RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9822
(380 letters)
>gnl|CDD|200533 cd11272, Sema_plexin_A2, The Sema domain, a protein interacting
module, of Plexin A2. Plexin A2 serves as a receptor
for class 6 semaphorins. Interactions between Plexin A2,
A4 and semaphorins 6A and 6B control the
lamina-restricted projection of hippocampal mossy
fibers. Sema6B also repels the growth of mossy fibers in
a Plexin A4 dependent manner. Plexin A2 does not
suppress Sema6B function. In addition, studies have
shown that Plexin A2 may be related to anxiety and other
psychiatric disorders. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 515
Score = 36.8 bits (85), Expect = 0.016
Identities = 17/37 (45%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 93 VLGPHQAPQCP-RSCSAYTQCSTCLRHA--HCGWCAL 126
V+ Q + P SC YT C CL HCGWCAL
Sbjct: 460 VMSERQVSRVPVESCEQYTTCGECLSSGDPHCGWCAL 496
>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 = 32.7 bits (75), Expect = 0.023
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 260 CQCNGHADCAGP-DKLDVCLRCHNHTKGPQCDKCEPLYVGDPRDNGECV 307
C CNGH +G D C +T G +CD+C P Y G P G C
Sbjct: 2 CDCNGHGSLSGQCDPGTGQCECKPNTTGRRCDRCAPGYYGLPSQGGGCQ 50
>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 = 29.2 bits (66), Expect = 0.35
Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 260 CQCNGHADCAGP-DKLDVCLRCHNHTKGPQCDKCEPLYVGDPRDNGE 305
C CN H + D C G CD+C+P Y G P D G+
Sbjct: 1 CDCNPHGSLSDTCDPETGQCLCKPGVTGRHCDRCKPGYYGLPSDPGQ 47
>gnl|CDD|219496 pfam07645, EGF_CA, Calcium-binding EGF domain.
Length = 42
Score = 28.9 bits (65), Expect = 0.40
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 186 NECLNDHHTCDPQSEQCVDLADGFECVCGRGYNKSEEGGEC 226
+EC + H C P + CV+ FECVC GY +E+G C
Sbjct: 3 DECADGTHNC-PANTVCVNTIGSFECVCPDGYENNEDGTNC 42
>gnl|CDD|236543 PRK09505, malS, alpha-amylase; Reviewed.
Length = 683
Score = 31.9 bits (73), Expect = 0.57
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 321 INASLASLP-FSPESGGTSELAAFLDEGPTTRAR 353
+ SLA LP ES S L F P TRA+
Sbjct: 398 LTMSLAFLPDIKTESTQASGLPVFYANKPDTRAK 431
>gnl|CDD|216504 pfam01437, PSI, Plexin repeat. A cysteine rich repeat found in
several different extracellular receptors. The function
of the repeat is unknown. Three copies of the repeat are
found Plexin. Two copies of the repeat are found in
mahogany protein. A related C. elegans protein contains
four copies of the repeat. The Met receptor contains a
single copy of the repeat. The Pfam alignment shows 6
conserved cysteine residues that may form three
conserved disulphide bridges, whereas shows 8 conserved
cysteines. The pattern of conservation suggests that
cysteines 5 and 7 (that are not absolutely conserved)
form a disulphide bridge (Personal observation. A
Bateman).
Length = 48
Score = 27.9 bits (62), Expect = 1.3
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 9/51 (17%)
Query: 105 SCSAYTQCSTCLRHA--HCGWCALQRDTTGGMGVCTEGSLNSPSSGPESST 153
+CS YT CS+CL +CGWC+ + G CT G+ S GP S+
Sbjct: 1 NCSQYTSCSSCLAARDPYCGWCSSE-------GRCTRGTECPRSEGPSWSS 44
>gnl|CDD|176909 cd08900, SRPBCC_CalC_Aha1-like_7, Putative hydrophobic
ligand-binding SRPBCC domain of an uncharacterized
subgroup of CalC- and Aha1-like proteins. SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of a
functionally uncharacterized subgroup of CalC- and
Aha1-like proteins. This group shows similarity to the
SRPBCC domains of Micromonospora echinospora CalC (a
protein which confers resistance to enediynes) and human
Aha1 (one of several co-chaperones which regulate the
dimeric chaperone Hsp90), and belongs to the SRPBCC
domain superfamily of proteins that bind hydrophobic
ligands. SRPBCC domains have a deep hydrophobic
ligand-binding pocket and they bind diverse ligands.
