Query psy3964
Match_columns 65
No_of_seqs 118 out of 1071
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 21:49:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3964.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3964hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00203 cathepsin L protease; 99.9 3.1E-24 6.7E-29 152.3 7.8 60 6-65 281-340 (348)
2 cd02698 Peptidase_C1A_Cathepsi 99.9 3.8E-24 8.2E-29 143.8 7.7 58 7-64 174-237 (239)
3 cd02620 Peptidase_C1A_Cathepsi 99.9 9.2E-24 2E-28 141.7 7.1 56 7-62 180-235 (236)
4 KOG1542|consensus 99.9 3.2E-24 6.9E-29 153.1 4.9 59 6-64 311-370 (372)
5 cd02621 Peptidase_C1A_Cathepsi 99.9 1.2E-23 2.5E-28 141.2 6.9 54 10-63 185-240 (243)
6 PF00112 Peptidase_C1: Papain 99.9 3.8E-23 8.2E-28 133.3 6.7 59 6-64 160-219 (219)
7 cd02248 Peptidase_C1A Peptidas 99.9 3.8E-23 8.2E-28 134.0 6.6 56 8-63 155-210 (210)
8 PTZ00200 cysteine proteinase; 99.9 1.2E-22 2.7E-27 148.2 6.9 58 8-65 383-445 (448)
9 PTZ00021 falcipain-2; Provisio 99.9 2.6E-22 5.6E-27 147.9 7.1 59 7-65 416-488 (489)
10 KOG1543|consensus 99.9 2.9E-22 6.3E-27 141.0 6.2 59 6-64 263-323 (325)
11 smart00645 Pept_C1 Papain fami 99.9 1.4E-21 3E-26 126.4 7.0 55 6-60 114-170 (174)
12 PTZ00364 dipeptidyl-peptidase 99.8 3.3E-21 7.1E-26 143.6 7.3 55 9-63 400-457 (548)
13 PTZ00049 cathepsin C-like prot 99.8 3.8E-21 8.3E-26 145.9 6.9 55 10-64 617-675 (693)
14 PTZ00462 Serine-repeat antigen 99.8 6.5E-20 1.4E-24 143.0 6.8 59 6-64 716-780 (1004)
15 cd02619 Peptidase_C1 C1 Peptid 99.7 1.3E-17 2.7E-22 107.6 5.8 47 5-51 165-213 (223)
16 KOG1544|consensus 99.6 3.4E-15 7.3E-20 107.6 4.6 55 6-60 396-455 (470)
17 cd00585 Peptidase_C1B Peptidas 99.5 1.4E-14 3E-19 105.9 4.6 43 7-49 354-398 (437)
18 COG4870 Cysteine protease [Pos 99.3 3E-12 6.5E-17 92.2 4.9 42 9-50 262-313 (372)
19 PF03051 Peptidase_C1_2: Pepti 99.1 1.2E-10 2.6E-15 85.4 4.9 41 9-49 357-399 (438)
20 COG3579 PepC Aminopeptidase C 98.3 1.2E-07 2.5E-12 69.1 0.3 40 10-49 360-401 (444)
21 KOG4128|consensus 95.2 0.0011 2.4E-08 48.7 -3.5 39 11-49 371-413 (457)
22 PF05543 Peptidase_C47: Stapho 88.6 1.1 2.4E-05 29.9 4.3 39 7-50 115-154 (175)
23 PF13529 Peptidase_C39_2: Pept 86.7 0.79 1.7E-05 26.8 2.6 24 9-35 121-144 (144)
24 cd00044 CysPc Calpains, domain 51.6 24 0.00052 24.5 3.5 28 10-37 234-263 (315)
25 cd03581 NTR_Sfrp3_like NTR dom 46.3 18 0.0004 21.9 2.0 38 3-40 55-92 (111)
26 COG4990 Uncharacterized protei 45.2 16 0.00035 24.8 1.7 22 11-36 147-168 (195)
27 PF14399 Transpep_BrtH: NlpC/p 40.4 36 0.00078 23.0 2.9 23 10-33 111-133 (317)
28 PF09778 Guanylate_cyc_2: Guan 38.6 52 0.0011 22.5 3.4 24 8-33 157-180 (212)
29 PF00648 Peptidase_C2: Calpain 34.9 52 0.0011 22.4 3.0 28 10-37 212-243 (298)
30 cd02549 Peptidase_C39A A sub-f 30.3 53 0.0011 19.2 2.2 12 10-21 92-103 (141)
31 PF08151 FerI: FerI (NUC094) d 29.0 1.2E+02 0.0025 17.3 4.1 21 29-49 18-39 (72)
32 PF01640 Peptidase_C10: Peptid 25.8 1.8E+02 0.0038 18.9 4.2 30 12-46 163-192 (192)
33 PHA02885 putative interleukin 24.4 1.2E+02 0.0026 19.1 3.0 15 21-35 57-71 (135)
34 smart00230 CysPc Calpain-like 21.9 1.3E+02 0.0029 21.1 3.2 28 10-37 226-255 (318)
No 1
>PTZ00203 cathepsin L protease; Provisional
Probab=99.91 E-value=3.1e-24 Score=152.32 Aligned_cols=60 Identities=38% Similarity=0.774 Sum_probs=53.8
Q ss_pred CCCCCCCeEEEEEEEeccCCeeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEEEEC
Q psy3964 6 NSPDGLDHAVLAVGYGELDGKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTYVTM 65 (65)
Q Consensus 6 ~~~~~~~Hav~ivG~g~~~~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~p~v 65 (65)
|+...+||||+|||||.+++.+|||||||||++||++|||||.|+.|.|+|+.++....|
T Consensus 281 c~~~~~nHaVliVGYG~~~g~~YWiikNSWG~~WGe~GY~ri~rg~n~Cgi~~~~~~~~~ 340 (348)
T PTZ00203 281 CIGEQLNHGVLLVGYNMTGEVPYWVIKNSWGEDWGEKGYVRVTMGVNACLLTGYPVSVHV 340 (348)
T ss_pred cCCCCCCeEEEEEEEecCCCceEEEEEcCCCCCcCcCceEEEEcCCCcccccceEEEEec
Confidence 445568999999999998899999999999999999999999999999999988776543
No 2
>cd02698 Peptidase_C1A_CathepsinX Cathepsin X; the only papain-like lysosomal cysteine peptidase exhibiting carboxymonopeptidase activity. It can also act as a carboxydipeptidase, like cathepsin B, but has been shown to preferentially cleave substrates through a monopeptidyl carboxypeptidase pathway. The propeptide region of cathepsin X, the shortest among papain-like peptidases, is covalently attached to the active site cysteine in the inactive form of the enzyme. Little is known about the biological function of cathepsin X. Some studies point to a role in early tumorigenesis. A more recent study indicates that cathepsin X expression is restricted to immune cells suggesting a role in phagocytosis and the regulation of the immune response.
