Query 034302
Match_columns 98
No_of_seqs 25 out of 27
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 11:59:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034302.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034302hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11493 TSP9: Thylakoid solub 100.0 4.2E-35 9.1E-40 200.1 2.4 74 21-97 2-80 (80)
2 KOG4462 WASP-interacting prote 81.9 2.2 4.7E-05 37.1 4.1 29 34-62 30-64 (437)
3 PF09326 DUF1982: Domain of un 48.9 6.5 0.00014 24.2 0.2 14 43-56 28-41 (49)
4 PF14050 Nudc_N: N-terminal co 39.5 20 0.00044 23.0 1.5 18 33-50 19-36 (62)
5 PF11239 DUF3040: Protein of u 28.6 21 0.00046 23.1 0.2 25 28-58 4-28 (82)
6 PF14784 ECIST_Cterm: C-termin 27.1 43 0.00093 24.4 1.6 33 15-58 87-119 (126)
7 KOG4146 Ubiquitin-like protein 23.2 54 0.0012 23.7 1.5 19 31-49 38-57 (101)
8 PF08043 Xin: Xin repeat; Int 22.5 38 0.00082 17.3 0.4 8 47-54 8-15 (16)
9 PF05866 RusA: Endodeoxyribonu 18.5 87 0.0019 20.4 1.6 19 30-48 76-94 (118)
10 COG4570 Rus Holliday junction 18.2 79 0.0017 23.6 1.5 30 31-62 88-119 (132)
No 1
>PF11493 TSP9: Thylakoid soluble phosphoprotein TSP9; InterPro: IPR021584 The plant-specific protein, TSP9 is phosphorylated and released in response to changing light conditions from the photosynthetic membrane. The protein resembles the characteristics of transcription/translation regulatory factors. The structure of the protein is predicted to consist of a random coil []. ; PDB: 2FFT_A.
Probab=100.00 E-value=4.2e-35 Score=200.13 Aligned_cols=74 Identities=59% Similarity=0.916 Sum_probs=24.9
Q ss_pred cccccCCcchhhhhHHHHHhhhccccceeeccchhhcccCCCCCCCCCcCCCCCCCCCcCCCc--ccCC-CCc--ccccc
Q 034302 21 AAKEAGGSKEEKSLLDWILGGMQKQDQFYETDPILKKVEDKSPPSGRGTTNGRKNSASVPQPQ--KKKG-GFG--LGDLF 95 (98)
Q Consensus 21 a~~~~a~~keEKgl~D~I~G~l~KedQ~~ETDPiL~Kv~~k~~~~grGt~~gkk~~~~~~~p~--kkk~-GGG--fGGLF 95 (98)
+++++++++|||||+|||||+|||||||||||||||||++++++ |++++||++++.++.+ ++++ +|| |||||
T Consensus 2 t~~~~~~~keEKgl~D~I~G~l~KedQl~ETDPiL~Kv~~k~~~---g~t~~~k~~~~~~kk~~~~~~gG~GGf~lGgLF 78 (80)
T PF11493_consen 2 TAGGAGPAKEEKGLLDWILGALQKEDQLLETDPILNKVEEKNPS---GSTRGKKAGTAAGKKKAAKKKGGFGGFSLGGLF 78 (80)
T ss_dssp ------------SHHHHHHHHHS----S--S--SSS-S---------S-------S-S-S--SSSS-S--S--S-SSSSS
T ss_pred CCCCCCCccccccHHHHHhhhhhhhhhhcccchhhhcccccccC---CCCCCCcccccCCccccccccCCCCcccccccc
Confidence 34578999999999999999999999999999999999999877 3555666655553222 3343 377 79999
Q ss_pred cc
Q 034302 96 AK 97 (98)
Q Consensus 96 aK 97 (98)
+|
T Consensus 79 aK 80 (80)
T PF11493_consen 79 AK 80 (80)
T ss_dssp --
T ss_pred cC
Confidence 97
No 2
>KOG4462 consensus WASP-interacting protein VRP1/WIP, contains WH2 domain [Cytoskeleton]
Probab=81.92 E-value=2.2 Score=37.08 Aligned_cols=29 Identities=31% Similarity=0.370 Sum_probs=20.3
Q ss_pred hHHHHHhhhcccccee--ecc----chhhcccCCC
Q 034302 34 LLDWILGGMQKQDQFY--ETD----PILKKVEDKS 62 (98)
