Query 001282
Match_columns 1108
No_of_seqs 155 out of 180
Neff 3.9
Searched_HMMs 46136
Date Thu Mar 28 20:41:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0196 Tyrosine kinase, EPH ( 96.4 0.0031 6.6E-08 77.7 4.5 54 457-523 261-318 (996)
2 PF07699 GCC2_GCC3: GCC2 and G 96.3 0.0019 4.2E-08 53.8 1.8 26 466-493 9-34 (48)
3 KOG0921 Dosage compensation co 94.8 0.054 1.2E-06 67.9 6.9 28 296-323 1207-1234(1282)
4 PF10256 Erf4: Golgin subfamil 93.0 0.31 6.8E-06 47.5 7.2 67 630-696 21-91 (118)
5 cd00185 TNFR Tumor necrosis fa 93.0 0.15 3.2E-06 48.5 4.8 65 454-525 12-87 (98)
6 PF07562 NCD3G: Nine Cysteines 92.8 0.023 5.1E-07 48.9 -0.7 36 456-493 6-51 (54)
7 PHA02637 TNF-alpha-receptor-li 92.1 0.13 2.9E-06 51.8 3.4 57 458-519 31-92 (127)
8 PHA02637 TNF-alpha-receptor-li 88.8 0.3 6.5E-06 49.4 2.6 41 450-491 38-87 (127)
9 KOG0921 Dosage compensation co 87.0 1.1 2.5E-05 56.9 6.5 19 69-89 938-956 (1282)
10 PF07699 GCC2_GCC3: GCC2 and G 82.2 0.99 2.1E-05 37.8 2.2 31 453-483 8-43 (48)
11 KOG3973 Uncharacterized conser 73.6 11 0.00023 44.1 7.7 10 165-174 294-303 (465)
12 cd00185 TNFR Tumor necrosis fa 65.9 6.5 0.00014 37.5 3.5 31 465-495 11-43 (98)
13 PF15496 DUF4646: Domain of un 64.7 6.4 0.00014 39.6 3.3 49 781-829 46-123 (123)
14 KOG4069 Uncharacterized conser 59.4 31 0.00066 35.7 6.9 70 629-702 45-125 (154)
15 KOG4289 Cadherin EGF LAG seven 59.3 7.1 0.00015 52.1 3.0 85 948-1044 2170-2256(2531)
16 smart00180 EGF_Lam Laminin-typ 54.9 7.3 0.00016 32.6 1.5 19 459-477 22-40 (46)
17 PTZ00382 Variant-specific surf 54.0 6.6 0.00014 38.0 1.3 25 466-493 4-28 (96)
18 cd00055 EGF_Lam Laminin-type e 54.0 7.5 0.00016 32.9 1.5 27 450-479 17-43 (50)
19 PF10256 Erf4: Golgin subfamil 53.9 20 0.00043 35.1 4.6 56 778-833 26-106 (118)
20 PF07354 Sp38: Zona-pellucida- 46.9 12 0.00026 42.3 2.1 36 454-492 217-261 (271)
21 PTZ00146 fibrillarin; Provisio 46.4 46 0.00099 38.3 6.6 10 339-348 64-73 (293)
22 KOG3915 Transcription regulato 45.9 31 0.00068 41.8 5.2 10 761-771 487-496 (641)
23 PF05268 GP38: Phage tail fibr 44.4 44 0.00095 37.3 5.7 31 315-347 125-155 (260)
24 KOG1836 Extracellular matrix g 39.9 23 0.00049 49.0 3.4 34 457-491 697-732 (1705)
25 PF00053 Laminin_EGF: Laminin 39.0 13 0.00028 31.1 0.6 21 459-479 22-42 (49)
26 KOG1836 Extracellular matrix g 38.3 22 0.00048 49.1 2.9 43 451-493 794-838 (1705)
27 PF12273 RCR: Chitin synthesis 37.2 29 0.00062 34.8 2.8 20 542-561 2-22 (130)
28 cd00064 FU Furin-like repeats. 35.8 28 0.00061 29.0 2.1 22 457-478 18-42 (49)
29 PF11145 DUF2921: Protein of u 34.3 1E+02 0.0022 40.7 7.6 116 920-1035 593-723 (909)
30 KOG4260 Uncharacterized conser 29.5 35 0.00076 39.1 2.2 21 458-478 131-151 (350)
31 KOG0994 Extracellular matrix g 27.8 59 0.0013 43.4 4.0 40 458-501 785-824 (1758)
32 PF14946 DUF4501: Domain of un 26.6 2.6E+02 0.0055 30.3 7.6 30 537-566 83-113 (180)
33 COG4907 Predicted membrane pro 25.9 45 0.00097 40.6 2.3 8 211-218 451-458 (595)
34 KOG4260 Uncharacterized conser 24.0 43 0.00094 38.4 1.7 36 457-492 170-205 (350)
35 KOG4289 Cadherin EGF LAG seven 22.9 82 0.0018 43.1 3.9 36 448-491 1734-1774(2531)
36 KOG4180 Predicted kinase [Gene 22.6 1.4E+02 0.0029 35.4 5.2 28 739-767 96-123 (395)
37 PRK06958 single-stranded DNA-b 21.9 4.1E+02 0.0089 28.9 8.3 8 158-165 51-58 (182)
38 COG1512 Beta-propeller domains 21.3 94 0.002 35.5 3.7 13 272-284 257-269 (271)
39 PTZ00146 fibrillarin; Provisio 21.2 1.3E+02 0.0028 34.8 4.7 8 608-615 275-282 (293)
40 PF15496 DUF4646: Domain of un 20.7 1.2E+02 0.0025 30.8 3.8 70 635-705 43-120 (123)
41 PHA02844 putative transmembran 20.6 1.2E+02 0.0025 28.9 3.5 15 641-655 17-31 (75)
42 PF00020 TNFR_c6: TNFR/NGFR cy 20.5 37 0.00081 27.3 0.3 20 471-492 1-20 (39)
43 PF12661 hEGF: Human growth fa 20.2 31 0.00067 22.6 -0.2 11 458-468 3-13 (13)
No 1
>KOG0196 consensus Tyrosine kinase, EPH (ephrin) receptor family [Signal transduction mechanisms]
Probab=96.37 E-value=0.0031 Score=77.75 Aligned_cols=54 Identities=39% Similarity=0.883 Sum_probs=39.9
Q ss_pred cCCCCCCC----cccceeCCCCccccccCCCCCCcccCCCCCCCCCceEEeecCCccCCCCCccccCCccc
Q 001282 457 KACPKGLY----GIFCEECPVGTYKNVTGSDKSLCHQCPPQEFPHRAVYISVRGGIAETPCPYRCISERYH 523 (1108)
Q Consensus 457 k~CP~G~y----G~fC~eCP~GtYK~~tGS~~~~C~pCp~~~~P~ra~yiy~r~G~~~~~CpY~C~sdk~~ 523 (1108)
=-|.+||. |.-|+.||.||||...| ...|.+||.+...+ .. ..++|. |..++|+
T Consensus 261 C~C~aGye~~~~~~~C~aCp~G~yK~~~~--~~~C~~CP~~S~s~-------~e--ga~~C~--C~~gyyR 318 (996)
T KOG0196|consen 261 CVCKAGYEEAENGKACQACPPGTYKASQG--DSLCLPCPPNSHSS-------SE--GATSCT--CENGYYR 318 (996)
T ss_pred eeecCCCCcccCCCcceeCCCCcccCCCC--CCCCCCCCCCCCCC-------CC--CCCccc--ccCCccc
Confidence 46899983 77799999999999764 57899999754221 11 246775 8888775
No 2
>PF07699 GCC2_GCC3: GCC2 and GCC3; InterPro: IPR011641 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Tyrosine-protein kinases can transfer a phosphate group from ATP to a tyrosine residue in a protein. These enzymes can be divided into two main groups []: Receptor tyrosine kinases (RTK), which are transmembrane proteins involved in signal transduction; they play key roles in growth, differentiation, metabolism, adhesion, motility, death and oncogenesis []. RTKs are composed of 3 domains: an extracellular domain (binds ligand), a transmembrane (TM) domain, and an intracellular catalytic domain (phosphorylates substrate). The TM domain plays an important role in the dimerisation process necessary for signal transduction []. Cytoplasmic / non-receptor tyrosine kinases, which act as regulatory proteins, playing key roles in cell differentiation, motility, proliferation, and survival. For example, the Src-family of protein-tyrosine kinases []. This entry represents various ephrin type A and B receptors, which have tyrosine kinase activity.
