Query psy1060
Match_columns 101
No_of_seqs 91 out of 93
Neff 3.7
Searched_HMMs 46136
Date Fri Aug 16 22:30:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1060.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1060hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3671|consensus 97.6 8.5E-05 1.8E-09 64.9 4.4 46 1-51 499-547 (569)
2 PHA03346 US22 family homolog; 85.6 1.2 2.5E-05 39.2 4.1 10 92-101 433-442 (520)
3 PF02205 WH2: WH2 motif; Inte 71.4 1 2.3E-05 25.3 -0.4 18 1-21 9-26 (30)
4 KOG1830|consensus 69.7 1.2 2.6E-05 39.1 -0.5 16 86-101 502-518 (518)
5 KOG3671|consensus 60.5 7.8 0.00017 34.7 2.7 11 32-42 493-503 (569)
6 PF11702 DUF3295: Protein of u 36.9 13 0.00029 32.8 0.4 11 91-101 307-317 (507)
7 KOG3480|consensus 36.4 23 0.0005 24.9 1.5 22 34-55 20-43 (90)
8 KOG0772|consensus 35.5 25 0.00054 32.0 1.9 8 75-82 108-115 (641)
9 PF08414 NADPH_Ox: Respiratory 31.8 39 0.00085 24.1 2.0 20 34-54 59-78 (100)
10 PF04697 Pinin_SDK_N: pinin/SD 31.3 30 0.00064 25.9 1.4 29 46-74 59-87 (134)
11 PF01148 CTP_transf_1: Cytidyl 28.5 41 0.00088 24.6 1.7 39 36-78 209-247 (259)
12 PRK15244 virulence protein Spv 28.1 34 0.00073 31.0 1.5 17 73-89 362-378 (591)
13 cd07292 PX_SNX6 The phosphoino 24.4 35 0.00075 25.6 0.7 10 75-84 60-69 (141)
14 PRK11624 cdsA CDP-diglyceride 23.9 73 0.0016 25.4 2.5 39 36-78 231-269 (285)
15 PF08390 TRAM1: TRAM1-like pro 23.4 97 0.0021 19.6 2.6 20 37-57 46-65 (65)
16 smart00246 WH2 Wiskott Aldrich 21.7 41 0.00089 18.7 0.5 16 1-21 6-21 (26)
17 PF13724 DNA_binding_2: DNA-bi 20.2 32 0.00069 21.7 -0.2 7 72-78 7-13 (49)
No 1
>KOG3671|consensus
Probab=97.57 E-value=8.5e-05 Score=64.92 Aligned_cols=46 Identities=30% Similarity=0.415 Sum_probs=31.8
Q ss_pred ChhHhhhCCCCccccccCcCCCCcccCcc---cCCCCCCHHHHHHHHHHHHhcc
Q psy1060 1 MQAIRTAGGTRKAKLRCVDATPESDNNMI---VAPPSGDLMSDLAAKLQLRRKG 51 (101)
Q Consensus 1 laaIR~AGGi~~~kLrkv~~~~~~~~~~~---~~~~gGdLM~dL~~kL~~RRkg 51 (101)
|+.|| +|| -||+|+++++..+++. ....+|.|..+|.+.|+.|+-+
T Consensus 499 maqIR-qG~----~Lk~v~~~~~~~~~~s~s~~~a~~~~lagal~~~m~ara~a 547 (569)
T KOG3671|consen 499 MAQIR-QGG----QLKKVDSRKLGARRSSASPPAASPGGLAGALANLMDARASA 547 (569)
T ss_pred HHHHH-hcc----cccccchhhhccccCCCCCCCCCCCccccHHHHHHHHHHHh
Confidence 78999 442 3478888876333332 1355789999999999999644
No 2
>PHA03346 US22 family homolog; Provisional
Probab=85.63 E-value=1.2 Score=39.17 Aligned_cols=10 Identities=40% Similarity=1.189 Sum_probs=5.6
Q ss_pred CCCCCCCCCC
Q psy1060 92 DTDTEPDWDD 101 (101)
Q Consensus 92 ~dd~e~~W~~ 101 (101)
+|++||+|++
T Consensus 433 ~~~~d~~~~~ 442 (520)
T PHA03346 433 DDEDDDDWED 442 (520)
T ss_pred cccccccccc
Confidence 4555557853
No 3
>PF02205 WH2: WH2 motif; InterPro: IPR003124 The WH2 (WASP-Homology 2, or Wiskott-Aldrich homology 2) domain is an ~18 amino acids actin-binding motif. This domain was first recognised as an essential element for the regulation of the cytoskeleton by the mammalian Wiskott-Aldrich syndrome protein (WASP) family. WH2 proteins occur in eukaryotes from yeast to mammals, in insect viruses, and in some bacteria. The WH2 domain is found as a modular part of larger proteins; it can be associated with the WH1 or EVH1 domain and with the CRIB domain, and the WH2 domain can occur as a tandem repeat. The WH2 domain binds actin monomers and can facilitate the assembly of actin monomers into newly forming actin filaments [, ]. ; GO: 0005515 protein binding; PDB: 2D1K_C 3M1F_V 2A41_C 2A3Z_C 2VCP_E 2A40_F 3P8C_D 3M3N_W.