Length = 143
Score = 29.6 bits (67), Expect = 1.5
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 6/40 (15%)
Query: 318 GLCINASLASLPFSPESGGT----SELAAFLD--EGPTTR 351
G ++ASLA++ F+PE GGT +E AFLD + P R
Sbjct: 87 GTLLSASLATVEFAPEGGGTRLTLTEQGAFLDGDDDPAGR 126
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 29.5 bits (67), Expect = 3.5
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 351 RARCMHCGNHTTGPKCEDC 369
R +C CG T +C C
Sbjct: 626 RRKCPSCGKETFYRRCPFC 644
>gnl|CDD|214542 smart00179, EGF_CA, Calcium-binding EGF-like domain.
Length = 39
Score = 25.7 bits (57), Expect = 5.2
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 5/42 (11%)
Query: 186 NECLNDHHTCDPQSEQCVDLADGFECVCGRGYNKSEEGGECV 227
+EC + C CV+ + C C GY +G C
Sbjct: 3 DECA-SGNPCQNGG-TCVNTVGSYRCECPPGY---TDGRNCE 39
>gnl|CDD|214655 smart00423, PSI, domain found in Plexins, Semaphorins and
Integrins.
Length = 47
Score = 26.0 bits (57), Expect = 6.1
Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 106 CSAYTQCSTCL--RHAHCGWCALQ 127
CS YT CS CL R +C WC+ Q
Sbjct: 2 CSKYTSCSECLLARDPYCAWCSSQ 25
>gnl|CDD|183263 PRK11658, PRK11658, UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate
aminotransferase; Provisional.
Length = 379
Score = 28.5 bits (64), Expect = 6.2
Identities = 15/39 (38%), Positives = 17/39 (43%), Gaps = 8/39 (20%)
Query: 328 LPFSPESGGTSELAAFLDEGPTTRARCMHCGNHTTGPKC 366
LPFS + G ELAA + G TTGPK
Sbjct: 5 LPFSRPAMGDEELAAV--------KEVLRSGWITTGPKN 35
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 28.2 bits (63), Expect = 8.9
Identities = 6/22 (27%), Positives = 9/22 (40%), Gaps = 3/22 (13%)
Query: 351 RARCMHCGNHTTGP---KCEDC 369
+ CM CG +C+ C
Sbjct: 3 KEVCMKCGKERESIYEIRCKKC 24
>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 = 24.9 bits (55), Expect = 9.7
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 186 NECLNDHHTCDPQSEQCVDLADGFECVCGRGY 217
+EC + C CV+ + C C GY
Sbjct: 3 DECA-SGNPCQNGG-TCVNTVGSYRCSCPPGY 32
>gnl|CDD|219446 pfam07519, Tannase, Tannase and feruloyl esterase. This family
includes fungal tannase and feruloyl esterase. It also
includes several bacterial homologues of unknown
function.
Length = 451
Score = 27.8 bits (62), Expect = 9.9
Identities = 21/76 (27%), Positives = 28/76 (36%), Gaps = 7/76 (9%)
Query: 233 GCVRGVCSEPDKCQCDFGYVGVNCSIQCQCNGHADCAGPDKLDVCLRCHNHTKGPQCDKC 292
G GV S+PD C+ DF +QC + C ++ V + GP
Sbjct: 193 GRADGVVSDPDLCRADFAVE----VLQCSGSNGDSCLTGAQIAVVNAIYA---GPYNSSG 245
Query: 293 EPLYVGDPRDNGECVP 308
E LY G G V
Sbjct: 246 ERLYPGWNYAGGAEVS 261
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 0.136 0.471
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,351,713
Number of extensions: 1477152
Number of successful extensions: 1211
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1198
Number of HSP's successfully gapped: 62
Length of query: 380
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 281
Effective length of database: 6,546,556
Effective search space: 1839582236
Effective search space used: 1839582236
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: 60 (26.9 bits)