Probab=96.33 E-value=0.0019 Score=53.85 Aligned_cols=26 Identities=42% Similarity=1.095 Sum_probs=22.7
Q ss_pred ccceeCCCCccccccCCCCCCcccCCCC
Q 001282 466 IFCEECPVGTYKNVTGSDKSLCHQCPPQ 493 (1108)
Q Consensus 466 ~fC~eCP~GtYK~~tGS~~~~C~pCp~~ 493 (1108)
.-|++||.||||+..|+ ..|.+||..
T Consensus 9 ~~C~~Cp~GtYq~~~g~--~~C~~Cp~g 34 (48)
T PF07699_consen 9 NKCQPCPKGTYQDEEGQ--TSCTPCPPG 34 (48)
T ss_pred CccCCCCCCccCCccCC--ccCccCcCC
Confidence 45999999999999876 479999975
No 3
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=94.78 E-value=0.054 Score=67.92 Aligned_cols=28 Identities=21% Similarity=0.423 Sum_probs=14.3
Q ss_pred ccCCCCCCCccCCCCCCCCCCCCCCCcc
Q 001282 296 SYGNANLPCELGSGSGNDTSGNSTAGGG 323 (1108)
Q Consensus 296 ~YG~~~lP~~~GSGGG~~~~~~GGaGGG 323 (1108)
.||.+..+.-.|.|+|.+++..|-.+||
T Consensus 1207 GYGgsa~~~~~~~Gagvg~GyrGvsrgG 1234 (1282)
T KOG0921|consen 1207 GYGGSAPSARANYGAGVGNGYRGVSRGG 1234 (1282)
T ss_pred CCCCCCCCCCCCccccccCCCccccCCc
Confidence 4666555444555555444444444444
No 4
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=92.98 E-value=0.31 Score=47.47 Aligned_cols=67 Identities=22% Similarity=0.341 Sum_probs=45.7
Q ss_pred CCcchhhhhhchHHHHHHHHHHHhhhhhh--h--hhhHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHH
Q 001282 630 TPPEQIKEIVYEGAFNSFVDEINAIATYH--W--WEGAIYSILAILAYPLAWSWQQWRRRMKLQRLREYVR 696 (1108)
Q Consensus 630 spP~~i~~iv~ed~fn~Fad~IN~laay~--~--We~~iy~iLsvl~YPlaw~~lq~~Rrkk~~rL~efv~ 696 (1108)
.-|.++...+.+++|++++++||+..+=. . |.-++-.+|.++..=+...+.....||++++|.+|+.
T Consensus 21 ~~P~~L~~~is~~ef~~iI~~IN~~l~~a~~~~~~~~~~~~~l~~lt~~l~~~~~~~~~~~~~~~le~~l~ 91 (118)
T PF10256_consen 21 EYPGELSGYISPEEFEEIINTINQILKEAFEPISWRNIIENILGCLTLGLSSLCFKTHYKRKLRELEKYLE 91 (118)
T ss_pred cCCHhhcCCCCHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778999999999999999999987322 2 4444555555554222222234556677888999996
No 5
>cd00185 TNFR Tumor necrosis factor receptor (TNFR) domain; superfamily of TNF-like receptor domains. When bound to TNF-like cytokines, TNFRs trigger multiple signal transduction pathways, they are involved in inflammation response, apoptosis, autoimmunity and organogenesis. TNFRs domains are elongated with generally three tandem repeats of cysteine-rich domains (CRDs). They fit in the grooves between protomers within the ligand trimer. Some TNFRs, such as NGFR and HveA, bind ligands with no structural similarity to TNF and do not bind ligand trimers.
Probab=92.96 E-value=0.15 Score=48.49 Aligned_cols=65 Identities=28% Similarity=0.568 Sum_probs=42.1
Q ss_pred EEccCCCCCCC---------cccceeCCCCccccccCCCCCCcccCCCCCCCCCceEEeecCCcc--CCCCCccccCCcc
Q 001282 454 TTGKACPKGLY---------GIFCEECPVGTYKNVTGSDKSLCHQCPPQEFPHRAVYISVRGGIA--ETPCPYRCISERY 522 (1108)
Q Consensus 454 I~gk~CP~G~y---------G~fC~eCP~GtYK~~tGS~~~~C~pCp~~~~P~ra~yiy~r~G~~--~~~CpY~C~sdk~ 522 (1108)
.-=+.||+|++ ..-|++||.|+|...... ...|++|.. -+ ...++ ++.+.. .+.|- |.+++|
T Consensus 12 ~cC~~C~pG~~~~~~C~~~~~t~C~~C~~g~ys~~~~~-~~~C~~c~~--C~-~g~~~-~~~ct~t~dt~C~--C~~G~y 84 (98)
T cd00185 12 LCCDQCPPGTYLSKDCTPGSDTVCEPCPPGTYTDSWNH-LPKCLSCRT--CD-SGLVE-KAPCTATRNTVCG--CKPGFY 84 (98)
T ss_pred CCCCCCCCCccCCCcCCCCCCCeecCCCCCCcccCCCC-CCcCCcCcc--CC-CCCEE-EccCCCCCCCeEe--CCCCCE
Confidence 44578999985 356999999999986532 257999975 44 22233 333322 45675 888777
Q ss_pred cCC
Q 001282 523 HMP 525 (1108)
Q Consensus 523 ~~p 525 (1108)
...
T Consensus 85 ~~~ 87 (98)
T cd00185 85 CLT 87 (98)
T ss_pred ecC
Confidence 544
No 6
>PF07562 NCD3G: Nine Cysteines Domain of family 3 GPCR; InterPro: IPR011500 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). GPCR family 3 receptors (also known as family C) are structurally similar to other GPCRs, but do not show any significant sequence similarity and thus represent a distinct group. Structurally they are composed of four elements; an N-terminal signal sequence; a large hydrophilic extracellular agonist-binding region containing several conserved cysteine residues which could be involved in disulphide bonds; a shorter region containing seven transmembrane domains; and a C-terminal cytoplasmic domain of variable length []. Family 3 members include the metabotropic glutamate receptors, the extracellular calcium-sensing receptors, the gamma-amino-butyric acid (GABA) type B receptors, and the vomeronasal type-2 receptors [, , , ]. As these receptors regulate many important physiological processes they are potentially promising targets for drug development. This entry represents a conserved sequence, found in the extracellular region, that contains several highly-conserved Cys residues that are predicted to form disulphide bridges.; GO: 0004930 G-protein coupled receptor activity, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 2E4X_B 2E4Y_A 2E4U_B 2E4V_B 2E4W_A.
