Query 014136
Match_columns 430
No_of_seqs 108 out of 803
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 02:11:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014136.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014136hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00458 acyl CoA binding prot 100.0 2.1E-29 4.5E-34 208.0 10.4 87 317-406 3-89 (90)
2 cd00435 ACBP Acyl CoA binding 100.0 4.3E-29 9.2E-34 202.5 9.3 85 315-404 1-85 (85)
3 PF00887 ACBP: Acyl CoA bindin 100.0 2.6E-29 5.6E-34 201.0 7.6 87 315-404 1-87 (87)
4 KOG0817 Acyl-CoA-binding prote 99.9 9.6E-27 2.1E-31 206.0 9.4 93 312-409 2-94 (142)
5 COG4281 ACB Acyl-CoA-binding p 99.9 2.8E-22 6.1E-27 165.1 7.9 84 315-403 2-85 (87)
6 KOG3878 Protein involved in ma 99.1 2.5E-10 5.5E-15 114.8 7.2 92 312-405 29-123 (469)
7 smart00295 B41 Band 4.1 homolo 96.7 0.0074 1.6E-07 52.4 8.0 87 313-405 97-204 (207)
8 PF00373 FERM_M: FERM central 96.1 0.04 8.6E-07 44.7 8.1 86 313-404 9-122 (126)
9 KOG3530 FERM domain protein EH 77.4 4.7 0.0001 44.4 5.9 63 337-399 121-195 (616)
10 KOG4261 Talin [Cytoskeleton] 32.5 1.1E+02 0.0023 35.7 6.4 64 336-399 227-303 (1003)
11 KOG3529 Radixin, moesin and re 31.7 1.4E+02 0.0029 33.2 7.0 85 314-404 106-211 (596)
12 PF06716 DUF1201: Protein of u 29.8 46 0.001 26.4 2.3 23 1-23 1-23 (54)
13 PF04434 SWIM: SWIM zinc finge 27.3 36 0.00078 23.7 1.2 23 29-51 11-34 (40)
No 1
>PTZ00458 acyl CoA binding protein; Provisional
Probab=99.96 E-value=2.1e-29 Score=208.04 Aligned_cols=87 Identities=29% Similarity=0.547 Sum_probs=82.2
Q ss_pred HHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCCCCCcChhhHHHHHHHHhcCCCCHHHHHHHHHHHH
Q 014136 317 RLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQPMALKVSARANWNAWKQLGNMTPEIAMEQYVTIL 396 (430)
Q Consensus 317 EkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpKPS~fD~vGRAKWDAWKALKGMSKEEAMRKYIELV 396 (430)
+.|++|+.+|+.++..+ .++++++|+|||||||||+|||+.++|++||+++|+||+||++++|||+++||++||+++
T Consensus 3 ~~F~~A~~~v~~~~~~~---~~s~d~~L~lYalyKQAt~G~c~~~~P~~~d~~~raKw~AW~~l~~ms~~eA~~~YI~l~ 79 (90)
T PTZ00458 3 DLFEECVSFINSLPKTV---NLSVEIKLDLYKYYKQSTVGNCNIKEPSMFKYQDRKKYEAWKSIENLNREDAKKRYVEIV 79 (90)
T ss_pred HHHHHHHHHHHhCCCCC---CCCHHHHHHHHHHHhhhccCCCCCCCCCcccHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 56999999999988643 589999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccCCccC
Q 014136 397 SRSIPGCIQD 406 (430)
Q Consensus 397 eELLP~W~s~ 406 (430)
.++.|.|...
T Consensus 80 ~~l~~~w~~~ 89 (90)
T PTZ00458 80 TELFPNWEKG 89 (90)
T ss_pred HHHhhccccC
Confidence 9999999864
No 2
>cd00435 ACBP Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a role in regulation of intermediary metabolism and gene regulation. The suggested role of ACBP is to act as a intracellular acyl-CoA transporter and pool former. ACBPs are present in a large group of eukaryotic species and several tissue-specific isoforms have been detected.
