Query 000547
Match_columns 1432
No_of_seqs 200 out of 215
Neff 3.8
Searched_HMMs 46136
Date Mon Apr 1 18:51:32 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000547.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000547hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0196 Tyrosine kinase, EPH ( 96.6 0.0018 3.9E-08 81.4 4.4 61 796-869 261-331 (996)
2 PF07699 GCC2_GCC3: GCC2 and G 96.3 0.002 4.4E-08 55.3 2.0 26 805-832 9-34 (48)
3 PF10256 Erf4: Golgin subfamil 92.2 0.22 4.7E-06 50.0 5.1 67 966-1032 21-91 (118)
4 PHA02637 TNF-alpha-receptor-li 91.9 0.19 4E-06 52.1 4.2 57 797-858 31-92 (127)
5 KOG0921 Dosage compensation co 91.2 0.5 1.1E-05 61.1 7.7 7 287-293 1272-1278(1282)
6 PF07562 NCD3G: Nine Cysteines 91.1 0.062 1.4E-06 47.7 -0.1 36 795-832 6-51 (54)
7 cd00185 TNFR Tumor necrosis fa 89.9 0.43 9.3E-06 46.7 4.6 66 793-864 12-87 (98)
8 PHA02637 TNF-alpha-receptor-li 85.9 0.54 1.2E-05 48.8 2.6 41 789-830 38-87 (127)
9 KOG0921 Dosage compensation co 82.2 3.1 6.7E-05 54.4 7.3 17 557-573 1135-1151(1282)
10 PF07699 GCC2_GCC3: GCC2 and G 77.5 1.8 3.9E-05 37.4 2.3 32 791-822 7-43 (48)
11 cd00185 TNFR Tumor necrosis fa 67.2 6.5 0.00014 38.6 3.8 33 804-836 11-45 (98)
12 PTZ00382 Variant-specific surf 63.1 4.3 9.3E-05 40.4 1.7 24 805-831 4-27 (96)
13 KOG4069 Uncharacterized conser 60.6 19 0.0004 38.1 5.7 78 965-1046 45-135 (154)
14 KOG4289 Cadherin EGF LAG seven 53.4 11 0.00024 51.6 3.4 86 1274-1370 2170-2256(2531)
15 cd00055 EGF_Lam Laminin-type e 52.6 7.5 0.00016 33.9 1.3 27 789-818 17-43 (50)
16 smart00180 EGF_Lam Laminin-typ 52.5 7.7 0.00017 33.5 1.3 20 797-816 21-40 (46)
17 PF05268 GP38: Phage tail fibr 51.9 65 0.0014 36.9 8.5 37 210-247 114-152 (260)
18 PF12273 RCR: Chitin synthesis 45.1 20 0.00043 37.0 3.2 20 881-900 2-22 (130)
19 KOG3973 Uncharacterized conser 44.7 81 0.0018 38.2 8.2 7 289-295 453-459 (465)
20 PF14946 DUF4501: Domain of un 44.4 80 0.0017 34.8 7.5 37 876-912 83-121 (180)
21 PF15496 DUF4646: Domain of un 40.1 46 0.00099 34.6 4.9 70 971-1041 43-120 (123)
22 KOG1836 Extracellular matrix g 40.0 19 0.00041 50.9 2.7 43 790-832 794-838 (1705)
23 PF07354 Sp38: Zona-pellucida- 39.1 18 0.0004 42.1 2.0 35 794-831 218-261 (271)
24 PF15496 DUF4646: Domain of un 38.2 36 0.00078 35.4 3.8 25 1116-1140 45-69 (123)
25 PF00053 Laminin_EGF: Laminin 37.3 13 0.00028 32.0 0.4 22 797-818 21-42 (49)
26 KOG1836 Extracellular matrix g 36.9 28 0.0006 49.4 3.5 36 796-831 697-733 (1705)
27 PF10256 Erf4: Golgin subfamil 34.7 60 0.0013 32.8 4.7 56 1114-1169 26-106 (118)
28 PRK09677 putative lipopolysacc 34.3 96 0.0021 33.9 6.5 61 87-150 35-95 (192)
29 KOG2675 Adenylate cyclase-asso 33.6 25 0.00053 43.4 2.0 26 341-366 445-470 (480)
30 KOG4611 Uncharacterized conser 32.3 36 0.00078 41.0 3.0 48 807-873 52-125 (747)
31 cd00064 FU Furin-like repeats. 30.5 38 0.00082 29.1 2.1 22 796-817 18-42 (49)
32 KOG4258 Insulin/growth factor 29.1 35 0.00077 45.1 2.4 46 805-873 304-350 (1025)
33 KOG4180 Predicted kinase [Gene 29.0 99 0.0021 37.4 5.7 28 1075-1103 96-123 (395)
34 PF02166 Androgen_recep: Andro 27.5 20 0.00044 42.8 0.0 26 21-57 335-360 (423)
35 PF05281 Secretogranin_V: Neur 26.5 96 0.0021 35.3 4.9 91 761-867 49-144 (208)
36 KOG4260 Uncharacterized conser 25.3 73 0.0016 37.6 3.8 50 798-866 132-181 (350)
37 COG4907 Predicted membrane pro 24.7 50 0.0011 41.2 2.5 27 250-293 569-595 (595)
38 cd04299 GT1_Glycogen_Phosphory 23.5 51 0.0011 43.7 2.4 77 1018-1096 435-522 (778)
39 KOG0994 Extracellular matrix g 23.4 79 0.0017 43.2 4.0 65 797-866 785-856 (1758)
40 PF15195 TMEM210: TMEM210 fami 23.1 51 0.0011 33.5 1.8 10 41-50 101-110 (116)
41 PF04519 Bactofilin: Polymer-f 23.0 3.1E+02 0.0067 26.9 7.2 57 71-150 5-61 (101)
42 PF00020 TNFR_c6: TNFR/NGFR cy 22.4 39 0.00085 28.0 0.8 19 810-830 1-19 (39)
43 PF12661 hEGF: Human growth fa 21.8 28 0.0006 23.6 -0.2 11 797-807 3-13 (13)
44 PF05268 GP38: Phage tail fibr 21.6 1.6E+02 0.0035 33.9 5.4 21 245-265 113-134 (260)
45 PRK06958 single-stranded DNA-b 21.6 5.1E+02 0.011 29.1 9.2 35 108-144 71-108 (182)
No 1
>KOG0196 consensus Tyrosine kinase, EPH (ephrin) receptor family [Signal transduction mechanisms]
Probab=96.58 E-value=0.0018 Score=81.38 Aligned_cols=61 Identities=30% Similarity=0.688 Sum_probs=45.1
Q ss_pred cCCCCCcc----cccceeCCCCceecccCCCCCCcccCCCCCCCCCcceecccCcccCCCCCccccCCCccC------Cc
Q 000547 796 KACPRGLY----GVFCEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVSERYHM------PH 865 (1432)
Q Consensus 796 ~~CP~G~~----G~fC~eCP~GtYKn~~Gs~~~~C~pC~~~~lp~ra~yiy~~gG~~~~~CpY~C~sdk~~~------p~ 865 (1432)
=-|.+||. |.-|+.||.||||...| ..+|.+||+++..+ ....+.|. |..++|+. --
T Consensus 261 C~C~aGye~~~~~~~C~aCp~G~yK~~~~--~~~C~~CP~~S~s~---------~ega~~C~--C~~gyyRA~~Dp~~mp 327 (996)
T KOG0196|consen 261 CVCKAGYEEAENGKACQACPPGTYKASQG--DSLCLPCPPNSHSS---------SEGATSCT--CENGYYRADSDPPSMP 327 (996)
T ss_pred eeecCCCCcccCCCcceeCCCCcccCCCC--CCCCCCCCCCCCCC---------CCCCCccc--ccCCcccCCCCCCCCC
Confidence 46999984 67799999999999865 48999999865332 22355675 88888873 24
Q ss_pred ccch
Q 000547 866 CYTT 869 (1432)
Q Consensus 866 C~T~ 869 (1432)
|.+|
T Consensus 328 CT~P 331 (996)
T KOG0196|consen 328 CTRP 331 (996)
T ss_pred CCCC
Confidence 7665
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=96.34 E-value=0.002 Score=55.27 Aligned_cols=26 Identities=31% Similarity=0.887 Sum_probs=22.9
Q ss_pred ccceeCCCCceecccCCCCCCcccCCCC
Q 000547 805 VFCEECPVGTFKNVSGSDRALCRNCSSN 832 (1432)
Q Consensus 805 ~fC~eCP~GtYKn~~Gs~~~~C~pC~~~ 832 (1432)
.-|++||.||||+..|. ..|.+||.+
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 46999999999999886 589999975
No 3
>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=92.24 E-value=0.22 Score=49.97 Aligned_cols=67 Identities=19% Similarity=0.347 Sum_probs=44.9
Q ss_pred CCcchhHhhhcHHHHHHHHHHHHHHHhhh--h--hhhhhhheeeheecchhHHHHHHHHHHHHHHHHHHHH
Q 000547 966 SPPEQVIEIVYEDAFNRFADEINALAAYQ--W--WEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVR 1032 (1432)
Q Consensus 966 spP~~i~~ivyed~fn~Fad~IN~laay~--~--We~~i~~iLsvl~YPlaw~~~q~rRrkk~~rL~efv~ 1032 (1432)
.-|.++...+.+++|++++++||+..+=. . |.-++-.+|.++..=+..++.....||++++|.+|+.
