Query psy13312
Match_columns 67
No_of_seqs 69 out of 71
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 16:18:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13312.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13312hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0576|consensus 99.5 3.7E-15 8.1E-20 121.3 4.1 62 6-67 694-757 (829)
2 smart00036 CNH Domain found in 97.7 4.9E-05 1.1E-09 55.1 4.5 45 21-66 204-248 (302)
3 PF00780 CNH: CNH domain; Int 96.9 0.0017 3.7E-08 44.5 4.2 48 15-64 184-231 (275)
4 PF12859 Apc1: Anaphase-promot 74.3 7 0.00015 24.5 3.9 30 32-66 2-31 (105)
5 cd01272 FE65_N Fe65 Phosphotyr 49.5 17 0.00037 25.1 2.4 21 29-49 52-72 (138)
6 PF03921 ICAM_N: Intercellular 46.7 17 0.00037 23.0 1.9 28 13-40 45-72 (91)
7 PHA02678 hypothetical protein; 36.3 50 0.0011 21.3 2.9 37 28-64 3-43 (89)
8 PHA02551 19 tail tube protein; 34.9 55 0.0012 22.8 3.2 41 16-62 104-144 (163)
9 PF14157 YmzC: YmzC-like prote 31.4 1.1E+02 0.0025 18.5 3.8 28 20-47 19-47 (63)
10 PRK13720 modulator of post-seg 28.8 52 0.0011 20.3 2.0 20 29-48 24-43 (70)
11 KOG0275|consensus 26.6 1.3E+02 0.0027 24.4 4.2 42 11-52 384-428 (508)
12 PHA02576 3 tail completion and 26.4 86 0.0019 22.3 3.0 35 22-62 108-142 (177)
13 KOG4305|consensus 26.1 1.1E+02 0.0023 27.3 4.0 42 10-52 903-944 (1029)
14 PF08366 LLGL: LLGL2; InterPr 22.2 1.1E+02 0.0024 19.8 2.7 18 30-47 83-100 (105)
No 1
>KOG0576|consensus
Probab=99.54 E-value=3.7e-15 Score=121.29 Aligned_cols=62 Identities=24% Similarity=0.348 Sum_probs=56.2
Q ss_pred cCCCcceeecCCCccceEEEEeccCCeEEEEeCCeEEEEcCcceecc--cceeeeeeeeeeccC
Q psy13312 6 LDDGTATMVPRRENLNIINVTQLDKDSILVCYGKSSGLEPITCLQAQ--SIYQESKFTLSLESI 67 (67)
Q Consensus 6 ~~~g~~t~~~~~~~l~vv~VtQLdrDtvLVc~d~~VkiVnl~G~~~~--kl~sel~FdF~IEsi 67 (67)
+.|.+..+..+++++.+++|+|+|+|+||||+||+||+||+||+++. +++|||+|||.|||+
T Consensus 694 ~~~~~w~~~~~~~~~~v~~v~qvdrd~I~v~~~n~V~~v~lqG~~~~~~~~~sel~f~f~iesv 757 (829)
T KOG0576|consen 694 NSDSSWDIEAAGETLPVPQVTQVDRDTILVLFENMVKIVNLQGNGKVAVKLLSELTFDFDIESV 757 (829)
T ss_pred ccccccceeccCcccCCceeEEecccceEeeecCeeEEEeccCCccccccccccccccCCcceE
Confidence 36667788889999999999999999999999999999999997554 789999999999985
No 2
>smart00036 CNH Domain found in NIK1-like kinases, mouse citron and yeast ROM1, ROM2. Unpublished observations.