Probab=99.96 E-value=4.3e-29 Score=202.54 Aligned_cols=85 Identities=34% Similarity=0.542 Sum_probs=81.0
Q ss_pred HHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCCCCCcChhhHHHHHHHHhcCCCCHHHHHHHHHH
Q 014136 315 LERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQPMALKVSARANWNAWKQLGNMTPEIAMEQYVT 394 (430)
Q Consensus 315 LEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpKPS~fD~vGRAKWDAWKALKGMSKEEAMRKYIE 394 (430)
|++.|++|+.+|++++. .++++++|+|||||||||+|||+.++|++||+++|+||+||++++|||+++||+.||+
T Consensus 1 ~~~~F~~A~~~v~~~~~-----~~~~~~~L~lYalyKQAt~G~~~~~~P~~~d~~~~~K~~AW~~l~~ms~~eA~~~YV~ 75 (85)
T cd00435 1 LQEEFEAAAEKVKKLKT-----KPSNEEKLQLYSLYKQATVGDCNTERPGMFDLKGRAKWDAWNSLKGMSKEDAMKAYIA 75 (85)
T ss_pred ChHHHHHHHHHHHhCCC-----CcCHHHHHHHHHHHHHhccCCCCCCCCCcccHhhHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 46789999999999884 6899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCc
Q 014136 395 ILSRSIPGCI 404 (430)
Q Consensus 395 LVeELLP~W~ 404 (430)
++++++|.|.
T Consensus 76 ~~~~l~~~~~ 85 (85)
T cd00435 76 KVEELIAKYA 85 (85)
T ss_pred HHHHHhhccC
Confidence 9999999984
No 3
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=99.96 E-value=2.6e-29 Score=201.03 Aligned_cols=87 Identities=41% Similarity=0.694 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCCCCCcChhhHHHHHHHHhcCCCCHHHHHHHHHH
Q 014136 315 LERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQPMALKVSARANWNAWKQLGNMTPEIAMEQYVT 394 (430)
Q Consensus 315 LEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpKPS~fD~vGRAKWDAWKALKGMSKEEAMRKYIE 394 (430)
|+++|+.|+.+++.++.. ..++++++|+|||||||||+|||+.++|+++|+.+|+||+||++++|||+++||++||+
T Consensus 1 Le~~F~~A~~~v~~~~~~---~~~~~~~~L~LYalyKQAt~Gd~~~~~P~~~d~~~~~K~~AW~~l~gms~~eA~~~Yi~ 77 (87)
T PF00887_consen 1 LEEEFEAAVEFVSNLPKK---SQLSNDDKLELYALYKQATHGDCDTPRPGFFDIEGRAKWDAWKALKGMSKEEAMREYIE 77 (87)
T ss_dssp HHHHHHHHHHHHHHSSSC---STS-HHHHHHHHHHHHHHHTSS--S-CTTTTCHHHHHHHHHHHTTTTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhcccc---CCCCHHHHHHHHHHHHHHHhCCCcCCCCcchhHHHHHHHHHHHHccCCCHHHHHHHHHH
Confidence 789999999999999864 36999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCc
Q 014136 395 ILSRSIPGCI 404 (430)
Q Consensus 395 LVeELLP~W~ 404 (430)
++++++|.|.
T Consensus 78 ~v~~~~~~~~ 87 (87)
T PF00887_consen 78 LVEELIPKYE 87 (87)
T ss_dssp HHHHHHHHH-
T ss_pred HHHHHHHhcC
Confidence 9999999873
No 4
>KOG0817 consensus Acyl-CoA-binding protein [Lipid transport and metabolism]
Probab=99.94 E-value=9.6e-27 Score=206.00 Aligned_cols=93 Identities=37% Similarity=0.562 Sum_probs=87.2
Q ss_pred cchHHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCCCCCcChhhHHHHHHHHhcCCCCHHHHHHH
Q 014136 312 RTELERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQPMALKVSARANWNAWKQLGNMTPEIAMEQ 391 (430)
Q Consensus 312 sedLEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpKPS~fD~vGRAKWDAWKALKGMSKEEAMRK 391 (430)
...+...|..|+..++++++ .|+++++|.|||||||||+|||++++||+||+++|+||+||++++|||+++||+.