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 56777999999999999999999987322 2 4444544555544222122234455677888999997
No 4
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=91.86 E-value=0.19 Score=52.14 Aligned_cols=57 Identities=23% Similarity=0.571 Sum_probs=38.6
Q ss_pred CCCCCcc---cccceeCCCCceecccC--CCCCCcccCCCCCCCCCcceecccCcccCCCCCccccC
Q 000547 797 ACPRGLY---GVFCEECPVGTFKNVSG--SDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVS 858 (1432)
Q Consensus 797 ~CP~G~~---G~fC~eCP~GtYKn~~G--s~~~~C~pC~~~~lp~ra~yiy~~gG~~~~~CpY~C~s 858 (1432)
.|..+-| +.-|.+||.|+|+...= .....|.|||.++.....++.. ....|.-.|++
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 6888865 34589999999987431 1245799999876555444442 35677777765
No 5
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=91.20 E-value=0.5 Score=61.12 Aligned_cols=7 Identities=57% Similarity=1.246 Sum_probs=2.9
Q ss_pred CCCCCCe
Q 000547 287 AGGGGGR 293 (1432)
Q Consensus 287 GGGGGGR 293 (1432)
+|++|||
T Consensus 1272 ~G~~Gg~ 1278 (1282)
T KOG0921|consen 1272 GGGRGGN 1278 (1282)
T ss_pred CCCcccc
Confidence 3344444
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=91.05 E-value=0.062 Score=47.67 Aligned_cols=36 Identities=31% Similarity=0.744 Sum_probs=20.3
Q ss_pred ccCCCCCccc----------ccceeCCCCceecccCCCCCCcccCCCC
Q 000547 795 GKACPRGLYG----------VFCEECPVGTFKNVSGSDRALCRNCSSN 832 (1432)
Q Consensus 795 g~~CP~G~~G----------~fC~eCP~GtYKn~~Gs~~~~C~pC~~~ 832 (1432)
...|++|++- +-|++||.|+|.|.+ +...|.+||.+
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 4689999862 349999999999986 45899999965
No 7
>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=89.93 E-value=0.43 Score=46.67 Aligned_cols=66 Identities=24% Similarity=0.564 Sum_probs=41.1
Q ss_pred EEccCCCCCcc---------cccceeCCCCceecccCCCCCCcccCCCCCCCCCcceecccCc-ccCCCCCccccCCCcc
Q 000547 793 VTGKACPRGLY---------GVFCEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGG-VTECPCPYKCVSERYH 862 (1432)
Q Consensus 793 i~g~~CP~G~~---------G~fC~eCP~GtYKn~~Gs~~~~C~pC~~~~lp~ra~yiy~~gG-~~~~~CpY~C~sdk~~ 862 (1432)
.-=+.||+|++ ..-|++||.|+|.+... ....|++|..= + ...++....- ...+.|- |.+++|-
T Consensus 12 ~cC~~C~pG~~~~~~C~~~~~t~C~~C~~g~ys~~~~-~~~~C~~c~~C--~-~g~~~~~~ct~t~dt~C~--C~~G~y~ 85 (98)
T cd00185 12 LCCDQCPPGTYLSKDCTPGSDTVCEPCPPGTYTDSWN-HLPKCLSCRTC--D-SGLVEKAPCTATRNTVCG--CKPGFYC 85 (98)
T ss_pred CCCCCCCCCccCCCcCCCCCCCeecCCCCCCcccCCC-CCCcCCcCccC--C-CCCEEEccCCCCCCCeEe--CCCCCEe
Confidence 44578999986 25699999999988753 23578888642 2 1222222222 3344675 8888875
Q ss_pred CC
Q 000547 863 MP 864 (1432)
Q Consensus 863 ~p 864 (1432)
..
T Consensus 86 ~~ 87 (98)
T cd00185 86 LT 87 (98)
T ss_pred cC
Confidence 44
No 8
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=85.85 E-value=0.54 Score=48.84 Aligned_cols=41 Identities=27% Similarity=0.665 Sum_probs=30.7
Q ss_pred CCceEEccCCCCCcc---------cccceeCCCCceecccCCCCCCcccCC
Q 000547 789 GNGTVTGKACPRGLY---------GVFCEECPVGTFKNVSGSDRALCRNCS 830 (1432)
Q Consensus 789 ~nGTi~g~~CP~G~~---------G~fC~eCP~GtYKn~~Gs~~~~C~pC~ 830 (1432)
..+.+-=+.||||++ ..-|.+||.|||..... ....|.+|.
T Consensus 38 ~~~~~CC~kCPPGt~v~~~Ct~~t~T~C~PCp~GTYTe~~N-~~~~C~~C~ 87 (127)
T PHA02637 38 KRHNLCCLSCPPGTYASRLCDIKTNTQCTPCGSGTFTSHNN-HLPACLSCN 87 (127)
T ss_pred cCCCeEcCCCCCCCEEeCcCCCCCCcccccCCCCCeeccCC-CCCcccccC
Confidence 445667789999986 56799999999977543 345688776
No 9
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=82.18 E-value=3.1 Score=54.44 Aligned_cols=17 Identities=29% Similarity=0.390 Sum_probs=8.3
Q ss_pred EEEEEEeeEEeeEEEee
Q 000547 557 QICRAEEINIEGIIKGS 573 (1432)
Q Consensus 557 qicrVeditv~g~v~GS 573 (1432)
||||-+-..|+..|.-|
T Consensus 1135 dIs~pSAa~inLmig~~ 1151 (1282)
T KOG0921|consen 1135 DISRPSAADINLMIGDS 1151 (1282)
T ss_pred HhcccccccccceeccC
Confidence 34555555555444433
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=77.48 E-value=1.8 Score=37.40 Aligned_cols=32 Identities=38% Similarity=0.902 Sum_probs=24.8
Q ss_pred ceEEccCCCCCcc----c-ccceeCCCCceecccCCC
Q 000547 791 GTVTGKACPRGLY----G-VFCEECPVGTFKNVSGSD 822 (1432)
Q Consensus 791 GTi~g~~CP~G~~----G-~fC~eCP~GtYKn~~Gs~ 822 (1432)
+.-.=.+||+|+| | ..|++||.|+|-...|+.