Probab=97.73 E-value=4.9e-05 Score=55.11 Aligned_cols=45 Identities=22% Similarity=0.284 Sum_probs=38.5
Q ss_pred ceEEEEeccCCeEEEEeCCeEEEEcCcceecccceeeeeeeeeecc
Q psy13312 21 NIINVTQLDKDSILVCYGKSSGLEPITCLQAQSIYQESKFTLSLES 66 (67)
Q Consensus 21 ~vv~VtQLdrDtvLVc~d~~VkiVnl~G~~~~kl~sel~FdF~IEs 66 (67)
+++.+.||+++.+|+|||+++.+||.+|. ...+..++.|++..++
T Consensus 204 ~p~~i~~l~~~e~Llc~~~~~v~Vn~~G~-~~~r~~~l~w~~~p~~ 248 (302)
T smart00036 204 KPISVVQVPRDEFLLCYDEFGVFVNLYGK-RRSRNPILHWEFMPES 248 (302)
T ss_pred CceEEEEECCCeEEEEECcEEEEEeCCCC-ccccceEEEcCCcccE
Confidence 79999999999999999999999999994 2344678888887665
No 3
>PF00780 CNH: CNH domain; InterPro: IPR001180 Based on sequence similarities a domain of homology has been identified in the following proteins []: Citron and Citron kinase. These two proteins interact with the GTP-bound forms of the small GTPases Rho and Rac but not with Cdc42. Myotonic dystrophy kinase-related Cdc42-binding kinase (MRCKalpha). This serine/threonine kinase interacts with the GTP-bound form of the small GTPase Cdc42 and to a lesser extent with that of Rac. NCK Interacting Kinase (NIK), a serine/threonine protein kinase. ROM-1 and ROM-2, from yeast. These proteins are GDP/GTP exchange proteins (GEPs) for the small GTP binding protein Rho1. This domain, called the citron homology domain, is often found after cysteine rich and pleckstrin homology (PH) domains at the C-terminal end of the proteins []. It acts as a regulatory domain and could be involved in macromolecular interactions [, ].; GO: 0005083 small GTPase regulator activity
Probab=96.89 E-value=0.0017 Score=44.46 Aligned_cols=48 Identities=13% Similarity=0.236 Sum_probs=38.2
Q ss_pred cCCCccceEEEEeccCCeEEEEeCCeEEEEcCcceecccceeeeeeeeee
Q psy13312 15 PRRENLNIINVTQLDKDSILVCYGKSSGLEPITCLQAQSIYQESKFTLSL 64 (67)
Q Consensus 15 ~~~~~l~vv~VtQLdrDtvLVc~d~~VkiVnl~G~~~~kl~sel~FdF~I 64 (67)
.+.....++.+.+++++.+|+|+++..-+||.+|.+.+ .+.+.|+...
T Consensus 184 ~~~~~~~~~~~~~~~~~e~Ll~~~~~g~fv~~~G~~~r--~~~i~W~~~p 231 (275)
T PF00780_consen 184 SRNSSSKPLGIFQLSDNEFLLCYDNIGVFVNKNGEPSR--KSTIQWSSAP 231 (275)
T ss_pred hcccCCCceEEEEeCCceEEEEecceEEEEcCCCCcCc--ccEEEcCCch
Confidence 44556778999999999999999999999999998654 3555555543
No 4
>PF12859 Apc1: Anaphase-promoting complex subunit 1
Probab=74.32 E-value=7 Score=24.54 Aligned_cols=30 Identities=7% Similarity=0.000 Sum_probs=22.3
Q ss_pred eEEEEeCCeEEEEcCcceecccceeeeeeeeeecc
Q psy13312 32 SILVCYGKSSGLEPITCLQAQSIYQESKFTLSLES 66 (67)
Q Consensus 32 tvLVc~d~~VkiVnl~G~~~~kl~sel~FdF~IEs 66 (67)
.+.||+..+++|-...|+. --+.|-|.|++
T Consensus 2 ~LcV~l~~~~~vy~~~G~~-----~~v~LPF~V~~ 31 (105)
T PF12859_consen 2 ALCVVLKDQAHVYFPSGES-----YTVPLPFEVSS 31 (105)
T ss_pred EEEEEECCEEEEEeCCCCE-----EEEEeceEeeE
Confidence 6889999999999999962 34455555554
No 5
>cd01272 FE65_N Fe65 Phosphotyrosine-binding (PTB) domain. Fe65 Phosphotyrosine-binding (PTB) domain. Fe65 is an amyloid beta A4 precursor protein-binding. It contains an N-terminal WW domain followed by two PTB domains. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=49.45 E-value=17 Score=25.06 Aligned_cols=21 Identities=19% Similarity=-0.020 Sum_probs=19.3
Q ss_pred cCCeEEEEeCCeEEEEcCcce
Q psy13312 29 DKDSILVCYGKSSGLEPITCL 49 (67)
Q Consensus 29 drDtvLVc~d~~VkiVnl~G~ 49 (67)
-||.+|++-++.+|+++.+++
T Consensus 52 Gk~~~m~L~~g~lkLiDP~~~ 72 (138)
T cd01272 52 GKDLFMDLDEGALKLIDPENL 72 (138)
T ss_pred cceeEEEecCCceEeeCCCCC
Confidence 489999999999999999995
No 6
