RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12789
(514 letters)
>gnl|CDD|219677 pfam07974, EGF_2, EGF-like domain. This family contains EGF
domains found in a variety of extracellular proteins.
Length = 31
Score = 34.3 bits (79), Expect = 0.005
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 292 PNGCSGHGSCY--LGKCDCIDGYEGTDC 317
C+G G+C GKC C GY+G C
Sbjct: 4 SGICNGRGTCVRPCGKCVCDSGYQGATC 31
Score = 30.9 bits (70), Expect = 0.076
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 356 QYSDCSGHGSCV--EGTCHCQSGWKGIGC 382
C+G G+CV G C C SG++G C
Sbjct: 3 ASGICNGRGTCVRPCGKCVCDSGYQGATC 31
Score = 29.7 bits (67), Expect = 0.21
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 388 PNACNRHGTCAFENEEYQCVCAEGWAGVDC 417
CN GTC +CVC G+ G C
Sbjct: 4 SGICNGRGTC--VRPCGKCVCDSGYQGATC 31
Score = 27.4 bits (61), Expect = 1.6
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 325 LCSNHGK--YGGGICHCENGWKGPEC 348
+C+ G G C C++G++G C
Sbjct: 6 ICNGRGTCVRPCGKCVCDSGYQGATC 31
>gnl|CDD|113629 pfam04863, EGF_alliinase, Alliinase EGF-like domain. Allicin is a
thiosulphinate that gives rise to dithiines, allyl
sulphides and ajoenes, the three groups of active
compounds in Allium species. Allicin is synthesised from
sulfoxide cysteine derivatives by alliinase
(EC:4.4.1.4), whose C-S lyase activity cleaves
C(beta)-S(gamma) bonds. It is thought that this enzyme
forms part of a primitive plant defence system. This
family represents the N-terminal EGF-like domain.
Length = 56
Score = 29.8 bits (67), Expect = 0.37
Identities = 20/74 (27%), Positives = 28/74 (37%), Gaps = 26/74 (35%)
Query: 282 KEAEGVSSTCPNGCSGHGSCYLGKCDCIDGYEGTDCSKSVCPVLCSNHGKYGGGICHCEN 341
+EAE V++ CSGHG +L DG G IC C
Sbjct: 9 EEAEAVAAI---NCSGHGRAFL------DGI-----------------ISDGSPICECNT 42
Query: 342 GWKGPECDIPASDC 355
+ GP+C + +C
Sbjct: 43 CYTGPDCSVLIPNC 56
>gnl|CDD|225566 COG3022, COG3022, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 253
Score = 32.3 bits (74), Expect = 0.51
Identities = 15/82 (18%), Positives = 32/82 (39%), Gaps = 13/82 (15%)
Query: 90 EEAPSVVELKDFNSLISATIPSFQFWNSDFNIEQSAFFRFNFDLPRGSNFAVYGRRNVAP 149
+ S++++ D L FQ W + F + A FN D+ G +
Sbjct: 44 NQISSLMKISD--KLAGLNAQRFQDWETQFTPARQAILAFNGDVYTGLDAE--------- 92
Query: 150 SITNYDFSEFIKDNTR-TSAFF 170
+++ D +++ + R S +
Sbjct: 93 TLSEKDQ-AYLQQHLRILSGLY 113
>gnl|CDD|238010 cd00053, EGF, Epidermal growth factor domain, found in epidermal
growth factor (EGF) presents in a large number of
proteins, mostly animal; the list of proteins currently
known to contain one or more copies of an EGF-like
pattern is large and varied; the functional significance
of EGF-like domains in what appear to be unrelated
proteins is not yet clear; a common feature is that
these repeats are found in the extracellular domain of
membrane-bound proteins or in proteins known to be
secreted (exception: prostaglandin G/H synthase); the
domain includes six cysteine residues which have been
shown to be involved in disulfide bonds; the main
structure is a two-stranded beta-sheet followed by a
loop to a C-terminal short two-stranded sheet;
Subdomains between the conserved cysteines vary in
length; the region between the 5th and 6th cysteine
contains two conserved glycines of which at least one
is present in most EGF-like domains; a subset of
these bind calcium.
Length = 36
Score = 28.2 bits (63), Expect = 0.75
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 388 PNACNRHGTCAFENEEYQCVCAEGWAG 414
N C+ GTC Y+CVC G+ G
Sbjct: 5 SNPCSNGGTCVNTPGSYRCVCPPGYTG 31
>gnl|CDD|238011 cd00054, EGF_CA, Calcium-binding EGF-like domain, present in a
large number of membrane-bound and extracellular (mostly
animal) proteins. Many of these proteins require calcium
for their biological function and calcium-binding sites
have been found to be located at the N-terminus of
particular EGF-like domains; calcium-binding may be
crucial for numerous protein-protein interactions. Six
conserved core cysteines form three disulfide bridges as
in non calcium-binding EGF domains, whose structures are
very similar. EGF_CA can be found in tandem repeat
arrangements.
