Query 037353
Match_columns 110
No_of_seqs 113 out of 1039
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 11:23:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037353.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037353hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08263 LRRNT_2: Leucine rich 98.6 5.4E-08 1.2E-12 54.7 4.3 41 32-80 2-43 (43)
2 PLN00113 leucine-rich repeat r 98.4 1.5E-06 3.2E-11 74.8 7.9 62 31-103 27-89 (968)
3 PLN03150 hypothetical protein; 96.3 0.0094 2E-07 50.2 5.8 67 28-103 367-438 (623)
4 PF00560 LRR_1: Leucine Rich R 68.4 2.4 5.3E-05 19.8 0.6 18 86-104 2-20 (22)
5 PF07172 GRP: Glycine rich pro 34.5 38 0.00083 21.9 2.2 17 7-23 4-20 (95)
6 PF13504 LRR_7: Leucine rich r 27.1 42 0.00091 14.6 1.0 13 85-97 2-14 (17)
7 PF15240 Pro-rich: Proline-ric 15.2 98 0.0021 22.6 1.4 7 23-29 12-18 (179)
8 PF13260 DUF4051: Protein of u 14.2 1.8E+02 0.0039 16.8 2.0 18 29-46 27-44 (54)
9 smart00368 LRR_RI Leucine rich 10.6 1.7E+02 0.0038 14.1 1.1 13 85-97 3-15 (28)
10 smart00370 LRR Leucine-rich re 8.8 2.1E+02 0.0045 13.1 1.0 15 85-99 3-17 (26)
No 1
>PF08263 LRRNT_2: Leucine rich repeat N-terminal domain; InterPro: IPR013210 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This domain is often found at the N terminus of tandem leucine rich repeats.; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1OGQ_A.
Probab=98.64 E-value=5.4e-08 Score=54.65 Aligned_cols=41 Identities=39% Similarity=0.741 Sum_probs=28.9
Q ss_pred hHHHHHHHHHHhhccC-CCccccccccCCCCCCCCCCCCCCCCCcceeeC
Q 037353 32 QTERTALLELKSFFIS-ISDREYEDVILTSWVDDGMPSDCCDDWEGVECN 80 (110)
Q Consensus 32 ~~d~~aLl~~k~~l~~-~~~~~~~~~~l~~W~~~~~~~~~C~~W~GV~C~ 80 (110)
++|+.+|++||..+.. +. ..+.+|+.... .+|| +|.||.|+
T Consensus 2 ~~d~~aLl~~k~~l~~~~~------~~l~~W~~~~~-~~~C-~W~GV~Cd 43 (43)
T PF08263_consen 2 NQDRQALLAFKKSLNNDPS------GVLSSWNPSSD-SDPC-SWSGVTCD 43 (43)
T ss_dssp HHHHHHHHHHHHCTT-SC-------CCCTT--TT---S-CC-CSTTEEE-
T ss_pred cHHHHHHHHHHHhcccccC------cccccCCCcCC-CCCe-eeccEEeC
Confidence 5789999999999974 43 57899997620 4899 99999995
No 2
>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional
Probab=98.36 E-value=1.5e-06 Score=74.80 Aligned_cols=62 Identities=29% Similarity=0.536 Sum_probs=50.5
Q ss_pred ChHHHHHHHHHHhhccCCCccccccccCCCCCCCCCCCCCCCCCcceeeCCCCCCeEEEEecCCCCccC-CCCC
Q 037353 31 LQTERTALLELKSFFISISDREYEDVILTSWVDDGMPSDCCDDWEGVECNATTRRVMQLSLNGTRMLLC-HNDI 103 (110)
Q Consensus 31 ~~~d~~aLl~~k~~l~~~~~~~~~~~~l~~W~~~~~~~~~C~~W~GV~C~~~~~rVi~L~Ls~~~Lsg~-~~~i 103 (110)
.+.|+.+|+.+|..+.++. ..+.+|+.. .+|| .|.||.|+. ..+|+.|+|++++++|. ++.+
T Consensus 27 ~~~~~~~l~~~~~~~~~~~------~~~~~w~~~---~~~c-~w~gv~c~~-~~~v~~L~L~~~~i~~~~~~~~ 89 (968)
T PLN00113 27 HAEELELLLSFKSSINDPL------KYLSNWNSS---ADVC-LWQGITCNN-SSRVVSIDLSGKNISGKISSAI 89 (968)
T ss_pred CHHHHHHHHHHHHhCCCCc------ccCCCCCCC---CCCC-cCcceecCC-CCcEEEEEecCCCccccCChHH
Confidence 5578999999999987554 457789765 5799 999999986 46899999999998887 6543
No 3
>PLN03150 hypothetical protein; Provisional
Probab=96.30 E-value=0.0094 Score=50.18 Aligned_cols=67 Identities=27% Similarity=0.297 Sum_probs=44.5
Q ss_pred ccCChHHHHHHHHHHhhccCCCccccccccCCCCCCCCCCCCCCCCCcceeeCC--CC--CCeEEEEecCCCCccC-CCC
Q 037353 28 KACLQTERTALLELKSFFISISDREYEDVILTSWVDDGMPSDCCDDWEGVECNA--TT--RRVMQLSLNGTRMLLC-HND 102 (110)
Q Consensus 28 ~~~~~~d~~aLl~~k~~l~~~~~~~~~~~~l~~W~~~~~~~~~C~~W~GV~C~~--~~--~rVi~L~Ls~~~Lsg~-~~~ 102 (110)
....+.|..+|+.+|..+..+. ..+|+...|....| .|.||.|.. .. .+|..|+|++++|.|. |+.