Q Consensus 34 l~D~I~G~l~KedQ~~--ETD----PiL~Kv~~k~ 62 (98)
=-|-|++-|+|--.|- +|| |||-|+-+.+
T Consensus 30 gR~ALL~DI~KG~KLKK~~tNDRSAPivgk~vgs~ 64 (437)
T KOG4462|consen 30 GRNALLGDIQKGKKLKKATTNDRSAPIVGKGVGSS 64 (437)
T ss_pred chHHHHHHhhhcceecceeccccccccccCccccc
Confidence 4578889898876654 444 7887776655
No 3
>PF09326 DUF1982: Domain of unknown function (DUF1982); InterPro: IPR015405 This C-terminal domain is functionally uncharacterised and is found in various prokaryotic NADH dehydrogenases including NADH-quinone oxidoreductase, chain G. ; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0051536 iron-sulfur cluster binding, 0055114 oxidation-reduction process
Probab=48.90 E-value=6.5 Score=24.17 Aligned_cols=14 Identities=43% Similarity=0.745 Sum_probs=10.5
Q ss_pred ccccceeeccchhh
Q 034302 43 QKQDQFYETDPILK 56 (98)
Q Consensus 43 ~KedQ~~ETDPiL~ 56 (98)
..-+.||-||||=+
T Consensus 28 ~~i~dfY~Td~IsR 41 (49)
T PF09326_consen 28 SPIKDFYMTDPISR 41 (49)
T ss_pred cccccccccchhhh
Confidence 34467999999954
No 4
>PF14050 Nudc_N: N-terminal conserved domain of Nudc.
Probab=39.47 E-value=20 Score=23.05 Aligned_cols=18 Identities=22% Similarity=0.565 Sum_probs=16.5
Q ss_pred hhHHHHHhhhccccceee
Q 034302 33 SLLDWILGGMQKQDQFYE 50 (98)
Q Consensus 33 gl~D~I~G~l~KedQ~~E 50 (98)
+|+|.+||+|.+.-.||-
T Consensus 19 ~~Ld~fF~FL~RkTDFy~ 36 (62)
T PF14050_consen 19 DFLDTFFSFLRRKTDFYH 36 (62)
T ss_pred HHHHHHHHHHhccCceee
Confidence 589999999999988887
No 5
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=28.59 E-value=21 Score=23.14 Aligned_cols=25 Identities=28% Similarity=0.352 Sum_probs=18.6
Q ss_pred cchhhhhHHHHHhhhccccceeeccchhhcc
Q 034302 28 SKEEKSLLDWILGGMQKQDQFYETDPILKKV 58 (98)
Q Consensus 28 ~keEKgl~D~I~G~l~KedQ~~ETDPiL~Kv 58 (98)
|++|+-.+|=| |.||+++||-|-.-
T Consensus 4 Se~E~r~L~ei------Er~L~~~DP~fa~~ 28 (82)
T PF11239_consen 4 SEHEQRRLEEI------ERQLRADDPRFAAR 28 (82)
T ss_pred CHHHHHHHHHH------HHHHHhcCcHHHHH
Confidence 56777777765 67889999988654
No 6
>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein
Probab=27.08 E-value=43 Score=24.36 Aligned_cols=33 Identities=33% Similarity=0.696 Sum_probs=22.9
Q ss_pred eEeeeccccccCCcchhhhhHHHHHhhhccccceeeccchhhcc
Q 034302 15 RVYAATAAKEAGGSKEEKSLLDWILGGMQKQDQFYETDPILKKV 58 (98)
Q Consensus 15 rV~aata~~~~a~~keEKgl~D~I~G~l~KedQ~~ETDPiL~Kv 58 (98)
-|||-.+++ ....-.|+-||-+ |-||||+|..+
T Consensus 87 ti~Amc~tg----~~~~~sL~~WI~~-------Lq~~NP~L~~i 119 (126)
T PF14784_consen 87 TIFAMCMTG----TSDKDSLLSWIRG-------LQETNPNLAQI 119 (126)
T ss_pred eEEEEEecc----CCCHHHHHHHHHH-------HHhhCCchhcc
Confidence 367755543 3356789999953 45799999865
No 7
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=23.21 E-value=54 Score=23.73 Aligned_cols=19 Identities=32% Similarity=0.714 Sum_probs=14.3
Q ss_pred hhhhHHHHHh-hhcccccee
Q 034302 31 EKSLLDWILG-GMQKQDQFY 49 (98)
Q Consensus 31 EKgl~D~I~G-~l~KedQ~~ 49 (98)
=-.++|||++ -+-+.|||+
T Consensus 38 vgdll~yi~~~~ie~r~~lF 57 (101)