Length = 38
Score = 28.4 bits (64), Expect = 0.87
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 388 PNACNRHGTCAFENEE--YQCVCAEGWAGVDC 417
N C GTC N Y+C C G+ G +C
Sbjct: 8 GNPCQNGGTC--VNTVGSYRCSCPPGYTGRNC 37
Score = 26.4 bits (59), Expect = 3.5
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 356 QYSDCSGHGSCVEG----TCHCQSGWKGIGCQ 383
+ C G+CV C C G+ G C+
Sbjct: 7 SGNPCQNGGTCVNTVGSYRCSCPPGYTGRNCE 38
Score = 26.1 bits (58), Expect = 5.0
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 4/30 (13%)
Query: 292 PNGCSGHGSCYLG----KCDCIDGYEGTDC 317
N C G+C +C C GY G +C
Sbjct: 8 GNPCQNGGTCVNTVGSYRCSCPPGYTGRNC 37
>gnl|CDD|188543 TIGR04028, SBP_KPN_01854, ABC transporter substrate binding
protein, KPN_01854 family. Members of this protein
family are ABC transporter substrate-binding proteins
related to KPN_01854 from Klebsiella pneumoniae, and
occur in both Gram-positive and Gram-negative species.
This transport protein family is closely associated with
a putative FMN-dependent luciferase-like monooxygenase
of unknown function (TIGR04027), as well as with the
other proteins of its transporter complex [Transport and
binding proteins, Unknown substrate].
Length = 509
Score = 32.0 bits (73), Expect = 0.94
Identities = 21/78 (26%), Positives = 28/78 (35%), Gaps = 16/78 (20%)
Query: 138 NFAVYGRRN------VAPSITNYDFSEFIKDNTRTSAFFRFNFDLPRGSNFA----VYGR 187
NF +YG + V+ I NYD SE + T +F F P F V
Sbjct: 86 NFDLYGLGDKDRKLTVSEVINNYDRSEVVDPLT-----VKFYFSKP-SPGFLQGTSVINS 139
Query: 188 RNVAPSITNYDFSEFIKG 205
V+ + F F G
Sbjct: 140 GLVSLATLALPFEGFGPG 157
>gnl|CDD|215652 pfam00008, EGF, EGF-like domain. There is no clear separation
between noise and signal. pfam00053 is very similar, but
has 8 instead of 6 conserved cysteines. Includes some
cytokine receptors. The EGF domain misses the N-terminus
regions of the Ca2+ binding EGF domains (this is the
main reason of discrepancy between swiss-prot domain
start/end and Pfam). The family is hard to model due to
many similar but different sub-types of EGF domains.
Pfam certainly misses a number of EGF domains.
Length = 32
Score = 27.4 bits (61), Expect = 1.5
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 391 CNRHGTCAFENEEYQCVCAEGWAG 414
C+ GTC Y C C EG+ G
Sbjct: 7 CSNGGTCVDTPGGYTCECPEGYTG 30
Score = 26.6 bits (59), Expect = 2.7
Identities = 10/25 (40%), Positives = 13/25 (52%), Gaps = 4/25 (16%)
Query: 360 CSGHGSCVEG----TCHCQSGWKGI 380
CS G+CV+ TC C G+ G
Sbjct: 7 CSNGGTCVDTPGGYTCECPEGYTGK 31
>gnl|CDD|221873 pfam12955, DUF3844, Domain of unknown function (DUF3844). This
presumed domain is found in fungal species. It contains
8 largely conserved cysteine residues. This domain is
found in proteins that are thought to be found in the
endoplasmic reticulum.
Length = 103
Score = 29.2 bits (66), Expect = 1.6
Identities = 10/20 (50%), Positives = 10/20 (50%), Gaps = 4/20 (20%)
Query: 293 NGCSGHGSCYL----GKCDC 308
N CSGHGSC DC
Sbjct: 13 NSCSGHGSCVKKSKSKGGDC 32
>gnl|CDD|236544 PRK09506, mrcB, bifunctional glycosyl transferase/transpeptidase;
Reviewed.
Length = 830
Score = 30.1 bits (68), Expect = 3.2
Identities = 12/44 (27%), Positives = 16/44 (36%)
Query: 432 DKDGVTDCSDSDCCSQPVCSDQPHIMCLASNDPVEVLLRKQPPS 475
D DG C PV +D P +C S + +Q P
Sbjct: 765 DYDGNFVCGSGGMRVLPVWTDDPQSLCQQSEMQQQPSQPQQQPQ 808
>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional.