>PF03921 ICAM_N: Intercellular adhesion molecule (ICAM), N-terminal domain; InterPro: IPR013768 Intercellular adhesion molecules (ICAMs) and vascular cell adhesion molecule-1 (VCAM-1) are part of the immunoglobulin superfamily. They are important in inflammation, immune responses and in intracellular signalling events []. The ICAM family consists of five members, designated ICAM-1 to ICAM-5. They are known to bind to leucocyte integrins CD11/CD18 during inflammation and in immune responses. In addition, ICAMs may exist in soluble forms in human plasma, due to activation and proteolysis mechanisms at cell surfaces. ICAM-1 (CD54) contains five Ig-like domains. It is expressed on leucocytes, endothelial and epithelial cells, and is upregulated in response to bacterial invasion. The protein is a ligand for lymphocyte-function associated (LFA) antigens and also a receptor for CD11a,b/CD18, fibrinogen, human rhinovirus and Plasmodium falciparum-infected erythrocytes. ICAM-1 binding sites for CD11a/CD18 and its other binding partners are located in the first domain and are overlapping. ICAM-1 domain 2 seems to play an important role in maintaining the conformation of domain 1 and particularly the structural integrity of the LFA-1 ligand-binding site []. The 3-dimensional atomic structure of the tandem N-terminal Ig-like domains (D1 and D2) of ICAM-1 has been determined to 2.2A resolution and fitted into a cryoelectron microscopy reconstruction of a rhinovirus-ICAM-1 complex []. Extensive charge interactions between ICAM-1 and human rhinovirusesare largely conserved in major and minor receptor groups of rhinoviruses. The interaction of ICAMs with LFA-1 is mediated by a divalent cation bound to the insertion (I)-domain on the alpha chain of LFA-1 and the carboxyl group of a conserved glutamic acid residue on ICAMs. ICAM-2 (CD102) has two Ig-like domains. It is expressed on endothelial cells, leucocytes and platelets, and binds to CD11a'b/CD18. The protein is refractory to proinflammatory cytokines, and plays an important role in the adhesion of leucocytes to the uninduced endothelium []. ICAM-3 (CD50) contains five Ig-like domains and binds to leucocyte integrins CD11a'd/CD18. The protein plays an important role in the immune response and perhaps in signal transduction []. ICAM-4 (LW blood group Ag) is red blood cell (RBC) specific and binds to CD11a'b/CD18. It is associated with the RBC Rh antigens and could be important in retaining immature red cells in the bone marrow, or in the uptake of senescent cells into the spleen []. ICAM-5 (telencephalin) has nine Ig-like domains and is confined to the telencephalon of the brain. The role of this CD11a/CD18 binding molecule is not yet known []. VCAM-1 was first described as a cytokine-inducible endothelial adhesion molecule. It can bind to leucocyte integrin VL-4 (very late antigen-4) to recruit leucocytes to sites of inflammation []. The predominant form of VCAM-1 in vivo has an N-terminal extracellular region comprising seven Ig-like domains []. A conserved integrin-binding motif has been identified in domains 1 and 4, variants of which are present in the N-terminal domain of all members of the integrin-binding subgroup of the immunoglobulin superfamily. The structure of a VLA-4-binding fragment comprising the first two domains of VCAM-1 has been determined to 1.8A resolution. The integrin-binding motif is exposed and forms the N-terminal region of the loop between beta-strands C and D of domain 1 []. VCAM-1 domains 1 and 2 are structurally similar to ICAM-1 and ICAM-2 []. This entry represents the N-terminal domain of ICAM proteins such as ICAM-2, ICAM-3 and ICAM-4.; PDB: 3BN3_B 1T0P_B 1ZXQ_A 3TCX_A 1MQ8_A 1Z7Z_I 1IC1_A 1IAM_A.