Probab=99.91 E-value=3.8e-24 Score=143.83 Aligned_cols=58 Identities=24% Similarity=0.604 Sum_probs=53.6
Q ss_pred CCCCCCeEEEEEEEeccC-CeeEEEEEcCCCCCCCCCeEEEEeccC-----CeeeeccccEEEE
Q psy3964 7 SPDGLDHAVLAVGYGELD-GKPYWQVKNSWSTYWGNQGYVLMSIKD-----NNCGVMTAPTYVT 64 (65)
Q Consensus 7 ~~~~~~Hav~ivG~g~~~-~~~yW~i~NSwg~~WG~~Gy~~i~~~~-----~~cgi~~~~~~p~ 64 (65)
+...++|||+|||||.++ +.+|||||||||++||++|||||.|+. |+|+|++.++|+.
T Consensus 174 ~~~~~~HaV~IVGyG~~~~g~~YWiikNSWG~~WGe~Gy~~i~rg~~~~~~~~~~i~~~~~~~~ 237 (239)
T cd02698 174 QDPLINHIISVAGWGVDENGVEYWIVRNSWGEPWGERGWFRIVTSSYKGARYNLAIEEDCAWAD 237 (239)
T ss_pred CCCcCCeEEEEEEEEecCCCCEEEEEEcCCCcccCcCceEEEEccCCcccccccccccceEEEe
Confidence 345689999999999876 899999999999999999999999998 9999999999985
No 3
>cd02620 Peptidase_C1A_CathepsinB Cathepsin B group; composed of cathepsin B and similar proteins, including tubulointerstitial nephritis antigen (TIN-Ag). Cathepsin B is a lysosomal papain-like cysteine peptidase which is expressed in all tissues and functions primarily as an exopeptidase through its carboxydipeptidyl activity. Together with other cathepsins, it is involved in the degradation of proteins, proenzyme activation, Ag processing, metabolism and apoptosis. Cathepsin B has been implicated in a number of human diseases such as cancer, rheumatoid arthritis, osteoporosis and Alzheimer's disease. The unique carboxydipeptidyl activity of cathepsin B is attributed to the presence of an occluding loop in its active site which favors the binding of the C-termini of substrate proteins. Some members of this group do not possess the occluding loop. TIN-Ag is an extracellular matrix basement protein which was originally identified as a target Ag involved in anti-tubular basement membrane
Probab=99.90 E-value=9.2e-24 Score=141.74 Aligned_cols=56 Identities=36% Similarity=0.745 Sum_probs=50.9
Q ss_pred CCCCCCeEEEEEEEeccCCeeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEE
Q psy3964 7 SPDGLDHAVLAVGYGELDGKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTY 62 (65)
Q Consensus 7 ~~~~~~Hav~ivG~g~~~~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~ 62 (65)
+....+|||+|||||.+++++|||||||||++||++|||||+|+.|.|+|++.+..
T Consensus 180 ~~~~~~HaV~iVGyg~~~g~~YWivrNSWG~~WGe~Gy~ri~~~~~~cgi~~~~~~ 235 (236)
T cd02620 180 GKQLGGHAVKIIGWGVENGVPYWLAANSWGTDWGENGYFRILRGSNECGIESEVVA 235 (236)
T ss_pred CCCcCCeEEEEEEEeccCCeeEEEEEeCCCCCCCCCcEEEEEccCcccccccceec
Confidence 34457899999999988899999999999999999999999999999999988763
No 4
>KOG1542|consensus
Probab=99.90 E-value=3.2e-24 Score=153.08 Aligned_cols=59 Identities=47% Similarity=0.912 Sum_probs=54.5
Q ss_pred CCCCCCCeEEEEEEEeccC-CeeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEEEE
Q psy3964 6 NSPDGLDHAVLAVGYGELD-GKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTYVT 64 (65)
Q Consensus 6 ~~~~~~~Hav~ivG~g~~~-~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~p~ 64 (65)
|++..+||+|||||||... .+||||||||||++||++||+|+.||.|.|||+++++-+.
T Consensus 311 Cs~~~~~HaVLlvGyG~~g~~~PYWIVKNSWG~~WGE~GY~~l~RG~N~CGi~~mvss~~ 370 (372)
T KOG1542|consen 311 CSPKLLNHAVLLVGYGSSGYEKPYWIVKNSWGTSWGEKGYYKLCRGSNACGIADMVSSAA 370 (372)
T ss_pred CCccccCceEEEEeecCCCCCCceEEEECCccccccccceEEEeccccccccccchhhhh
Confidence 6666799999999999887 8999999999999999999999999999999999887654
No 5
>cd02621 Peptidase_C1A_CathepsinC Cathepsin C; also known as Dipeptidyl Peptidase I (DPPI), an atypical papain-like cysteine peptidase with chloride dependency and dipeptidyl aminopeptidase activity, resulting from its tetrameric structure which limits substrate access. Each subunit of the tetramer is composed of three peptides: the heavy and light chains, which together adopts the papain fold and forms the catalytic domain; and the residual propeptide region, which forms a beta barrel and points towards the substrate's N-terminus. The subunit composition is the result of the unique characteristic of procathepsin C maturation involving the cleavage of the catalytic domain and the non-autocatalytic excision of an activation peptide within its propeptide region. By removing N-terminal dipeptide extensions, cathepsin C activates granule serine peptidases (granzymes) involved in cell-mediated apoptosis, inflammation and tissue remodelling. Loss-of-function mutations in cathepsin C are assoc
Probab=99.89 E-value=1.2e-23 Score=141.23 Aligned_cols=54 Identities=43% Similarity=0.946 Sum_probs=50.4
Q ss_pred CCCeEEEEEEEeccC--CeeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEEE
Q psy3964 10 GLDHAVLAVGYGELD--GKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTYV 63 (65)
Q Consensus 10 ~~~Hav~ivG~g~~~--~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~p 63 (65)
..+|||+|||||.+. +.+|||||||||+.||++|||||.|+.|.|+|++.+.++
T Consensus 185 ~~~HaV~iVGyg~~~~~g~~YWiirNSWG~~WGe~Gy~~i~~~~~~cgi~~~~~~~ 240 (243)
T cd02621 185 LTNHAVLLVGWGEDEIKGEKYWIVKNSWGSSWGEKGYFKIRRGTNECGIESQAVFA 240 (243)
T ss_pred cCCeEEEEEEeeccCCCCCcEEEEEcCCCCCCCcCCeEEEecCCcccCcccceEee
Confidence 579999999999876 899999999999999999999999999999999998764
No 6
>PF00112 Peptidase_C1: Papain family cysteine protease This is family C1 in the peptidase classification. ; InterPro: IPR000668 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of proteins belong to the peptidase family C1, sub-family C1A (papain family, clan CA). It includes proteins classed as non-peptidase homologs. These are have either been shown experimentally to lack peptidase activity or lack one or more of the active site residues. The papain family has a wide variety of activities, including broad-range (papain) and narrow-range endo-peptidases, aminopeptidases, dipeptidyl peptidases and enzymes with both exo- and endo-peptidase activity []. Members of the papain family are widespread, found in baculovirus [], eubacteria, yeast, and practically all protozoa, plants and mammals []. The proteins are typically lysosomal or secreted, and proteolytic cleavage of the propeptide is required for enzyme activation, although bleomycin hydrolase is cytosolic in fungi and mammals []. Papain-like cysteine proteinases are essentially synthesised as inactive proenzymes (zymogens) with N-terminal propeptide regions. The activation process of these enzymes includes the removal of propeptide regions. The propeptide regions serve a variety of functions in vivo and in vitro. The pro-region is required for the proper folding of the newly synthesised enzyme, the inactivation of the peptidase domain and stabilisation of the enzyme against denaturing at neutral to alkaline pH conditions. Amino acid residues within the pro-region mediate their membrane association, and play a role in the transport of the proenzyme to lysosomes. Among the most notable features of propeptides is their ability to inhibit the activity of their cognate enzymes and that certain propeptides exhibit high selectivity for inhibition of the peptidases from which they originate []. The catalytic residues of papain are Cys-25 and His-159, other important residues being Gln-19, which helps form the 'oxyanion hole', and Asn-175, which orientates the imidazole ring of His-159. ; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 3MOR_B 3HHI_B 1S4V_A 3F75_A 1MEG_A 1PCI_C 1PPO_A 3HD3_B 1F29_A 1EWL_A ....