T Consensus 7 ~~~~C~~Cp~GtYq~~~g~~~C~~Cp~g~~T~~~Gs~ 43 (48)
T PF07699_consen 7 GNNKCQPCPKGTYQDEEGQTSCTPCPPGSTTSSEGST 43 (48)
T ss_pred CCCccCCCCCCccCCccCCccCccCcCCCccCCcCCc
Confidence 3344579999987 3 559999999998877763
No 11
>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=67.15 E-value=6.5 Score=38.63 Aligned_cols=33 Identities=24% Similarity=0.796 Sum_probs=24.0
Q ss_pred cccceeCCCCceecccCC--CCCCcccCCCCCCCC
Q 000547 804 GVFCEECPVGTFKNVSGS--DRALCRNCSSNELPH 836 (1432)
Q Consensus 804 G~fC~eCP~GtYKn~~Gs--~~~~C~pC~~~~lp~ 836 (1432)
+.-|..||.|+|-..... ....|.|||.+.+..
T Consensus 11 ~~cC~~C~pG~~~~~~C~~~~~t~C~~C~~g~ys~ 45 (98)
T cd00185 11 GLCCDQCPPGTYLSKDCTPGSDTVCEPCPPGTYTD 45 (98)
T ss_pred CCCCCCCCCCccCCCcCCCCCCCeecCCCCCCccc
Confidence 456999999999876532 245799999865433
No 12
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=63.06 E-value=4.3 Score=40.39 Aligned_cols=24 Identities=25% Similarity=0.493 Sum_probs=18.4
Q ss_pred ccceeCCCCceecccCCCCCCcccCCC
Q 000547 805 VFCEECPVGTFKNVSGSDRALCRNCSS 831 (1432)
Q Consensus 805 ~fC~eCP~GtYKn~~Gs~~~~C~pC~~ 831 (1432)
..|.+|..|+|++.. ...|.+|+.
T Consensus 4 ~~Ct~C~~g~~~~~~---~~~C~~C~~ 27 (96)
T PTZ00382 4 AVCTSCDSDKKPNKD---GSGCVLCSV 27 (96)
T ss_pred cccCcCCCCCccCCC---CCcCCcCCC
Confidence 468999999988854 357888874
No 13
>KOG4069 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.59 E-value=19 Score=38.14 Aligned_cols=78 Identities=24% Similarity=0.343 Sum_probs=54.6
Q ss_pred CCCcchhHhhhcHHHHHHHHHHHHHHHhh-------hhhhhhhhheeeheecchhHHHHHHHHHHHHHHHHHHHHhh---
Q 000547 965 HSPPEQVIEIVYEDAFNRFADEINALAAY-------QWWEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVRSE--- 1034 (1432)
Q Consensus 965 ~spP~~i~~ivyed~fn~Fad~IN~laay-------~~We~~i~~iLsvl~YPlaw~~~q~rRrkk~~rL~efv~se--- 1034 (1432)
...|..+++.|..+.|+.=+..+|++-|= ..+|+.+ =++.+|-.|.--.. --+||+++|+||+.++
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 35789999999999999999999998432 2456554 35666666554333 3357899999999854
Q ss_pred -cCc--cccccchhh
Q 000547 1035 -YDH--SCLRSCRSR 1046 (1432)
Q Consensus 1035 -ydh--~c~rs~rsR 1046 (1432)
|.| .=+|++--|
T Consensus 121 IY~~~Gl~l~dP~eR 135 (154)
T KOG4069|consen 121 IYHHVGLHLRDPMER 135 (154)
T ss_pred hccccceeecCchhh
Confidence 777 355665555
No 14
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=53.44 E-value=11 Score=51.56 Aligned_cols=86 Identities=23% Similarity=0.191 Sum_probs=54.8
Q ss_pred hhhHHHHHHHHhhhhhHHHHHHHHHHHHHhHHHHHHHHHhhcccccCCCcccccccccCCCCCC-chhhhhhhhhhhhhH
Q 000547 1274 QDLVGLLVSVLLLADFSLVLLTLLQMYSISLLNFFLVLFILPLGLLFPFPAGISALFSHGPRRS-AGLARIYALWNITSL 1352 (1432)
Q Consensus 1274 ~~~~~l~i~~~ll~d~s~~ll~llq~y~~s~~~~~~~l~~lpl~~~~p~~ag~nalfs~~~rrs-~~~~r~~~lwn~~s~ 1352 (1432)
...|++-...+||+=+.+++|-.|---+.++..-|++-|-| .+-+|-||--+. +--+=+-+|--.+++
T Consensus 2170 ~a~~gvslaal~lt~~llls~RsLksn~~~I~~~l~~Al~l-----------~~L~Fv~gi~~nq~~CtvvailLhf~~~ 2238 (2531)
T KOG4289|consen 2170 YAAVGVSLAALLLTFLLLLSLRSLKSNSHGIHFNLAAALGL-----------AQLVFVLGINQNQFYCTVVAILLHFTYL 2238 (2531)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhHHHHHHhH-----------HHHHhhhhcccCchhhHHHHHHHHHHHh
Confidence 35677777778877777777777777777766555443321 122444444443 233455667778888
Q ss_pred HHHHHHhhhceeeccccC
Q 000547 1353 INVATAFICGYLHYRDHS 1370 (1432)
Q Consensus 1353 ~n~~~a~~~g~~~~~~~~ 1370 (1432)
.-.+-+|+.|+--|.|-.
T Consensus 2239 stFaWlfl~gLhlYRml~ 2256 (2531)
T KOG4289|consen 2239 STFAWLFLEGLHLYRMLT 2256 (2531)
T ss_pred hhHHHHHHHHHHHHHHHh
Confidence 888888888887777654
No 15
>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=52.62 E-value=7.5 Score=33.90 Aligned_cols=27 Identities=26% Similarity=0.628 Sum_probs=22.0
Q ss_pred CCceEEccCCCCCcccccceeCCCCceecc
Q 000547 789 GNGTVTGKACPRGLYGVFCEECPVGTFKNV 818 (1432)
Q Consensus 789 ~nGTi~g~~CP~G~~G~fC~eCP~GtYKn~ 818 (1432)
.+|.- .|++++.|..|++|+.|+|...
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 34544 4999999999999999999653
No 16
>smart00180 EGF_Lam Laminin-type epidermal growth factor-like domai.