Length = 593
Score = 30.2 bits (68), Expect = 3.2
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 6/73 (8%)
Query: 98 LKDFNSLISATIPSFQFWNSD-FNIEQSAFFRFNFDLPRGSNFAVYGRRNVAPSITNYDF 156
L+ N+L P F + D ++ S F F N + + ++ +I DF
Sbjct: 444 LETLNNLKIRPYPKFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTF---DLRYAIR--DF 498
Query: 157 SEFIKDNTRTSAF 169
+ I + +
Sbjct: 499 VDIINNWPEMEKY 511
>gnl|CDD|215680 pfam00053, Laminin_EGF, Laminin EGF-like (Domains III and V). This
family is like pfam00008 but has 8 conserved cysteines
instead of six.
Length = 49
Score = 26.9 bits (60), Expect = 3.7
Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 6/29 (20%)
Query: 295 CSGHGS----CYL--GKCDCIDGYEGTDC 317
C+ HGS C G+C C G G C
Sbjct: 3 CNPHGSLSDTCDPETGQCLCKPGVTGRHC 31
>gnl|CDD|201923 pfam01683, EB, EB module. This domain has no known function. It is
found in several C. elegans proteins. The domain
contains 8 conserved cysteines that probably form four
disulphide bridges. This domain is found associated with
kunitz domains pfam00014.
Length = 52
Score = 27.0 bits (60), Expect = 3.7
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 351 PASDCQYSD-CSGHGSCVEGTCHCQSG 376
P C+Y + C G C+ GTC C G
Sbjct: 18 PGESCEYDEQCQGGSVCINGTCQCPEG 44
>gnl|CDD|218410 pfam05065, Phage_capsid, Phage capsid family. Family of
bacteriophage hypothetical proteins and capsid proteins.
Length = 240
Score = 29.3 bits (66), Expect = 4.2
Identities = 8/48 (16%), Positives = 15/48 (31%)
Query: 137 SNFAVYGRRNVAPSITNYDFSEFIKDNTRTSAFFRFNFDLPRGSNFAV 184
S + + R V ++ F K+ A R + + F
Sbjct: 190 SAYIIVDREGVTVERLRDPYTAFEKNQVGFRATERVDGAVVDPEAFKK 237
>gnl|CDD|214544 smart00181, EGF, Epidermal growth factor-like domain.
Length = 35
Score = 26.3 bits (58), Expect = 4.3
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 394 HGTCAFENEEYQCVCAEGWAGV 415
+GTC Y C C G+ G
Sbjct: 10 NGTCINTPGSYTCSCPPGYTGD 31
>gnl|CDD|235493 PRK05481, PRK05481, lipoyl synthase; Provisional.
Length = 289
Score = 29.3 bits (67), Expect = 4.6
Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 382 CQEAGCPNA--CNRHGTCAF 399
C+EA CPN C GT F
Sbjct: 37 CEEASCPNIGECWSRGTATF 56
>gnl|CDD|193537 cd05661, M28_like_PA_2, M28 Zn-Peptidases containing a PA domain
insert. Peptidase family M28 (also called
aminopeptidase Y family), uncharacterized subfamily.
The M28 family contains aminopeptidases as well as
carboxypeptidases. They have co-catalytic zinc ions;
each zinc ion is tetrahedrally co-ordinated, with three
amino acid ligands plus activated water; one aspartate
residue binds both metal ions. This subfamily is
composed of uncharacterized proteins containing a
protease-associated (PA) domain insert which may
participate in substrate binding and/or promote
conformational changes, influencing the stability and
accessibility of the site to substrate.
Length = 305
Score = 28.8 bits (65), Expect = 7.7
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 28 PSVTASFYQRVKFLVEENSVQS 49
P+ +YQ V F E V S
Sbjct: 45 PAGDDGYYQPVPFQEEHEDVTS 66
Score = 28.8 bits (65), Expect = 7.7
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 474 PSVTASFYQRVKFLVEENSVQS 495
P+ +YQ V F E V S
Sbjct: 45 PAGDDGYYQPVPFQEEHEDVTS 66
>gnl|CDD|238012 cd00055, EGF_Lam, Laminin-type epidermal growth factor-like domain;
laminins are the major noncollagenous components of
basement membranes that mediate cell adhesion, growth
migration, and differentiation; the laminin-type
epidermal growth factor-like module occurs in tandem
arrays; the domain contains 4 disulfide bonds (loops
a-d) the first three resemble epidermal growth factor
(EGF); the number of copies of this domain in the
different forms of laminins is highly variable ranging
from 3 up to 22 copies.
Length = 50
Score = 25.8 bits (57), Expect = 9.4
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 6/31 (19%)
Query: 295 CSGHGS----CYL--GKCDCIDGYEGTDCSK 319
C+GHGS C G+C+C G C +
Sbjct: 4 CNGHGSLSGQCDPGTGQCECKPNTTGRRCDR 34
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 0.428
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,880,265
Number of extensions: 2294622
Number of successful extensions: 1790
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1775
Number of HSP's successfully gapped: 58
Length of query: 514
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 413
Effective length of database: 6,457,848
Effective search space: 2667091224
Effective search space used: 2667091224
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: 61 (27.5 bits)