Probab=71.41 E-value=1 Score=25.32 Aligned_cols=18 Identities=44% Similarity=0.632 Sum_probs=12.2
Q ss_pred ChhHhhhCCCCccccccCcCC
Q psy1060 1 MQAIRTAGGTRKAKLRCVDAT 21 (101)
Q Consensus 1 laaIR~AGGi~~~kLrkv~~~ 21 (101)
|++||+.+ +.+||||.+.
T Consensus 9 L~~Ir~G~---k~~LKkv~~~ 26 (30)
T PF02205_consen 9 LSQIRKGS---KAQLKKVDET 26 (30)
T ss_dssp HHHHHHH-----HHHBHTSS-
T ss_pred HHHHHHcc---cccccCCCCC
Confidence 68999873 6678999655
No 4
>KOG1830|consensus
Probab=69.69 E-value=1.2 Score=39.10 Aligned_cols=16 Identities=44% Similarity=0.788 Sum_probs=10.6
Q ss_pred CCCCCCC-CCCCCCCCC
Q psy1060 86 SESDHDD-TDTEPDWDD 101 (101)
Q Consensus 86 ~~~e~~~-dd~e~~W~~ 101 (101)
+.+|+|+ +.||++|+|
T Consensus 502 sdseDdssefDe~dW~d 518 (518)
T KOG1830|consen 502 SDSEDDSSEFDEDDWSD 518 (518)
T ss_pred ccCcccccccccccccC
Confidence 4444444 777889986
No 5
>KOG3671|consensus
Probab=60.49 E-value=7.8 Score=34.69 Aligned_cols=11 Identities=18% Similarity=0.299 Sum_probs=7.5
Q ss_pred CCCCCHHHHHH
Q psy1060 32 PPSGDLMSDLA 42 (101)
Q Consensus 32 ~~gGdLM~dL~ 42 (101)
.+=++||+++.
T Consensus 493 dgR~~LmaqIR 503 (569)
T KOG3671|consen 493 DGRDALMAQIR 503 (569)
T ss_pred ccHHHHHHHHH
Confidence 44567888775
No 6
>PF11702 DUF3295: Protein of unknown function (DUF3295); InterPro: IPR021711 This family is conserved in fungi but the function is not known.
Probab=36.91 E-value=13 Score=32.84 Aligned_cols=11 Identities=55% Similarity=1.241 Sum_probs=7.4
Q ss_pred CCCCCCCCCCC
Q psy1060 91 DDTDTEPDWDD 101 (101)
Q Consensus 91 ~~dd~e~~W~~ 101 (101)
||||+++||+|
T Consensus 307 dDDDDssDWED 317 (507)
T PF11702_consen 307 DDDDDSSDWED 317 (507)
T ss_pred cCCccchhhhh
Confidence 45666679954
No 7
>KOG3480|consensus
Probab=36.39 E-value=23 Score=24.91 Aligned_cols=22 Identities=27% Similarity=0.374 Sum_probs=16.8
Q ss_pred CCCHHHHHHHHHHH--HhccccCC
Q psy1060 34 SGDLMSDLAAKLQL--RRKGISGS 55 (101)
Q Consensus 34 gGdLM~dL~~kL~~--RRkgISGs 55 (101)
--++|+|+||+|.. -+|=|.-.
