Query psy973
Match_columns 167
No_of_seqs 33 out of 35
Neff 1.8
Searched_HMMs 46136
Date Fri Aug 16 18:05:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy973.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/973hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3840|consensus 100.0 5.7E-46 1.2E-50 328.0 6.6 90 77-166 170-263 (438)
2 KOG0459|consensus 50.9 9.1 0.0002 36.4 1.6 73 74-155 137-238 (501)
3 cd01816 Raf_RBD Ubiquitin doma 37.2 20 0.00044 26.4 1.3 26 138-163 40-69 (74)
4 PF11606 AlcCBM31: Family 31 c 34.2 7.4 0.00016 30.0 -1.4 13 27-39 35-47 (93)
5 PF10802 DUF2540: Protein of u 29.5 26 0.00056 25.9 0.8 19 93-111 7-25 (75)
6 COG5196 ERD2 ER lumen protein 29.3 51 0.0011 28.5 2.6 26 113-138 121-147 (214)
7 PF13606 Ank_3: Ankyrin repeat 28.5 37 0.00081 19.6 1.3 13 12-24 17-29 (30)
8 smart00463 SMR Small MutS-rela 25.8 64 0.0014 21.5 2.2 22 103-124 6-27 (80)
9 PF12385 Peptidase_C70: Papain 24.5 38 0.00081 28.3 1.0 47 111-158 97-149 (166)
10 PF06117 DUF957: Enterobacteri 24.2 37 0.00081 24.7 0.8 13 54-66 19-33 (65)
11 cd01949 GGDEF Diguanylate-cycl 23.8 69 0.0015 20.9 2.0 53 106-163 5-57 (158)
12 PF04855 SNF5: SNF5 / SMARCB1 23.6 79 0.0017 26.7 2.8 33 134-166 110-150 (244)
13 PF01713 Smr: Smr domain; Int 20.2 76 0.0016 21.3 1.7 21 103-123 3-23 (83)
No 1
>KOG3840|consensus
Probab=100.00 E-value=5.7e-46 Score=328.02 Aligned_cols=90 Identities=61% Similarity=0.943 Sum_probs=86.7
Q ss_pred ccCCccccCcCC----CCCCceeecchHHHHHHhhccchHHHHHHHHHHHHHHHHHhhhccCCceeEEEEecCCCccccC
Q psy973 77 EKGGRKREGKEG----EKKPMTRVAYLGGLLHELSNEGARCQFEVFLEDLILPLMVNSAQRGDRECHVVVLLDDDTVDWD 152 (167)
Q Consensus 77 e~~g~~re~~~~----~~~~TVkCqNLr~LLHELSNeGAr~QFe~FLEelILPlMV~~AqrGeRECHIVVL~DdD~VDWD 152 (167)
-.+-.+|||||| |++.|||||||++|||||||+|||+||+.|||++|||+||.+||+||||||||||+|||+||||
T Consensus 170 vSvpELrEACDYLlipF~a~TvkCqnL~aLlHELSNeGAR~QFe~fLEe~ILPLMVASAQ~GeRECHiVVLldDDvVdWD 249 (438)
T KOG3840|consen 170 VSVSELREACDYLLVPFNAQTVKCQNLHALLHELSNEGAREQFSQFLEEIILPLMVASAQHGERECHLVVLLDDDVVDWD 249 (438)
T ss_pred CchHHHHhhcceEEeecccceeeehhHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHhhhcCCceeEEEEEecCcccccc
Confidence 345679999999 5999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCcchhccC
Q psy973 153 EAYPPQMGEEYSQS 166 (167)
Q Consensus 153 EeyPPqmGEE~sQi 166 (167)
|+|||||||||+||
T Consensus 250 EEyPPQMGEEY~Q~ 263 (438)
T KOG3840|consen 250 EEYPPQMGEEYTQV 263 (438)
T ss_pred ccCCcccchhhhhh
Confidence 99999999999997
No 2
>KOG0459|consensus
Probab=50.87 E-value=9.1 Score=36.40 Aligned_cols=73 Identities=33% Similarity=0.484 Sum_probs=43.1
Q ss_pred cccccCCccccCcCCCCCCceeecchHHHHH-----HhhccchHHHHHHHHHHHHHHHHHhhhccCCcee----------
Q psy973 74 EEGEKGGRKREGKEGEKKPMTRVAYLGGLLH-----ELSNEGARCQFEVFLEDLILPLMVNSAQRGDREC---------- 138 (167)
Q Consensus 74 ~e~e~~g~~re~~~~~~~~TVkCqNLr~LLH-----ELSNeGAr~QFe~FLEelILPlMV~~AqrGeREC---------- 138 (167)
||++++-...-+..||....=+-.-|-+-.| ++-+ ||.| .=+-++|++|++|++|.