Probab=52.55 E-value=7.7 Score=33.50 Aligned_cols=20 Identities=25% Similarity=0.750 Sum_probs=18.5
Q ss_pred CCCCCcccccceeCCCCcee
Q 000547 797 ACPRGLYGVFCEECPVGTFK 816 (1432)
Q Consensus 797 ~CP~G~~G~fC~eCP~GtYK 816 (1432)
.|++++.|..|++|+.|+|-
T Consensus 21 ~C~~~~~G~~C~~C~~g~~g 40 (46)
T smart00180 21 ECKPNVTGRRCDRCAPGYYG 40 (46)
T ss_pred ECCCCCCCCCCCcCCCCcCC
Confidence 49999999999999999996
No 17
>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=51.86 E-value=65 Score=36.94 Aligned_cols=37 Identities=24% Similarity=0.514 Sum_probs=21.4
Q ss_pred cccCCCCCCCCCCCCCCCCCcEEEEEEceeEEe--ccEEE
Q 000547 210 SYGSKGGTTFKGENFGGDGGGRIRLEVVNEIEV--NGSLL 247 (1432)
Q Consensus 210 ~~GSGGG~~~~~~~~GG~GGG~I~i~a~~~l~l--~G~i~ 247 (1432)
.+|-|| +++.....|.+||=+|+=....+|.| +|.|-
T Consensus 114 ~yGRGG-nGs~~~~~g~~GG~~I~N~iG~rLRI~N~GaIA 152 (260)
T PF05268_consen 114 MYGRGG-NGSGSNSAGAAGGHAIQNDIGGRLRINNNGAIA 152 (260)
T ss_pred EEecCC-CCCCCCCCccccceeeecCCcceEEEecCCEEe
Confidence 344444 33445567778888887655555554 45554
No 18
>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=45.10 E-value=20 Score=37.01 Aligned_cols=20 Identities=35% Similarity=0.884 Sum_probs=8.7
Q ss_pred c-hhHHHHHHHHHHHHHHHHH
Q 000547 881 W-LFGLILLGLLILLALVLSV 900 (1432)
Q Consensus 881 ~-~F~lll~~llilLalvls~ 900 (1432)
| +|+||+++++++|+++..+
T Consensus 2 W~l~~iii~~i~l~~~~~~~~ 22 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCH 22 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHH
Confidence 5 3444444444444444333
No 19
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=44.69 E-value=81 Score=38.23 Aligned_cols=7 Identities=71% Similarity=1.341 Sum_probs=3.4
Q ss_pred CCCCeEE
Q 000547 289 GGGGRVS 295 (1432)
Q Consensus 289 GGGGRI~ 295 (1432)
|||||-.
T Consensus 453 ggggrg~ 459 (465)
T KOG3973|consen 453 GGGGRGG 459 (465)
T ss_pred CCCCCcc
Confidence 3355543
No 20
>PF14946 DUF4501: Domain of unknown function (DUF4501)
Probab=44.43 E-value=80 Score=34.81 Aligned_cols=37 Identities=41% Similarity=0.630 Sum_probs=23.4
Q ss_pred HcCCcchhH-HHHHHHHHHHHHHHHHhhhhccC-CCCCC
Q 000547 876 TFGGPWLFG-LILLGLLILLALVLSVARMKYMG-GDELP 912 (1432)
Q Consensus 876 tfGGp~~F~-lll~~llilLalvls~~R~k~~~-~d~~~ 912 (1432)
.+|||+..+ |||=.|+|-+++++|++-.-|-| +.++|
T Consensus 83 ~~g~P~vAASL~LgTffIS~~LilSvA~FFYLKrs~kLP 121 (180)
T PF14946_consen 83 HTGGPQVAASLFLGTFFISLGLILSVASFFYLKRSSKLP 121 (180)
T ss_pred cCCChhHHHHHHHHHHHHHHHHHHHHhhheeecccccCC
Confidence 489999544 44446667788888887654444 33444
No 21
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=40.09 E-value=46 Score=34.61 Aligned_cols=70 Identities=16% Similarity=0.244 Sum_probs=46.2
Q ss_pred hHhhhcHHHHHHHHHHHHHHHhhhhhhhhhhheeeh--------eecchhHHHHHHHHHHHHHHHHHHHHhhcCccccc
Q 000547 971 VIEIVYEDAFNRFADEINALAAYQWWEGSVYSILSV--------LAYPLAWSWLQLCRKNKLQQLREFVRSEYDHSCLR 1041 (1432)
Q Consensus 971 i~~ivyed~fn~Fad~IN~laay~~We~~i~~iLsv--------l~YPlaw~~~q~rRrkk~~rL~efv~seydh~c~r 1041 (1432)
...=|.++++.+|.++++.-++..-+|.++-...-+ ..|=.++.....+.+||-..+.++|. ..++.++|
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 344567899999999999998887777543332222 22333444666666777778888887 56665555
No 22
>KOG1836 consensus Extracellular matrix glycoprotein Laminin subunits alpha and gamma [Extracellular structures]
Probab=39.98 E-value=19 Score=50.87 Aligned_cols=43 Identities=42% Similarity=0.767 Sum_probs=35.6
Q ss_pred CceEEccCCCCCcccccceeCCCCceecccCC--CCCCcccCCCC
Q 000547 790 NGTVTGKACPRGLYGVFCEECPVGTFKNVSGS--DRALCRNCSSN 832 (1432)
Q Consensus 790 nGTi~g~~CP~G~~G~fC~eCP~GtYKn~~Gs--~~~~C~pC~~~ 832 (1432)
.-++.-|.||+||.|..|++|.-|+|=+..+- +...|++|+-+
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 56677799999999999999999999886543 23579999975
No 23
>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=39.15 E-value=18 Score=42.08 Aligned_cols=35 Identities=26% Similarity=0.607 Sum_probs=26.9
Q ss_pred EccCCCCCccc---------ccceeCCCCceecccCCCCCCcccCCC
Q 000547 794 TGKACPRGLYG---------VFCEECPVGTFKNVSGSDRALCRNCSS 831 (1432)
Q Consensus 794 ~g~~CP~G~~G---------~fC~eCP~GtYKn~~Gs~~~~C~pC~~ 831 (1432)
+=..|+|||+- -=|+-|++|||....+ ..|+.|..
T Consensus 218 ~idsC~PGfG~N~~~h~~C~~CCVvCsPgTysp~~~---~~C~~C~~ 261 (271)
T PF07354_consen 218 RIDSCRPGFGKNDILHSDCPSCCVVCSPGTYSPDDD---VHCQQCNS 261 (271)
T ss_pred EeeccCCCCCcCcccCCCCCCeeEECCCcccCCCCC---ceEEecCc
Confidence 34678888751 3599999999988754 58999985
No 24
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=38.20 E-value=36 Score=35.36 Aligned_cols=25 Identities=16% Similarity=0.331 Sum_probs=19.9
Q ss_pred CcCChhHHHHHHHHHhHhhhheecc
Q 000547 1116 QSVPPTVWYRLVAGVNAQLRLVHCG 1140 (1432)
Q Consensus 1116 q~~~~~~w~rfVa~lN~qlr~V~~g 1140 (1432)
-+|..+.|.||+.+|+...++-...
T Consensus 45 ~DVs~eDW~~F~~dl~~aa~ls~~~ 69 (123)
T PF15496_consen 45 HDVSEEDWTRFLNDLSEAASLSPSQ 69 (123)
T ss_pred cCCCHHHHHHHHHHHHHHHhcCccc
Confidence 3699999999999999985554443
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=37.34 E-value=13 Score=32.03 Aligned_cols=22 Identities=32% Similarity=0.696 Sum_probs=18.1
Q ss_pred CCCCCcccccceeCCCCceecc
Q 000547 797 ACPRGLYGVFCEECPVGTFKNV 818 (1432)
Q Consensus 797 ~CP~G~~G~fC~eCP~GtYKn~ 818 (1432)
.|++++.|..|++|..|+|...
