RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14765
(269 letters)
>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat.
Length = 60
Score = 50.6 bits (122), Expect = 7e-09
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 57 QVLDLSSNNINVLQKEIFLQMGITNIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLL 116
+ LDLS+N + V+ F + N++ L L L + AF G+ ++ LDLS N L
Sbjct: 3 KSLDLSNNRLTVIPDGAFKGL--PNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 49.5 bits (119), Expect = 2e-08
Identities = 20/60 (33%), Positives = 37/60 (61%), Gaps = 2/60 (3%)
Query: 81 NIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLLSTVP--SLIYIPYLKSINLAHNPI 138
N++ L L +L + D AF+G+ N+ LDLS N L+++ + +P L+S++L+ N +
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 38.3 bits (90), Expect = 2e-04
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 128 LKSINLAHNPINQISSYSFQSTPGIRYIDMSNCQIHTIYSEAF 170
LKS++L++N + I +F+ P ++ +D+S + +I EAF
Sbjct: 2 LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAF 44
>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies). Leucine rich
repeats are short sequence motifs present in a number of
proteins with diverse functions and cellular locations.
These repeats are usually involved in protein-protein
interactions. Each Leucine Rich Repeat is composed of a
beta-alpha unit. These units form elongated non-globular
structures. Leucine Rich Repeats are often flanked by
cysteine rich domains.
Length = 43
Score = 35.5 bits (83), Expect = 0.001
Identities = 15/40 (37%), Positives = 28/40 (70%)
Query: 104 TNMDELDLSDNLLSTVPSLIYIPYLKSINLAHNPINQISS 143
TN++ LDLS+N ++ +P L +P L++++L+ N I +S
Sbjct: 1 TNLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLSP 40
Score = 32.1 bits (74), Expect = 0.018
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 80 TNIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLLSTVPSL 122
TN++ L L ++ + + N++ LDLS N ++ + L
Sbjct: 1 TNLETLDLSNNQITDLP--PLSNLPNLETLDLSGNKITDLSPL 41
>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
kinase; Provisional.
Length = 968
Score = 33.7 bits (77), Expect = 0.12
Identities = 28/108 (25%), Positives = 50/108 (46%), Gaps = 5/108 (4%)
Query: 57 QVLDLSSNNINVLQKEIFLQMGITNIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLL 116
Q+L L+ N + F G ++ L L + + R ++ + +L LS+N L
Sbjct: 455 QMLSLARNKFFGGLPDSF---GSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKL 511
Query: 117 S-TVPS-LIYIPYLKSINLAHNPINQISSYSFQSTPGIRYIDMSNCQI 162
S +P L L S++L+HN ++ SF P + +D+S Q+
Sbjct: 512 SGEIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQL 559
Score = 32.5 bits (74), Expect = 0.28
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 7/79 (8%)
Query: 59 LDLSSNNINVLQKEIFLQMG-ITNIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLLS 117
LDL NN L I +G + N+Q L+L + KL + + + LDLSDN LS
Sbjct: 241 LDLVYNN---LTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLS 297
Query: 118 -TVPSLIYIPYLKSINLAH 135
+P L+ L+++ + H
Sbjct: 298 GEIPELVI--QLQNLEILH 314
Score = 31.4 bits (71), Expect = 0.54
Identities = 18/54 (33%), Positives = 36/54 (66%), Gaps = 3/54 (5%)
Query: 109 LDLS-DNLLSTVPSLIY-IPYLKSINLAHNPIN-QISSYSFQSTPGIRYIDMSN 159
+DLS N+ + S I+ +PY+++INL++N ++ I F ++ +RY+++SN
Sbjct: 74 IDLSGKNISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSN 127
>gnl|CDD|205486 pfam13306, LRR_5, Leucine rich repeats (6 copies). This family
includes a number of leucine rich repeats. This family
contains a large number of BSPA-like surface antigens
from Trichomonas vaginalis.
