RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12980
(609 letters)
>gnl|CDD|147567 pfam05454, DAG1, Dystroglycan (Dystrophin-associated glycoprotein
1). Dystroglycan is one of the dystrophin-associated
glycoproteins, which is encoded by a 5.5 kb transcript
in human. The protein product is cleaved into two
non-covalently associated subunits, [alpha] (N-terminal)
and [beta] (C-terminal). In skeletal muscle the
dystroglycan complex works as a transmembrane linkage
between the extracellular matrix and the cytoskeleton.
[alpha]-dystroglycan is extracellular and binds to
merosin ([alpha]-2 laminin) in the basement membrane,
while [beta]-dystroglycan is a transmembrane protein and
binds to dystrophin, which is a large rod-like
cytoskeletal protein, absent in Duchenne muscular
dystrophy patients. Dystrophin binds to intracellular
actin cables. In this way, the dystroglycan complex,
which links the extracellular matrix to the
intracellular actin cables, is thought to provide
structural integrity in muscle tissues. The dystroglycan
complex is also known to serve as an agrin receptor in
muscle, where it may regulate agrin-induced
acetylcholine receptor clustering at the neuromuscular
junction. There is also evidence which suggests the
function of dystroglycan as a part of the signal
transduction pathway because it is shown that Grb2, a
mediator of the Ras-related signal pathway, can interact
with the cytoplasmic domain of dystroglycan. In general,
aberrant expression of dystrophin-associated protein
complex underlies the pathogenesis of Duchenne muscular
dystrophy, Becker muscular dystrophy and severe
childhood autosomal recessive muscular dystrophy.
Interestingly, no genetic disease has been described for
either [alpha]- or [beta]-dystroglycan. Dystroglycan is
widely distributed in non-muscle tissues as well as in
muscle tissues. During epithelial morphogenesis of
kidney, the dystroglycan complex is shown to act as a
receptor for the basement membrane. Dystroglycan
expression in mouse brain and neural retina has also
been reported. However, the physiological role of
dystroglycan in non-muscle tissues has remained unclear.
Length = 290
Score = 150 bits (381), Expect = 3e-41
Identities = 92/286 (32%), Positives = 136/286 (47%), Gaps = 37/286 (12%)
Query: 343 AFLEKLAGLFGDRNASKIV--NIEFEDNPQEPGKSTVVRWANRTLASNVECPETTIGLLR 400
++KLA FGDRN+S I +I S +V W N TL CP+ + +L
Sbjct: 23 LLVKKLAFAFGDRNSSTITLRSIT--------KGSIIVEWTNNTLPHE-PCPKEQVAMLS 73
Query: 401 EVLLTEDDLLQESLVTSLEKDYGVKHASVIPTGICEGLK-TPLHTPGV--ERKPAYSGKN 457
+ +L D +E+ +LE ++ + + SV+ TG C + P + R P +
Sbjct: 74 KKILDSDGSPREAFKNALEPEFKLTNISVVGTGSCRHTEFIPTNPLDYIPSRTPPTGTPD 133
Query: 458 TPANASVE---YLITFVAPLVVIVIMLLCAALIACLLYRRRHTGKMSVGNGVDSGILIRS 514
P S E YL T + +VV I+L+ A +IA + YR++ GK+++ +
Sbjct: 134 RPPEKSSEDDVYLHTVIPAVVVAAILLI-AGIIAMICYRKKRKGKLTL----EDQATFIK 188
Query: 515 KGIPVIFQDELEERLEVSSGTKSPIILKEEKPPLPPPEYNRDKNDFSRDKNDYSRSQPNA 574
KG+P+IF DEL++ + + P+ILKEEKPPLPPPEY + N +
Sbjct: 189 KGVPIIFADELDDS-KPPPSSSMPLILKEEKPPLPPPEYPNQNVPETTPLNQDLLGE--- 244
Query: 575 TTALLSDIDDTSPYHPPPPI---------RP--APTYRLPPPYSPP 609
T L + + PY PPPP RP YR PPPY PP
Sbjct: 245 YTPLRDEDPNAPPYQPPPPFTTPMEGKGSRPKNMTPYRSPPPYVPP 290
Score = 40.8 bits (95), Expect = 0.001
Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 3/76 (3%)
Query: 21 NSSYITVRSVVTNKEPYVFTYTNESLPRNECPTAQINNLLEVISNTTTGQAKPVLTRALG 80
NSS IT+RS+ K + +TN +LP CP Q+ L + I + + G + AL
Sbjct: 36 NSSTITLRSI--TKGSIIVEWTNNTLPHEPCPKEQVAMLSKKILD-SDGSPREAFKNALE 92
Query: 81 RLMTVKNITWRGIGHC 96
+ NI+ G G C
Sbjct: 93 PEFKLTNISVVGTGSC 108
>gnl|CDD|206636 cd11303, Dystroglycan_repeat, Cadherin-like repeat domain of alpha
dystroglycan. Dystroglycan is a glycoprotein widely
distributed in skeletal muscle and other tissues; the
pre-protein is cleaved into two subunits (alpha and
beta) that form a complex which links the extracellular
matrix to the cytoskeleton. Cadherin-like dystroglycan
repeats are present in the extracellular
alpha-dystroglycan subunit, which binds to the
alpha-2-laminin G-domain in the basement membrane as
part of the dystrophin-dystroglycan-complex (DGC). DGC
has been shown to interact with other etxtracellular
matrix components as well, such as perlecan and m-agrin,
suggesting that the complex may play various different
roles depending on the extracellular ligand.