Probab=99.89 E-value=3.8e-23 Score=133.27 Aligned_cols=59 Identities=46% Similarity=0.887 Sum_probs=53.6
Q ss_pred CCCCCCCeEEEEEEEeccCCeeEEEEEcCCCCCCCCCeEEEEeccCC-eeeeccccEEEE
Q psy3964 6 NSPDGLDHAVLAVGYGELDGKPYWQVKNSWSTYWGNQGYVLMSIKDN-NCGVMTAPTYVT 64 (65)
Q Consensus 6 ~~~~~~~Hav~ivG~g~~~~~~yW~i~NSwg~~WG~~Gy~~i~~~~~-~cgi~~~~~~p~ 64 (65)
+.+...+|||+||||+.+.+++||++|||||++||++||++|+++.+ .|+|+..++||+
T Consensus 160 ~~~~~~~Hav~iVGy~~~~~~~~wiv~NSWG~~WG~~Gy~~i~~~~~~~c~i~~~~~~~~ 219 (219)
T PF00112_consen 160 CSNESGGHAVLIVGYDDENGKGYWIVKNSWGTDWGDNGYFRISYDYNNECGIESQAVYPI 219 (219)
T ss_dssp SSSSSEEEEEEEEEEEEETTEEEEEEE-SBTTTSTBTTEEEEESSSSSGGGTTSSEEEEE
T ss_pred cccccccccccccccccccceeeEeeehhhCCccCCCeEEEEeeCCCCcCccCceeeecC
Confidence 33457899999999999999999999999999999999999999886 999999999996
No 7
>cd02248 Peptidase_C1A Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain is an endopeptidase with specific substrate preferences, primarily for bulky hydrophobic or aromatic residues at the S2 subsite, a hydrophobic pocket in papain that accommodates the P2 sidechain of the substrate (the second residue away from the scissile bond). Most members of the papain subfamily are endopeptidases. Some exceptions to this rule can be explained by specific details of the catalytic domains like the occluding loop in cathepsin B which confers an additional carboxydipeptidyl activity and the mini-chain of cathepsin H resulting in an N-terminal exopeptidase activity. Papain-like CPs have different functions in various organisms. Plant CPs are used to mobilize storage proteins in seeds. Parasitic CPs act extracellularly to help invade tissues and cells, to h
Probab=99.89 E-value=3.8e-23 Score=134.04 Aligned_cols=56 Identities=46% Similarity=0.973 Sum_probs=52.0
Q ss_pred CCCCCeEEEEEEEeccCCeeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEEE
Q psy3964 8 PDGLDHAVLAVGYGELDGKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTYV 63 (65)
Q Consensus 8 ~~~~~Hav~ivG~g~~~~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~p 63 (65)
....+|||+|||||.+.+.+|||||||||++||++||+||+++.+.|+|+..+.||
T Consensus 155 ~~~~~Hav~iVGy~~~~~~~ywiv~NSWG~~WG~~Gy~~i~~~~~~cgi~~~~~~~ 210 (210)
T cd02248 155 NTNLNHAVLLVGYGTENGVDYWIVKNSWGTSWGEKGYIRIARGSNLCGIASYASYP 210 (210)
T ss_pred CCcCCEEEEEEEEeecCCceEEEEEcCCCCccccCcEEEEEcCCCccCceeeeecC
Confidence 45678999999999988899999999999999999999999999999999888776
No 8
>PTZ00200 cysteine proteinase; Provisional
Probab=99.87 E-value=1.2e-22 Score=148.16 Aligned_cols=58 Identities=40% Similarity=0.786 Sum_probs=51.9
Q ss_pred CCCCCeEEEEEEEecc--CCeeEEEEEcCCCCCCCCCeEEEEecc---CCeeeeccccEEEEC
Q psy3964 8 PDGLDHAVLAVGYGEL--DGKPYWQVKNSWSTYWGNQGYVLMSIK---DNNCGVMTAPTYVTM 65 (65)
Q Consensus 8 ~~~~~Hav~ivG~g~~--~~~~yW~i~NSwg~~WG~~Gy~~i~~~---~~~cgi~~~~~~p~v 65 (65)
+..++|||+|||||.+ ++.+|||||||||++||++|||||.|+ .|.|||++.+.||++
T Consensus 383 ~~~~nHaV~lVGyG~d~~~g~~YWIIkNSWG~~WGe~GY~ri~r~~~g~n~CGI~~~~~~P~~ 445 (448)
T PTZ00200 383 GKSLNHAVLLVGEGYDEKTKKRYWIIKNSWGTDWGENGYMRLERTNEGTDKCGILTVGLTPVF 445 (448)
T ss_pred CCCCcEEEEEEEecccCCCCCceEEEEcCCCCCcccCeeEEEEeCCCCCCcCCccccceeeEE
Confidence 3458999999999953 578999999999999999999999985 589999999999974
No 9
>PTZ00021 falcipain-2; Provisional
Probab=99.87 E-value=2.6e-22 Score=147.90 Aligned_cols=59 Identities=29% Similarity=0.685 Sum_probs=51.7
Q ss_pred CCCCCCeEEEEEEEeccC----------CeeEEEEEcCCCCCCCCCeEEEEeccC----CeeeeccccEEEEC