Probab=92.83 E-value=0.023 Score=48.92 Aligned_cols=36 Identities=36% Similarity=0.812 Sum_probs=19.9
Q ss_pred ccCCCCCCCc----------ccceeCCCCccccccCCCCCCcccCCCC
Q 001282 456 GKACPKGLYG----------IFCEECPVGTYKNVTGSDKSLCHQCPPQ 493 (1108)
Q Consensus 456 gk~CP~G~yG----------~fC~eCP~GtYK~~tGS~~~~C~pCp~~ 493 (1108)
..+|++|++. +-|++||.|+|.+.+ +...|.+||.+
T Consensus 6 S~~C~pG~~k~~~~~~~~CCw~C~~C~~~~is~~~--~~~~C~~C~~~ 51 (54)
T PF07562_consen 6 SEPCPPGQRKKIQKGQPSCCWDCVPCPEGEISNQT--DSTSCTKCPEG 51 (54)
T ss_dssp S----TTTEEEE--SSS-S--EEEE--TTEEEE----ETTEEEE--TT
T ss_pred CCCCCCCCEECccCCCcceEEEeecCCCCcEECCC--CccccccCCCc
Confidence 4789999852 239999999999987 44789999974
No 7
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=92.08 E-value=0.13 Score=51.77 Aligned_cols=57 Identities=26% Similarity=0.596 Sum_probs=37.4
Q ss_pred CCCCCCC---cccceeCCCCccccccCC--CCCCcccCCCCCCCCCceEEeecCCccCCCCCccccC
Q 001282 458 ACPKGLY---GIFCEECPVGTYKNVTGS--DKSLCHQCPPQEFPHRAVYISVRGGIAETPCPYRCIS 519 (1108)
Q Consensus 458 ~CP~G~y---G~fC~eCP~GtYK~~tGS--~~~~C~pCp~~~~P~ra~yiy~r~G~~~~~CpY~C~s 519 (1108)
.|..+-| +.-|.+||.|+|.....+ ....|.|||..+.....++.. ....|.-.|++
T Consensus 31 ~C~e~EY~~~~~CC~kCPPGt~v~~~Ct~~t~T~C~PCp~GTYTe~~N~~~-----~C~~C~~~Cd~ 92 (127)
T PHA02637 31 KCKDNEYKRHNLCCLSCPPGTYASRLCDIKTNTQCTPCGSGTFTSHNNHLP-----ACLSCNGRCDR 92 (127)
T ss_pred CCCCCcCcCCCeEcCCCCCCCEEeCcCCCCCCcccccCCCCCeeccCCCCC-----cccccCCccCc
Confidence 6888855 445999999999874433 235799999876444333321 25677777776
No 8
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=88.82 E-value=0.3 Score=49.35 Aligned_cols=41 Identities=24% Similarity=0.617 Sum_probs=31.1
Q ss_pred CCceEEccCCCCCCC---------cccceeCCCCccccccCCCCCCcccCC
Q 001282 450 ENGTTTGKACPKGLY---------GIFCEECPVGTYKNVTGSDKSLCHQCP 491 (1108)
Q Consensus 450 ~~GTI~gk~CP~G~y---------G~fC~eCP~GtYK~~tGS~~~~C~pCp 491 (1108)
..|..-=+.||||++ ..-|.+||.|||...... ...|.+|.
T Consensus 38 ~~~~~CC~kCPPGt~v~~~Ct~~t~T~C~PCp~GTYTe~~N~-~~~C~~C~ 87 (127)
T PHA02637 38 KRHNLCCLSCPPGTYASRLCDIKTNTQCTPCGSGTFTSHNNH-LPACLSCN 87 (127)
T ss_pred cCCCeEcCCCCCCCEEeCcCCCCCCcccccCCCCCeeccCCC-CCcccccC
Confidence 445667789999985 667999999999875432 34688887
No 9
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=87.04 E-value=1.1 Score=56.89 Aligned_cols=19 Identities=21% Similarity=0.260 Sum_probs=9.6
Q ss_pred hcccccccceeeehhhhhhhh
Q 001282 69 EELLMSDSVIKVYGALRMTVK 89 (1108)
Q Consensus 69 ~~~~m~~s~~~v~ga~~~~~k 89 (1108)
|....++++.|+ .+||++.
T Consensus 938 ~r~~l~~~~~~~--t~~a~~q 956 (1282)
T KOG0921|consen 938 ERYSLSNPVLKM--TDGARRQ 956 (1282)
T ss_pred Hhhhhcchhhhh--hhhhHHH
Confidence 344556666555 3444443
No 10
>PF07699 GCC2_GCC3: GCC2 and GCC3; InterPro: IPR011641 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Tyrosine-protein kinases can transfer a phosphate group from ATP to a tyrosine residue in a protein. These enzymes can be divided into two main groups []: Receptor tyrosine kinases (RTK), which are transmembrane proteins involved in signal transduction; they play key roles in growth, differentiation, metabolism, adhesion, motility, death and oncogenesis []. RTKs are composed of 3 domains: an extracellular domain (binds ligand), a transmembrane (TM) domain, and an intracellular catalytic domain (phosphorylates substrate). The TM domain plays an important role in the dimerisation process necessary for signal transduction []. Cytoplasmic / non-receptor tyrosine kinases, which act as regulatory proteins, playing key roles in cell differentiation, motility, proliferation, and survival. For example, the Src-family of protein-tyrosine kinases []. This entry represents various ephrin type A and B receptors, which have tyrosine kinase activity.
Probab=82.22 E-value=0.99 Score=37.80 Aligned_cols=31 Identities=39% Similarity=0.888 Sum_probs=24.3
Q ss_pred eEEccCCCCCCC----c-ccceeCCCCccccccCCC
Q 001282 453 TTTGKACPKGLY----G-IFCEECPVGTYKNVTGSD 483 (1108)
Q Consensus 453 TI~gk~CP~G~y----G-~fC~eCP~GtYK~~tGS~ 483 (1108)
.-.=.+||.|+| | ..|.+||.|+|....|+.
T Consensus 8 ~~~C~~Cp~GtYq~~~g~~~C~~Cp~g~~T~~~Gs~ 43 (48)
T PF07699_consen 8 NNKCQPCPKGTYQDEEGQTSCTPCPPGSTTSSEGST 43 (48)
T ss_pred CCccCCCCCCccCCccCCccCccCcCCCccCCcCCc
Confidence 344589999987 3 459999999998877763
No 11
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=73.65 E-value=11 Score=44.11 Aligned_cols=10 Identities=30% Similarity=0.298 Sum_probs=5.5
Q ss_pred ECCCcccccC
Q 001282 165 VGPGSVLRSP 174 (1108)
Q Consensus 165 v~~~~~l~~p 174 (1108)
|.+.++-+.|
T Consensus 294 i~k~~igrvP 303 (465)
T KOG3973|consen 294 IHKLSIGRVP 303 (465)
T ss_pred hcccccccCC
Confidence 4455555666
No 12
>cd00185 TNFR Tumor necrosis factor receptor (TNFR) domain; superfamily of TNF-like receptor domains. When bound to TNF-like cytokines, TNFRs trigger multiple signal transduction pathways, they are involved in inflammation response, apoptosis, autoimmunity and organogenesis. TNFRs domains are elongated with generally three tandem repeats of cysteine-rich domains (CRDs). They fit in the grooves between protomers within the ligand trimer. Some TNFRs, such as NGFR and HveA, bind ligands with no structural similarity to TNF and do not bind ligand trimers.
