RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14221
(546 letters)
>gnl|CDD|214543 smart00180, EGF_Lam, Laminin-type epidermal growth factor-like
domai.
Length = 46
Score = 56.6 bits (137), Expect = 1e-10
Identities = 23/46 (50%), Positives = 30/46 (65%)
Query: 390 CECNAVGSVNNSCDQITGQCVCRKGVTGRTCDKCRPDYFGFSVNGC 435
C+C+ GS + +CD TGQC C+ VTGR CD+C P Y+G GC
Sbjct: 1 CDCDPGGSASGTCDPDTGQCECKPNVTGRRCDRCAPGYYGDGPPGC 46
Score = 53.5 bits (129), Expect = 1e-09
Identities = 23/46 (50%), Positives = 30/46 (65%)
Query: 342 CNCNRDGSLHFSCDVHTGQCSCKPNMTGLACDQCTEGHWGLQELGC 387
C+C+ GS +CD TGQC CKPN+TG CD+C G++G GC
Sbjct: 1 CDCDPGGSASGTCDPDTGQCECKPNVTGRRCDRCAPGYYGDGPPGC 46
Score = 50.4 bits (121), Expect = 1e-08
Identities = 24/48 (50%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 292 CDCDPLGTLSVPQPCHPVSGTCYCQPGVTGDRCDQCDTGYWNFTVNGC 339
CDCDP G S C P +G C C+P VTG RCD+C GY+ GC
Sbjct: 1 CDCDPGG--SASGTCDPDTGQCECKPNVTGRRCDRCAPGYYGDGPPGC 46
Score = 44.6 bits (106), Expect = 2e-06
Identities = 17/38 (44%), Positives = 24/38 (63%)
Query: 131 CNCSPYGSVSDECHEESGQCNCRIGITGRDCSQCEPRH 168
C+C P GS S C ++GQC C+ +TGR C +C P +
Sbjct: 1 CDCDPGGSASGTCDPDTGQCECKPNVTGRRCDRCAPGY 38
Score = 40.0 bits (94), Expect = 8e-05
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 253 CECNTSGSLGDECDSISGQCQCKENRAGRTCN 284
C+C+ GS CD +GQC+CK N GR C+
Sbjct: 1 CDCDPGGSASGTCDPDTGQCECKPNVTGRRCD 32
Score = 36.1 bits (84), Expect = 0.002
Identities = 19/37 (51%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 212 GGPCDASTGECVQCRGNTEGARCERCKPLYYGDPRTG 248
G CD TG+C +C+ N G RC+RC P YYGD G
Sbjct: 10 SGTCDPDTGQC-ECKPNVTGRRCDRCAPGYYGDGPPG 45
Score = 30.4 bits (69), Expect = 0.22
Identities = 15/42 (35%), Positives = 20/42 (47%)
Query: 437 ECASCEQSGMVCSEESGQCVCPPLTRGDLCIQCAPNSYGYRP 478
+C + C ++GQC C P G C +CAP YG P
Sbjct: 2 DCDPGGSASGTCDPDTGQCECKPNVTGRRCDRCAPGYYGDGP 43
>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 = 54.7 bits (132), Expect = 5e-10
Identities = 22/46 (47%), Positives = 28/46 (60%)
Query: 389 SCECNAVGSVNNSCDQITGQCVCRKGVTGRTCDKCRPDYFGFSVNG 434
C+CN GS++ CD TGQC C+ TGR CD+C P Y+G G
Sbjct: 1 PCDCNGHGSLSGQCDPGTGQCECKPNTTGRRCDRCAPGYYGLPSQG 46
Score = 54.3 bits (131), Expect = 8e-10
Identities = 25/46 (54%), Positives = 29/46 (63%)
Query: 341 SCNCNRDGSLHFSCDVHTGQCSCKPNMTGLACDQCTEGHWGLQELG 386
C+CN GSL CD TGQC CKPN TG CD+C G++GL G
Sbjct: 1 PCDCNGHGSLSGQCDPGTGQCECKPNTTGRRCDRCAPGYYGLPSQG 46
Score = 50.8 bits (122), Expect = 1e-08
Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 291 PCDCDPLGTLSVPQPCHPVSGTCYCQPGVTGDRCDQCDTGYWNFTVNG 338
PCDC+ G+LS C P +G C C+P TG RCD+C GY+ G
Sbjct: 1 PCDCNGHGSLS--GQCDPGTGQCECKPNTTGRRCDRCAPGYYGLPSQG 46
Score = 46.6 bits (111), Expect = 4e-07
Identities = 17/39 (43%), Positives = 26/39 (66%)
Query: 130 PCNCSPYGSVSDECHEESGQCNCRIGITGRDCSQCEPRH 168
PC+C+ +GS+S +C +GQC C+ TGR C +C P +
Sbjct: 1 PCDCNGHGSLSGQCDPGTGQCECKPNTTGRRCDRCAPGY 39