Q psy3964 7 SPDGLDHAVLAVGYGELD----------GKPYWQVKNSWSTYWGNQGYVLMSIKD----NNCGVMTAPTYVTM 65 (65)
Q Consensus 7 ~~~~~~Hav~ivG~g~~~----------~~~yW~i~NSwg~~WG~~Gy~~i~~~~----~~cgi~~~~~~p~v 65 (65)
|+..++|||+|||||.++ +.+|||||||||++||++|||||.|+. +.|||.+.+.||++
T Consensus 416 C~~~~nHAVlIVGYG~e~~~~~~~~~~~~~~YWIVKNSWGt~WGE~GY~rI~r~~~g~~n~CGI~t~a~yP~~ 488 (489)
T PTZ00021 416 CGEEPNHAVILVGYGMEEIYNSDTKKMEKRYYYIIKNSWGESWGEKGFIRIETDENGLMKTCSLGTEAYVPLI 488 (489)
T ss_pred CCCccceEEEEEEecCcCCcccccccCCCCCEEEEECCCCCCcccCeEEEEEcCCCCCCCCCCCcccceeEec
Confidence 345689999999999753 257999999999999999999999975 58999999999985
No 10
>KOG1543|consensus
Probab=99.86 E-value=2.9e-22 Score=141.04 Aligned_cols=59 Identities=47% Similarity=0.915 Sum_probs=53.1
Q ss_pred CCCC-CCCeEEEEEEEeccCCeeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEE-EE
Q psy3964 6 NSPD-GLDHAVLAVGYGELDGKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTY-VT 64 (65)
Q Consensus 6 ~~~~-~~~Hav~ivG~g~~~~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~-p~ 64 (65)
++.. .++|||+|||||..++.+|||+|||||+.||++|||||.|+.+.|+|+..+.| |+
T Consensus 263 ~~~~~~~~Hav~iVGyG~~~~~~YWivkNSWG~~WGe~Gy~ri~r~~~~~~I~~~~~~~p~ 323 (325)
T KOG1543|consen 263 KGDDKEGDHAVLIVGYGTGDGVDYWIVKNSWGTDWGEKGYFRIARGVNKCGIASEASYGPI 323 (325)
T ss_pred CCCCCCCCceEEEEEEcCCCCceeEEEEcCCCCCcccCceEEEecCCCchhhhcccccCCC
Confidence 3444 59999999999996678999999999999999999999999999999999888 54
No 11
>smart00645 Pept_C1 Papain family cysteine protease.
Probab=99.86 E-value=1.4e-21 Score=126.43 Aligned_cols=55 Identities=49% Similarity=0.973 Sum_probs=48.1
Q ss_pred CCCCCCCeEEEEEEEecc-CCeeEEEEEcCCCCCCCCCeEEEEeccC-Ceeeecccc
Q psy3964 6 NSPDGLDHAVLAVGYGEL-DGKPYWQVKNSWSTYWGNQGYVLMSIKD-NNCGVMTAP 60 (65)
Q Consensus 6 ~~~~~~~Hav~ivG~g~~-~~~~yW~i~NSwg~~WG~~Gy~~i~~~~-~~cgi~~~~ 60 (65)
|+....+|+|+|||||.+ ++++|||+|||||+.||++|||||.++. +.|+|+...
T Consensus 114 ~~~~~~~Hav~ivGyg~~~~g~~yWii~NSwG~~WG~~G~~~i~~~~~~~c~i~~~~ 170 (174)
T smart00645 114 CGSGTLDHAVLIVGYGTEENGKDYWIVKNSWGTDWGENGYFRIARGKNNECGIEASV 170 (174)
T ss_pred CCCCcccEEEEEEEEeecCCCeeEEEEECCCCCCcccCeEEEEEcCCCCccCceeee
Confidence 333447999999999987 7899999999999999999999999987 999996544
No 12
>PTZ00364 dipeptidyl-peptidase I precursor; Provisional
Probab=99.84 E-value=3.3e-21 Score=143.58 Aligned_cols=55 Identities=24% Similarity=0.589 Sum_probs=50.4
Q ss_pred CCCCeEEEEEEEec-cCCeeEEEEEcCCCC--CCCCCeEEEEeccCCeeeeccccEEE
Q psy3964 9 DGLDHAVLAVGYGE-LDGKPYWQVKNSWST--YWGNQGYVLMSIKDNNCGVMTAPTYV 63 (65)
Q Consensus 9 ~~~~Hav~ivG~g~-~~~~~yW~i~NSwg~--~WG~~Gy~~i~~~~~~cgi~~~~~~p 63 (65)
..+||||+|||||. +++.+|||||||||+ +|||+|||||.|+.|+|||++.+...
T Consensus 400 ~~~nHAVlIVGYG~de~G~~YWIVKNSWGt~~~WGE~GYfRI~RG~N~CGIes~~v~~ 457 (548)
T PTZ00364 400 SNVNHTVLIIGWGTDENGGDYWLVLDPWGSRRSWCDGGTRKIARGVNAYNIESEVVVM 457 (548)
T ss_pred ccCCeEEEEEEecccCCCceEEEEECCCCCCCCcccCCeEEEEcCCCcccccceeeee
Confidence 46899999999997 468899999999999 99999999999999999999998743
No 13
>PTZ00049 cathepsin C-like protein; Provisional
Probab=99.84 E-value=3.8e-21 Score=145.94 Aligned_cols=55 Identities=33% Similarity=0.799 Sum_probs=50.3
Q ss_pred CCCeEEEEEEEecc--CC--eeEEEEEcCCCCCCCCCeEEEEeccCCeeeeccccEEEE
Q psy3964 10 GLDHAVLAVGYGEL--DG--KPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAPTYVT 64 (65)
Q Consensus 10 ~~~Hav~ivG~g~~--~~--~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~~~p~ 64 (65)
.++|||+|||||.+ ++ .+|||||||||+.||++|||||.|+.|.|||++++.|+.