Probab=65.93 E-value=6.5 Score=37.47 Aligned_cols=31 Identities=35% Similarity=1.096 Sum_probs=23.1
Q ss_pred cccceeCCCCccccccCC--CCCCcccCCCCCC
Q 001282 465 GIFCEECPVGTYKNVTGS--DKSLCHQCPPQEF 495 (1108)
Q Consensus 465 G~fC~eCP~GtYK~~tGS--~~~~C~pCp~~~~ 495 (1108)
+.-|..||+|+|-...+. ....|.+|+..++
T Consensus 11 ~~cC~~C~pG~~~~~~C~~~~~t~C~~C~~g~y 43 (98)
T cd00185 11 GLCCDQCPPGTYLSKDCTPGSDTVCEPCPPGTY 43 (98)
T ss_pred CCCCCCCCCCccCCCcCCCCCCCeecCCCCCCc
Confidence 555999999999876532 2357999998654
No 13
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=64.74 E-value=6.4 Score=39.56 Aligned_cols=49 Identities=12% Similarity=0.069 Sum_probs=32.7
Q ss_pred cCChHHHHHHHHHHHHHHHHhhcccc-----------------------------chhhHhHHHHHhhcCCCccccCC
Q 001282 781 LVPPTICYRLVAGLNAQLRLVRRGRL-----------------------------RATFRPVLRWLETHANPTLQLHG 829 (1108)
Q Consensus 781 ~~~~~~w~~fVa~lN~~lR~v~~~~l-----------------------------r~tl~~vi~~lesh~n~~l~~~G 829 (1108)
.|..+.|.+|+.+|+...++-...++ ...--.|-+.|+.||+.+|+.-|
T Consensus 46 DVs~eDW~~F~~dl~~aa~ls~~~~~~~~~~~~~~~v~~Gi~~~~v~~~~~~~~~~~k~~~v~~~i~~WN~~FF~PRg 123 (123)
T PF15496_consen 46 DVSEEDWTRFLNDLSEAASLSPSQSIVAGVGPIVMGVGFGIPAYLVAKAIRKAMKEKKRGEVESTIDQWNEGFFRPRG 123 (123)
T ss_pred CCCHHHHHHHHHHHHHHHhcCcccceeeeeccccccccccchhhhhhHhhhhcccccchHHHHHHHHHHHHHhccCCC
Confidence 68999999999999998444333322 11222455678888877776543
No 14
>KOG4069 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.43 E-value=31 Score=35.68 Aligned_cols=70 Identities=20% Similarity=0.397 Sum_probs=50.7
Q ss_pred CCCcchhhhhhchHHHHHHHHHHHhhhhh-------hhhhhHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHHhh---
Q 001282 629 HTPPEQIKEIVYEGAFNSFVDEINAIATY-------HWWEGAIYSILAILAYPLAWSWQQWRRRMKLQRLREYVRSE--- 698 (1108)
Q Consensus 629 ~spP~~i~~iv~ed~fn~Fad~IN~laay-------~~We~~iy~iLsvl~YPlaw~~lq~~Rrkk~~rL~efv~se--- 698 (1108)
...|..+++.|..+.|+.=+..+|++-|= ..+|+.+ =++.+|-.|.--.. -=+||+++++||+.++
T Consensus 45 ~~~pa~le~~i~R~vfE~Ti~rlN~~yAeAE~~~~qty~Egcl---gC~TaY~iy~ctet-hYek~L~klskfl~~qNe~ 120 (154)
T KOG4069|consen 45 AEYPARLEEKIPRDVFENTIVRLNRIYAEAEAITPQTYFEGCL---GCFTAYAIYACTET-HYEKKLDKLSKFLNRQNEE 120 (154)
T ss_pred ecCcHHHhccCcHHHHHHHHHHHHHHHHHHHhcCCcchHHHHH---HHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhhh
Confidence 34789999999999999999999998432 2467664 56667766554333 2357899999999843
Q ss_pred -cCch
Q 001282 699 -YDHA 702 (1108)
Q Consensus 699 -ydh~ 702 (1108)
|.|.
T Consensus 121 IY~~~ 125 (154)
T KOG4069|consen 121 IYHHV 125 (154)
T ss_pred hcccc
Confidence 6663
No 15
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=59.26 E-value=7.1 Score=52.10 Aligned_cols=85 Identities=25% Similarity=0.197 Sum_probs=48.9
Q ss_pred hhhHHHHHHHHHHhhHHHHHHHHHHHHHhhhhhHHHH-HHhccccccccccchhhhhhccCCCCcc-cccchhhhhhhhh
Q 001282 948 QDLVGLVISVLLLGDFSLVLLTLLQLYSISLVDVFLV-LFILPLGILLPFPAGINALFSHGPRRSV-GLARVYALWNVTS 1025 (1108)
Q Consensus 948 ~~l~~l~is~lll~D~~l~ll~llq~y~is~~~~~~v-l~~lPl~~~~p~~~Gl~alfs~~~rrs~-~~ar~yalwN~~S 1025 (1108)
+..+|+.+..|+|+=+.++++-+|---+.+|...+++ |++ +-| +|+||.-+.. -+.-+-+|--.++
T Consensus 2170 ~a~~gvslaal~lt~~llls~RsLksn~~~I~~~l~~Al~l----------~~L--~Fv~gi~~nq~~CtvvailLhf~~ 2237 (2531)
T KOG4289|consen 2170 YAAVGVSLAALLLTFLLLLSLRSLKSNSHGIHFNLAAALGL----------AQL--VFVLGINQNQFYCTVVAILLHFTY 2237 (2531)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhHHHHHHhH----------HHH--HhhhhcccCchhhHHHHHHHHHHH
Confidence 4456666666666666666666665555666533322 222 222 5666665542 2334445666677
Q ss_pred hhHHHHHhhhhhccccCCC
Q 001282 1026 LINVGVAFLCGYVHYSSGS 1044 (1108)
Q Consensus 1026 l~n~~va~~cg~~~~~~~~ 1044 (1108)
+.-..=+|+.|+--|-+-.
T Consensus 2238 ~stFaWlfl~gLhlYRml~ 2256 (2531)
T KOG4289|consen 2238 LSTFAWLFLEGLHLYRMLT 2256 (2531)
T ss_pred hhhHHHHHHHHHHHHHHHh
Confidence 7777778888887776543
No 16
>smart00180 EGF_Lam Laminin-type epidermal growth factor-like domai.
Probab=54.91 E-value=7.3 Score=32.61 Aligned_cols=19 Identities=32% Similarity=0.835 Sum_probs=17.7
Q ss_pred CCCCCCcccceeCCCCccc
Q 001282 459 CPKGLYGIFCEECPVGTYK 477 (1108)
Q Consensus 459 CP~G~yG~fC~eCP~GtYK 477 (1108)
|++++.|..|++|+.|+|-
T Consensus 22 C~~~~~G~~C~~C~~g~~g 40 (46)
T smart00180 22 CKPNVTGRRCDRCAPGYYG 40 (46)
T ss_pred CCCCCCCCCCCcCCCCcCC
Confidence 9999999999999999995
No 17
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=54.04 E-value=6.6 Score=38.00 Aligned_cols=25 Identities=24% Similarity=0.454 Sum_probs=18.3
Q ss_pred ccceeCCCCccccccCCCCCCcccCCCC
Q 001282 466 IFCEECPVGTYKNVTGSDKSLCHQCPPQ 493 (1108)
Q Consensus 466 ~fC~eCP~GtYK~~tGS~~~~C~pCp~~ 493 (1108)
..|.+|..|+|++.. ...|.+|+.+
T Consensus 4 ~~Ct~C~~g~~~~~~---~~~C~~C~~~ 28 (96)
T PTZ00382 4 AVCTSCDSDKKPNKD---GSGCVLCSVG 28 (96)
T ss_pred cccCcCCCCCccCCC---CCcCCcCCCC
Confidence 368899999988753 3468888853
No 18
>cd00055 EGF_Lam Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in tandem arrays; the domain contains 4 disulfide bonds (loops a-d) the first three resemble epidermal growth factor (EGF); the number of copies of this domain in the different forms of laminins is highly variable ranging from 3 up to 22 copies
Probab=54.03 E-value=7.5 Score=32.85 Aligned_cols=27 Identities=26% Similarity=0.562 Sum_probs=22.0
Q ss_pred CCceEEccCCCCCCCcccceeCCCCccccc
Q 001282 450 ENGTTTGKACPKGLYGIFCEECPVGTYKNV 479 (1108)
Q Consensus 450 ~~GTI~gk~CP~G~yG~fC~eCP~GtYK~~ 479 (1108)
.+|.- .|++|+.|..|++|+.|+|...
