RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14661
(202 letters)
>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
unknown].
Length = 394
Score = 50.0 bits (119), Expect = 2e-07
Identities = 37/120 (30%), Positives = 54/120 (45%), Gaps = 2/120 (1%)
Query: 48 KEVGLQMQFIEKMDSSLAVLTNCEKLSLSTNMIEKI-NGLSGLKKLKVLSLARNNIKSFA 106
KE+ L IE + S L L N + L LS N + + LS L L L L+ N I
Sbjct: 143 KELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLP 202
Query: 107 GLEPLAETLEELWVSYNYIEKTK-GIGVMRKLKVLYMSNNLVKEWAEFVKLGECPSLIDL 165
L LEEL +S N I + + ++ L L +SNN +++ E + +DL
Sbjct: 203 PEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDL 262
Score = 43.8 bits (103), Expect = 2e-05
Identities = 29/96 (30%), Positives = 42/96 (43%), Gaps = 3/96 (3%)
Query: 57 IEKMDSSLAVLTNCEKLSLSTNMIEKINGLSGL--KKLKVLSLARNNIKSFAGLEPLAET 114
+ S L LTN L L N I I L GL LK L L+ N I+S
Sbjct: 105 LRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPN 164
Query: 115 LEELWVSYNYI-EKTKGIGVMRKLKVLYMSNNLVKE 149
L+ L +S+N + + K + + L L +S N + +
Sbjct: 165 LKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISD 200
Score = 35.3 bits (81), Expect = 0.014
Identities = 27/82 (32%), Positives = 35/82 (42%), Gaps = 3/82 (3%)
Query: 67 LTNCEKLSLSTNMIEK-INGLSGLKKLKVLSLARNNIKSFAGL-EPLAETLEELWVSYNY 124
L L L+ N + I+ L L L L L NNI L L L+EL +S N
Sbjct: 92 LLPLPSLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNK 151
Query: 125 IEKTKG-IGVMRKLKVLYMSNN 145
IE + + LK L +S N
Sbjct: 152 IESLPSPLRNLPNLKNLDLSFN 173
Score = 34.9 bits (80), Expect = 0.018
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 57 IEKMDSSLAVLTNCEKLSLSTNMIEK-INGLSGLKKLKVLSLARNNIKSFAGLEPLAETL 115
I ++ SSL+ L N L LS N +E + L L+ L L+ N I S + L L L
Sbjct: 221 IIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNNQISSISSLGSLT-NL 279
Query: 116 EELWVSYN 123
EL +S N
Sbjct: 280 RELDLSGN 287
Score = 34.9 bits (80), Expect = 0.021
Identities = 27/94 (28%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 57 IEKMDSSLAVLTNCEKLSLSTNMIEK-INGLSGLKKLKVLSLARNNIKSFAGLEPLAETL 115
I + + +L+ E+L LS N I + ++ LS LK L L L+ N ++ L
Sbjct: 198 ISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNL 257
Query: 116 EELWVSYNYIEKTKGIGVMRKLKVLYMSNNLVKE 149
E L +S N I +G + L+ L +S N +
Sbjct: 258 ETLDLSNNQISSISSLGSLTNLRELDLSGNSLSN 291
>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 = 45.2 bits (108), Expect = 3e-07
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 68 TNCEKLSLSTNMIEKINGLSGLKKLKVLSLARNNIKSFAGLE 109
TN E L LS N I + LS L L+ L L+ N I + L
Sbjct: 1 TNLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLSPLS 42
Score = 33.2 bits (77), Expect = 0.006
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 90 KKLKVLSLARNNIKSFAGLEPLAETLEELWVSYNYIEKTKGI 131
L+ L L+ N I L L LE L +S N I +
Sbjct: 1 TNLETLDLSNNQITDLPPLSNLPN-LETLDLSGNKITDLSPL 41
Score = 31.3 bits (72), Expect = 0.025
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 115 LEELWVSYNYIEKTKGIGVMRKLKVLYMSNNLVKE 149
LE L +S N I + + L+ L +S N + +
Sbjct: 3 LETLDLSNNQITDLPPLSNLPNLETLDLSGNKITD 37
Score = 24.4 bits (54), Expect = 9.0
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 136 KLKVLYMSNNLVKEWAEFVKLGECPSLIDLVFCGNPL 172
L+ L +SNN + + L P+L L GN +
Sbjct: 2 NLETLDLSNNQITDLPP---LSNLPNLETLDLSGNKI 35
>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat.