T Consensus 137 EeR~kgKtvEvGrA~FEte~~~ftiLDApGHk~fv~nmI~-Gasq--------AD~~vLvisar~gefetgFerGgQTRE 207 (501)
T KOG0459|consen 137 EERDKGKTVEVGRAYFETENKRFTILDAPGHKSFVPNMIG-GASQ--------ADLAVLVISARKGEFETGFEKGGQTRE 207 (501)
T ss_pred hhhhccceeeeeeEEEEecceeEEeeccCcccccchhhcc-ccch--------hhhhhhhhhhhhchhhcccccccchhH
Confidence 5677777777777777333222222222222 1111 1111 22567889999998874
Q ss_pred -----------EEEEe---cCCCccccCCCC
Q psy973 139 -----------HVVVL---LDDDTVDWDEAY 155 (167)
Q Consensus 139 -----------HIVVL---~DdD~VDWDEey 155 (167)
|+||+ +||-+|+|..++
T Consensus 208 ha~Lakt~gv~~lVv~vNKMddPtvnWs~eR 238 (501)
T KOG0459|consen 208 HAMLAKTAGVKHLIVLINKMDDPTVNWSNER 238 (501)
T ss_pred HHHHHHhhccceEEEEEEeccCCccCcchhh
Confidence 55554 799999999875
No 3
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=37.20 E-value=20 Score=26.39 Aligned_cols=26 Identities=38% Similarity=0.686 Sum_probs=21.9
Q ss_pred eEEEEecCC----CccccCCCCCCCCcchh
Q psy973 138 CHVVVLLDD----DTVDWDEAYPPQMGEEY 163 (167)
Q Consensus 138 CHIVVL~Dd----D~VDWDEeyPPqmGEE~ 163 (167)
|+|-++.+. +.++||.+--+-.|||+
T Consensus 40 C~V~~~~~~~~~~~~i~W~td~~~L~geEL 69 (74)
T cd01816 40 CAVFRLGDGSSKKLRIDWDTDISSLIGEEL 69 (74)
T ss_pred eEEEEcCCCcccccccchhhhhhhccCceE
Confidence 778788544 89999999999999986
No 4
>PF11606 AlcCBM31: Family 31 carbohydrate binding protein; InterPro: IPR021016 Beta-1,3-xylan is a homopolymer of b-1,3-linked D-xylose and is a polysaccharide peculiar to marine algae. Beta-1,3-xylanase is a beta-1,3-xylan hydrolyzing enzyme [].; GO: 0033905 xylan endo-1,3-beta-xylosidase activity; PDB: 2COV_F.
Probab=34.19 E-value=7.4 Score=29.97 Aligned_cols=13 Identities=54% Similarity=1.301 Sum_probs=9.5
Q ss_pred hhhhccccCCCCc
Q psy973 27 EICLDDYCSGGST 39 (167)
Q Consensus 27 ~~~~~~~~~~~~~ 39 (167)
-+||||||-.|.-
T Consensus 35 Y~CLd~yCl~g~k 47 (93)
T PF11606_consen 35 YLCLDDYCLSGTK 47 (93)
T ss_dssp EEEETTEEEE-EE
T ss_pred EEEecCeeccccc
Confidence 4799999976643
No 5
>PF10802 DUF2540: Protein of unknown function (DUF2540); InterPro: IPR024254 This family of proteins with unknown function appears to be restricted to Methanococcus.; PDB: 2EFV_A.
Probab=29.51 E-value=26 Score=25.94 Aligned_cols=19 Identities=26% Similarity=0.146 Sum_probs=12.4
Q ss_pred ceeecchHHHHHHhhccch
Q psy973 93 MTRVAYLGGLLHELSNEGA 111 (167)
Q Consensus 93 TVkCqNLr~LLHELSNeGA 111 (167)
.|.+..||++||+|-|.+.