T Consensus 20 E~emm~d~fNrl~~tC~~KCI~~~ 43 (90)
T KOG3480|consen 20 EVEMMSDMFNRLTNTCHKKCIPPR 43 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCcc
Confidence 34799999999987 46777654
No 8
>KOG0772|consensus
Probab=35.54 E-value=25 Score=31.96 Aligned_cols=8 Identities=13% Similarity=0.065 Sum_probs=5.1
Q ss_pred hcCCCCCC
Q psy1060 75 HNIPPPLA 82 (101)
Q Consensus 75 ~~IPpPp~ 82 (101)
++|+||||
T Consensus 108 ~~mgplPP 115 (641)
T KOG0772|consen 108 DFMGPLPP 115 (641)
T ss_pred hhcCCCCc
Confidence 46776665
No 9
>PF08414 NADPH_Ox: Respiratory burst NADPH oxidase; InterPro: IPR013623 This domain is found in plant proteins such as respiratory burst NADPH oxidase proteins which produce reactive oxygen species as a defence mechanism. It tends to occur to the N terminus of an EF-hand (IPR002048 from INTERPRO), which suggests a direct regulatory effect of Ca2+ on the activity of the NADPH oxidase in plants []. ; GO: 0004601 peroxidase activity, 0050664 oxidoreductase activity, acting on NADH or NADPH, oxygen as acceptor, 0055114 oxidation-reduction process; PDB: 3A8R_A.
Probab=31.77 E-value=39 Score=24.08 Aligned_cols=20 Identities=40% Similarity=0.625 Sum_probs=13.5
Q ss_pred CCCHHHHHHHHHHHHhccccC
Q psy1060 34 SGDLMSDLAAKLQLRRKGISG 54 (101)
Q Consensus 34 gGdLM~dL~~kL~~RRkgISG 54 (101)
.-.++..||.+|+.|| +|.+
T Consensus 59 SkeFA~eLFdALaRrr-~i~~ 78 (100)
T PF08414_consen 59 SKEFAGELFDALARRR-GIKG 78 (100)
T ss_dssp -HHHHHHHHHHHHHHT-T--S
T ss_pred cHHHHHHHHHHHHHhc-CCcc
Confidence 3468899999999765 5653
No 10
>PF04697 Pinin_SDK_N: pinin/SDK conserved region; InterPro: IPR006787 This conserved region is found at the N-terminal of the member proteins. It is located adjacent and N-terminal to the pinin/SKD/memA domain IPR006786 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque [, ]. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=31.33 E-value=30 Score=25.94 Aligned_cols=29 Identities=21% Similarity=0.273 Sum_probs=16.2
Q ss_pred HHHhccccCCCCCCCCCCCCCccHHHHhh
Q psy1060 46 QLRRKGISGSHNQMNENSTSSGNLMDKLL 74 (101)
Q Consensus 46 ~~RRkgISGs~~~~~~~~~~~~~~~~r~S 74 (101)
..+|..+++.+.....-.....++|.+++
T Consensus 59 ~~~rR~~sd~~~~p~~k~rd~~g~~~rl~ 87 (134)
T PF04697_consen 59 NLRRRELSDSGGGPPSKRRDISGAFSRLS 87 (134)
T ss_pred hhhhccccccCCCCcccccCCCcceeEec
Confidence 34566777666432211234567887777
No 11
>PF01148 CTP_transf_1: Cytidylyltransferase family; InterPro: IPR000374 Phosphatidate cytidylyltransferase (2.7.7.41 from EC) [, , ] (also known as CDP- diacylglycerol synthase) (CDS) is the enzyme that catalyzes the synthesis of CDP-diacylglycerol from CTP and phosphatidate (PA): CTP + phosphatidate = diphosphate + CDP-diacylglycerol CDP-diacylglycerol is an important branch point intermediate in both prokaryotic and eukaryotic organisms. CDS is a membrane-bound enzyme.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016020 membrane
Probab=28.48 E-value=41 Score=24.62 Aligned_cols=39 Identities=23% Similarity=0.336 Sum_probs=28.9
Q ss_pred CHHHHHHHHHHHHhccccCCCCCCCCCCCCCccHHHHhhhcCC
Q psy1060 36 DLMSDLAAKLQLRRKGISGSHNQMNENSTSSGNLMDKLLHNIP 78 (101)
Q Consensus 36 dLM~dL~~kL~~RRkgISGs~~~~~~~~~~~~~~~~r~S~~IP 78 (101)
....||+.-.-+|.-||.-+.+== .+-||.+||+...+.
