = 0.19
Identities = 17/58 (29%), Positives = 21/58 (36%), Gaps = 6/58 (10%)
Query: 645 PDRTFHNLATTWRLTSSESTTDVKELI-----PELFYLADILVNNEGFDFGVRQNGQR 697
P R F L TW L DV + P +F L LV N + V + R
Sbjct: 21 PWRIFQALVATWALKVDAEDKDVLNWLESLPEPPVFALPPALVANATRHY-VPRAWGR 77
>gnl|CDD|182837 PRK10918, PRK10918, phosphate ABC transporter periplasmic
substrate-binding protein PstS; Provisional.
Length = 346
Score = 33.3 bits (76), Expect = 0.43
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 18/79 (22%)
Query: 706 WAPDPRTFIMVHRQSLESELVSENLPHWIDLVFGYKQSGKAAVDAINVFHPATYYGFDIA 765
W TFI+VH+ + E +E L + D + YK K A D D A
Sbjct: 275 WPITSTTFILVHKDQKKPEQGAEVL-KFFD--WAYKNGAKQAND------------LDYA 319
Query: 766 AIPDPLE---RTAWETMIR 781
++PD + R AW+T I+
Sbjct: 320 SLPDSVVEQVRAAWKTNIK 338
>gnl|CDD|180508 PRK06281, PRK06281, putative monovalent cation/H+ antiporter
subunit B; Reviewed.
Length = 154
Score = 30.5 bits (69), Expect = 1.7
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 318 ITPSKQIQGELLITSA--------GLKFIPFNESHNFVT 348
ITP QG +I + GL+ PFN SH F++
Sbjct: 29 ITPGGGFQGGAMIAAGFILCIVVYGLEKSPFNFSHEFMS 67
>gnl|CDD|223673 COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport
system, permease component [Inorganic ion transport and
metabolism].
Length = 258
Score = 30.7 bits (70), Expect = 2.5
Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 15/75 (20%)
Query: 726 VSENLPH--WIDLV---FGYKQSGKAAVDAINVFHP---ATYYGFDIAAIPDPLERTAWE 777
V +P L FG ++ K + + F P T G + ++
Sbjct: 104 VLRPIPPLALAPLAILWFGIGETSKIVIAVLGAFFPILINTLDG--VRSVD-----PDLL 156
Query: 778 TMIRTYGQTPRQLFK 792
+ RT G + Q+ +
Sbjct: 157 ELARTLGASRWQILR 171
>gnl|CDD|193234 pfam12758, DUF3813, Protein of unknown function (DUF3813). This is
an uncharacterized family of Bacillus proteins.
Length = 63
Score = 28.0 bits (62), Expect = 3.3
Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 340 FNESHNFVTNAVTEE--FSEHEQVMSEGKN---SEEPNETGAETKRIHNAIDEVD 389
+ ++ N V N V+ +E +Q +S KN S N + AE +++ D++
Sbjct: 6 YQQAKNAVQNMVSNAGGSAEQQQAVSRAKNALESAYANSSPAERQQLRQLQDQLQ 60
>gnl|CDD|221994 pfam13230, GATase_4, Glutamine amidotransferases class-II. This
family captures members that are not found in pfam00310.
Length = 272
Score = 29.6 bits (67), Expect = 6.5
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 614 YSNSGTVLHFLVRIPPFTSMFLNYQDNNFDLPDRTFHNLATTWRLTSSESTTD 666
+++ T LH+LVR PPF + L +D + D T + +++ TD
Sbjct: 183 FAHCSTRLHYLVRRPPFGTAHLIDEDVSVDFAKVTTPEDRVA--VIATQPLTD 233
>gnl|CDD|218550 pfam05311, Baculo_PP31, Baculovirus 33KDa late protein (PP31).
Autographa californica nuclear polyhedrosis virus
(AcMNPV) pp31 is a nuclear phosphoprotein that
accumulates in the virogenic stroma, which is the viral
replication centre in the infected-cell nucleus, binds
to DNA, and serves as a late expression factor.
Length = 267
Score = 29.7 bits (67), Expect = 6.5
Identities = 12/48 (25%), Positives = 19/48 (39%)
Query: 416 VEKLNKKTTTKTKKNVSPDTEGIVYRTDDIISVQFTNIKEIHNRRYNL 463
+EKL K K+ + S ++ R IKE + +R L
Sbjct: 107 MEKLGKSIEVKSASSSSTESNPGKRRNSKRTEANVAEIKESNEKRSKL 154
>gnl|CDD|226911 COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic
ion transport and metabolism].
Length = 423
Score = 29.2 bits (66), Expect = 8.9
Identities = 27/118 (22%), Positives = 45/118 (38%), Gaps = 28/118 (23%)
Query: 160 MTHINKMIL----TRYEQLVRQITDTCIASTQQCLHRQNAVQ-------KTLLGEIKAIY 208
M N++I +E++VRQ+ + T+ L+R + + LL + +
Sbjct: 206 MVPRNEIIGIDIDDPWEEIVRQLLHS--PHTRIPLYRDDLDNIIGVLHVRDLL---RLLN 260
Query: 209 NKQLFTKDVWNRIILNLTHEKAPWYCEESYPKSWQLDDVEGPERIRIRQKRCHLYVHE 266
K FTK+ R P++ E P S QL + +K L V E
Sbjct: 261 EKNEFTKEDILRAA------DEPYFVPEGTPLSDQLV------AFQRNKKHIALVVDE 306
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
0.318 0.133 0.397
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 40,022,561
Number of extensions: 3907447
Number of successful extensions: 3317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3300
Number of HSP's successfully gapped: 40
Length of query: 803
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 698
Effective length of database: 6,280,432
Effective search space: 4383741536
Effective search space used: 4383741536
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 (21.7 bits)
S2: 63 (28.0 bits)