T Consensus 7 ~id~r~lRY~LHklen~~~ 25 (75)
T PF10802_consen 7 NIDARDLRYYLHKLENLEE 25 (75)
T ss_dssp ---HHHHHHHHHHGGG---
T ss_pred cCCHHHHHHHHHHHccCCC
Confidence 4677899999999999765
No 6
>COG5196 ERD2 ER lumen protein retaining receptor [Intracellular trafficking and secretion]
Probab=29.27 E-value=51 Score=28.51 Aligned_cols=26 Identities=35% Similarity=0.617 Sum_probs=22.9
Q ss_pred HHHHHHHHH-HHHHHHHhhhccCCcee
Q psy973 113 CQFEVFLED-LILPLMVNSAQRGDREC 138 (167)
Q Consensus 113 ~QFe~FLEe-lILPlMV~~AqrGeREC 138 (167)
.-|.-|||. .|||++|...+.||.|-
T Consensus 121 wtfS~wLESVAILPQL~mLq~~Getes 147 (214)
T COG5196 121 WTFSLWLESVAILPQLVMLQEAGETES 147 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcce
Confidence 568899997 69999999999999873
No 7
>PF13606 Ank_3: Ankyrin repeat
Probab=28.54 E-value=37 Score=19.58 Aligned_cols=13 Identities=54% Similarity=0.731 Sum_probs=10.8
Q ss_pred HHHHHHhhCcCcc
Q psy973 12 CLHKLLESGADVK 24 (167)
Q Consensus 12 ~~~~~~~~~~~~~ 24 (167)
.++.|++.||||.
T Consensus 17 ~v~~Ll~~gadvn 29 (30)
T PF13606_consen 17 IVKYLLEHGADVN 29 (30)
T ss_pred HHHHHHHcCCCCC
Confidence 4788999999984
No 8
>smart00463 SMR Small MutS-related domain.
Probab=25.82 E-value=64 Score=21.47 Aligned_cols=22 Identities=36% Similarity=0.490 Sum_probs=19.3
Q ss_pred HHHhhccchHHHHHHHHHHHHH
Q psy973 103 LHELSNEGARCQFEVFLEDLIL 124 (167)
Q Consensus 103 LHELSNeGAr~QFe~FLEelIL 124 (167)
||-|+-+.|...++.||.+.+.
T Consensus 6 LHG~~~~eA~~~l~~~l~~~~~ 27 (80)
T smart00463 6 LHGLTVEEALTALDKFLNNARL 27 (80)
T ss_pred cCCCCHHHHHHHHHHHHHHHHH
Confidence 6888999999999999988764
No 9
>PF12385 Peptidase_C70: Papain-like cysteine protease AvrRpt2; InterPro: IPR022118 This is a family of cysteine proteases, found in actinobacteria, protobacteria and firmicutes. Papain-like cysteine proteases play a crucial role in plant-pathogen/pest interactions. On entering the host they act on non-self substrates, thereby manipulating the host to evade proteolysis []. AvrRpt2 from Pseudomonas syringae pv tomato DC3000 triggers resistance to P. syringae-2-dependent defence responses, including hypersensitive cell death, by cleaving the Arabidopsis RIN4 protein which is monitored by the cognate resistance protein RPS2 [].
Probab=24.45 E-value=38 Score=28.31 Aligned_cols=47 Identities=26% Similarity=0.351 Sum_probs=35.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhhccCCce-eEEEEec----CCCccc-cCCCCCCC
Q psy973 111 ARCQFEVFLEDLILPLMVNSAQRGDRE-CHVVVLL----DDDTVD-WDEAYPPQ 158 (167)
Q Consensus 111 Ar~QFe~FLEelILPlMV~~AqrGeRE-CHIVVL~----DdD~VD-WDEeyPPq 158 (167)
..++|...|.+ +=|+||....-|++. .|++|++ |.+.|. =|++.+|.
T Consensus 97 t~e~~~~LL~~-yGPLwv~~~~P~~~~~~H~~ViTGI~~dg~~i~~~DP~~gP~ 149 (166)
T PF12385_consen 97 TAEGLANLLRE-YGPLWVAWEAPGDSWVAHASVITGIDGDGDSIHVHDPEQGPN 149 (166)
T ss_pred CHHHHHHHHHH-cCCeEEEecCCCCcceeeEEEEEeecCCCCeEEecCcccCCC
Confidence 35567777765 469999988888888 8999997 456677 67777774
No 10
>PF06117 DUF957: Enterobacterial protein of unknown function (DUF957); InterPro: IPR009301 This family consists of several hypothetical proteins from Escherichia coli, Salmonella typhi, Shigella flexneri and Proteus vulgaris. The function of this family is unknown.