T KOG4146|consen 38 VGDLLDYIFGKYIETRDSLF 57 (101)
T ss_pred HHHHHHHHHHHHhcCCcceE
Confidence 3579999999 455667766
No 8
>PF08043 Xin: Xin repeat; InterPro: IPR012510 The repeat has the consensus sequence GDV(K/Q/R)(T/S/G)X(R/K/T) WLFETXPLD. This repeat motif is typically found in the N terminus of the proteins, with a copy number between 2 and 28 repeats. Direct evidence for binding to and stabilising F-actin has been found in the human protein (Q702N9 from SWISSPROT) []. The homologues in mouse and chicken localise in the adherens junction complex of the intercalated disc in cardiac muscle and in the myotendon junction of skeletal muscle. mXin may co-localise with Vinculin which is known to attach the actin to the cytoplasmic membrane []. It has been shown that the amino-terminus of human xin (CMYA1) binds the EVH1 domain of Mena/VASP/EVL, and the carboxy-terminus binds the, for the filamin family unique, domain 20 of filamin C []. This confirms the proposed role of xin repeat containing proteins as F-actin-binding adapter proteins.; GO: 0003779 actin binding, 0030036 actin cytoskeleton organization, 0030054 cell junction
Probab=22.49 E-value=38 Score=17.30 Aligned_cols=8 Identities=38% Similarity=0.908 Sum_probs=6.3
Q ss_pred ceeeccch
Q 034302 47 QFYETDPI 54 (98)
Q Consensus 47 Q~~ETDPi 54 (98)
-++||-||
T Consensus 8 wlFEtqpl 15 (16)
T PF08043_consen 8 WLFETQPL 15 (16)
T ss_pred EEeecccC
Confidence 47899886
No 9
>PF05866 RusA: Endodeoxyribonuclease RusA; InterPro: IPR008822 This family consists of several bacterial and phage Holliday junction resolvase (RusA) like proteins. The RusA protein of Escherichia coli is an endonuclease that can resolve Holliday intermediates and correct the defects in genetic recombination and DNA repair associated with inactivation of RuvAB or RuvC [].; GO: 0000287 magnesium ion binding, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1Q8R_A 2H8C_A 2H8E_A.
Probab=18.48 E-value=87 Score=20.40 Aligned_cols=19 Identities=32% Similarity=0.384 Sum_probs=15.3
Q ss_pred hhhhhHHHHHhhhccccce
Q 034302 30 EEKSLLDWILGGMQKQDQF 48 (98)
Q Consensus 30 eEKgl~D~I~G~l~KedQ~ 48 (98)
=.|.++|-|.+.+++.|..
T Consensus 76 ~~K~i~Dal~~~v~~DD~~ 94 (118)
T PF05866_consen 76 LLKAILDALTGAVWKDDRQ 94 (118)
T ss_dssp HHHHHHHHHHHTSBS-GGG
T ss_pred HHHHHHHHHhCcEEcCCcc
Confidence 3789999999999999943
No 10
>COG4570 Rus Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=18.22 E-value=79 Score=23.62 Aligned_cols=30 Identities=40% Similarity=0.461 Sum_probs=21.8
Q ss_pred hhhhHHHHH-hhhcccc-ceeeccchhhcccCCC
Q 034302 31 EKSLLDWIL-GGMQKQD-QFYETDPILKKVEDKS 62 (98)
Q Consensus 31 EKgl~D~I~-G~l~Ked-Q~~ETDPiL~Kv~~k~ 62 (98)
=|+++|-+. +.++++| |++|- |.+|.....
T Consensus 88 ~K~l~Daltk~g~~~DD~Qive~--~v~K~~~~~ 119 (132)
T COG4570 88 LKALLDALTKAGVWKDDAQIVEI--IVKKRYSDG 119 (132)
T ss_pred HHHHHHHHhhcceecccceeEEE--EEEeeecCC
Confidence 378999998 7777776 67776 777765443
Done!