Score = 41.2 bits (97), Expect = 3e-05
Identities = 18/33 (54%), Positives = 23/33 (69%)
Query: 252 PCECNTSGSLGDECDSISGQCQCKENRAGRTCN 284
PC+CN GSL +CD +GQC+CK N GR C+
Sbjct: 1 PCDCNGHGSLSGQCDPGTGQCECKPNTTGRRCD 33
Score = 39.3 bits (92), Expect = 1e-04
Identities = 24/48 (50%), Positives = 28/48 (58%), Gaps = 6/48 (12%)
Query: 207 PCSCGG-----GPCDASTGECVQCRGNTEGARCERCKPLYYGDPRTGD 249
PC C G G CD TG+C +C+ NT G RC+RC P YYG P G
Sbjct: 1 PCDCNGHGSLSGQCDPGTGQC-ECKPNTTGRRCDRCAPGYYGLPSQGG 47
Score = 30.8 bits (70), Expect = 0.14
Identities = 15/24 (62%), Positives = 16/24 (66%)
Query: 103 PGYTGPLCDRCAYGYFGFPSQPNG 126
P TG CDRCA GY+G PSQ G
Sbjct: 25 PNTTGRRCDRCAPGYYGLPSQGGG 48
Score = 30.8 bits (70), Expect = 0.17
Identities = 17/41 (41%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 444 SGMVCSEESGQCVCPPLTRGDLCIQCAPNSYGY-RPLLGCQ 483
C +GQC C P T G C +CAP YG GCQ
Sbjct: 10 LSGQCDPGTGQCECKPNTTGRRCDRCAPGYYGLPSQGGGCQ 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 = 53.5 bits (129), Expect = 1e-09
Identities = 24/49 (48%), Positives = 35/49 (71%)
Query: 390 CECNAVGSVNNSCDQITGQCVCRKGVTGRTCDKCRPDYFGFSVNGCTEC 438
C+CN GS++++CD TGQC+C+ GVTGR CD+C+P Y+G + C
Sbjct: 1 CDCNPHGSLSDTCDPETGQCLCKPGVTGRHCDRCKPGYYGLPSDPGQGC 49
Score = 51.2 bits (123), Expect = 8e-09
Identities = 24/49 (48%), Positives = 30/49 (61%)
Query: 342 CNCNRDGSLHFSCDVHTGQCSCKPNMTGLACDQCTEGHWGLQELGCASC 390
C+CN GSL +CD TGQC CKP +TG CD+C G++GL C
Sbjct: 1 CDCNPHGSLSDTCDPETGQCLCKPGVTGRHCDRCKPGYYGLPSDPGQGC 49
Score = 49.3 bits (118), Expect = 4e-08
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 292 CDCDPLGTLSVPQPCHPVSGTCYCQPGVTGDRCDQCDTGYWNFTVNGCTSC 342
CDC+P G S+ C P +G C C+PGVTG CD+C GY+ + C
Sbjct: 1 CDCNPHG--SLSDTCDPETGQCLCKPGVTGRHCDRCKPGYYGLPSDPGQGC 49
Score = 42.0 bits (99), Expect = 1e-05
Identities = 20/38 (52%), Positives = 30/38 (78%)
Query: 131 CNCSPYGSVSDECHEESGQCNCRIGITGRDCSQCEPRH 168
C+C+P+GS+SD C E+GQC C+ G+TGR C +C+P +
Sbjct: 1 CDCNPHGSLSDTCDPETGQCLCKPGVTGRHCDRCKPGY 38
Score = 39.3 bits (92), Expect = 1e-04
Identities = 17/32 (53%), Positives = 20/32 (62%)
Query: 253 CECNTSGSLGDECDSISGQCQCKENRAGRTCN 284
C+CN GSL D CD +GQC CK GR C+
Sbjct: 1 CDCNPHGSLSDTCDPETGQCLCKPGVTGRHCD 32
Score = 38.1 bits (89), Expect = 4e-04
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 212 GGPCDASTGECVQCRGNTEGARCERCKPLYYGDPRT 247
CD TG+C C+ G C+RCKP YYG P
Sbjct: 10 SDTCDPETGQC-LCKPGVTGRHCDRCKPGYYGLPSD 44
Score = 30.0 bits (68), Expect = 0.31
Identities = 15/26 (57%), Positives = 16/26 (61%)
Query: 103 PGYTGPLCDRCAYGYFGFPSQPNGSC 128
PG TG CDRC GY+G PS P C
Sbjct: 24 PGVTGRHCDRCKPGYYGLPSDPGQGC 49
Score = 29.2 bits (66), Expect = 0.60
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 448 CSEESGQCVCPPLTRGDLCIQCAPNSYGYRP 478
C E+GQC+C P G C +C P YG
Sbjct: 13 CDPETGQCLCKPGVTGRHCDRCKPGYYGLPS 43
Score = 27.3 bits (61), Expect = 2.7