T Consensus 21 ~C~~~~~G~~C~~C~~g~~~~~ 42 (49)
T PF00053_consen 21 VCKPGTTGPRCDQCKPGYFGLP 42 (49)
T ss_dssp SBSTTEESTTS-EE-TTEECST
T ss_pred eccccccCCcCcCCCCcccccc
Confidence 4999999999999999999774
No 26
>KOG1836 consensus Extracellular matrix glycoprotein Laminin subunits alpha and gamma [Extracellular structures]
Probab=36.92 E-value=28 Score=49.40 Aligned_cols=36 Identities=31% Similarity=0.629 Sum_probs=27.1
Q ss_pred cCCCCCcccccceeCCCCceeccc-CCCCCCcccCCC
Q 000547 796 KACPRGLYGVFCEECPVGTFKNVS-GSDRALCRNCSS 831 (1432)
Q Consensus 796 ~~CP~G~~G~fC~eCP~GtYKn~~-Gs~~~~C~pC~~ 831 (1432)
=.||+||.|-||+.|+.|+.+-.. +.....|.||+-
T Consensus 697 c~C~~g~tG~~Ce~C~~gfrr~~~~~~~~~~c~~C~c 733 (1705)
T KOG1836|consen 697 CTCPVGYTGQFCESCAPGFRRLSPQLGPFCPCIPCDC 733 (1705)
T ss_pred ccCCCCcccchhhhcchhhhcccccCCCCCccccccc
Confidence 579999999999999999976643 333345667764
No 27
>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=34.68 E-value=60 Score=32.79 Aligned_cols=56 Identities=16% Similarity=0.246 Sum_probs=40.3
Q ss_pred ccCcCChhHHHHHHHHHhHhhhhe-eccc------------------------cchhhhhHHHHHhhccCccccccCeEE
Q 000547 1114 MSQSVPPTVWYRLVAGVNAQLRLV-HCGH------------------------LKTTFGHLISWLDTHANPSLCQYGIRV 1168 (1432)
Q Consensus 1114 ~~q~~~~~~w~rfVa~lN~qlr~V-~~g~------------------------lr~tl~~v~~~le~h~n~~l~~~Gvrv 1168 (1432)
+...++++.|+++|..+|..|+.- ..-. -++.+..+-+||++.|++.++.+|+++
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 355689999999999999988766 3321 122334466788888777999999865
Q ss_pred E
Q 000547 1169 D 1169 (1432)
Q Consensus 1169 ~ 1169 (1432)
-
T Consensus 106 i 106 (118)
T PF10256_consen 106 I 106 (118)
T ss_pred E
Confidence 3
No 28
>PRK09677 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional
Probab=34.29 E-value=96 Score=33.91 Aligned_cols=61 Identities=15% Similarity=0.245 Sum_probs=40.1
Q ss_pred ceEEEccceeEEcCCceeeecccCcEEEEEeeeeEEeCCCceEEeceEEEEEeeEEEcCCcEEE
Q 000547 87 DIYVEGSGNLHILPGVTLCCPIKGCLLTINVTGEFLLGRNSEIVAGTVYVSALNASFSSGSVVN 150 (1432)
Q Consensus 87 Dv~i~G~g~L~I~~gv~l~c~~~G~~I~v~~sGn~~lg~ns~ivagsi~L~A~nvti~~~g~I~ 150 (1432)
..++++.+++++-.+|.+ ..+|.+.+...+.+.+++++.|-.........+++|.++..|.
T Consensus 35 pf~~~~~~~I~iG~~v~i---~~~~ri~~~~~~~i~IG~~v~Ig~~v~I~~~~~v~IG~~v~Ig 95 (192)
T PRK09677 35 PFYIRNDGSINFGEGFTS---GVGLRLDAFGRGKLFFGDNVQVNDYVHIACIESITIGRDTLIA 95 (192)
T ss_pred CEEEcCCCeEEECCceEE---CCCeEEEecCCCeEEECCCCEECCCcEEccCceEEECCCCEEC
Confidence 346666677777777766 5677777766778888888777655443334556665555553
No 29
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=33.63 E-value=25 Score=43.43 Aligned_cols=26 Identities=31% Similarity=0.528 Sum_probs=14.2
Q ss_pred CCCCccccccccCCCcceeeEEEEec
Q 000547 341 NLPTNTDTLLLEFPKQQLWTNVYIRD 366 (1432)
Q Consensus 341 n~~t~t~Tlll~fp~~~lw~nv~v~~ 366 (1432)
+.++..|-=+.|||--.=|-|.++..
T Consensus 445 ~vp~~~dgDy~EfpvPEQfkt~~~~~ 470 (480)
T KOG2675|consen 445 NVPTNEDGDYVEFPVPEQFKTKFNGG 470 (480)
T ss_pred ecccCCCCCcccccChHHHhhhccCc
Confidence 34444555667776655555554443
No 30
>KOG4611 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.35 E-value=36 Score=40.98 Aligned_cols=48 Identities=42% Similarity=0.980 Sum_probs=0.0
Q ss_pred ceeCCCCceecccCCCCCCcccCCCCCCCCCcceecccCcccCCCCCcc---------------------ccCCCccC--
Q 000547 807 CEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGGVTECPCPYK---------------------CVSERYHM-- 863 (1432)
Q Consensus 807 C~eCP~GtYKn~~Gs~~~~C~pC~~~~lp~ra~yiy~~gG~~~~~CpY~---------------------C~sdk~~~-- 863 (1432)
|+|||.||... .+.--|..|-+. ...||-+ |-+++|++
T Consensus 52 ceecpegtlss---pdqtgclncnng----------------tchcpsqstlifrdasgnlltndafcgncasgfyrndn 112 (747)
T KOG4611|consen 52 CEECPEGTLSS---PDQTGCLNCNNG----------------TCHCPSQSTLIFRDASGNLLTNDAFCGNCASGFYRNDN 112 (747)
T ss_pred cccCCCcccCC---CccCCceecCCC----------------ccCCCCcceEEEEcCCCCeeccccccccccccceECCC
Q ss_pred ---CcccchHHHH
Q 000547 864 ---PHCYTTLEEL 873 (1432)
Q Consensus 864 ---p~C~T~leel 873 (1432)
..|-|...|.