Probab=46.68 E-value=17 Score=22.98 Aligned_cols=28 Identities=11% Similarity=0.275 Sum_probs=20.7
Q ss_pred eecCCCccceEEEEeccCCeEEEEeCCe
Q psy13312 13 MVPRRENLNIINVTQLDKDSILVCYGKS 40 (67)
Q Consensus 13 ~~~~~~~l~vv~VtQLdrDtvLVc~d~~ 40 (67)
.+-++.+..+-++..+..|+.++||-+|
T Consensus 45 ~~~~g~~W~~f~LsnV~~ds~~~C~~~C 72 (91)
T PF03921_consen 45 ELDSGPQWKAFQLSNVTEDSSPLCFFNC 72 (91)
T ss_dssp EEEEETTEEEEEEEEE-SCEEEEEEEEE
T ss_pred ccCCCCcEEEEEEEccccCCeEEEEEEc
Confidence 3344555667788888899999999887
No 7
>PHA02678 hypothetical protein; Provisional
Probab=36.32 E-value=50 Score=21.28 Aligned_cols=37 Identities=19% Similarity=0.180 Sum_probs=21.8
Q ss_pred ccCCeEEEEeCC---eEEEEcCcceecc-cceeeeeeeeee
Q psy13312 28 LDKDSILVCYGK---SSGLEPITCLQAQ-SIYQESKFTLSL 64 (67)
Q Consensus 28 LdrDtvLVc~d~---~VkiVnl~G~~~~-kl~sel~FdF~I 64 (67)
+|.||++|.-.+ ---++|-+|++.. .-....+|+-.|
T Consensus 3 VDDnTlIVy~~g~~WP~~L~~~~gk~l~fps~nS~tf~~~I 43 (89)
T PHA02678 3 LDSDTVIVAVPGTRFPEGLFDRQGRPLGPGSTPTMEYEDSV 43 (89)
T ss_pred ccCCeEEEeecCCCCCcceEcCCCCCcCCCCCCceeecccc
Confidence 688999998222 2346788887655 222345555433
No 8
>PHA02551 19 tail tube protein; Provisional
Probab=34.94 E-value=55 Score=22.78 Aligned_cols=41 Identities=20% Similarity=0.061 Sum_probs=26.7
Q ss_pred CCCccceEEEEeccCCeEEEEeCCeEEEEcCcceecccceeeeeeee
Q psy13312 16 RRENLNIINVTQLDKDSILVCYGKSSGLEPITCLQAQSIYQESKFTL 62 (67)
Q Consensus 16 ~~~~l~vv~VtQLdrDtvLVc~d~~VkiVnl~G~~~~kl~sel~FdF 62 (67)
..+....++|+|||||.- ..++-+++.|. -+...+|+.+|+
T Consensus 104 ~~~y~~~i~v~~ldrn~~-----~i~~t~~~~g~-wPs~VgeveLdy 144 (163)
T PHA02551 104 PAGYKKDATVRQLDRDGK-----TVTREYTIYGL-FPTNVGEIDLDW 144 (163)
T ss_pred ccccccceEEEEeccCCC-----ceEEEEEEece-ecccccceeecc
Confidence 444567899999999854 15777788884 233345555554
No 9
>PF14157 YmzC: YmzC-like protein; PDB: 3KVP_E.
Probab=31.42 E-value=1.1e+02 Score=18.45 Aligned_cols=28 Identities=21% Similarity=0.162 Sum_probs=20.1
Q ss_pred cceEEEEeccCCeEEEE-eCCeEEEEcCc
Q psy13312 20 LNIINVTQLDKDSILVC-YGKSSGLEPIT 47 (67)
Q Consensus 20 l~vv~VtQLdrDtvLVc-~d~~VkiVnl~ 47 (67)
+..-..+||+.++.=|. -++.+||---+
T Consensus 19 ~~ts~m~ql~~N~Fav~~e~~~iKIfkyd 47 (63)
T PF14157_consen 19 PNTSNMTQLEHNHFAVVDEDGQIKIFKYD 47 (63)
T ss_dssp ---EEEEE-STTEEEEE-ETTEEEEEEEE
T ss_pred cCcCceEEecCCEEEEEecCCeEEEEEeC
Confidence 44567999999999999 88999986443
No 10
>PRK13720 modulator of post-segregation killing protein; Provisional
Probab=28.84 E-value=52 Score=20.25 Aligned_cols=20 Identities=30% Similarity=0.350 Sum_probs=17.8
Q ss_pred cCCeEEEEeCCeEEEEcCcc
Q psy13312 29 DKDSILVCYGKSSGLEPITC 48 (67)
Q Consensus 29 drDtvLVc~d~~VkiVnl~G 48 (67)
.|...|||.++..++||+.-
T Consensus 24 ~Krp~LV~inRv~h~V~IH~ 43 (70)