Length = 60
Score = 31.4 bits (72), Expect = 0.046
Identities = 21/77 (27%), Positives = 28/77 (36%), Gaps = 23/77 (29%)
Query: 71 EKLSLSTNMIEKING--LSGLKKLKVLSLARNNIKSFAGLEPLAETLEELWVSYNYIEKT 128
+ L LS N + I GL LKVL L+ NN+ S + E L
Sbjct: 3 KSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSIS-----PEAFSGL---------- 47
Query: 129 KGIGVMRKLKVLYMSNN 145
L+ L +S N
Sbjct: 48 ------PSLRSLDLSGN 58
Score = 31.0 bits (71), Expect = 0.050
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 61 DSSLAVLTNCEKLSLSTNMIEKIN--GLSGLKKLKVLSLARNNI 102
D + L N + L LS N + I+ SGL L+ L L+ NN+
Sbjct: 17 DGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 25.2 bits (56), Expect = 6.1
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 7/62 (11%)
Query: 115 LEELWVSYNYIEKTKG--IGVMRKLKVLYMSNNLVK--EWAEFVKLGECPSLIDLVFCGN 170
L+ L +S N + + LKVL +S N + F L PSL L GN
Sbjct: 2 LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGL---PSLRSLDLSGN 58
Query: 171 PL 172
L
Sbjct: 59 NL 60
>gnl|CDD|178801 PRK00024, PRK00024, hypothetical protein; Reviewed.
Length = 224
Score = 31.2 bits (72), Expect = 0.26
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 87 SGLKKLKVLSLARNNIKSFAGLEPLAE-TLEELWVSYNYIEKTKGIG 132
+G K VL LAR ++ F L L + +LEEL + KGIG
Sbjct: 36 TGTKGKSVLDLARELLQRFGSLRGLLDASLEEL-------QSIKGIG 75
>gnl|CDD|240356 PTZ00315, PTZ00315, 2'-phosphotransferase; Provisional.
Length = 582
Score = 29.5 bits (66), Expect = 1.3
Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 4/53 (7%)
Query: 94 VLSLARNNIKSFAGLEP---LAETLEELWVSYNYIEKTKGIGVMRKLKVLYMS 143
V+S RNN++ F L+ LA+ + L+ S N + T G+G R+L + Y++
Sbjct: 517 VISGMRNNVQLFLYLDVAAVLADGVA-LYESSNGVILTPGVGHTRQLPLKYVA 568
>gnl|CDD|226060 COG3529, COG3529, Predicted nucleic-acid-binding protein
containing a Zn-ribbon domain [General function
prediction only].
Length = 66
Score = 27.1 bits (60), Expect = 1.5
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 28 NLKDALKKWEEENGIPISEAKEVGLQMQFIEK 59
+D L W E N + I E + G M+ +K
Sbjct: 17 QAQDTLAMWRE-NNVEIVECVKCGHHMREADK 47
>gnl|CDD|197250 cd09152, PLDc_EcCLS_like_1, Catalytic domain, repeat 1, of
Escherichia coli cardiolipin synthase and similar
proteins. Catalytic domain, repeat 1, of Escherichia
coli cardiolipin (CL) synthase and similar proteins.
Escherichia coli CL synthase (EcCLS), specified by the
cls gene, is the prototype of this family. EcCLS is a
multi-pass membrane protein that catalyzes reversible
phosphatidyl group transfer between two
phosphatidylglycerol molecules to form cardiolipin (CL)
and glycerol. The monomer of EcCLS consists of two
catalytic domains. Each catalytic domain contains one
copy of the conserved HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue) that characterizes
the phospholipase D (PLD) superfamily. Two HKD motifs
from two domains form a single active site involved in
phosphatidyl group transfer. EcCLS can be stimulated by
phosphate and inhibited by CL, the product of the
reaction, and by phosphatidate. Phosphate stimulation
may be unique to enzymes with CL synthase activity
belonging to the PLD superfamily. Like other PLD
enzymes, EcCLS utilizes a common two-step ping-pong
catalytic mechanism involving an enzyme-substrate
intermediate to cleave phosphodiester bonds. The two
histidine residues from the two HKD motifs play key
roles in the catalysis. Upon substrate binding, a
histidine residue from one HKD motif could function as
the nucleophile, attacking the phosphodiester bond to
create a covalent phosphohistidine intermediate, while
the other histidine residue from the second HKD motif
could serve as a general acid, stabilizing the leaving
group.
Length = 163
Score = 27.9 bits (63), Expect = 2.8
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 8/58 (13%)
Query: 12 EACRQAAE---KCALL-----AKPNLKDALKKWEEENGIPISEAKEVGLQMQFIEKMD 61
EA +AA+ C LL ++ + +L K E G+ + EA + L + + + D
Sbjct: 46 EALERAAKRGVTCRLLLDAVGSRAFFRSSLWKRLREAGVEVVEALPLRLFRRRLARFD 103
>gnl|CDD|235367 PRK05222, PRK05222,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase; Provisional.