T Consensus 113 gyctkcetscsem 125 (747)
T KOG4611|consen 113 GYCTKCETSCSEM 125 (747)
T ss_pred cccccccccHhhh
No 31
>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=30.47 E-value=38 Score=29.11 Aligned_cols=22 Identities=41% Similarity=0.995 Sum_probs=13.5
Q ss_pred cCCCCCc--ccccce-eCCCCceec
Q 000547 796 KACPRGL--YGVFCE-ECPVGTFKN 817 (1432)
Q Consensus 796 ~~CP~G~--~G~fC~-eCP~GtYKn 817 (1432)
..|+.|+ .+..|+ +||.++|.+
T Consensus 18 ~~C~~~~~~~~~~Cv~~C~~~~~~~ 42 (49)
T cd00064 18 TSCRHGFYLDGGTCVSECPEGTYAD 42 (49)
T ss_pred ccCcCccCCCCCcccccCCCCceec
Confidence 4566666 345566 666666665
No 32
>KOG4258 consensus Insulin/growth factor receptor (contains protein kinase domain) [Signal transduction mechanisms]
Probab=29.07 E-value=35 Score=45.10 Aligned_cols=46 Identities=26% Similarity=0.608 Sum_probs=30.7
Q ss_pred ccce-eCCCCceecccCCCCCCcccCCCCCCCCCcceecccCcccCCCCCccccCCCccCCcccchHHHH
Q 000547 805 VFCE-ECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVSERYHMPHCYTTLEEL 873 (1432)
Q Consensus 805 ~fC~-eCP~GtYKn~~Gs~~~~C~pC~~~~lp~ra~yiy~~gG~~~~~CpY~C~sdk~~~p~C~T~leel 873 (1432)
..|. +||.|+-.|. +..+|++|.. .||-.|.++ .+.-+=.+..|+|
T Consensus 304 ~~Cv~~CPsGy~~N~---~~~~C~~C~g-------------------~C~~vC~~~-~~tIds~~~Aq~L 350 (1025)
T KOG4258|consen 304 GQCVAKCPSGYKRNS---SSSECVKCEG-------------------PCPKVCEPG-TKTIDSVADAQNL 350 (1025)
T ss_pred ccchhhCCCcceecC---cccceeccCC-------------------CCcceeccC-ceEecchhhhHHh
Confidence 3566 8999986664 3589999962 799999863 3222334555654
No 33
>KOG4180 consensus Predicted kinase [General function prediction only]
Probab=28.99 E-value=99 Score=37.43 Aligned_cols=28 Identities=32% Similarity=0.547 Sum_probs=19.6
Q ss_pred CCCCCcccccCCcEEEEEecccccccCcc
Q 000547 1075 RADLPPRLNQRLPMSLCFGGDGSYMSPFS 1103 (1432)
Q Consensus 1075 r~dl~~~i~q~~Pm~Ilf~GdGSym~Pf~ 1103 (1432)
|.+|... ..--.|+|-.||||+|+--=+
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 3444333 344579999999999997766
No 34
>PF02166 Androgen_recep: Androgen receptor; InterPro: IPR001103 Steroid or nuclear hormone receptors (NRs) constitute an important super-family of transcription regulators that are involved in diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. Members include the steroid hormone receptors and receptors for thyroid hormone, retinoids and 1,25-dihydroxy-vitamin D3. The proteins function as dimeric molecules in the nucleus to regulate the transcription of target genes in a ligand-responsive manner [, ]. NRs are extremely important in medical research, a large number of them being implicated in diseases such as cancer, diabetes and hormone resistance syndromes. Many do not yet have a defined ligand and are accordingly termed "orphan" receptors. More than 300 NRs have been described to date and a new system has recently been introduced in an attempt to rationalise the increasingly complex set of names used to describe superfamily members. The androgen receptor (AR) consists of 3 functional and structural domains: an N-terminal (modulatory) domain; a DNA binding domain (IPR001628 from INTERPRO) that mediates specific binding to target DNA sequences (ligand-responsive elements); and a hormone binding domain. The N-terminal domain (NTD) is unique to the androgen receptors and spans approximately the first 530 residues; the highly-conserved DNA-binding domain is smaller (around 65 residues) and occupies the central portion of the protein; and the hormone ligand binding domain (LBD) lies at the receptor C terminus. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components; hormone binding greatly increases receptor affinity. The LBDs of steroid hormone receptors fold into 12 helices that form a ligand-binding pocket. When an agonist is bound, helix 12 folds over the pocket to enclose the ligand []. When an antagonist is unbound, helix 12 is positioned away from the pocket in a way that interferes with the binding of coactivators to a groove in the hormone-binding domain formed after ligand binding. In AR, ligand binding that induces folding of helix 12 to overlie the pocket discloses a groove that binds a region of the NTD. Coactivator molecules can also bind to this groove, but the predominant site for coactivator binding to AR is in the NTD. AR ligand resides in a pocket and primarily contacts helices 4, 5, and 10. The DNA-binding region includes eight cysteine residues that form two coordination complexes, each composed of four cysteines and a Zn2+ ion. These two zinc fingers form the structure that binds to the major groove of DNA. The second zinc finger stabilises the binding complex by hydrophobic interactions with the first finger and contributes to specificity of receptor DNA binding. It is also necessary for receptor dimerisation that occurs during DNA binding Defects in the androgen receptor cause testicular feminisation syndrome, androgen insensibility syndrome (AIS) [, ]. AIS may be complete (CAIS), where external genitalia are phenotypically female; partial (PAIS), where genitalia are substantively ambiguous; or mild (MAIS), where external genitalia are normal male, or nearly so. Defects in the receptor also cause X-linked spinal and bulbar muscular atrophy (also known as Kennedy's disease).; GO: 0003677 DNA binding, 0004882 androgen receptor activity, 0005496 steroid binding, 0006355 regulation of transcription, DNA-dependent, 0030521 androgen receptor signaling pathway, 0005634 nucleus; PDB: 1XOW_B 2Q7K_B 2Q7I_B.
Probab=27.47 E-value=20 Score=42.80 Aligned_cols=26 Identities=50% Similarity=0.989 Sum_probs=0.0
Q ss_pred cccccCcceeeeCCCCCcccCCCCCCCCCCCCCCCCC
Q 000547 21 SLDQYNFPVIGFGADSLFHGDYTPPSPPPPIAPPHPP 57 (1432)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~ 57 (1432)
+-|-||||.- ..-|+|||||+|||+.