T Consensus 367 ~~t~~~~~~aL~~~k~~~~~~~--------~~~W~g~~C~p~~~-~w~Gv~C~~~~~~~~~~v~~L~L~~n~L~g~ip~~ 437 (623)
T PLN03150 367 SKTLLEEVSALQTLKSSLGLPL--------RFGWNGDPCVPQQH-PWSGADCQFDSTKGKWFIDGLGLDNQGLRGFIPND 437 (623)
T ss_pred cccCchHHHHHHHHHHhcCCcc--------cCCCCCCCCCCccc-ccccceeeccCCCCceEEEEEECCCCCccccCCHH
Confidence 3456778999999998875432 23786432101123 699999952 11 2488899999888888 765
Q ss_pred C
Q 037353 103 I 103 (110)
Q Consensus 103 i 103 (110)
|
T Consensus 438 i 438 (623)
T PLN03150 438 I 438 (623)
T ss_pred H
Confidence 4
No 4
>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....
Probab=68.36 E-value=2.4 Score=19.82 Aligned_cols=18 Identities=17% Similarity=0.338 Sum_probs=13.9
Q ss_pred eEEEEecCCCCccC-CCCCc
Q 037353 86 VMQLSLNGTRMLLC-HNDIG 104 (110)
Q Consensus 86 Vi~L~Ls~~~Lsg~-~~~ig 104 (110)
+..|+|++|+++ . |+.++
T Consensus 2 L~~Ldls~n~l~-~ip~~~~ 20 (22)
T PF00560_consen 2 LEYLDLSGNNLT-SIPSSFS 20 (22)
T ss_dssp ESEEEETSSEES-EEGTTTT
T ss_pred ccEEECCCCcCE-eCChhhc
Confidence 567899999988 7 76653
No 5
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=34.52 E-value=38 Score=21.95 Aligned_cols=17 Identities=24% Similarity=0.423 Sum_probs=9.1
Q ss_pred hhhHHHHHHHHHHHHHH
Q 037353 7 VKFSLISLIWIIILMNE 23 (110)
Q Consensus 7 ~~~~~~~~~~~~~~~~~ 23 (110)
|.|++..++|.++++|.
T Consensus 4 K~~llL~l~LA~lLlis 20 (95)
T PF07172_consen 4 KAFLLLGLLLAALLLIS 20 (95)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 34555555555555553
No 6
>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D ....
Probab=27.09 E-value=42 Score=14.58 Aligned_cols=13 Identities=23% Similarity=0.434 Sum_probs=7.5
Q ss_pred CeEEEEecCCCCc
Q 037353 85 RVMQLSLNGTRML 97 (110)
Q Consensus 85 rVi~L~Ls~~~Ls 97 (110)
++..|+|++|+|+
T Consensus 2 ~L~~L~l~~n~L~ 14 (17)
T PF13504_consen 2 NLRTLDLSNNRLT 14 (17)
T ss_dssp T-SEEEETSS--S
T ss_pred ccCEEECCCCCCC
Confidence 3567888888874
No 7
>PF15240 Pro-rich: Proline-rich
Probab=15.25 E-value=98 Score=22.56 Aligned_cols=7 Identities=0% Similarity=0.254 Sum_probs=2.6
Q ss_pred HhcCCcc
Q 037353 23 EMHGDKA 29 (110)
Q Consensus 23 ~~~~~~~ 29 (110)
.++++..
T Consensus 12 ALSSAQ~ 18 (179)
T PF15240_consen 12 ALSSAQS 18 (179)
T ss_pred Hhhhccc
Confidence 3334333
No 8
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=14.20 E-value=1.8e+02 Score=16.82 Aligned_cols=18 Identities=28% Similarity=0.499 Sum_probs=13.2
Q ss_pred cCChHHHHHHHHHHhhcc
Q 037353 29 ACLQTERTALLELKSFFI 46 (110)
Q Consensus 29 ~~~~~d~~aLl~~k~~l~ 46 (110)
....+|+.+|++.+..+.
T Consensus 27 rafrqdrdallear~kl~ 44 (54)
T PF13260_consen 27 RAFRQDRDALLEARNKLF 44 (54)
T ss_pred HHHhhhHHHHHHHHHHHH
Confidence 345678899998887653
No 9
>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type.
Probab=10.62 E-value=1.7e+02 Score=14.05 Aligned_cols=13 Identities=15% Similarity=0.335 Sum_probs=10.2
Q ss_pred CeEEEEecCCCCc
Q 037353 85 RVMQLSLNGTRML 97 (110)
Q Consensus 85 rVi~L~Ls~~~Ls 97 (110)
.+..|+|+.|.+.
T Consensus 3 ~L~~LdL~~N~i~ 15 (28)
T smart00368 3 SLRELDLSNNKLG 15 (28)
T ss_pred ccCEEECCCCCCC
Confidence 4678899998874
No 10
>smart00370 LRR Leucine-rich repeats, outliers.
Probab=8.76 E-value=2.1e+02 Score=13.08 Aligned_cols=15 Identities=13% Similarity=0.246 Sum_probs=10.6
Q ss_pred CeEEEEecCCCCccC
Q 037353 85 RVMQLSLNGTRMLLC 99 (110)
Q Consensus 85 rVi~L~Ls~~~Lsg~ 99 (110)
.+..|+|.+|.+.--
T Consensus 3 ~L~~L~L~~N~l~~l 17 (26)
T smart00370 3 NLRELDLSNNQLSSL 17 (26)
T ss_pred CCCEEECCCCcCCcC
Confidence 356788888887643
Done!