Length = 758
Score = 28.5 bits (65), Expect = 2.9
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 9/38 (23%)
Query: 93 KVLSLA--------RNNI-KSFAGLEPLAETLEELWVS 121
KVLS R ++ + A LEPLA ++ LWV+
Sbjct: 282 KVLSAGVIDGRNIWRADLEAALALLEPLAAKVDRLWVA 319
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 27.8 bits (62), Expect = 4.0
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 17/66 (25%)
Query: 101 NIKSFAGLEPLAETLEELWVSYNYIEKTKGIGVMRKLKVLYMSNNLVKEWAEF-VKLGE- 158
NI S AGL L + G+ M K V++M+ + EW + +
Sbjct: 150 NIASVAGLRVLPQI---------------GLYCMSKAAVVHMTRAMALEWGRHGINVNAI 194
Query: 159 CPSLID 164
CP ID
Sbjct: 195 CPGYID 200
>gnl|CDD|197684 smart00365, LRR_SD22, Leucine-rich repeat, SDS22-like subfamily.
Length = 22
Score = 24.5 bits (55), Expect = 4.6
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 89 LKKLKVLSLARNNIKSFAGLE 109
L L+ L L N IK L+
Sbjct: 1 LTNLEELDLGDNKIKKIENLD 21
>gnl|CDD|239108 cd02430, PTH2, Peptidyl-tRNA hydrolase, type 2 (PTH2).
Peptidyl-tRNA hydrolase (PTH) activity releases tRNA
from the premature translation termination product
peptidyl-tRNA, therefore allowing the tRNA and peptide
to be reused in protein synthesis. PTH2 is present in
archaea and eukaryotes.
Length = 115
Score = 26.3 bits (59), Expect = 6.8
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 7 MKKGNEA--CRQAAEKCALLAKPNLKDALKKWEEE 39
M KG A C AA A + + L+ WE E
Sbjct: 13 MGKGKIAAQCAHAALGAYKKAMKSNPELLRAWERE 47
>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional.
Length = 593
Score = 27.1 bits (60), Expect = 8.0
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 111 LAETLEELWVSYNYIEKTKGIGVMRKL-KVLYMSNNLVKEWAEFVKL 156
L+ L L SYN E +G +K +VL N LV+E+ +
Sbjct: 70 LSNELINLLKSYNLYETEEG---KKKRERVLGSLNKLVREFVVEASI 113
>gnl|CDD|233049 TIGR00608, radc, DNA repair protein radc. The genes in this family
for which the functions are known have an as yet porrly
defined role in determining sensitivity to DNA damaging
agents such as UV irradiation. This family is based on
the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 218
Score = 26.6 bits (59), Expect = 8.3
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 90 KKLKVLSLARNNIKSFAGLEPLAETLEELWVSYNYIEKTKGIGVMRKLKVL 140
K L VLSL++ + F + L L + GIG + +++
Sbjct: 30 KGLDVLSLSKRLLDVFGRQDSLGHLLS---APPEELSSVPGIGEAKAIQLK 77
>gnl|CDD|234672 PRK00164, moaA, molybdenum cofactor biosynthesis protein A;
Reviewed.
Length = 331
Score = 26.6 bits (60), Expect = 8.3
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 47 AKEVGLQMQFIEKMD 61
AK+ G+Q++FIE M
Sbjct: 183 AKDRGIQLRFIELMP 197
>gnl|CDD|223957 COG1026, COG1026, Predicted Zn-dependent peptidases,
insulinase-like [General function prediction only].
Length = 978
Score = 26.9 bits (60), Expect = 8.4
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 7/71 (9%)
Query: 62 SSLAVLTNCEKLSLSTNMIEKINGLSGLKKLKVLSLARNNIKSFAGLEPLAETLEELWVS 121
S+A +LS + + E +NGLS +K L+ LS N ++F + +A+ L+ L
Sbjct: 672 HSIASSLANSRLSSAGALKELLNGLSQVKFLRELS--SNFEENF--EKEIADKLQAL--- 724
Query: 122 YNYIEKTKGIG 132
I +T +
Sbjct: 725 RKKIFQTNNLR 735
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
0.315 0.134 0.381
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,238,634
Number of extensions: 951683
Number of successful extensions: 737
Number of sequences better than 10.0: 1
Number of HSP's gapped: 728
Number of HSP's successfully gapped: 44
Length of query: 202
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 110
Effective length of database: 6,857,034
Effective search space: 754273740
Effective search space used: 754273740
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: 42 (22.0 bits)
S2: 56 (25.3 bits)