Length = 128
Score = 31.4 bits (72), Expect = 0.20
Identities = 20/88 (22%), Positives = 35/88 (39%), Gaps = 17/88 (19%)
Query: 92 LEFVDDRAFRGVTNMDELDLSDNLLSTVPSLIYIPY--------LKSINLAHNPINQISS 143
+ + + AF G T++ + L SL I L SI + + + I
Sbjct: 22 VTSIGEYAFSGCTSLKSITLPS-------SLTSIGSYAFYNCSSLTSITIPSS-LTSIGE 73
Query: 144 YSFQSTPGIRYIDMSNCQIHTIYSEAFY 171
Y+F + + I + + + TI S AF
Sbjct: 74 YAFSNCSSLTSITIPS-NLTTIGSYAFS 100
>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
unknown].
Length = 394
Score = 31.9 bits (72), Expect = 0.38
Identities = 29/89 (32%), Positives = 43/89 (48%), Gaps = 5/89 (5%)
Query: 57 QVLDLSSNNINVLQKEIFLQMGITNIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLL 116
LDL +NNI + I L N+++L L K+E + R + N+ LDLS N L
Sbjct: 119 TSLDLDNNNITDIPPLIGLLKS--NLKELDLSDNKIESLP-SPLRNLPNLKNLDLSFNDL 175
Query: 117 STVPSLIYIPYLKSINLAHNPINQISSYS 145
S +P L+ L ++N N+IS
Sbjct: 176 SDLPKLLSN--LSNLNNLDLSGNKISDLP 202
Score = 30.7 bits (69), Expect = 0.69
Identities = 28/89 (31%), Positives = 49/89 (55%), Gaps = 7/89 (7%)
Query: 59 LDLSSNNINVLQKEIFLQMGITNIQKLYL-RKCKLEFVDDRAFRGVTNMDELDLSDNLLS 117
LDLS N I+ L EI L ++ +++L L +E + + + N+ L+LS+N L
Sbjct: 191 LDLSGNKISDLPPEIEL---LSALEELDLSNNSIIELLS--SLSNLKNLSGLELSNNKLE 245
Query: 118 TVPSLIYIPY-LKSINLAHNPINQISSYS 145
+P I L++++L++N I+ ISS
Sbjct: 246 DLPESIGNLSNLETLDLSNNQISSISSLG 274
>gnl|CDD|185768 cd09245, BRO1_UmRIM23-like, Protein-interacting, Bro1-like domain
of Ustilago maydis Rim23 (PalC), and related domains.
This family contains the Bro1-like domain of Ustilago
maydis Rim23 (also known as PalC), and related proteins.
It belongs to the BRO1_Alix_like superfamily which
includes the Bro1-like domains of mammalian Alix
(apoptosis-linked gene-2 interacting protein X),
His-Domain type N23 protein tyrosine phosphatase
(HD-PTP, also known as PTPN23), RhoA-binding proteins
Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, and related
domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23
interact with the ESCRT (Endosomal Sorting Complexes
Required for Transport) system. Rim20 and Rim23
participate in the response to the external pH via the
Rim101 pathway. Through its Bro1-like domain, Rim23
allows the interaction between the endosomal and plasma
membrane complexes. Bro1-like domains are
boomerang-shape, and part of the domain is a
tetratricopeptide repeat (TPR)-like structure.
Intermediates in the Rim101 pathway may play roles in
the pathogenesis of fungal corneal infection during
Candida albicans keratitis. This family lacks the
V-shaped (V) domain found in many members of the
BRO1_Alix_like superfamily.
Length = 413
Score = 30.8 bits (70), Expect = 0.76
Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 22/76 (28%)
Query: 112 SDNLLSTVPSL-IYIPYLKSI--NLAHNPINQ-----------ISSYSFQSTPGIRYIDM 157
+ NLL+ V +L Y+PYL +I L+H+ + +SS S + +P +
Sbjct: 53 ASNLLTVVKALEEYLPYLLAIDACLSHDELILKSEPTFEWRTTLSSTSGRESPRLP---- 108
Query: 158 SNCQIHTIYSEAFYVM 173
+ ++ E +V+
Sbjct: 109 ----LPGLHYELAFVL 120
>gnl|CDD|214653 smart00410, IG_like, Immunoglobulin like. IG domains that cannot
be classified into one of IGv1, IGc1, IGc2, IG.