T Consensus 17 ~~G~C---~C~~~~~G~~C~~C~~g~~~~~ 43 (50)
T cd00055 17 GTGQC---ECKPNTTGRRCDRCAPGYYGLP 43 (50)
T ss_pred CCCEE---eCCCcCCCCCCCCCCCCCccCC
Confidence 45554 3999999999999999999653
No 19
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=53.89 E-value=20 Score=35.09 Aligned_cols=56 Identities=14% Similarity=0.297 Sum_probs=41.0
Q ss_pred hcccCChHHHHHHHHHHHHHHHHh-hcc------------------------ccchhhHhHHHHHhhcCCCccccCCeEE
Q 001282 778 MSQLVPPTICYRLVAGLNAQLRLV-RRG------------------------RLRATFRPVLRWLETHANPTLQLHGLRV 832 (1108)
Q Consensus 778 ~~q~~~~~~w~~fVa~lN~~lR~v-~~~------------------------~lr~tl~~vi~~lesh~n~~l~~~Gvrv 832 (1108)
++..+++++|+++|.++|..++.. ..- .-+..+..+=+||+..|++.++.+|+++
T Consensus 26 L~~~is~~ef~~iI~~IN~~l~~a~~~~~~~~~~~~~l~~lt~~l~~~~~~~~~~~~~~~le~~l~~~N~~~~~~~gi~i 105 (118)
T PF10256_consen 26 LSGYISPEEFEEIINTINQILKEAFEPISWRNIIENILGCLTLGLSSLCFKTHYKRKLRELEKYLEQLNEELFKPRGIKI 105 (118)
T ss_pred hcCCCCHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcEE
Confidence 455789999999999999998877 321 1122344466788888887899999854
Q ss_pred E
Q 001282 833 D 833 (1108)
Q Consensus 833 ~ 833 (1108)
-
T Consensus 106 i 106 (118)
T PF10256_consen 106 I 106 (118)
T ss_pred E
Confidence 3
No 20
>PF07354 Sp38: Zona-pellucida-binding protein (Sp38); InterPro: IPR010857 This family contains a number of zona-pellucida-binding proteins that seem to be restricted to mammals. These are sperm proteins that bind to the 90 kDa family of zona pellucida glycoproteins in a calcium-dependent manner []. These represent some of the specific molecules that mediate the first steps of gamete interaction, allowing fertilisation to occur [].; GO: 0007339 binding of sperm to zona pellucida, 0005576 extracellular region
Probab=46.89 E-value=12 Score=42.33 Aligned_cols=36 Identities=28% Similarity=0.574 Sum_probs=27.5
Q ss_pred EEccCCCCCCC---------cccceeCCCCccccccCCCCCCcccCCC
Q 001282 454 TTGKACPKGLY---------GIFCEECPVGTYKNVTGSDKSLCHQCPP 492 (1108)
Q Consensus 454 I~gk~CP~G~y---------G~fC~eCP~GtYK~~tGS~~~~C~pCp~ 492 (1108)
++=..|+|||+ -.=|+-|++|||....+ ..|..|+.
T Consensus 217 v~idsC~PGfG~N~~~h~~C~~CCVvCsPgTysp~~~---~~C~~C~~ 261 (271)
T PF07354_consen 217 VRIDSCRPGFGKNDILHSDCPSCCVVCSPGTYSPDDD---VHCQQCNS 261 (271)
T ss_pred EEeeccCCCCCcCcccCCCCCCeeEECCCcccCCCCC---ceEEecCc
Confidence 34467888886 12499999999987654 58999996
No 21
>PTZ00146 fibrillarin; Provisional
Probab=46.37 E-value=46 Score=38.33 Aligned_cols=10 Identities=30% Similarity=0.474 Sum_probs=6.6
Q ss_pred eeeEEEeCCC
Q 001282 339 VEGSVKADGQ 348 (1108)
Q Consensus 339 l~GsI~AnGg 348 (1108)
.+|...+.|.
T Consensus 64 ~~gv~~~~~~ 73 (293)
T PTZ00146 64 FPGVFIAKGK 73 (293)
T ss_pred ecCEEEeecC
Confidence 4677777664
No 22
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=45.87 E-value=31 Score=41.76 Aligned_cols=10 Identities=30% Similarity=0.760 Sum_probs=5.3
Q ss_pred CcccCcccCCc
Q 001282 761 SYMAPFSLQND 771 (1108)
Q Consensus 761 Sf~~Pf~L~sD 771 (1108)
-|-.|| |..|
T Consensus 487 G~~gp~-i~ad 496 (641)
T KOG3915|consen 487 GFPGPF-IFAD 496 (641)
T ss_pred CCCCcc-cccc
Confidence 344666 5544
No 23
>PF05268 GP38: Phage tail fibre adhesin Gp38; InterPro: IPR007932 This entry is represented by Bacteriophage T2, Gp38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains several Gp38 proteins from T-even-like phages. Gp38, together with a second phage protein, Gp57, catalyses the organisation of Gp37 but is absent from the phage particle. Gp37 is responsible for receptor recognition [].