Length = 99
Score = 56.2 bits (136), Expect = 5e-10
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 11/100 (11%)
Query: 220 IDHLEAISGELLVYHVPEDTFFDHEDGGTRKLKLHLMTMDRTTIPPTHWLQFDAKNQEFY 279
I L A+ G L Y +P DTF + D ++ + +P WLQFD+ ++ Y
Sbjct: 6 IPDLVAVVGRLFTYKIPPDTFSGNGD----TYQVSEA--GKDDLP--SWLQFDSSSRTLY 57
Query: 280 GIPQLTDLGRREYQLVC--KDSNGLMANDGLEVIVKSPGP 317
G+P D+G + K S G A+D I P P
Sbjct: 58 GLPLSDDVGVHYISVTAEDKGSAGSQASDVF-SIDVHPEP 96
Score = 28.1 bits (63), Expect = 4.9
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 4/37 (10%)
Query: 120 IDHLEAISGELLVYHVPEDTFFDHEDGGTRKLKLHLM 156
I L A+ G L Y +P DTF + D ++
Sbjct: 6 IPDLVAVVGRLFTYKIPPDTFSGNGD----TYQVSEA 38
>gnl|CDD|214795 smart00736, CADG, Dystroglycan-type cadherin-like domains.
Cadherin-homologous domains present in metazoan
dystroglycans and alpha/epsilon sarcoglycans, yeast
Axl2p and in a very large protein from magnetotactic
bacteria. Likely to bind calcium ions.
Length = 97
Score = 53.5 bits (129), Expect = 6e-09
Identities = 31/101 (30%), Positives = 43/101 (42%), Gaps = 5/101 (4%)
Query: 218 NPIDHLEAISGELLVYHVPEDTFFDHEDGGTRKLKLHLMTMDRTTIPPTHWLQFDAKNQE 277
N I A GE Y +P TF D DG T L D + +P WL FD+
Sbjct: 2 NAIGDQTATEGESFSYTIPSSTFTDA-DGDT--LTYSATLSDGSALP--SWLSFDSDTGT 56
Query: 278 FYGIPQLTDLGRREYQLVCKDSNGLMANDGLEVIVKSPGPA 318
G P +D+G ++ DS+G A+D + V + A
Sbjct: 57 LSGTPTNSDVGSLSLKVTATDSSGASASDTFTITVVNTNDA 97
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 33.4 bits (77), Expect = 0.35
Identities = 20/96 (20%), Positives = 29/96 (30%), Gaps = 8/96 (8%)
Query: 520 IFQDELEERLEVSSGT------KSPIILKEEKPPLPPPEYNRDKNDFSRDKNDYSRSQPN 573
+ ++ LE SG+ P K PP P P + +
Sbjct: 501 VLGRSIKLNLESQSGSASNTAKTPPPPQKSPPPPAPTPPLPQPTAT-APPPTPPPPPPTA 559
Query: 574 ATTALLSDIDDTSPYHPPPPIRPAPTYRLPPPYSPP 609
+ + + PPPPI PT P S P
Sbjct: 560 TQASSNAPAQIPADSSPPPPIPEEPT-PSPTKDSSP 594
>gnl|CDD|206533 pfam14365, DUF4409, Domain of unknown function (DUF4409).