T Consensus 2 ~~~~~~~Fe~a~~~~~~l~~-----~p~~ee~L~lYglyKQAt~G~~~~~kPg~~d~~~k~Kw~AW~~l~~~s~~eA~~~ 76 (142)
T KOG0817|consen 2 AATLEAKFEAAAEAVKNLKK-----KPSNEELLKLYGLYKQATVGDCNTPKPGFFDEEGKAKWQAWNSLGGMSKEEAMEA 76 (142)
T ss_pred cchHHHHHHHHHHHHHhccc-----CCCHHHHHHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHhcCCCCHHHHHHH
Confidence 34678899999999999986 4899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhccCCccCCCc
Q 014136 392 YVTILSRSIPGCIQDGIG 409 (430)
Q Consensus 392 YIELVeELLP~W~s~~~k 409 (430)
||+++.+++|.|......
T Consensus 77 Yv~~~~~l~~~~~~~~~~ 94 (142)
T KOG0817|consen 77 YVEKVEELIPKYGAEAET 94 (142)
T ss_pred HHHHHHHHHHHhhccccc
Confidence 999999999999976543
No 5
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=99.87 E-value=2.8e-22 Score=165.14 Aligned_cols=84 Identities=23% Similarity=0.344 Sum_probs=79.6
Q ss_pred HHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCCCCCcChhhHHHHHHHHhcCCCCHHHHHHHHHH
Q 014136 315 LERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQPMALKVSARANWNAWKQLGNMTPEIAMEQYVT 394 (430)
Q Consensus 315 LEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpKPS~fD~vGRAKWDAWKALKGMSKEEAMRKYIE 394 (430)
+...|+.|...|+.|+. .|++++.|+|||||||+++||.+..+|++||++||+||+||..|+|.|+++|.++||.
T Consensus 2 ~s~~Feqa~~dV~~L~~-----kP~~d~LLkLYAL~KQ~s~GD~~~ekPG~~d~~gr~K~eAW~~LKGksqedA~qeYia 76 (87)
T COG4281 2 LSTRFEQAQTDVKELSE-----KPSNDELLKLYALFKQGSVGDNDGEKPGFFDIVGRYKYEAWAGLKGKSQEDARQEYIA 76 (87)
T ss_pred hhhHHHHHHHHHHHhcc-----CCCcHHHHHHHHHHHhccccccCCCCCCccccccchhHHHHhhccCccHHHHHHHHHH
Confidence 56789999999999986 6899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCC
Q 014136 395 ILSRSIPGC 403 (430)
Q Consensus 395 LVeELLP~W 403 (430)
+|+++...+
T Consensus 77 lVeeLkak~ 85 (87)
T COG4281 77 LVEELKAKY 85 (87)
T ss_pred HHHHHHhhc
Confidence 999997654
No 6
>KOG3878 consensus Protein involved in maintenance of Golgi structure and ER-Golgi transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.06 E-value=2.5e-10 Score=114.78 Aligned_cols=92 Identities=26% Similarity=0.447 Sum_probs=83.5
Q ss_pred cchHHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCC-CC--CCcChhhHHHHHHHHhcCCCCHHHH
Q 014136 312 RTELERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREP-QP--MALKVSARANWNAWKQLGNMTPEIA 388 (430)
Q Consensus 312 sedLEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtp-KP--S~fD~vGRAKWDAWKALKGMSKEEA 388 (430)
+-.|++.+..|+.|++.. .|++..++++++|.|-+|.||+.+||.|+. .| |++|+.|+.+..+|..|+.||+++|
T Consensus 29 Gf~LeElY~LA~~fyKe~--~GKa~h~~YEd~lKLial~kQv~~Gp~n~d~~p~~G~lDv~GnDr~~~W~~LG~~sre~A 106 (469)
T KOG3878|consen 29 GFPLEELYRLAFTFYKEN--SGKAIHLSYEDNLKLIALKKQVALGPFNTDRAPALGVLDVIGNDRQQHWQLLGEISREQA 106 (469)
T ss_pred CCCHHHHHHHHHHHHHhc--cCCccCCChhhhhhhhhhHhhhhcCCCCcccCcccceeecccChHHHHHHHHhcccHHHH
Confidence 467999999999999954 466778999999999999999999999974 34 7899999999999999999999999
Q ss_pred HHHHHHHHHhhccCCcc
Q 014136 389 MEQYVTILSRSIPGCIQ 405 (430)
Q Consensus 389 MRKYIELVeELLP~W~s 405 (430)
|..||.|++++++.|..