Probab=24.24 E-value=37 Score=24.74 Aligned_cols=13 Identities=77% Similarity=1.400 Sum_probs=10.3
Q ss_pred CCCCcCcc--CCccc
Q psy973 54 DNLDCESD--FDSKE 66 (167)
Q Consensus 54 ~~~~~~~~--~~~~~ 66 (167)
||++|||+ ||..|
T Consensus 19 dNi~~es~iiFDNde 33 (65)
T PF06117_consen 19 DNIDCESDIIFDNDE 33 (65)
T ss_pred cccCCCCCeeecCCC
Confidence 79999997 66654
No 11
>cd01949 GGDEF Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.
Probab=23.82 E-value=69 Score=20.92 Aligned_cols=53 Identities=25% Similarity=0.339 Sum_probs=35.1
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhhhccCCceeEEEEecCCCccccCCCCCCCCcchh
Q psy973 106 LSNEGARCQFEVFLEDLILPLMVNSAQRGDRECHVVVLLDDDTVDWDEAYPPQMGEEY 163 (167)
Q Consensus 106 LSNeGAr~QFe~FLEelILPlMV~~AqrGeRECHIVVL~DdD~VDWDEeyPPqmGEE~ 163 (167)
+....++..|...+.. ++.-+.+....+.|+++.=+.--.+...|.++.+++.
T Consensus 5 ~Tgl~n~~~f~~~~~~-----~~~~~~~~~~~~~l~~i~i~~~~~i~~~~g~~~~~~~ 57 (158)
T cd01949 5 LTGLPNRRAFEERLER-----LLARARRSGRPLALLLIDIDHFKQINDTYGHAAGDEV 57 (158)
T ss_pred cCCCcCHHHHHHHHHH-----HHHHHHhcCCeEEEEEEEchhhhHHHHhhChHhHHHH
Confidence 4556678888877665 4555566777777887766666666666666655543
No 12
>PF04855 SNF5: SNF5 / SMARCB1 / INI1; InterPro: IPR006939 SNF5 is a component of the yeast SWI/SNF complex, which is an ATP-dependent nucleosome-remodelling complex that regulates the transcription of a subset of yeast genes. SNF5 is a key component of all SWI/SNF-class complexes characterised so far []. This family consists of the conserved region of SNF5, including a direct repeat motif. SNF5 is essential for the assembly promoter targeting and chromatin remodelling activity of the SWI-SNF complex []. SNF5 is also known as SMARCB1, for SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily b, member 1, and also INI1 for integrase interactor 1. Loss-of function mutations in SNF5 are thought to contribute to oncogenesis in malignant rhabdoid tumours (MRTs) [].; GO: 0006338 chromatin remodeling, 0000228 nuclear chromosome
Probab=23.57 E-value=79 Score=26.73 Aligned_cols=33 Identities=33% Similarity=0.687 Sum_probs=27.0
Q ss_pred CCceeEEEEecC--------CCccccCCCCCCCCcchhccC
Q psy973 134 GDRECHVVVLLD--------DDTVDWDEAYPPQMGEEYSQS 166 (167)
Q Consensus 134 GeRECHIVVL~D--------dD~VDWDEeyPPqmGEE~sQi 166 (167)
.+.++||+|=+| .|.++||=.-|+...|+++++
T Consensus 110 ~~~~~rv~I~LdI~ig~~~l~DqFEWDL~~~~~~PE~FA~~ 150 (244)
T PF04855_consen 110 PDDDLRVIIKLDITIGNHLLVDQFEWDLSNPPNSPEEFARV 150 (244)
T ss_pred CCCceEEEEEEEEEECCEEEEEEEEecCCCCCCCHHHHHHH
Confidence 457999998777 488999988899888887753
No 13
>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein. It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.
Probab=20.24 E-value=76 Score=21.27 Aligned_cols=21 Identities=38% Similarity=0.471 Sum_probs=16.0
Q ss_pred HHHhhccchHHHHHHHHHHHH
Q psy973 103 LHELSNEGARCQFEVFLEDLI 123 (167)
Q Consensus 103 LHELSNeGAr~QFe~FLEelI 123 (167)
||-|+.+-|...++.||....
T Consensus 3 LHG~~~~eA~~~l~~~l~~~~ 23 (83)
T PF01713_consen 3 LHGLTVEEALRALEEFLDEAR 23 (83)
T ss_dssp -TTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHHHHHHH
Confidence 688889999999999987754
Done!