T Consensus 335 sRDyYnF~la-----------Lag~~~p~~~~hph~R 360 (423)
T PF02166_consen 335 SRDYYNFPLA-----------LAGPPPPPPPPHPHAR 360 (423)
T ss_dssp -------------------------------------
T ss_pred cccccccccc-----------cccccccccccccccc
Confidence 4567787752 2335556666777655
No 35
>PF05281 Secretogranin_V: Neuroendocrine protein 7B2 precursor (Secretogranin V); InterPro: IPR007945 Mature peptide hormones and neuropeptides are typically synthesised from much larger precursors and require several post-translational processing steps--including proteolytic cleavage--for the formation of the bioactive species. The subtilisin-related proteolytic enzymes that accomplish neuroendocrine-specific cleavages are known as prohormone convertases 1 and 2 (PC1 and PC2), which belong to MEROPS peptidase family S8B. The cell biology of these proteases within the regulated secretory pathway of neuroendocrine cells is complex, and they are themselves initially synthesised as inactive precursor molecules. ProPC1 propeptide cleavage occurs rapidly in the endoplasmic reticulum, yet its major site of action on prohormones takes place later in the secretory pathway. PC1 undergoes an interesting carboxyl terminal processing event whose function appears to be to activate the enzyme. ProPC2, on the other hand, exhibits comparatively long initial folding times and exits the endoplasmic reticulum without propeptide cleavage, in association with the neuroendocrine-specific protein 7B2. Once the proPC2/7B2 complex arrives at the trans-Golgi network, 7B2 is internally cleaved into two domains, the 21kDa fragment and a carboxy-terminal 31 residue peptide. PC2 propeptide removal occurs in the maturing secretory granule, most likely through autocatalysis, and 7B2 association does not appear to be directly required for this cleavage event. However, if proPC2 has not encountered 7B2 intracellularly, it cannot generate a catalytically active mature species. The molecular mechanism behind the intriguing intracellular association of 7B2 and proPC2 is still unknown, but may involve conformational rearrangement or stabilisation of a proPC2 conformer mediated by a 36-residue internal segment of 21kDa 7B2. This family represents, 7B2 (secretogranin V), which is the molecular escort protein for PC2. 7B2 is a bifunctional protein with an N-terminal activation domain and a C-terminal inhibitory domain (MEROPS inhibitor family I21, clan I-) separated by a furin cleavage site []. Although 7B2 represents a potent inhibitor of PC2, there is an absolute requirement of 7B2 for the activation of PC2, which is synthesised as a zymogen. Both the full length, 27 kDa, and the C-terminal peptide (CT domain) derived from intramolecular cleavage of 7B2 are potent inhibitors of PC2. Studies have shown that the active peptide in the CT domain to be LLRVHK, active in the nanomolar range not only against PC2 but also PC1 [, ]. Knock-out studies have shown that the PC2 nulls are not phenotypically equivalent to the 7B2 nulls, which suggests that 7B2 may have other activities in addition to being the activator of PC2 []. 7B2 exhibits both structural and functional homology to proSAAS (IPR010832 from INTERPRO), which is the PC1 binding protein. The CT domain of proSAAS contains the same inhibitor hexapeptide as 7B2, consequently both 7B2 and proSAAS are two members of a homologous family of prohormone convertase inhibitor proteins. ; GO: 0007218 neuropeptide signaling pathway, 0030141 stored secretory granule
Probab=26.55 E-value=96 Score=35.29 Aligned_cols=91 Identities=25% Similarity=0.454 Sum_probs=53.4
Q ss_pred CCcccccceeceEEEcCCCCCCCCCcccCCceEEccCCCCCc--ccccce---eCCCCceecccCCCCCCcccCCCCCCC
Q 000547 761 GDEYLPLASVNGSIDARGGLGRGQGLAGGNGTVTGKACPRGL--YGVFCE---ECPVGTFKNVSGSDRALCRNCSSNELP 835 (1432)
Q Consensus 761 Gd~y~pia~~~G~I~~~GG~~~~~g~~G~nGTi~g~~CP~G~--~G~fC~---eCP~GtYKn~~Gs~~~~C~pC~~~~lp 835 (1432)
-+||.+-.+.=|.-.++||++.+....+..|.|-...=-+-- -=-+|. +||+|+- ... .|. .+++
T Consensus 49 d~E~l~hssLwG~q~isGGagEG~q~L~~~~~i~n~~~~ktd~~lPaYCnPPNPCPvGyt-~~d-----gCl----e~fE 118 (208)
T PF05281_consen 49 DQEYLQHSSLWGHQYISGGAGEGPQHLGPEGNIPNIKIVKTDNNLPAYCNPPNPCPVGYT-AED-----GCL----ENFE 118 (208)
T ss_pred ccccccccccCCceeeeCCCCccchhcCccCCcCcccccccccCCCCCCCCCCCCCCCcc-ccc-----Ccc----cCCc
Confidence 357776667788888999999776666666665332110000 015687 8999985 222 254 3466
Q ss_pred CCcceecccCcccCCCCCccccCCCccCCccc
Q 000547 836 HRALYIPIRGGVTECPCPYKCVSERYHMPHCY 867 (1432)
Q Consensus 836 ~ra~yiy~~gG~~~~~CpY~C~sdk~~~p~C~ 867 (1432)
.-|.|--.- .....|. | |-.||-.|-
T Consensus 119 nTAeFSRey--Qa~QdC~--C--D~EHMf~C~ 144 (208)
T PF05281_consen 119 NTAEFSREY--QAAQDCM--C--DTEHMFDCP 144 (208)
T ss_pred cHHHhhHHH--HhcCccC--C--CcccccCCc
Confidence 666554322 2233443 4 678998887
No 36
>KOG4260 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.28 E-value=73 Score=37.59 Aligned_cols=50 Identities=36% Similarity=0.869 Sum_probs=0.0
Q ss_pred CCCCcccccceeCCCCceecccCCCCCCcccCCCCCCCCCcceecccCcccCCCCCccccCCCccCCcc
Q 000547 798 CPRGLYGVFCEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVSERYHMPHC 866 (1432)
Q Consensus 798 CP~G~~G~fC~eCP~GtYKn~~Gs~~~~C~pC~~~~lp~ra~yiy~~gG~~~~~CpY~C~sdk~~~p~C 866 (1432)
||+|.||.-|.+||-|+=+.-.|. ..|+ .+ ..|+|...-.|. --|.-|+|
T Consensus 132 Cp~gtyGpdCl~Cpggser~C~Gn--G~C~---Gd---------GsR~GsGkCkC~-----~GY~Gp~C 181 (350)
T KOG4260|consen 132 CPDGTYGPDCLQCPGGSERPCFGN--GSCH---GD---------GSREGSGKCKCE-----TGYTGPLC 181 (350)
T ss_pred cCCCCcCCccccCCCCCcCCcCCC--Cccc---CC---------CCCCCCCccccc-----CCCCCccc
No 37
>COG4907 Predicted membrane protein [Function unknown]
Probab=24.67 E-value=50 Score=41.15 Aligned_cols=27 Identities=44% Similarity=0.779 Sum_probs=0.0
Q ss_pred CCCCCCCCcccCCccEEEEEeeeccCeEEEEecCCCCCCCCCCe
Q 000547 250 GGDVGVKGGGGSGGSIYVKAHRMTGNGKISASGGNGFAGGGGGR 293 (1432)
Q Consensus 250 Gg~g~~~gGGGSGGSI~L~a~~l~g~G~isA~GG~GgGGGGGGR 293 (1432)
+..-++.+|||-|++ ||+-||||||+|
T Consensus 569 ~S~~~~~~GGG~G~~-----------------gGg~GGGGGGar 595 (595)
T COG4907 569 SSRRSSSSGGGGGFS-----------------GGGSGGGGGGAR 595 (595)
T ss_pred ccccCCCCCCCCCcC-----------------CCCCCCCCCCCC
No 38
>cd04299 GT1_Glycogen_Phosphorylase_like This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important allosteric enzymes in carbohydrate metabolism. The members of this family are found in bacteria and Archaea.