Length = 85
Score = 28.2 bits (63), Expect = 1.1
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 172 VMVLPGSNLTLDCRVQSATPCRIMW 196
V V G ++TL C + P + W
Sbjct: 4 VTVKEGESVTLSCEASGSPPPEVTW 28
>gnl|CDD|214652 smart00409, IG, Immunoglobulin.
Length = 85
Score = 28.2 bits (63), Expect = 1.1
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 172 VMVLPGSNLTLDCRVQSATPCRIMW 196
V V G ++TL C + P + W
Sbjct: 4 VTVKEGESVTLSCEASGSPPPEVTW 28
>gnl|CDD|131641 TIGR02592, cas_Cas5h, CRISPR-associated protein Cas5, subtype
I-B/HMARI. This is a CRISPR-associated protein unique
to the hmari subtype of cas genes and CRISPR repeat,
which is the only subtype present in Haloarcula
marismortui ATCC 43049. The hmari type, though uncommon,
is also found in the Aquificae, Thermotogae, Firmicutes,
and Dictyoglomi [Mobile and extrachromosomal element
functions, Other].
Length = 241
Score = 29.8 bits (67), Expect = 1.3
Identities = 27/141 (19%), Positives = 48/141 (34%), Gaps = 25/141 (17%)
Query: 54 LDTQVLDLSSNNINVLQKEIFLQMGI----TNIQKLYLRK-------CKLEFVDDRAFRG 102
D L I V+ L + T Y K +++++ A+R
Sbjct: 50 YDEFYEKLKKIAIQVVPPLRKLYIDKKIVSTKADVGYASKELGGRLIVNEQWLENPAYRI 109
Query: 103 VTNMDE---LDLSDNLLSTVPSLIYIPYL-KSINLAHNPINQISSYSFQSTPGIRYIDMS 158
+ D+ +L D L + IY PYL S ++A+ I + +D +
Sbjct: 110 FVSWDDEVPKELKDRLENFKF--IYTPYLGVSEHIAN--ITYVGYLE-----AEEKLDDT 160
Query: 159 NCQIHTIYSEAFYVMVLPGSN 179
+ +I Y + L N
Sbjct: 161 -NSVDSIVPNDVYEIQLESKN 180
>gnl|CDD|214470 smart00013, LRRNT, Leucine rich repeat N-terminal domain.
Length = 33
Score = 26.9 bits (60), Expect = 1.4
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 4/35 (11%)
Query: 23 CPLGCSCKWKAGKRTVECIDRNFYTIPEGIDLDTQ 57
CP C+C V+C R +P + DT
Sbjct: 2 CPAPCNC----SGTAVDCSGRGLTEVPLDLPPDTT 32
>gnl|CDD|222797 PHA00452, PHA00452, T3/T7-like RNA polymerase.
Length = 807
Score = 29.6 bits (67), Expect = 2.3
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 2/31 (6%)
Query: 196 WSINRKIYDHVNWNSNKINIKEETVLSKDNS 226
W IN+ + VN N + + VL
Sbjct: 295 WRINKDVLAVVNEVVNWGPVGD--VLGIPRR 323
>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease
inhibitor (RI)-like subfamily. LRRs are 20-29 residue
sequence motifs present in many proteins that
participate in protein-protein interactions and have
different functions and cellular locations. LRRs
correspond to structural units consisting of a beta
strand (LxxLxLxxN/CxL conserved pattern) and an alpha
helix. This alignment contains 12 strands corresponding
to 11 full repeats, consistent with the extent observed
in the subfamily acting as Ran GTPase Activating
Proteins (RanGAP1).
Length = 319
Score = 29.2 bits (66), Expect = 2.4
Identities = 31/129 (24%), Positives = 49/129 (37%), Gaps = 34/129 (26%)
Query: 57 QVLDLSSNNINVLQKEIF---LQMGITNIQKLYLRKCKLEFVDDRAFRGVT--------N 105
Q LDLS N + + L+ +++Q+L L L DR R +
Sbjct: 84 QELDLSDNALGPDGCGVLESLLR--SSSLQELKLNNNGLG---DRGLRLLAKGLKDLPPA 138
Query: 106 MDELDLSDNLLSTVPS------LIYIPYLKSINLAHNPINQISSYSFQSTPGIRYI--DM 157
+++L L N L L LK +NLA+N I GIR + +
Sbjct: 139 LEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGD---------AGIRALAEGL 189
Query: 158 -SNCQIHTI 165
+NC + +
Sbjct: 190 KANCNLEVL 198
>gnl|CDD|197688 smart00370, LRR, Leucine-rich repeats, outliers.