Probab=44.42 E-value=44 Score=37.26 Aligned_cols=31 Identities=23% Similarity=0.334 Sum_probs=15.8
Q ss_pred CCCCCCCccEEEEeecccCcceeeeeeEEEeCC
Q 001282 315 SGNSTAGGGIIVMGSFEHPLSSLSVEGSVKADG 347 (1108)
Q Consensus 315 ~~~GGaGGGiI~I~A~~~~L~~L~l~GsI~AnG 347 (1108)
...|++||=+|+=.... .| +|..+|.|.-.|
T Consensus 125 ~~~g~~GG~~I~N~iG~-rL-RI~N~GaIAgGG 155 (260)
T PF05268_consen 125 NSAGAAGGHAIQNDIGG-RL-RINNNGAIAGGG 155 (260)
T ss_pred CCCccccceeeecCCcc-eE-EEecCCEEecCC
Confidence 34567788777733221 22 455555554433
No 24
>KOG1836 consensus Extracellular matrix glycoprotein Laminin subunits alpha and gamma [Extracellular structures]
Probab=39.90 E-value=23 Score=48.98 Aligned_cols=34 Identities=32% Similarity=0.708 Sum_probs=25.6
Q ss_pred cCCCCCCCcccceeCCCCccccccCCCCC--CcccCC
Q 001282 457 KACPKGLYGIFCEECPVGTYKNVTGSDKS--LCHQCP 491 (1108)
Q Consensus 457 k~CP~G~yG~fC~eCP~GtYK~~tGS~~~--~C~pCp 491 (1108)
=.||+||-|-||+.|+.|+.+. +..... .|.+|+
T Consensus 697 c~C~~g~tG~~Ce~C~~gfrr~-~~~~~~~~~c~~C~ 732 (1705)
T KOG1836|consen 697 CTCPVGYTGQFCESCAPGFRRL-SPQLGPFCPCIPCD 732 (1705)
T ss_pred ccCCCCcccchhhhcchhhhcc-cccCCCCCcccccc
Confidence 5799999999999999999665 344444 455555
No 25
>PF00053 Laminin_EGF: Laminin EGF-like (Domains III and V); InterPro: IPR002049 Laminins [] are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation. They are composed of distinct but related alpha, beta and gamma chains. The three chains form a cross-shaped molecule that consist of a long arm and three short globular arms. The long arm consist of a coiled coil structure contributed by all three chains and cross-linked by interchain disulphide bonds. Beside different types of globular domains each subunit contains, in its first half, consecutive repeats of about 60 amino acids in length that include eight conserved cysteines []. The tertiary structure [, ] of this domain is remotely similar in its N-terminal to that of the EGF-like module (see PDOC00021 from PROSITEDOC). It is known as a 'LE' or 'laminin-type EGF-like' domain. The number of copies of the LE domain in the different forms of laminins is highly variable; from 3 up to 22 copies have been found. A schematic representation of the topology of the four disulphide bonds in the LE domain is shown below. +-------------------+ +-|-----------+ | +--------+ +-----------------+ | | | | | | | | xxCxCxxxxxxxxxxxCxxxxxxxCxxCxxxxxGxxCxxCxxgaagxxxxxxxxxxxCxx sssssssssssssssssssssssssssssssssss 'C': conserved cysteine involved in a disulphide bond 'a': conserved aromatic residue 'G': conserved glycine (lower case = less conserved) 's': region similar to the EGF-like domain In mouse laminin gamma-1 chain, the seventh LE domain has been shown to be the only one that binds with a high affinity to nidogen []. The binding-sites are located on the surface within the loops C1-C3 and C5-C6 [, ]. Long consecutive arrays of LE domains in laminins form rod-like elements of limited flexibility [], which determine the spacing in the formation of laminin networks of basement membranes [].; PDB: 3TBD_A 3ZYG_B 3ZYI_B 2Y38_A 1KLO_A 1NPE_B 3ZYJ_B 1TLE_A.
Probab=38.97 E-value=13 Score=31.07 Aligned_cols=21 Identities=29% Similarity=0.689 Sum_probs=17.4
Q ss_pred CCCCCCcccceeCCCCccccc
Q 001282 459 CPKGLYGIFCEECPVGTYKNV 479 (1108)
Q Consensus 459 CP~G~yG~fC~eCP~GtYK~~ 479 (1108)
|++++.|..|.+|..|+|...
T Consensus 22 C~~~~~G~~C~~C~~g~~~~~ 42 (49)
T PF00053_consen 22 CKPGTTGPRCDQCKPGYFGLP 42 (49)
T ss_dssp BSTTEESTTS-EE-TTEECST
T ss_pred ccccccCCcCcCCCCcccccc
Confidence 999999999999999999764
No 26
>KOG1836 consensus Extracellular matrix glycoprotein Laminin subunits alpha and gamma [Extracellular structures]
Probab=38.32 E-value=22 Score=49.07 Aligned_cols=43 Identities=35% Similarity=0.688 Sum_probs=34.9
Q ss_pred CceEEccCCCCCCCcccceeCCCCccccccCCC--CCCcccCCCC
Q 001282 451 NGTTTGKACPKGLYGIFCEECPVGTYKNVTGSD--KSLCHQCPPQ 493 (1108)
Q Consensus 451 ~GTI~gk~CP~G~yG~fC~eCP~GtYK~~tGS~--~~~C~pCp~~ 493 (1108)
..++.-|.||+||.|..|++|.-|+|=+..+-+ ...|++|+-+
T Consensus 794 ~~~~iCk~Cp~gytG~rCe~c~dgyfg~p~~~~~~~~~c~~c~c~ 838 (1705)
T KOG1836|consen 794 ILEVVCKNCPPGYTGLRCEECADGYFGNPLGHDGDVRPCQSCQCN 838 (1705)
T ss_pred ccceecCCCCCCCcccccccCCCccccCCCCCCCCcccCccceec
Confidence 456667899999999999999999998865432 2489999964
No 27
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=37.19 E-value=29 Score=34.81 Aligned_cols=20 Identities=35% Similarity=0.891 Sum_probs=9.4
Q ss_pred h-hhHHHHHHHHHHHHHHHHH
Q 001282 542 W-LFCLLLVGLLILLALVLSV 561 (1108)
Q Consensus 542 ~-~F~Lll~~llvLlalv~s~ 561 (1108)
| +|++|+++++++|+++..+
T Consensus 2 W~l~~iii~~i~l~~~~~~~~ 22 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCH 22 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHH
Confidence 5 4555554444444444433
No 28
>cd00064 FU Furin-like repeats. Cysteine rich region. Exact function of the domain is not known. Furin is a serine-kinase dependent proprotein processor. Other members of this family include endoproteases and cell surface receptors.
Probab=35.76 E-value=28 Score=28.96 Aligned_cols=22 Identities=45% Similarity=1.017 Sum_probs=10.2
Q ss_pred cCCCCCC--Ccccce-eCCCCcccc
Q 001282 457 KACPKGL--YGIFCE-ECPVGTYKN 478 (1108)
Q Consensus 457 k~CP~G~--yG~fC~-eCP~GtYK~ 478 (1108)
+.|++|+ .+..|+ .||.++|.+
T Consensus 18 ~~C~~~~~~~~~~Cv~~C~~~~~~~ 42 (49)
T cd00064 18 TSCRHGFYLDGGTCVSECPEGTYAD 42 (49)
T ss_pred ccCcCccCCCCCcccccCCCCceec
Confidence 3445554 234454 455555543
No 29
>PF11145 DUF2921: Protein of unknown function (DUF2921); InterPro: IPR021319 This eukaryotic family of proteins has no known function.
Probab=34.30 E-value=1e+02 Score=40.71 Aligned_cols=116 Identities=17% Similarity=0.190 Sum_probs=65.8
Q ss_pred Ccccccccccceee--eeeeeeecCccc-chhhhHHH--HHHHHHHhhH-HHHHHHHHHHHHhhhh------hHHHHHHh
Q 001282 920 NNVQMLEERRDIFY--FLSFIVHNTKPV-GHQDLVGL--VISVLLLGDF-SLVLLTLLQLYSISLV------DVFLVLFI 987 (1108)
Q Consensus 920 ~~l~~l~~~r~~~~--p~s~~l~n~rp~-g~~~l~~l--~is~lll~D~-~l~ll~llq~y~is~~------~~~~vl~~ 987 (1108)
.+++++.++=|++| |+.+-....-.- ...+.+.- +=++|.++=+ .....+.+|++-+.=. -=+.||.+
T Consensus 593 g~I~S~R~~~DpL~F~~~~l~~~~~~~~~q~~~~i~R~d~E~i~~~~s~tl~~~~~~~QL~~~k~~~~~~P~iSlvML~v 672 (909)
T PF11145_consen 593 GSISSTRDKSDPLYFEPLDLSTYPIYYRKQAEESIWRMDLEGIMRVISLTLSCVFIGLQLFHVKKHPDVLPYISLVMLGV 672 (909)
T ss_pred EEEEeccCCCCCccccceeeeeccceeccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhcCCCccchHhHHHHHH
Confidence 46677778888888 665544333211 22333321 1112222222 2334577898652210 12458889
Q ss_pred ccccccccccchhhhhhcc-CCCCcccccchhhhhhhhhhhH--HHHHhhh
Q 001282 988 LPLGILLPFPAGINALFSH-GPRRSVGLARVYALWNVTSLIN--VGVAFLC 1035 (1108)
Q Consensus 988 lPl~~~~p~~~Gl~alfs~-~~rrs~~~ar~yalwN~~Sl~n--~~va~~c 1035 (1108)
+=|+-.+|..++.-|||.. ..++...+.+-=-+|..-.++- ++|||+.