T Consensus 107 M~~FV~Lldr~C~~F~~ 123 (469)
T KOG3878|consen 107 MEGFVDLLDRMCSAFRP 123 (469)
T ss_pred HHHHHHHHHhcchhhhh
Confidence 99999999999999874
No 7
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=96.72 E-value=0.0074 Score=52.39 Aligned_cols=87 Identities=20% Similarity=0.139 Sum_probs=62.7
Q ss_pred chHHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCC-------------CCC-cCh-------hhH
Q 014136 313 TELERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQ-------------PMA-LKV-------SAR 371 (430)
Q Consensus 313 edLEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpK-------------PS~-fD~-------vGR 371 (430)
..+.-.|..+..-+..-. .+.+.++.+.|-||..|+..||++.+. |.. .+. ..+
T Consensus 97 ~~~~~ly~Q~~~di~~g~-----~~~~~~~~~~Laal~~q~~~gd~~~~~~~~~~~~~~~~~lP~~~~~~~~~~~~~~~~ 171 (207)
T smart00295 97 TRLNLLYLQVRNDILEGR-----LPCPEEEALLLAALALQAEFGDYDEELHVLLKELSLKRFLPKQLLDSEKRTLKEWRE 171 (207)
T ss_pred HHHHHHHHHHHHHHHcCc-----cCCCHHHHHHHHHHHHHHHhcCCChHhcCCccccccceeCChhhhhhccccHHHHHH
Confidence 335556777777665432 257799999999999999999998532 211 111 122
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHHHhhccCCcc
Q 014136 372 ANWNAWKQLGNMTPEIAMEQYVTILSRSIPGCIQ 405 (430)
Q Consensus 372 AKWDAWKALKGMSKEEAMRKYIELVeELLP~W~s 405 (430)
.=.++|+++.|||+.+||.+||+++.++ |.|..
T Consensus 172 ~i~~~~~~~~~~s~~~a~~~yl~~~~~l-p~fG~ 204 (207)
T smart00295 172 RIVSLHKELIGLSPEEAKLKYLELAEKL-PTYGV 204 (207)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHhccc-cccCc
Confidence 2337899999999999999999999987 77653
No 8
>PF00373 FERM_M: FERM central domain; InterPro: IPR019748 The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 4DXA_B 2EMS_A 2ZPY_A 1J19_A 2D10_B 2D11_B 1GC6_A 2D2Q_A 2EMT_A 2YVC_A ....
Probab=96.06 E-value=0.04 Score=44.70 Aligned_cols=86 Identities=23% Similarity=0.241 Sum_probs=58.3
Q ss_pred chHHHHHHHHHHHHhcccCCCCCCCCChhhHHHHHHHhhccccCCCCCCC---CCC-------------cC-------hh
Q 014136 313 TELERLFGAAVAFVGNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREPQ---PMA-------------LK-------VS 369 (430)
Q Consensus 313 edLEEkFeaAVefVrsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtpK---PS~-------------fD-------~v 369 (430)
..+.--|..+...|-. |. ..++.++-++|-||.-|+..||++... .+. +- ..
T Consensus 9 ~~~~lly~Q~~~~vl~----g~-~~~~~e~a~~LAAl~~q~~~gd~~~~~~~~~~~~~~~~~~~~~~~~iP~~~~~~~~~ 83 (126)
T PF00373_consen 9 ITRHLLYLQARRDVLQ----GR-LPCSEEDAIKLAALQLQAEYGDYNSEQEHSSGYIDPEIKEFQLENFIPKAPKLIKKM 83 (126)
T ss_dssp HHHHHHHHHHHHHHHT----TS-STS-HHHHHHHHHHHHHHHHTSSTTTTTSSTTTTTGSHHCTCGHGTSSHHHHHHCCS
T ss_pred HHHHHHHHHHHHHHHc----Cc-CCCCHHHHHHHHHHHHHHHhcCCCcccccCcccccccccchhhhhhhhhhHHHHhhh
Confidence 4455566777766643 22 268999999999999999999998321 111 11 01
Q ss_pred hHHHH-----HHHHhcCCCCHHHHHHHHHHHHHhhccCCc
Q 014136 370 ARANW-----NAWKQLGNMTPEIAMEQYVTILSRSIPGCI 404 (430)
Q Consensus 370 GRAKW-----DAWKALKGMSKEEAMRKYIELVeELLP~W~ 404 (430)
....| ..|+++.|||+.+||..|++++.++ |.|.