T Consensus 617 ~~NHAVlIVGwG~d~enG~~~~YWIVRNSWGt~WGenGYfKI~RG~N~CGIEs~a~~~~ 675 (693)
T PTZ00049 617 KVNHAIVLVGWGEEEINGKLYKYWIGRNSWGKNWGKEGYFKIIRGKNFSGIESQSLFIE 675 (693)
T ss_pred cCceEEEEEEeccccCCCcccCEEEEECCCCCCcccCceEEEEcCCCccCCccceeEEe
Confidence 57999999999975 35 379999999999999999999999999999999999875
No 14
>PTZ00462 Serine-repeat antigen protein; Provisional
Probab=99.80 E-value=6.5e-20 Score=142.97 Aligned_cols=59 Identities=39% Similarity=0.818 Sum_probs=50.8
Q ss_pred CCCCCCCeEEEEEEEecc-----CCeeEEEEEcCCCCCCCCCeEEEEec-cCCeeeeccccEEEE
Q psy3964 6 NSPDGLDHAVLAVGYGEL-----DGKPYWQVKNSWSTYWGNQGYVLMSI-KDNNCGVMTAPTYVT 64 (65)
Q Consensus 6 ~~~~~~~Hav~ivG~g~~-----~~~~yW~i~NSwg~~WG~~Gy~~i~~-~~~~cgi~~~~~~p~ 64 (65)
|+...++|||+|||||.+ ++++|||||||||+.||++|||||.| +.+.|++.....+|+
T Consensus 716 Cgs~~~nHAVlIVGYGt~in~eg~gk~YWIVRNSWGt~WGEnGYFKI~r~g~n~CGin~i~t~~~ 780 (1004)
T PTZ00462 716 CGDDTADHAVNIVGYGNYINDEDEKKSYWIVRNSWGKYWGDEGYFKVDMYGPSHCEDNFIHSVVI 780 (1004)
T ss_pred CCCCcCCceEEEEEecccccccCCCCceEEEEcCCCCCcCCCeEEEEEeCCCCCCccchheeeee
Confidence 444568999999999964 25799999999999999999999998 789999987777665
No 15
>cd02619 Peptidase_C1 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some exceptions like cathepsins B, C, H and X, which are exopeptidases. Papain-like CPs have different functions in various organisms. Plant CPs are used to mobilize storage proteins in seeds while mammalian CPs are primarily lysosomal enzymes responsible for protein degradation in the lysosome. Papain-like CPs are synthesized as inactive proenzymes with N-terminal propeptide regions, which are removed upon activation. Bleomycin hydrolase (BH) is a CP that detoxifies bleomycin by hydrolysis of an amide group. It acts as a carboxypeptidase on its C-terminus to convert itself into an aminopeptidase and peptide ligase. BH is found in all tissues in mammals as well as in many other eukaryotes. It forms a hexameric ring barrel str
Probab=99.72 E-value=1.3e-17 Score=107.55 Aligned_cols=47 Identities=45% Similarity=0.697 Sum_probs=41.6
Q ss_pred CCCCCCCCeEEEEEEEeccC--CeeEEEEEcCCCCCCCCCeEEEEeccC
Q psy3964 5 HNSPDGLDHAVLAVGYGELD--GKPYWQVKNSWSTYWGNQGYVLMSIKD 51 (65)
Q Consensus 5 ~~~~~~~~Hav~ivG~g~~~--~~~yW~i~NSwg~~WG~~Gy~~i~~~~ 51 (65)
.++....+|||+|||||.+. +++||++|||||+.||++||+|+++..
T Consensus 165 ~~~~~~~~Hav~ivGy~~~~~~~~~~~i~~NSwG~~wg~~Gy~~i~~~~ 213 (223)
T cd02619 165 YEDGDLGGHAVVIVGYDDNYVEGKGAFIVKNSWGTDWGDNGYGRISYED 213 (223)
T ss_pred cCCCccCCeEEEEEeecCCCCCCCCEEEEEeCCCCccccCCEEEEehhh
Confidence 34556789999999999876 889999999999999999999999863
No 16
>KOG1544|consensus
Probab=99.56 E-value=3.4e-15 Score=107.56 Aligned_cols=55 Identities=29% Similarity=0.593 Sum_probs=47.6
Q ss_pred CCCCCCCeEEEEEEEeccC-----CeeEEEEEcCCCCCCCCCeEEEEeccCCeeeecccc
Q psy3964 6 NSPDGLDHAVLAVGYGELD-----GKPYWQVKNSWSTYWGNQGYVLMSIKDNNCGVMTAP 60 (65)
Q Consensus 6 ~~~~~~~Hav~ivG~g~~~-----~~~yW~i~NSwg~~WG~~Gy~~i~~~~~~cgi~~~~ 60 (65)
..-....|+|.|+|||++. ..+||+..||||+.|||+||||+.||.|+|.|++..
T Consensus 396 ~yr~~gtHsVk~tGWG~~~~~~G~~~KyW~aANSWG~~WGE~GYFriLRGvNecdIEsfv 455 (470)
T KOG1544|consen 396 RYRRHGTHSVKITGWGEETLPDGRTLKYWTAANSWGPAWGERGYFRILRGVNECDIESFV 455 (470)
T ss_pred hhhhcccceEEEeecccccCCCCCeeEEEEeecccccccccCceEEEeccccchhhhHhh
Confidence 3344567999999999763 467999999999999999999999999999998754
No 17
>cd00585 Peptidase_C1B Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is a cysteine peptidase that detoxifies bleomycin by hydrolysis of an amide group. It acts as a carboxypeptidase on its C-terminus to convert itself into an aminopeptidase and peptide ligase. BH is found in all tissues in mammals as well as in many other eukaryotes. Bleomycin, a glycopeptide derived from the fungus Streptomyces verticullus, is an effective anticancer drug due to its ability to induce DNA strand breaks. Human BH is the major cause of tumor cell resistance to bleomycin chemotherapy, and is also genetically linked to Alzheimer's disease. In addition to its peptidase activity, the yeast BH (Gal6) binds DNA and acts as a repressor in the Gal4 regulatory system. BH forms a hexameric ring barrel structure w
Probab=99.51 E-value=1.4e-14 Score=105.93 Aligned_cols=43 Identities=35% Similarity=0.627 Sum_probs=37.8
Q ss_pred CCCCCCeEEEEEEEeccC-Ce-eEEEEEcCCCCCCCCCeEEEEec
Q psy3964 7 SPDGLDHAVLAVGYGELD-GK-PYWQVKNSWSTYWGNQGYVLMSI 49 (65)
Q Consensus 7 ~~~~~~Hav~ivG~g~~~-~~-~yW~i~NSwg~~WG~~Gy~~i~~ 49 (65)
+.+.++|||+||||+.++ ++ .||+||||||+.||++||++|++
T Consensus 354 ~es~~tHAM~ivGv~~D~~g~p~yw~VkNSWG~~~G~~Gy~~ms~ 398 (437)
T cd00585 354 GESLMTHAMVLTGVDLDEDGKPVKWKVENSWGEKVGKKGYFVMSD 398 (437)
T ss_pred cCCcCCeEEEEEEEEecCCCCcceEEEEcccCCCCCCCcceehhH
Confidence 344679999999999864 76 59999999999999999999986
No 18
>COG4870 Cysteine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=3e-12 Score=92.25 Aligned_cols=42 Identities=43% Similarity=0.814 Sum_probs=36.2
Q ss_pred CCCCeEEEEEEEeccC----------CeeEEEEEcCCCCCCCCCeEEEEecc
Q psy3964 9 DGLDHAVLAVGYGELD----------GKPYWQVKNSWSTYWGNQGYVLMSIK 50 (65)
Q Consensus 9 ~~~~Hav~ivG~g~~~----------~~~yW~i~NSwg~~WG~~Gy~~i~~~ 50 (65)
+..+|||+||||+..- +..-||||||||+.||++||++++..