T PRK13720 24 TKRPCLVCVDRVSHTVDIHL 43 (70)
T ss_pred ccCceEEEeeeeeeEEeecc
Confidence 57889999999999999865
No 11
>KOG0275|consensus
Probab=26.57 E-value=1.3e+02 Score=24.39 Aligned_cols=42 Identities=17% Similarity=0.260 Sum_probs=30.1
Q ss_pred ceeecCCCccceEEEEeccCC--eEEEEeC-CeEEEEcCcceecc
Q psy13312 11 ATMVPRRENLNIINVTQLDKD--SILVCYG-KSSGLEPITCLQAQ 52 (67)
Q Consensus 11 ~t~~~~~~~l~vv~VtQLdrD--tvLVc~d-~~VkiVnl~G~~~~ 52 (67)
+|.-|.+....+-.|.-+-|+ -+.||-. |+|-|+|++|...+
T Consensus 384 ~Tfk~~~~d~~vnsv~~~PKnpeh~iVCNrsntv~imn~qGQvVr 428 (508)
T KOG0275|consen 384 STFKPLGTDYPVNSVILLPKNPEHFIVCNRSNTVYIMNMQGQVVR 428 (508)
T ss_pred hhccCCCCcccceeEEEcCCCCceEEEEcCCCeEEEEeccceEEe
Confidence 344455555566667777665 4889987 99999999997554
No 12
>PHA02576 3 tail completion and sheath stabilizer protein; Provisional
Probab=26.41 E-value=86 Score=22.26 Aligned_cols=35 Identities=17% Similarity=0.011 Sum_probs=23.0
Q ss_pred eEEEEeccCCeEEEEeCCeEEEEcCcceecccceeeeeeee
Q psy13312 22 IINVTQLDKDSILVCYGKSSGLEPITCLQAQSIYQESKFTL 62 (67)
Q Consensus 22 vv~VtQLdrDtvLVc~d~~VkiVnl~G~~~~kl~sel~FdF 62 (67)
.++++|||++ ..+.+..++..|. -+.-.+++.|++
T Consensus 108 d~~LhiLdn~-----~~~iv~t~~F~~~-fPs~ls~ielsY 142 (177)
T PHA02576 108 AITLHILDNS-----KTKIVATFNFYGA-WPSDLGEIELSY 142 (177)
T ss_pred ceEEEeecCC-----CCceEEEEEEeee-eecccCceeeee
Confidence 5899999999 4456666777774 222245666664
No 13
>KOG4305|consensus
Probab=26.10 E-value=1.1e+02 Score=27.27 Aligned_cols=42 Identities=14% Similarity=0.305 Sum_probs=33.0
Q ss_pred cceeecCCCccceEEEEeccCCeEEEEeCCeEEEEcCcceecc
Q psy13312 10 TATMVPRRENLNIINVTQLDKDSILVCYGKSSGLEPITCLQAQ 52 (67)
Q Consensus 10 ~~t~~~~~~~l~vv~VtQLdrDtvLVc~d~~VkiVnl~G~~~~ 52 (67)
.+--.-++++..++.+=|+-. ..|.||+-.+-+||-+|..++
T Consensus 903 ~~~~~~~~~~~kp~~ifri~~-~Fllcy~~~~f~vn~~G~~~~ 944 (1029)
T KOG4305|consen 903 SPLFFEKRENTKPVAIFRISG-EFLLCYDEFAFFVNDQGWRSR 944 (1029)
T ss_pred hHHHHhhhccCceeEEEEecC-eEEEEecceEEEEcCCcceec
Confidence 333445667778888888877 999999999999999997544
No 14
>PF08366 LLGL: LLGL2; InterPro: IPR013577 This domain is found in lethal giant larvae homologue 2 (LLGL2) proteins and syntaxin-binding proteins like tomosyn []. It has been identified in eukaryotes and tends to be found together with WD repeats (IPR001680 from INTERPRO).
Probab=22.15 E-value=1.1e+02 Score=19.84 Aligned_cols=18 Identities=6% Similarity=0.014 Sum_probs=14.0
Q ss_pred CCeEEEEeCCeEEEEcCc
Q psy13312 30 KDSILVCYGKSSGLEPIT 47 (67)
Q Consensus 30 rDtvLVc~d~~VkiVnl~ 47 (67)
--+|+||.++-+.++||+
T Consensus 83 P~alvVL~e~eLVvIDL~ 100 (105)
T PF08366_consen 83 PYALVVLLEEELVVIDLQ 100 (105)
T ss_pred CcEEEEEEcCcEEEEECC
Confidence 347888888888888875
Done!