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 17 NVEGRQCDQCRPGSFSLSADNLAGC 41
V GR CD+C+PG + L +D GC
Sbjct: 25 GVTGRHCDRCKPGYYGLPSDPGQGC 49
>gnl|CDD|214597 smart00281, LamB, Laminin B domain.
Length = 127
Score = 37.2 bits (87), Expect = 0.005
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 8/56 (14%)
Query: 58 QYTGNRIGSYSLNLEFSVSWIVMRGDTSGIPTQVPDIIL-----IMRVREPGYTGP 108
Q+ G+++ SY L +++S+ RG T PD+IL + G P
Sbjct: 12 QFLGDKVTSYGGKLRYTLSFDGRRGGTHV---SAPDVILEGNGLRISHPAEGPPLP 64
>gnl|CDD|189364 pfam00052, Laminin_B, Laminin B (Domain IV).
Length = 135
Score = 32.4 bits (74), Expect = 0.24
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 5/39 (12%)
Query: 58 QYTGNRIGSYSLNLEFSVSWIVMRGDTSGIPTQVPDIIL 96
++ G+++ +Y L++SV++ D G PD+IL
Sbjct: 7 KFLGDQVTAYGGKLKYSVAF-----DGVGTSNSEPDVIL 40
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 33.6 bits (78), Expect = 0.27
Identities = 16/29 (55%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 175 CASC--EDGYIGDHCESCDAGYYGNPTEL 201
C C ED Y GD+CE C A Y +PTEL
Sbjct: 142 CPKCGAEDQY-GDNCEVCGATY--SPTEL 167
>gnl|CDD|241451 cd13297, PH3_MyoX-like, Myosin X-like Pleckstrin homology (PH)
domain, repeat 3. MyoX, a MyTH-FERM myosin, is a
molecular motor that has crucial functions in the
transport and/or tethering of integrins in the
actin-based extensions known as filopodia, microtubule
binding, and in netrin-mediated axon guidance. It
functions as a dimer. MyoX walks on bundles of actin,
rather than single filaments, unlike the other
unconventional myosins. MyoX is present in organisms
ranging from humans to choanoflagellates, but not in
Drosophila and Caenorhabditis elegans.MyoX consists of a
N-terminal motor/head region, a neck made of 3 IQ
motifs, and a tail consisting of a coiled-coil domain, a
PEST region, 3 PH domains, a myosin tail homology 4
(MyTH4), and a FERM domain at its very C-terminus. The
first PH domain in the MyoX tail is a split-PH domain,
interupted by the second PH domain such that PH 1a and
PH 1b flanks PH 2. The third PH domain (PH 3) follows
the PH 1b domain. This cd contains the third MyoX PH
repeat. PLEKHH3/Pleckstrin homology (PH) domain
containing, family H (with MyTH4 domain) member 3 is
also part of this CD and like MyoX contains a FERM
domain, a MyTH4 domain, and a single PH domain. Not much
is known about the function of PLEKHH3. 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 = 123
Score = 30.8 bits (70), Expect = 0.71
Identities = 17/75 (22%), Positives = 23/75 (30%), Gaps = 29/75 (38%)
Query: 290 PPCDCDPLGTL------SVPQPCHPVSGTCYCQPGVTGDRCDQCDTGYWNFTVNGCTSCN 343
+ LG+L SV P V +TGYW FTV+G
Sbjct: 49 SERNALKLGSLVLNSLCSVVPPDEKVYK----------------ETGYWTFTVHG----- 87
Query: 344 CNRDGSLHFSCDVHT 358
R S + +
Sbjct: 88 --RKHSYYLYTKLQE 100
>gnl|CDD|232957 TIGR00398, metG, methionyl-tRNA synthetase. The methionyl-tRNA
synthetase (metG) is a class I amino acyl-tRNA ligase.