Length = 117
Score = 29.9 bits (68), Expect = 1.2
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 7/44 (15%)
Query: 388 NVECPETTIGLLREVLLTEDDLLQESLVTSLEKDYGVKHASVIP 431
N ECPE T+ + R T++DLL+ S V K +G K +P
Sbjct: 60 NGECPEGTVPIRRT---TKEDLLRASSV----KRFGKKKRRSVP 96
>gnl|CDD|172744 PRK14256, PRK14256, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 252
Score = 30.7 bits (69), Expect = 1.8
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 7/46 (15%)
Query: 345 LEKLAGLFGDRNASKIVNIEFEDN-------PQEPGKSTVVRWANR 383
LE+L FG +A K V+++F +N P GKSTV+R NR
Sbjct: 7 LEQLNVHFGKNHAVKDVSMDFPENSVTAIIGPSGCGKSTVLRSINR 52
>gnl|CDD|226746 COG4296, COG4296, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 156
Score = 30.2 bits (68), Expect = 1.8
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 10/73 (13%)
Query: 71 AKPVLTRALGRLMTVKNITWRGIGHCEDSPPPPVVKVKLENQVPLIRNPIDHLEAISGEL 130
KP L A+ +L+T+KN W +P ++ LEN ++ P GE
Sbjct: 75 DKPGLRYAVAKLLTLKNEDWLEEDEQPITPESFKERMALEN---VMLYP-------DGEA 124
Query: 131 LVYHVPEDTFFDH 143
Y+ D F H
Sbjct: 125 EFYYSDGDLFAGH 137
Score = 30.2 bits (68), Expect = 1.8
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 10/73 (13%)
Query: 171 AKPVLTRALGRLMTVKNITWRGIGHCEDSPPPPVVKVKLENQVPLIRNPIDHLEAISGEL 230
KP L A+ +L+T+KN W +P ++ LEN ++ P GE
Sbjct: 75 DKPGLRYAVAKLLTLKNEDWLEEDEQPITPESFKERMALEN---VMLYP-------DGEA 124
Query: 231 LVYHVPEDTFFDH 243
Y+ D F H
Sbjct: 125 EFYYSDGDLFAGH 137
>gnl|CDD|151532 pfam11087, DUF2881, Protein of unknown function (DUF2881). This
viral family of proteins has no known function. Some
members are annotated as p34 however this cannot be
confirmed.
Length = 54
Score = 27.9 bits (62), Expect = 1.8
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 470 FVAPLVVIVIMLLCAALIACLLYRRRHT-GKMSVGNGVDSGILIRSKGIPVI 520
F P++ I+ ++ A+IA ++ + +T G + +G S IL S P+I
Sbjct: 4 FGGPIITILTAIIGVAIIAVIVSQNSNTAGVIKAASGGFSNIL-GSALAPII 54
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 315
Score = 30.0 bits (68), Expect = 3.1
Identities = 14/67 (20%), Positives = 19/67 (28%)
Query: 543 EEKPPLPPPEYNRDKNDFSRDKNDYSRSQPNATTALLSDIDDTSPYHPPPPIRPAPTYRL 602
D + S +D S P + D +SP P P+
Sbjct: 163 VATTNSDNSFPGEDADPASASPSDPPSSSPGVPSFPSPPEDPSSPSDSSLPPAPSSFQSD 222
Query: 603 PPPYSPP 609
PP SP
Sbjct: 223 TPPPSPE 229
>gnl|CDD|218842 pfam05987, DUF898, Bacterial protein of unknown function (DUF898).
This family consists of several bacterial proteins of
unknown function. Some of the family members are
described as putative membrane proteins.
Length = 339
Score = 29.9 bits (68), Expect = 3.6
Identities = 12/42 (28%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 466 YLITFVAPLVVIVIMLLCAALIACLLYR-RRHTGKMSVGNGV 506
Y+ ++PL+ +V++LL AL+ L+ R R + + G+
Sbjct: 80 YIAVQLSPLLGLVLLLLFLALLPWLIVRALRFRARRTSWRGI 121
>gnl|CDD|218549 pfam05308, Mito_fiss_reg, Mitochondrial fission regulator. In
eukaryotes, this family of proteins induces
mitochondrial fission.