Length = 24
Score = 25.8 bits (58), Expect = 2.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 57 QVLDLSSNNINVLQKEIF 74
+ LDLS+N ++ L F
Sbjct: 5 RELDLSNNQLSSLPPGAF 22
Score = 24.6 bits (55), Expect = 6.1
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 104 TNMDELDLSDNLLSTVPS 121
N+ ELDLS+N LS++P
Sbjct: 2 PNLRELDLSNNQLSSLPP 19
>gnl|CDD|197687 smart00369, LRR_TYP, Leucine-rich repeats, typical (most
populated) subfamily.
Length = 24
Score = 25.8 bits (58), Expect = 2.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 57 QVLDLSSNNINVLQKEIF 74
+ LDLS+N ++ L F
Sbjct: 5 RELDLSNNQLSSLPPGAF 22
Score = 24.6 bits (55), Expect = 6.1
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 104 TNMDELDLSDNLLSTVPS 121
N+ ELDLS+N LS++P
Sbjct: 2 PNLRELDLSNNQLSSLPP 19
>gnl|CDD|223927 COG0858, RbfA, Ribosome-binding factor A [Translation, ribosomal
structure and biogenesis].
Length = 118
Score = 28.0 bits (63), Expect = 2.6
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 82 IQKLYLRKC-KLEFVDDRAFRGVTNMDEL 109
++L LRK +L FV D + +D L
Sbjct: 81 GKRLRLRKTPELHFVYDDSIENGNKIDAL 109
>gnl|CDD|188515 TIGR04000, thiol_BshB2, bacillithiol biosynthesis deacetylase
BshB2. Members of this protein family are BshB2 (YojG),
an enzyme of bacillithiol biosynthesis; either BshB1
(YpjG) or BshB2 must be present, and often both are
present. Bacillithiol is a low-molecular-weight thiol,
an analog of glutathione and mycothiol, and is found
largely in the Firmicutes [Biosynthesis of cofactors,
prosthetic groups, and carriers, Glutathione and
analogs].
Length = 217
Score = 27.8 bits (62), Expect = 4.7
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 7/47 (14%)
Query: 77 MGITNIQKLYLRKCKLEFVDDRAFRGVTNMDELDLSDNLLSTVPSLI 123
MGIT+++ L LR +EF DD + ++ + + PSLI
Sbjct: 71 MGITDLRMLGLRDKTIEFEDD------EELADM-VKGIIEELNPSLI 110
>gnl|CDD|232927 TIGR00338, serB, phosphoserine phosphatase SerB. Phosphoserine
phosphatase catalyzes the reaction 3-phospho-serine +
H2O = L-serine + phosphate. It catalyzes the last of
three steps in the biosynthesis of serine from
D-3-phosphoglycerate. Note that this enzyme acts on free
phosphoserine, not on phosphoserine residues of
phosphoproteins [Amino acid biosynthesis, Serine
family].
Length = 219
Score = 26.9 bits (60), Expect = 9.6
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 217 EETV--LSKDNSYLSVFSGGVDLAAASSPGGENIYDQKSTLTVFDTELHTDDGNY 269
EE V L + ++V SGG DL A E++ D+ F L +DG
Sbjct: 91 EELVKTLKEKGYKVAVISGGFDLFA------EHVKDKLGLDAAFANRLEVEDGKL 139
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
0.320 0.135 0.406
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,092,744
Number of extensions: 1190426
Number of successful extensions: 926
Number of sequences better than 10.0: 1
Number of HSP's gapped: 905
Number of HSP's successfully gapped: 33
Length of query: 269
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 174
Effective length of database: 6,723,972
Effective search space: 1169971128
Effective search space used: 1169971128
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 (21.8 bits)
S2: 58 (26.3 bits)