T Consensus 262 ~~~gHAv~iVGyDDs~~~n~~~~~~~g~GAfiikNSWGt~wG~~GYfwisY~ 313 (372)
T COG4870 262 ENWGHAVLIVGYDDSFDINNFKYGPPGDGAFIIKNSWGTNWGENGYFWISYY 313 (372)
T ss_pred ccccceEEEEeccccccccccccCCCCCceEEEECccccccccCceEEEEee
Confidence 6778999999998541 34489999999999999999999974
No 19
>PF03051 Peptidase_C1_2: Peptidase C1-like family This family is a subfamily of the Prosite entry; InterPro: IPR004134 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of proteins belong to MEROPS peptidase family C1, sub-family C1B (bleomycin hydrolase, clan CA). This family contains prokaryotic and eukaryotic aminopeptidases and bleomycin hydrolases.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 3PW3_F 2CB5_A 1CB5_C 2DZZ_A 2E02_A 2E01_A 2E03_A 1A6R_A 1GCB_A 3GCB_A ....
Probab=99.10 E-value=1.2e-10 Score=85.40 Aligned_cols=41 Identities=41% Similarity=0.721 Sum_probs=33.9
Q ss_pred CCCCeEEEEEEEec-cCCe-eEEEEEcCCCCCCCCCeEEEEec
Q psy3964 9 DGLDHAVLAVGYGE-LDGK-PYWQVKNSWSTYWGNQGYVLMSI 49 (65)
Q Consensus 9 ~~~~Hav~ivG~g~-~~~~-~yW~i~NSwg~~WG~~Gy~~i~~ 49 (65)
+..+|||+|||... ++++ .+|+|+||||++.|.+||+.|+.
T Consensus 357 S~~tHAM~itGv~~D~~g~p~~wkVeNSWG~~~g~kGy~~msd 399 (438)
T PF03051_consen 357 STMTHAMVITGVDLDEDGKPVRWKVENSWGTDNGDKGYFYMSD 399 (438)
T ss_dssp S--EEEEEEEEEEE-TTSSEEEEEEE-SBTTTSTBTTEEEEEH
T ss_pred CCCceeEEEEEEEeccCCCeeEEEEEcCCCCCCCCCcEEEECH
Confidence 46789999999997 4566 48999999999999999999985
No 20
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=98.33 E-value=1.2e-07 Score=69.08 Aligned_cols=40 Identities=35% Similarity=0.678 Sum_probs=34.6
Q ss_pred CCCeEEEEEEEecc-CCeeE-EEEEcCCCCCCCCCeEEEEec
Q psy3964 10 GLDHAVLAVGYGEL-DGKPY-WQVKNSWSTYWGNQGYVLMSI 49 (65)
Q Consensus 10 ~~~Hav~ivG~g~~-~~~~y-W~i~NSwg~~WG~~Gy~~i~~ 49 (65)
-+.|||+|+|.+.+ ++.+. |.|+||||.+-|.+|||.++.
T Consensus 360 LmTHAMvlTGvd~d~~g~p~rwkVENSWG~d~G~~GyfvaSd 401 (444)
T COG3579 360 LMTHAMVLTGVDLDETGNPLRWKVENSWGKDVGKKGYFVASD 401 (444)
T ss_pred HHHHHHHhhccccccCCCceeeEeecccccccCCCceEeehH
Confidence 36799999999965 45665 999999999999999999874
No 21
>KOG4128|consensus
Probab=95.19 E-value=0.0011 Score=48.65 Aligned_cols=39 Identities=31% Similarity=0.466 Sum_probs=31.6
Q ss_pred CCeEEEEEEEecc-C---CeeEEEEEcCCCCCCCCCeEEEEec
Q psy3964 11 LDHAVLAVGYGEL-D---GKPYWQVKNSWSTYWGNQGYVLMSI 49 (65)
Q Consensus 11 ~~Hav~ivG~g~~-~---~~~yW~i~NSwg~~WG~~Gy~~i~~ 49 (65)
.+|||++++.+.. . +-.-|.|+||||.+-|.+|+.+|..
T Consensus 371 mthAml~T~v~~kd~~~g~~~~~rVenswgkd~gkkg~~~mt~ 413 (457)
T KOG4128|consen 371 MTHAMLLTSVGLKDPATGGLNEHRVENSWGKDLGKKGVNKMTA 413 (457)
T ss_pred HHHHHHhhhccccCcccCCchhhhhhchhhhhccccchhhhhH
Confidence 5799999999942 2 2234999999999999999988763
No 22
>PF05543 Peptidase_C47: Staphopain peptidase C47; InterPro: IPR008750 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the peptidase family C47 (staphopain family, clan CA). The type example are the staphopains, which are one of four major families of proteinases secreted by the Gram-positive Staphylococcus aureus. These staphylococcal cysteine proteases are secreted as preproenzymes that are proteolytically cleaved to generate the mature enzyme [, , ].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1X9Y_D 1Y4H_B 1PXV_B 1CV8_A.
Probab=88.56 E-value=1.1 Score=29.93 Aligned_cols=39 Identities=26% Similarity=0.438 Sum_probs=24.6
Q ss_pred CCCCCCeEEEEEEEec-cCCeeEEEEEcCCCCCCCCCeEEEEecc
Q psy3964 7 SPDGLDHAVLAVGYGE-LDGKPYWQVKNSWSTYWGNQGYVLMSIK 50 (65)
Q Consensus 7 ~~~~~~Hav~ivG~g~-~~~~~yW~i~NSwg~~WG~~Gy~~i~~~ 50 (65)
+.....||++|+||.. .++.++..+=|=|-. +++.++..
T Consensus 115 ~~~~~gHAlavvGya~~~~g~~~y~~WNPW~~-----~~~~~sa~ 154 (175)
T PF05543_consen 115 NGPHAGHALAVVGYAKPNNGQKTYYFWNPWWN-----DVMIQSAK 154 (175)
T ss_dssp TTB--EEEEEEEEEEEETTSEEEEEEE-TT-S-----S-EEEETT
T ss_pred CCCccceeEEEEeeeecCCCCeEEEEeCCccC-----CcEEEecC
Confidence 4446789999999986 457889888886633 45555544
No 23
>PF13529 Peptidase_C39_2: Peptidase_C39 like family; PDB: 3ERV_A.
Probab=86.72 E-value=0.79 Score=26.79 Aligned_cols=24 Identities=33% Similarity=0.580 Sum_probs=14.9
Q ss_pred CCCCeEEEEEEEeccCCeeEEEEEcCC
Q psy3964 9 DGLDHAVLAVGYGELDGKPYWQVKNSW 35 (65)
Q Consensus 9 ~~~~Hav~ivG~g~~~~~~yW~i~NSw 35 (65)
....|.|+|+||..+. ++++..+|
T Consensus 121 ~~~~H~vvi~Gy~~~~---~~~v~DP~ 144 (144)
T PF13529_consen 121 TYGGHYVVIIGYDEDG---YVYVNDPW 144 (144)
T ss_dssp -TTEEEEEEEEE-SSE----EEEE-TT
T ss_pred CcCCEEEEEEEEeCCC---EEEEeCCC
Confidence 3568999999998643 56665554
No 24
>cd00044 CysPc Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.