This model appears to recognize the methionyl-tRNA
synthetase of every species, including eukaryotic
cytosolic and mitochondrial forms. The UPGMA difference
tree calculated after search and alignment according to
This model shows an unusual deep split between two
families of MetG. One family contains forms from the
Archaea, yeast cytosol, spirochetes, and E. coli, among
others. The other family includes forms from yeast
mitochondrion, Synechocystis sp., Bacillus subtilis, the
Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori.
The E. coli enzyme is homodimeric, although monomeric
forms can be prepared that are fully active. Activity of
this enzyme in bacteria includes aminoacylation of
fMet-tRNA with Met; subsequent formylation of the Met to
fMet is catalyzed by a separate enzyme. Note that the
protein from Aquifex aeolicus is split into an alpha
(large) and beta (small) subunit; this model does not
include the C-terminal region corresponding to the beta
chain [Protein synthesis, tRNA aminoacylation].
Length = 530
Score = 31.2 bits (71), Expect = 1.6
Identities = 14/60 (23%), Positives = 17/60 (28%), Gaps = 9/60 (15%)
Query: 175 CASCE----DGYIGDHCESCDAGYYGNPTELGGSCVPCSCGGGPCDASTGECVQCRGNTE 230
C CE D Y+ C C + G C C P + C C E
Sbjct: 123 CPECEMFLPDRYVEGTCPKCGS-----EDARGDHCEVCGRHLEPTELINPRCKICGAKPE 177
>gnl|CDD|238932 cd01972, Nitrogenase_VnfE_like, Nitrogenase_VnfE_like: VnfE subunit
of the VnfEN complex_like. This group in addition to
VnfE contains a subset of the alpha subunit of the
nitrogenase MoFe protein and NifE-like proteins. The
nitrogenase enzyme system catalyzes the ATP-dependent
reduction of dinitrogen to ammonia. NifEN participates
in the synthesis of the iron-molybdenum cofactor
(FeMoco) of MoFe protein of the
molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur
containing precursor of the FeMoco) from NifB is
transferred to NifEN where it is further processed to
FeMoco. VnfEN may similarly be a scaffolding protein
for the iron-vanadium cofactor (FeVco) of the
vanadium-dependent (V)-nitrogenase. NifE and NifN are
essential for the Mo-nitrogenase, VnfE and VnfN are not
essential for the V-nitrogenase. NifE and NifN can
substitute when the vnfEN genes are inactivated.
Length = 426
Score = 30.9 bits (70), Expect = 2.1
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 6/47 (12%)
Query: 166 PRHILTSRGCASCEDGYIGDHCESCDAGYYGNPTELGGSCVPCSCGG 212
P+ I + CA+ G IGD ES E+G V C G
Sbjct: 90 PKAIFVATSCAT---GIIGDDVESVVEEL---EDEIGIPVVALHCEG 130
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
0.322 0.139 0.488
Gapped
Lambda K H
0.267 0.0755 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,280,443
Number of extensions: 2234956
Number of successful extensions: 1654
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1602
Number of HSP's successfully gapped: 97
Length of query: 546
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 444
Effective length of database: 6,413,494
Effective search space: 2847591336
Effective search space used: 2847591336
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 (21.9 bits)
S2: 61 (27.2 bits)