T Consensus 84 ~~~~~~~~I~~~~~~l~~~s~~~a~~~fl~~~~~~-p~yG 122 (126)
T PF00373_consen 84 KQKEWEKRILEQHKKLRGMSPEEAKLQFLQICQSL-PTYG 122 (126)
T ss_dssp THHHHHHHHHHHHHHTTT--HHHHHHHHHHHHCTS-TTTT
T ss_pred hHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhcC-CCCC
Confidence 22233 7899999999999999999999974 6554
No 9
>KOG3530 consensus FERM domain protein EHM2 [General function prediction only]
Probab=77.43 E-value=4.7 Score=44.37 Aligned_cols=63 Identities=14% Similarity=0.109 Sum_probs=50.1
Q ss_pred CCChhhHHHHHHHhhccccCCCCCCC--CCC---cCh-------hhHHHHHHHHhcCCCCHHHHHHHHHHHHHhh
Q 014136 337 SIGSDVKMQLYGLHKIATVGPCREPQ--PMA---LKV-------SARANWNAWKQLGNMTPEIAMEQYVTILSRS 399 (430)
Q Consensus 337 qpSdEdKLrLYGLYKQATvGDCNtpK--PS~---fD~-------vGRAKWDAWKALKGMSKEEAMRKYIELVeEL 399 (430)
+.+.+...+|=||-=|+-.|||+.++ |+. |.+ -+-+=.+-||.++|+++.+|+-.|+..+.-+
T Consensus 121 ~Cp~~~AaeLaAl~lQsELGDYn~~~Ht~~yVSefRf~p~Qte~LE~~I~e~hK~~rGqspaqAElnyLnkAkwL 195 (616)
T KOG3530|consen 121 YCPFETAAELAALILQSELGDYNEEEHTGGYVSEFRFLPNQTEELEERIFELHKELRGQSPAQAELNYLNKAKWL 195 (616)
T ss_pred CCchhhHHHHHHHHHHHHhcCCChhhccccceeeeEecccccHHHHHHHHHHHHHhcCCCHHHHHHHHHhhhhhh
Confidence 57899999999999999999999863 321 221 2334467899999999999999999998643
No 10
>KOG4261 consensus Talin [Cytoskeleton]
Probab=32.47 E-value=1.1e+02 Score=35.74 Aligned_cols=64 Identities=19% Similarity=0.258 Sum_probs=49.9
Q ss_pred CCCChhhHHHHHHHhhccccCCCCCCCCC-CcC-----hhh-------HHHHHHHHhcCCCCHHHHHHHHHHHHHhh
Q 014136 336 SSIGSDVKMQLYGLHKIATVGPCREPQPM-ALK-----VSA-------RANWNAWKQLGNMTPEIAMEQYVTILSRS 399 (430)
Q Consensus 336 sqpSdEdKLrLYGLYKQATvGDCNtpKPS-~fD-----~vG-------RAKWDAWKALKGMSKEEAMRKYIELVeEL 399 (430)
.+++.+.--.|-|+--|...||-+..+|. ++| +.. +.-+.+-+.+++||..+|+-+|+.+...+
T Consensus 227 hpv~~~kA~e~a~~qshiq~g~~~~~k~k~~ld~kd~lpk~y~k~k~ekKif~~~k~~~~~sei~ak~~y~k~~r~l 303 (1003)
T KOG4261|consen 227 HPVSFEKACEFAGFQSHIQFGPHNEDKHKGFLDLKDFLPKEYVKQKGEKKIFQAHKNCGGMSEIDAKVKYVKLARSL 303 (1003)
T ss_pred CchhHHHHHHHhccccccccCCchhhccccchhccccChHHHhccccchhhhhhhhhhcchhHHHHHHHHHHHhccc
Confidence 46778888888888888889988776654 222 222 33357889999999999999999999887
No 11
>KOG3529 consensus Radixin, moesin and related proteins of the ERM family [General function prediction only]
Probab=31.71 E-value=1.4e+02 Score=33.22 Aligned_cols=85 Identities=18% Similarity=0.095 Sum_probs=55.2
Q ss_pred hHHHHHHHHHHHH-hcccCCCCCCCCChhhHHHHHHHhhccccCCCCCC--CCCCcC------------h-hhHHHH---
Q 014136 314 ELERLFGAAVAFV-GNKCNAGRISSIGSDVKMQLYGLHKIATVGPCREP--QPMALK------------V-SARANW--- 374 (430)