Probab=51.57 E-value=24 Score=24.51 Aligned_cols=28 Identities=21% Similarity=0.404 Sum_probs=23.5
Q ss_pred CCCeEEEEEEEeccC--CeeEEEEEcCCCC
Q psy3964 10 GLDHAVLAVGYGELD--GKPYWQVKNSWST 37 (65)
Q Consensus 10 ~~~Hav~ivG~g~~~--~~~yW~i~NSwg~ 37 (65)
..+||-.|+++-..+ +..+-.++|-||.
T Consensus 234 ~~~HaY~Vl~~~~~~~~~~~lv~lrNPWg~ 263 (315)
T cd00044 234 VKGHAYSVLDVREVQEEGLRLLRLRNPWGV 263 (315)
T ss_pred ccCcceEEeEEEEEccCceEEEEecCCccC
Confidence 458999999998655 7888999999994
No 25
>cd03581 NTR_Sfrp3_like NTR domain, Secreted frizzled-related protein (Sfrp) 3-like subfamily; composed of proteins similar to human Sfrp3 and Sfrp4. Sfrps are soluble proteins containing an NTR domain C-terminal to a cysteine-rich Frizzled domain. They show diverse functions and are thought to work in Wnt signaling indirectly, as modulators or antagonists by binding Wnt ligands, and directly, via the Wnt receptor, Frizzled. They participate in regulating the patterning along the anteroposterior axis in vertebrates. Human Sfrp3 may suppress the growth and invasiveness of androgen-independent prostate cancer cells.
Probab=46.35 E-value=18 Score=21.93 Aligned_cols=38 Identities=16% Similarity=0.261 Sum_probs=26.1
Q ss_pred CCCCCCCCCCeEEEEEEEeccCCeeEEEEEcCCCCCCC
Q psy3964 3 KGHNSPDGLDHAVLAVGYGELDGKPYWQVKNSWSTYWG 40 (65)
Q Consensus 3 ~~~~~~~~~~Hav~ivG~g~~~~~~yW~i~NSwg~~WG 40 (65)
.|.|-....+..-+|.|........|.+-++||=..|-
T Consensus 55 ~C~cp~l~~gk~YLImG~~~~~~~~~~ld~~S~Ve~W~ 92 (111)
T cd03581 55 GCLCPPLTPNEEYIIMGYEDEERSRLLLVEGSLAEKWK 92 (111)
T ss_pred CCCCccccCCCEEEEEecCCCCcceEEeCCceEEEEhh
Confidence 46666666888999999953334556777788766553
No 26
>COG4990 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.23 E-value=16 Score=24.84 Aligned_cols=22 Identities=23% Similarity=0.386 Sum_probs=15.1
Q ss_pred CCeEEEEEEEeccCCeeEEEEEcCCC
Q psy3964 11 LDHAVLAVGYGELDGKPYWQVKNSWS 36 (65)
Q Consensus 11 ~~Hav~ivG~g~~~~~~yW~i~NSwg 36 (65)
.-|+|+|+||+.. +...-+.||
T Consensus 147 s~H~v~itgyDk~----n~yynDpyG 168 (195)
T COG4990 147 SIHSVLITGYDKY----NIYYNDPYG 168 (195)
T ss_pred ceeeeEeeccccc----ceEeccccc
Confidence 4599999999854 444455553
No 27
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=40.40 E-value=36 Score=23.05 Aligned_cols=23 Identities=22% Similarity=0.476 Sum_probs=16.7
Q ss_pred CCCeEEEEEEEeccCCeeEEEEEc
Q psy3964 10 GLDHAVLAVGYGELDGKPYWQVKN 33 (65)
Q Consensus 10 ~~~Hav~ivG~g~~~~~~yW~i~N 33 (65)
..+|.++|+||+.++ ..|.++..
T Consensus 111 ~~~H~i~v~G~d~~~-~~~~v~D~ 133 (317)
T PF14399_consen 111 HADHYIVVYGYDEEE-DVFYVSDP 133 (317)
T ss_pred cCCcEEEEEEEeCCC-CEEEEEcC
Confidence 468999999998653 44666654
No 28
>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate.
Probab=38.59 E-value=52 Score=22.55 Aligned_cols=24 Identities=25% Similarity=0.462 Sum_probs=16.4
Q ss_pred CCCCCeEEEEEEEeccCCeeEEEEEc
Q psy3964 8 PDGLDHAVLAVGYGELDGKPYWQVKN 33 (65)
Q Consensus 8 ~~~~~Hav~ivG~g~~~~~~yW~i~N 33 (65)
+.-..|.|+|+||..+.+ -..++|
T Consensus 157 ~~Y~GHYVVlcGyd~~~~--~~~yrd 180 (212)
T PF09778_consen 157 PDYQGHYVVLCGYDAATK--EFEYRD 180 (212)
T ss_pred CCccEEEEEEEeecCCCC--eEEEeC
Confidence 445679999999987542 244444
No 29
>PF00648 Peptidase_C2: Calpain family cysteine protease This is family C2 in the peptidase classification. ; InterPro: IPR001300 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C2 (calpain family, clan CA). A type example is calpain, which is an intracellular protease involved in many important cellular functions that are regulated by calcium []. The protein is a complex of 2 polypeptide chains (light and heavy), with three known forms in mammals [, ]: a highly calcium-sensitive (i.e., micro-molar range) form known as mu-calpain, mu-CANP or calpain I; a form sensitive to calcium in the milli-molar range, known as m-calpain, m-CANP or calpain II; and a third form, known as p94, which is found in skeletal muscle only []. All forms have identical light but different heavy chains. Both mu- and m-calpain are heterodimers containing an identical 28kDa subunit and an 80kDa subunit that shares 55-65% sequence homology between the two proteases [, ]. The crystallographic structure of m-calpain reveals six "domains" in the 80kDa subunit: A 19-amino acid NH2-terminal sequence; Active site domain IIa; Active site domain IIb. Domain 2 shows low levels of sequence similarity to papain; although the catalytic His has not been located by biochemical means, it is likely that calpain and papain are related []. Domain III; An 18-amino acid extended sequence linking domain III to domain IV; Domain IV, which resembles the penta EF-hand family of polypeptides, binds calcium and regulates activity []. />]. Ca2+-binding causes a rearrangement of the protein backbone, the net effect of which is that a Trp side chain, which acts as a wedge between catalytic domains IIa and IIb in the apo state, moves away from the active site cleft allowing for the proper formation of the catalytic triad []. Calpain-like mRNAs have been identified in other organisms including bacteria, but the molecules encoded by these mRNAs have not been isolated, so little is known about their properties. How calpain activity is regulated in these organisms cells is still unclear In metazoans, the activity of calpain is controlled by a single proteinase inhibitor, calpastatin (IPR001259 from INTERPRO). The calpastatin gene can produce eight or more calpastatin polypeptides ranging from 17 to 85 kDa by use of different promoters and alternative splicing events. The physiological significance of these different calpastatins is unclear, although all bind to three different places on the calpain molecule; binding to at least two of the sites is Ca2+ dependent. The calpains ostensibly participate in a variety of cellular processes including remodelling of cytoskeletal/membrane attachments, different signal transduction pathways, and apoptosis. Deregulated calpain activity following loss of Ca2+ homeostasis results in tissue damage in response to events such as myocardial infarcts, stroke, and brain trauma []. Calpains are a family of cytosolic cysteine proteinases (see PDOC00126 from PROSITEDOC). Members of the calpain family are believed to function in various biological processes, including integrin-mediated cell migration, cytoskeletal remodeling, cell differentiation and apoptosis [, ]. The calpain family includes numerous members from C. elegans to mammals and with homologues in yeast and bacteria. The best characterised members are the m- and mu-calpains, both proteins are heterodimer composed of a large catalytic subunit and a small regulatory subunit. The large subunit comprises four domains (dI-dIV) while the small subunit has two domains (dV-dVI). Domain dI is a short region cleaved by autolysis, dII is the catalytic core, dIII is a C2-like domain, dIV consists of five calcium binding EF-hand motifs []. The crystal structure of calpain has been solved [, ]. The catalytic region consists of two distinct structural domains (dIIa and dIIb). dIIa contains a central helix flanked on three faces by a cluster of alpha-helices and is entirely unrelated to the corresponding domain in the typical thiol proteinases. The fold of dIIb is similar to the corresponding domain in other cysteine proteinases and contains two three-stranded anti-parallel beta-sheets. The catalytic triad residues (C,H,N) are located in dIIa and dIIb. The activation of the domain is dependent on the binding of two calcium atoms in two non EF-hand calcium binding sites located in the catalytic core, one close to the Cys active site in dIIa and one at the end of dIIb. Calcium-binding induced conformational changes in the catalytic domain which align the active site [][]. The profile covers the whole catalytic domain.; GO: 0004198 calcium-dependent cysteine-type endopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 2NQA_A 1KFU_L 1KFX_L 1QXP_B 2R9C_A 1TL9_A 2G8E_A 1KXR_B 2G8J_A 2NQG_A ....