T Consensus 209 ~~~gdl~~S~~KR~~~iKD~g~li----pghGg~lDr~d~~l~ 247 (259)
T PF01148_consen 209 EAFGDLFESAIKRDAGIKDSGNLI----PGHGGILDRFDSLLF 247 (259)
T ss_pred HHHHHHHHHHHHHhhhcccccccc----cCcCCcccchHhHHH
Confidence 346789999999999997775411 245789999987654
No 12
>PRK15244 virulence protein SpvB; Provisional
Probab=28.12 E-value=34 Score=30.99 Aligned_cols=17 Identities=18% Similarity=0.370 Sum_probs=11.1
Q ss_pred hhhcCCCCCCCCCCCCC
Q psy1060 73 LLHNIPPPLAAGSSESD 89 (101)
Q Consensus 73 ~S~~IPpPp~~~~~~~e 89 (101)
+-.|.||||||....++
T Consensus 362 ~~~~~~~~~~~~~~~~~ 378 (591)
T PRK15244 362 VNNMMPPPPPPPMMGGN 378 (591)
T ss_pred CCCCCCCcccCcccCCc
Confidence 44678877776665554
No 13
>cd07292 PX_SNX6 The phosphoinositide binding Phox Homology domain of Sorting Nexin 6. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transfo
Probab=24.37 E-value=35 Score=25.64 Aligned_cols=10 Identities=30% Similarity=0.344 Sum_probs=7.4
Q ss_pred hcCCCCCCCC
Q psy1060 75 HNIPPPLAAG 84 (101)
Q Consensus 75 ~~IPpPp~~~ 84 (101)
-+|||||+.+
T Consensus 60 ~IVPPlP~K~ 69 (141)
T cd07292 60 YIIPPAPPRP 69 (141)
T ss_pred EEECCCCCCc
Confidence 4699998754
No 14
>PRK11624 cdsA CDP-diglyceride synthase; Provisional
Probab=23.86 E-value=73 Score=25.44 Aligned_cols=39 Identities=21% Similarity=0.403 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHhccccCCCCCCCCCCCCCccHHHHhhhcCC
Q psy1060 36 DLMSDLAAKLQLRRKGISGSHNQMNENSTSSGNLMDKLLHNIP 78 (101)
Q Consensus 36 dLM~dL~~kL~~RRkgISGs~~~~~~~~~~~~~~~~r~S~~IP 78 (101)
..++||+.-+-+|+-||.-+.+== .+=||.+||+=++|.
T Consensus 231 ~~~GDL~ES~lKR~~gVKDSG~ll----PGHGGiLDR~DSLlf 269 (285)
T PRK11624 231 SVLGDLTESMFKREAGIKDSGHLI----PGHGGILDRIDSLTA 269 (285)
T ss_pred HHHhHHHHHHHhhccCCCCCcCcC----CCcCcchhhHhHHHH
Confidence 467899999999999997775311 244789999866653
No 15
>PF08390 TRAM1: TRAM1-like protein; InterPro: IPR013599 This family comprises sequences that are similar to human TRAM1 (Q15629 from SWISSPROT). This is a transmembrane protein of the endoplasmic reticulum, thought to be involved in the membrane transfer of secretory proteins []. The region featured in this family is found N-terminal to the longevity-assurance protein region (IPR005547 from INTERPRO).
Probab=23.40 E-value=97 Score=19.62 Aligned_cols=20 Identities=35% Similarity=0.463 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhccccCCCC
Q psy1060 37 LMSDLAAKLQLRRKGISGSHN 57 (101)
Q Consensus 37 LM~dL~~kL~~RRkgISGs~~ 57 (101)
+|.-++..|+ ||=||+.+++
T Consensus 46 ~m~yvl~Pla-r~~gi~k~kk 65 (65)
T PF08390_consen 46 LMEYVLDPLA-RKLGISKKKK 65 (65)
T ss_pred HHHHHHHHHH-HHcCCCCCCC
Confidence 6888888999 9999988763
No 16
>smart00246 WH2 Wiskott Aldrich syndrome homology region 2. Wiskott Aldrich syndrome homology region 2 / actin-binding motif
Probab=21.72 E-value=41 Score=18.65 Aligned_cols=16 Identities=38% Similarity=0.503 Sum_probs=10.3
Q ss_pred ChhHhhhCCCCccccccCcCC
Q psy1060 1 MQAIRTAGGTRKAKLRCVDAT 21 (101)
Q Consensus 1 laaIR~AGGi~~~kLrkv~~~ 21 (101)
|++||. | .+||+|...
T Consensus 6 La~Ir~--G---~~LKkv~~~ 21 (26)
T smart00246 6 LAQIRQ--G---KKLKKVXXX 21 (26)
T ss_pred HHHHHc--c---cccCccccc
Confidence 678993 2 466887543
No 17
>PF13724 DNA_binding_2: DNA-binding domain
Probab=20.16 E-value=32 Score=21.67 Aligned_cols=7 Identities=29% Similarity=0.615 Sum_probs=5.9
Q ss_pred HhhhcCC
Q psy1060 72 KLLHNIP 78 (101)
Q Consensus 72 r~S~~IP 78 (101)
|||+|||
T Consensus 7 RLSdMmP 13 (49)
T PF13724_consen 7 RLSDMMP 13 (49)
T ss_pred eccccCc
Confidence 6888888
Done!