Q Consensus 314 dLEEkFeaAVefV-rsLPkdG~isqpSdEdKLrLYGLYKQATvGDCNtp--KPS~fD------------~-vGRAKW--- 374 (430)
.+...|-.+++.. =+.. -..++++...|-+|--||.+||++.. +.+.++ . .-.++|
T Consensus 106 ~t~~Lffl~vk~~il~~~-----i~~~~E~~~~las~~vqa~~gdy~~~~~~~~~l~~~~~lP~~~~~q~~~s~~~~e~r 180 (596)
T KOG3529|consen 106 ITQHLFFLQVKEAILSDE-----IYCPPETSVLLASYAVQAKYGDYDKETHKVGRLAGDRLLPQRVLDQHKMTPDMWEDR 180 (596)
T ss_pred HHHHHHHHHHHHHHhccC-----CCCCchHHHHHHHHHHHHHhccccchhhhhhccccCcccchhhhhhccccHHHHHHH
Confidence 3455665555442 1211 14789999999999999999998731 111110 0 123334
Q ss_pred -H-HHHhcCCCCHHHHHHHHHHHHHhhccCCc
Q 014136 375 -N-AWKQLGNMTPEIAMEQYVTILSRSIPGCI 404 (430)
Q Consensus 375 -D-AWKALKGMSKEEAMRKYIELVeELLP~W~ 404 (430)
. =|....||.+++||-.|..++.+ +|-|.
T Consensus 181 i~~~~~~~~~~~re~a~leylki~qd-le~yg 211 (596)
T KOG3529|consen 181 IKEWYAEHRGMTREEAMLEYLKIAQD-LEMYG 211 (596)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHhcc-ccccc
Confidence 2 36668999999999999999988 45444
No 12
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=29.76 E-value=46 Score=26.45 Aligned_cols=23 Identities=30% Similarity=0.518 Sum_probs=17.5
Q ss_pred CceeehhhhhHHHHHHHHHHHHH
Q 014136 1 MEVFLEFVLPIAFSLIFSFFLAK 23 (430)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~ 23 (430)
|.-.|.-.||.+|.++..|||+-
T Consensus 1 MDCvLRs~L~~~F~~lIC~Fl~~ 23 (54)
T PF06716_consen 1 MDCVLRSYLLLAFGFLICLFLFC 23 (54)
T ss_pred CchHHHHHHHHHHHHHHHHHHHH
Confidence 44556778999999988887764
No 13
>PF04434 SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the SWIM (SWI2/SNF2 and MuDR) zinc-binding domain, which is found in a variety of prokaryotic and eukaryotic proteins, such as mitogen-activated protein kinase kinase kinase 1 (or MEKK1). It is also found in the related protein MEX (MEKK1-related protein X), a testis-expressed protein that acts as an E3 ubiquitin ligase through the action of E2 ubiquitin-conjugating enzymes in the proteasome degradation pathway; the SWIM domain is critical for MEX ubiquitination []. SWIM domains are also found in the homologous recombination protein Sws1 [], as well as in several hypothetical proteins. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=27.34 E-value=36 Score=23.70 Aligned_cols=23 Identities=30% Similarity=0.730 Sum_probs=17.8
Q ss_pred CCCCCCccccccc-CCcchhhhhh
Q 014136 29 SSPSTNCDCDLVS-GLKPCKHFIQ 51 (430)
Q Consensus 29 ~~~~~~~~~~~~~-~~~~~~~~~~ 51 (430)
+.....|+|.--. .-.||+|-+-
T Consensus 11 ~~~~~~CsC~~~~~~~~~CkHi~a 34 (40)
T PF04434_consen 11 SIEQASCSCPYFQFRGGPCKHIVA 34 (40)
T ss_pred cccccEeeCCCccccCCcchhHHH
Confidence 4457789998765 7789999874
Done!