Length = 248
Score = 29.7 bits (67), Expect = 3.9
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 570 SQPNATTALLSDIDDTSPYH-----PPPPIRPAPTYRLPPPYSPP 609
Q N+TT+ L D++ P P P P +PPP PP
Sbjct: 146 EQSNSTTSDLLSSDESVPSSSTTSFPISPPTEEPVLEVPPPPPPP 190
>gnl|CDD|220815 pfam10577, UPF0560, Uncharacterized protein family UPF0560. This
family of proteins has no known function.
Length = 805
Score = 29.8 bits (67), Expect = 5.4
Identities = 16/76 (21%), Positives = 24/76 (31%), Gaps = 6/76 (7%)
Query: 537 SPIILKEEKPPLPPPEYNR------DKNDFSRDKNDYSRSQPNATTALLSDIDDTSPYHP 590
KEE L EY R + + + +Q + + I S P
Sbjct: 395 RSGEQKEEYSKLETEEYRRGYGTVESSSLENHRDSFGLANQNHYSAPPTVSIQPPSGPVP 454
Query: 591 PPPIRPAPTYRLPPPY 606
P P + + PP Y
Sbjct: 455 PKPEKEVLSDSRPPDY 470
>gnl|CDD|224799 COG1887, TagB, Putative glycosyl/glycerophosphate transferases
involved in teichoic acid biosynthesis
TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer
membrane].
Length = 388
Score = 29.3 bits (66), Expect = 6.1
Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 4/61 (6%)
Query: 97 EDSPPPPVVKVKLENQVPLIRNPIDHLEAISGELLVYHVPEDTFFDHEDGGTRKLKLHLM 156
+ P VV E Q LI + E + +L V D F +EDG + + L L+
Sbjct: 329 KFEAPGEVV----ETQEELIDAIKPYDEDGNYDLEKLRVFNDKFNSYEDGRSSERILKLI 384
Query: 157 T 157
Sbjct: 385 F 385
Score = 29.3 bits (66), Expect = 6.1
Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 4/61 (6%)
Query: 197 EDSPPPPVVKVKLENQVPLIRNPIDHLEAISGELLVYHVPEDTFFDHEDGGTRKLKLHLM 256
+ P VV E Q LI + E + +L V D F +EDG + + L L+
Sbjct: 329 KFEAPGEVV----ETQEELIDAIKPYDEDGNYDLEKLRVFNDKFNSYEDGRSSERILKLI 384
Query: 257 T 257
Sbjct: 385 F 385
>gnl|CDD|223629 COG0555, CysU, ABC-type sulfate transport system, permease
component [Posttranslational modification, protein
turnover, chaperones].
Length = 274
Score = 29.1 bits (66), Expect = 6.5
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 466 YLITFVAPLVVIVIMLLCAALIACLLYRRRHTGK 499
+T + ++ L+ +A +L R GK
Sbjct: 59 LKLTLLTAFAATLLNLVFGLPLAWVLVRYDFPGK 92
>gnl|CDD|165471 PHA03204, PHA03204, uracil DNA glycosylase; Provisional.
Length = 322
Score = 29.2 bits (65), Expect = 6.7
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 2/57 (3%)
Query: 522 QDELEERLEVSSGTKSPIILKEEKPPLPPPEY--NRDKNDFSRDKNDYSRSQPNATT 576
+L+ E K +P PPP + R K+D S D + S Q N T
Sbjct: 30 HPDLKRCAEPPMVEGLGRPKKRRRPEGPPPGFIPARTKSDKSCDGGEESSHQCNVET 86
>gnl|CDD|239485 cd03391, PAP2_containing_2_like, PAP2, subfamily similar to human
phosphatidic_acid_phosphatase_type_2_domain_containing_2
. PAP2 is a super-family of phosphatases and
haloperoxidases. This subgroup, which is specific to
eukaryota, lacks functional characterization and may act
as a membrane-associated phosphatidic acid phosphatase.
Length = 159
Score = 28.1 bits (63), Expect = 8.1
Identities = 11/39 (28%), Positives = 16/39 (41%)
Query: 307 GLEVIVKSPGPAYYSASFSLTLARPSSTFAQPAAQRAFL 345
L+ +V+ PAY S +A +F A RA
Sbjct: 65 ILKALVRRRRPAYNSPDMLDYVAVDKYSFPSGHASRAAF 103
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
0.317 0.136 0.407
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 31,789,853
Number of extensions: 3153261
Number of successful extensions: 3354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3325
Number of HSP's successfully gapped: 45
Length of query: 609
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 506
Effective length of database: 6,369,140
Effective search space: 3222784840
Effective search space used: 3222784840
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: 62 (27.7 bits)