T Consensus 673 ~aLGy~~pLv~n~EaLf~~~~~~~~~~~~~~~w~e~~e~~vr~ltmvAflL 723 (909)
T PF11145_consen 673 QALGYMIPLVLNFEALFKSSHNRQNIFLDSGGWLEVNEVMVRLLTMVAFLL 723 (909)
T ss_pred HHHhccchhhcCHHHHcCcCCCCceEEeecCchhHHHHHHHHHHHHHHHHH
Confidence 9999999999999999993 3344444544444555555554 4577765
No 30
>KOG4260 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.53 E-value=35 Score=39.09 Aligned_cols=21 Identities=43% Similarity=1.048 Sum_probs=16.8
Q ss_pred CCCCCCCcccceeCCCCcccc
Q 001282 458 ACPKGLYGIFCEECPVGTYKN 478 (1108)
Q Consensus 458 ~CP~G~yG~fC~eCP~GtYK~ 478 (1108)
-||+|.||.-|.+||-|+=+.
T Consensus 131 CCp~gtyGpdCl~Cpggser~ 151 (350)
T KOG4260|consen 131 CCPDGTYGPDCLQCPGGSERP 151 (350)
T ss_pred ccCCCCcCCccccCCCCCcCC
Confidence 488888888888888887554
No 31
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=27.84 E-value=59 Score=43.35 Aligned_cols=40 Identities=28% Similarity=0.598 Sum_probs=28.0
Q ss_pred CCCCCCCcccceeCCCCccccccCCCCCCcccCCCCCCCCCceE
Q 001282 458 ACPKGLYGIFCEECPVGTYKNVTGSDKSLCHQCPPQEFPHRAVY 501 (1108)
Q Consensus 458 ~CP~G~yG~fC~eCP~GtYK~~tGS~~~~C~pCp~~~~P~ra~y 501 (1108)
.|-|+--|-.|.+|.+|||- -.-+=|++|.=+..-+-..|
T Consensus 785 qCkPnVVGR~CdqCApGtyG----FGPsGCk~CdC~~~Gs~~~~ 824 (1758)
T KOG0994|consen 785 QCKPNVVGRRCDQCAPGTYG----FGPSGCKACDCNSIGSLDKY 824 (1758)
T ss_pred cccCccccccccccCCcccC----cCCccCcccccccccccccc
Confidence 56667779999999999994 23356999986544333333
No 32
>PF14946 DUF4501: Domain of unknown function (DUF4501)
Probab=26.59 E-value=2.6e+02 Score=30.29 Aligned_cols=30 Identities=40% Similarity=0.562 Sum_probs=21.8
Q ss_pred HhCCch-hhHHHHHHHHHHHHHHHHHhhhee
Q 001282 537 TFGGPW-LFCLLLVGLLILLALVLSVARMKF 566 (1108)
Q Consensus 537 ~fGGp~-~F~Lll~~llvLlalv~s~~R~k~ 566 (1108)
.+|||. .-.|||=.|+|-++++++++-.-|
T Consensus 83 ~~g~P~vAASL~LgTffIS~~LilSvA~FFY 113 (180)
T PF14946_consen 83 HTGGPQVAASLFLGTFFISLGLILSVASFFY 113 (180)
T ss_pred cCCChhHHHHHHHHHHHHHHHHHHHHhhhee
Confidence 579999 555655577777899998776543
No 33
>COG4907 Predicted membrane protein [Function unknown]
Probab=25.86 E-value=45 Score=40.62 Aligned_cols=8 Identities=38% Similarity=0.073 Sum_probs=4.6
Q ss_pred CcEEEEEE
Q 001282 211 LSFTLQIC 218 (1108)
Q Consensus 211 ~~FTLqi~ 218 (1108)
..+||.|+
T Consensus 451 ~v~~L~if 458 (595)
T COG4907 451 TVNTLFIF 458 (595)
T ss_pred ccceeeeh
Confidence 45666653
No 34
>KOG4260 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.00 E-value=43 Score=38.40 Aligned_cols=36 Identities=19% Similarity=0.619 Sum_probs=27.4
Q ss_pred cCCCCCCCcccceeCCCCccccccCCCCCCcccCCC
Q 001282 457 KACPKGLYGIFCEECPVGTYKNVTGSDKSLCHQCPP 492 (1108)
Q Consensus 457 k~CP~G~yG~fC~eCP~GtYK~~tGS~~~~C~pCp~ 492 (1108)
=.|.+||.|..|.+|..++|...---....|++|..
T Consensus 170 CkC~~GY~Gp~C~~Cg~eyfes~Rne~~lvCt~Ch~ 205 (350)
T KOG4260|consen 170 CKCETGYTGPLCRYCGIEYFESSRNEQHLVCTACHE 205 (350)
T ss_pred ccccCCCCCccccccchHHHHhhcccccchhhhhhh
Confidence 489999999999999999997643223345777764
No 35
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=22.85 E-value=82 Score=43.12 Aligned_cols=36 Identities=36% Similarity=0.866 Sum_probs=28.1
Q ss_pred CCCCceEEccCCCCCCCcccce-----eCCCCccccccCCCCCCcccCC
Q 001282 448 GGENGTTTGKACPKGLYGIFCE-----ECPVGTYKNVTGSDKSLCHQCP 491 (1108)
Q Consensus 448 ~G~~GTI~gk~CP~G~yG~fC~-----eCP~GtYK~~tGS~~~~C~pCp 491 (1108)
+|.+| |.-.||+||+|.+|+ +||.||+-. ..|.||.