Probab=23.53 E-value=51 Score=43.67 Aligned_cols=77 Identities=25% Similarity=0.312 Sum_probs=44.4
Q ss_pred HHHHHHHH-HHHHHHHhhcCccccccchhhhhhcceEEeecCC-ceEEEEEEecCCCCcCCCCCccccc---------CC
Q 000547 1018 LCRKNKLQ-QLREFVRSEYDHSCLRSCRSRALYEGLKVAATAD-LMLAYIDFFLGGDEKRADLPPRLNQ---------RL 1086 (1432)
Q Consensus 1018 ~rRrkk~~-rL~efv~seydh~c~rs~rsRaly~~lKvs~S~D-ysLaYiD~f~~~d~kr~dl~~~i~q---------~~ 1086 (1432)
|..|++.| +|+++|+......+.|.-.+.+.-.....-..|| ++++++==|- .|||.+|-.+... .-
T Consensus 435 w~~K~~~K~~L~~~v~~~~~~~~~~~g~~~~~~~~~~~~ldpd~ltigfarRfa--~YKR~~Lil~dl~rl~~il~~~~~ 512 (778)
T cd04299 435 WEVRQQLRRRLIEFVRRRLRRQWLRRGASAEEIGEADDVLDPNVLTIGFARRFA--TYKRATLLLRDPERLKRLLNDPER 512 (778)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhcCCchhhhhhcCCccCCCccEEeeeecch--hhhhHHHHHHHHHHHHHHhhCCCC
Confidence 44444444 5888888655544444222221111222234566 6677766664 6899998443221 25
Q ss_pred cEEEEEeccc
Q 000547 1087 PMSLCFGGDG 1096 (1432)
Q Consensus 1087 Pm~Ilf~GdG 1096 (1432)
|+-+||+|.+
T Consensus 513 pvQ~IfaGKA 522 (778)
T cd04299 513 PVQFIFAGKA 522 (778)
T ss_pred CeEEEEEEec
Confidence 9999999998
No 39
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=23.41 E-value=79 Score=43.22 Aligned_cols=65 Identities=25% Similarity=0.628 Sum_probs=41.5
Q ss_pred CCCCCcccccceeCCCCceecccCCCCCCcccCCCCCCCCCcceeccc-------CcccCCCCCccccCCCccCCcc
Q 000547 797 ACPRGLYGVFCEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIR-------GGVTECPCPYKCVSERYHMPHC 866 (1432)
Q Consensus 797 ~CP~G~~G~fC~eCP~GtYKn~~Gs~~~~C~pC~~~~lp~ra~yiy~~-------gG~~~~~CpY~C~sdk~~~p~C 866 (1432)
.|-|+--|-.|.+|-+|||- +| .+=|++|.-+..-+-.+|-... .|..-..|. +|.+++..-|-|
T Consensus 785 qCkPnVVGR~CdqCApGtyG--FG--PsGCk~CdC~~~Gs~~~~Cd~~tGQC~C~~g~ygrqCn-qCqpG~WgFPeC 856 (1758)
T KOG0994|consen 785 QCKPNVVGRRCDQCAPGTYG--FG--PSGCKACDCNSIGSLDKYCDKITGQCQCRPGTYGRQCN-QCQPGYWGFPEC 856 (1758)
T ss_pred cccCccccccccccCCcccC--cC--CccCccccccccccccccccccccceeeccccchhhcc-ccCCCccCCCcC
Confidence 67777889999999999993 33 4779999876665555554422 234444554 555554444433
No 40
>PF15195 TMEM210: TMEM210 family
Probab=23.13 E-value=51 Score=33.49 Aligned_cols=10 Identities=50% Similarity=1.321 Sum_probs=4.2
Q ss_pred CCCCCCCCCC
Q 000547 41 DYTPPSPPPP 50 (1432)
Q Consensus 41 ~~~~~~~~p~ 50 (1432)
+-+|++||||
T Consensus 101 ~~~p~~pppp 110 (116)
T PF15195_consen 101 EASPEEPPPP 110 (116)
T ss_pred CCCCCCCCcC
Confidence 3444444333
No 41
>PF04519 Bactofilin: Polymer-forming cytoskeletal; InterPro: IPR007607 This family contains several uncharacterised hypothetical proteins.
Probab=22.97 E-value=3.1e+02 Score=26.87 Aligned_cols=57 Identities=18% Similarity=0.424 Sum_probs=0.0
Q ss_pred ccCeEEEeeceeeccCceEEEccceeEEcCCceeeecccCcEEEEEeeeeEEeCCCceEEeceEEEEEeeEEEcCCcEEE
Q 000547 71 LETVCLLNSSLTFENDDIYVEGSGNLHILPGVTLCCPIKGCLLTINVTGEFLLGRNSEIVAGTVYVSALNASFSSGSVVN 150 (1432)
Q Consensus 71 ~~t~C~l~~s~~~~~qDv~i~G~g~L~I~~gv~l~c~~~G~~I~v~~sGn~~lg~ns~ivagsi~L~A~nvti~~~g~I~ 150 (1432)
+...|.+.-++.+.. ++.|.|. +.| .+...+.+.|..++.+.+. +.|.+++| .|.++
T Consensus 5 I~~~~~i~G~i~~~~-~v~i~G~--------------v~G---~i~~~g~v~i~~~~~v~G~---i~~~~~~i--~G~v~ 61 (101)
T PF04519_consen 5 IGKGTKIEGDISSDG-DVRIDGR--------------VEG---NIKAEGKVKIGGNGEVKGD---IKADDVII--SGSVD 61 (101)
T ss_pred ECCCCEEEEEEEECc-EEEEEEE--------------EEE---EEEEceEEEEcCCCEEEEE---EEEeEEEE--cCEEe
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=22.44 E-value=39 Score=28.04 Aligned_cols=19 Identities=37% Similarity=0.947 Sum_probs=13.9
Q ss_pred CCCCceecccCCCCCCcccCC
Q 000547 810 CPVGTFKNVSGSDRALCRNCS 830 (1432)
Q Consensus 810 CP~GtYKn~~Gs~~~~C~pC~ 830 (1432)
||.|+|.+..+. ..|.||.
T Consensus 1 C~~g~y~~~~~~--~~C~~C~ 19 (39)
T PF00020_consen 1 CPPGTYSDSENH--PQCLPCS 19 (39)
T ss_dssp ECTTEEEESSCS--SSEEEEE
T ss_pred CccCcccCCCCC--CcCCccC
Confidence 899999997543 6776554
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=21.80 E-value=28 Score=23.61 Aligned_cols=11 Identities=45% Similarity=1.066 Sum_probs=8.3
Q ss_pred CCCCCcccccc
Q 000547 797 ACPRGLYGVFC 807 (1432)
Q Consensus 797 ~CP~G~~G~fC 807 (1432)
.||+||.|..|
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 48999998877
No 44
>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=21.58 E-value=1.6e+02 Score=33.94 Aligned_cols=21 Identities=29% Similarity=0.703 Sum_probs=11.0
Q ss_pred EEEecCCCC-CCCCcccCCccE
Q 000547 245 SLLADGGDV-GVKGGGGSGGSI 265 (1432)
Q Consensus 245 ~i~AnGg~g-~~~gGGGSGGSI 265 (1432)
.+.-.|+++ ....-|..||..
T Consensus 113 t~yGRGGnGs~~~~~g~~GG~~ 134 (260)
T PF05268_consen 113 TMYGRGGNGSGSNSAGAAGGHA 134 (260)
T ss_pred EEEecCCCCCCCCCCcccccee
Confidence 344446665 344556666663
No 45
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=21.56 E-value=5.1e+02 Score=29.08 Aligned_cols=35 Identities=14% Similarity=0.013 Sum_probs=19.9
Q ss_pred ccCcEEEEEeeeeEEeCCCc---eEEeceEEEEEeeEEEc
Q 000547 108 IKGCLLTINVTGEFLLGRNS---EIVAGTVYVSALNASFS 144 (1432)
Q Consensus 108 ~~G~~I~v~~sGn~~lg~ns---~ivagsi~L~A~nvti~ 144 (1432)
.+|+.|.| .|.+....-. -...-.+.|.|.+|.+.
T Consensus 71 kKGs~V~V--eGrL~~~~yeDkdG~kr~~~eVvA~~V~fL 108 (182)
T PRK06958 71 KKGSSVYI--EGRIRTRKWQGQDGQDRYSTEIVADQMQML 108 (182)
T ss_pred CCCCEEEE--EEEEEeCceECCCCcEEEEEEEEEeEEEEC
Confidence 55655443 4666665322 12334677788888774
Done!