T Consensus 1734 p~a~G--Y~C~C~~g~~G~~Ce~~~dq~CPrGWWG~------P~CgpC~ 1774 (2531)
T KOG4289|consen 1734 PGAHG--YTCECPPGYTGPYCELRADQPCPRGWWGF------PTCGPCN 1774 (2531)
T ss_pred CCCCc--eeEECCCcccCcchhhhccCCCCCcccCC------CCccCcc
Confidence 44455 447999999999995 899999843 4588886
No 36
>KOG4180 consensus Predicted kinase [General function prediction only]
Probab=22.56 E-value=1.4e+02 Score=35.43 Aligned_cols=28 Identities=32% Similarity=0.502 Sum_probs=19.5
Q ss_pred CCCCCCcccccccEEEEecCCCCcccCcc
Q 001282 739 RTDLPPCLHHRFPMSLIFGGDGSYMAPFS 767 (1108)
Q Consensus 739 r~dl~~~i~~~~Pm~IlfsGdGSf~~Pf~ 767 (1108)
|.++... ..--.|+|-.||||+|+--=+
T Consensus 96 R~~lsq~-i~waD~VisvGGDGTfL~Aas 123 (395)
T KOG4180|consen 96 RNDLSQP-IRWADMVISVGGDGTFLLAAS 123 (395)
T ss_pred hhhccCc-CchhhEEEEecCccceeehhh
Confidence 4444332 344579999999999987666
No 37
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=21.89 E-value=4.1e+02 Score=28.95 Aligned_cols=8 Identities=0% Similarity=0.061 Sum_probs=4.1
Q ss_pred eeeeEEEE
Q 001282 158 ALFYSIHV 165 (1108)
Q Consensus 158 s~f~~i~v 165 (1108)
.-|++|++
T Consensus 51 T~w~~V~~ 58 (182)
T PRK06958 51 TEWHRVAF 58 (182)
T ss_pred ceEEEEEE
Confidence 34555554
No 38
>COG1512 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]
Probab=21.34 E-value=94 Score=35.53 Aligned_cols=13 Identities=54% Similarity=1.130 Sum_probs=5.9
Q ss_pred CCCCCCCCCCCcc
Q 001282 272 GSGGGHGGKGGLG 284 (1108)
Q Consensus 272 GgGGGHGG~GG~G 284 (1108)
||||+.||.|++|
T Consensus 257 gGGgS~GGGGasg 269 (271)
T COG1512 257 GGGGSSGGGGASG 269 (271)
T ss_pred CCCCCCCCCCCCC
Confidence 4444444444433
No 39
>PTZ00146 fibrillarin; Provisional
Probab=21.22 E-value=1.3e+02 Score=34.84 Aligned_cols=8 Identities=0% Similarity=-0.209 Sum_probs=3.1
Q ss_pred cceEeEEE
Q 001282 608 SHVHRMYF 615 (1108)
Q Consensus 608 ~Hv~RmYf 615 (1108)
||.....+
T Consensus 275 y~~~h~~v 282 (293)
T PTZ00146 275 FERDHAVV 282 (293)
T ss_pred ccCCcEEE
Confidence 44433333
No 40
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=20.74 E-value=1.2e+02 Score=30.76 Aligned_cols=70 Identities=14% Similarity=0.246 Sum_probs=46.8
Q ss_pred hhhhhchHHHHHHHHHHHhhhhhhhhhhHHHHH------HH--HhhcchhHHHHHHHHHHHHHHHHHHHHhhcCchhhc
Q 001282 635 IKEIVYEGAFNSFVDEINAIATYHWWEGAIYSI------LA--ILAYPLAWSWQQWRRRMKLQRLREYVRSEYDHACLR 705 (1108)
Q Consensus 635 i~~iv~ed~fn~Fad~IN~laay~~We~~iy~i------Ls--vl~YPlaw~~lq~~Rrkk~~rL~efv~seydh~clr 705 (1108)
...=|.++++.+|.++++.-++..-+|.++-.. +. +..|=.++.....+.+||-..+.++|. ..|+.|++
T Consensus 43 ~~~DVs~eDW~~F~~dl~~aa~ls~~~~~~~~~~~~~~~v~~Gi~~~~v~~~~~~~~~~~k~~~v~~~i~-~WN~~FF~ 120 (123)
T PF15496_consen 43 ASHDVSEEDWTRFLNDLSEAASLSPSQSIVAGVGPIVMGVGFGIPAYLVAKAIRKAMKEKKRGEVESTID-QWNEGFFR 120 (123)
T ss_pred hhcCCCHHHHHHHHHHHHHHHhcCcccceeeeeccccccccccchhhhhhHhhhhcccccchHHHHHHHH-HHHHHhcc
Confidence 444578999999999999988887666432221 11 233444555666777777777888886 56666654
No 41
>PHA02844 putative transmembrane protein; Provisional
Probab=20.60 E-value=1.2e+02 Score=28.87 Aligned_cols=15 Identities=27% Similarity=0.696 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHhhh
Q 001282 641 EGAFNSFVDEINAIA 655 (1108)
Q Consensus 641 ed~fn~Fad~IN~la 655 (1108)
+|.||+|+|-+-+++
T Consensus 17 DdDFnnFI~vVksVL 31 (75)
T PHA02844 17 NEDFNNFIDVVKSVL 31 (75)
T ss_pred hHHHHHHHHHHHHHH
Confidence 678999999997776
No 42
>PF00020 TNFR_c6: TNFR/NGFR cysteine-rich region; InterPro: IPR001368 A number of proteins, some of which are known to be receptors for growth factors have been found to contain a cysteine-rich domain at the N-terminal region that can be subdivided into four (or in some cases, three) repeats containing six conserved cysteines all of which are involved in intrachain disulphide bonds []. CD27 (also called S152 or T14) mediates a co-stimulatory signal for T and B cell activation and is involved in murine T cell development. Tyrosine-phosphorylation of ZAP-70 following CD27 ligation of T cells has been reported [], but not confirmed independently. CD30 was originally identified as Ki-1, an antigen expressed on Reed-Sternberg cells in Hodgkin's lymphomas and other non-Hodgkin's lymphomas, particularly diffuse large-cell lymphoma and immunoblastic lymphoma. CD30 has pleiotropic effects on CD30-positive lymphoma cell lines ranging from cell proliferation to cell death. It is thought to be involved in negative selection of T-cells in the thymus and is involved in TCR-mediated cell death. CD30 is a member of the TNFR family of molecules, activate NFkB through interaction with TRAF2 and TRAF5. CD40 (Bp50) plays a central role in the regulation of cell-mediated immunity as well as antibody mediated immunity. It is central to T cell dependent (TD)-responses and may influence survival of B cell lymphomas. CD95 (also called APO-1, fas antigen, Fas tumour necrosis factor receptor superfamily, member 6, TNFRSF6 or apoptosis antigen 1, APT1) is expressed, typically at high levels, on activated T and B cells. It is involved in the mediation of apoptosis-inducing signals. Other proteins known to belong to this family [, , , ] are, tumour Necrosis Factor type I and type II receptors (TNFR), Rabbit fibroma virus soluble TNF receptor (protein T2), lymphotoxin alpha/beta receptor, low-affinity nerve growth factor receptor (LA-NGFR) (p75), T-cell antigen OX40, Wsl-1, a receptor (for a yet undefined ligand) that mediates apoptosis and Vaccinia virus protein A53 (SalF19R). CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/).; GO: 0005488 binding; PDB: 3TJE_F 3QD6_S 3ALQ_U 3IJ2_Y 3BUK_D 1SG1_X 1NCF_B 1EXT_A 1FT4_B 1TNR_R ....
Probab=20.53 E-value=37 Score=27.26 Aligned_cols=20 Identities=35% Similarity=0.913 Sum_probs=14.8
Q ss_pred CCCCccccccCCCCCCcccCCC
Q 001282 471 CPVGTYKNVTGSDKSLCHQCPP 492 (1108)
Q Consensus 471 CP~GtYK~~tGS~~~~C~pCp~ 492 (1108)
||.|+|.+..+. ..|.+|..
T Consensus 1 C~~g~y~~~~~~--~~C~~C~~ 20 (39)
T PF00020_consen 1 CPPGTYSDSENH--PQCLPCSR 20 (39)
T ss_dssp ECTTEEEESSCS--SSEEEEES
T ss_pred CccCcccCCCCC--CcCCccCC
Confidence 899999987543 67877654
No 43
>PF12661 hEGF: Human growth factor-like EGF; PDB: 2YGQ_A 2E26_A 3A7Q_A 2YGP_A 2YGO_A 1HRE_A 1HAE_A 1HAF_A 1HRF_A.
Probab=20.21 E-value=31 Score=22.58 Aligned_cols=11 Identities=45% Similarity=1.051 Sum_probs=7.9
Q ss_pred CCCCCCCcccc
Q 001282 458 ACPKGLYGIFC 468 (1108)
Q Consensus 458 ~CP~G~yG~fC 468 (1108)
.||+||.|..|
T Consensus 3 ~C~~G~~G~~C 13 (13)
T PF12661_consen 3 QCPPGWTGPNC 13 (13)
T ss_dssp EE-TTEETTTT
T ss_pred cCcCCCcCCCC
Confidence 48888888776
Done!