Probab=34.90 E-value=52 Score=22.43 Aligned_cols=28 Identities=21% Similarity=0.455 Sum_probs=19.1
Q ss_pred CCCeEEEEEEEeccCC----eeEEEEEcCCCC
Q psy3964 10 GLDHAVLAVGYGELDG----KPYWQVKNSWST 37 (65)
Q Consensus 10 ~~~Hav~ivG~g~~~~----~~yW~i~NSwg~ 37 (65)
..+||..|+++-..++ ..+-.++|-||.
T Consensus 212 ~~~HaY~Vl~~~~~~~~~~~~~lv~LrNPwg~ 243 (298)
T PF00648_consen 212 VPGHAYAVLDVREVNGNGEGHRLVKLRNPWGS 243 (298)
T ss_dssp BTTS-EEEEEEEEEEETTEEEEEEEEE-TTSS
T ss_pred ccceeEEEEEEEeeccccceeEEEEEcCCCcc
Confidence 3689999999975332 456788999984
No 30
>cd02549 Peptidase_C39A A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=30.35 E-value=53 Score=19.23 Aligned_cols=12 Identities=33% Similarity=0.720 Sum_probs=10.4
Q ss_pred CCCeEEEEEEEe
Q psy3964 10 GLDHAVLAVGYG 21 (65)
Q Consensus 10 ~~~Hav~ivG~g 21 (65)
..+|.++|+||.
T Consensus 92 ~~gH~vVv~g~~ 103 (141)
T cd02549 92 PSGHAMVVIGYD 103 (141)
T ss_pred CCCeEEEEEEEc
Confidence 367999999997
No 31
>PF08151 FerI: FerI (NUC094) domain; InterPro: IPR012968 The ferlin gene family are characterised by multiple tandem C2 domains and a C-terminal transmembrane domain. They are found in a wide range of species and their function remains unknown, however, mutations in its two most well-characterised members, dysferlin and otoferlin, have been implicated in human disease []. This domain is present in proteins of the Ferlin family, which includes Otoferlin, Myoferlin and Dysferlin. It is often located between two C2 domains [].
Probab=29.01 E-value=1.2e+02 Score=17.26 Aligned_cols=21 Identities=29% Similarity=0.525 Sum_probs=14.4
Q ss_pred EEEEc-CCCCCCCCCeEEEEec
Q psy3964 29 WQVKN-SWSTYWGNQGYVLMSI 49 (65)
Q Consensus 29 W~i~N-Swg~~WG~~Gy~~i~~ 49 (65)
|+.=+ -=...-|-+||++++.
T Consensus 18 W~~L~dP~D~~~G~kGYlKv~i 39 (72)
T PF08151_consen 18 WALLTDPDDTSAGVKGYLKVDI 39 (72)
T ss_pred eEEecCCCCCccCCceEEEEEE
Confidence 66544 3334568999999985
No 32
>PF01640 Peptidase_C10: Peptidase C10 family classification.; InterPro: IPR000200 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C10 (streptopain family, clan CA). Streptopain is a cysteine protease found in Streptococcus pyogenes that shows some structural and functional similarity to papain (family C1) [, ]. The order of the catalytic cysteine/histidine dyad is the same and the surrounding sequences are similar. The two proteins also show similar specificities, both preferring a hydrophobic residue at the P2 site [, ]. Streptopain shows a high degree of sequence similarity to the S. pyogenes exotoxin B, and strong similarity to the prtT gene product of Porphyromonas gingivalis (Bacteroides gingivalis), both of which have been included in the family [].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 4D8I_A 4D8E_A 4D8B_A 3BBA_B 3BB7_A 2JTC_A 1PVJ_A 1DKI_D 2UZJ_A.
Probab=25.81 E-value=1.8e+02 Score=18.90 Aligned_cols=30 Identities=27% Similarity=0.580 Sum_probs=19.8
Q ss_pred CeEEEEEEEeccCCeeEEEEEcCCCCCCCCCeEEE
Q psy3964 12 DHAVLAVGYGELDGKPYWQVKNSWSTYWGNQGYVL 46 (65)
Q Consensus 12 ~Hav~ivG~g~~~~~~yW~i~NSwg~~WG~~Gy~~ 46 (65)
.||-+|=||.. ..|+-+-=.||-. .+||++
T Consensus 163 GHawViDGy~~---~~~~H~NwGW~G~--~nGyy~ 192 (192)
T PF01640_consen 163 GHAWVIDGYDS---DGYFHCNWGWGGS--SNGYYR 192 (192)
T ss_dssp EEEEEEEEEES---SSEEEEE-SSTTT--T-EEEE
T ss_pred CeEEEEcCccC---CCeEEEeeCccCC--CCCccC
Confidence 79999999953 3466665566554 578874
No 33
>PHA02885 putative interleukin binding protein; Provisional
Probab=24.38 E-value=1.2e+02 Score=19.13 Aligned_cols=15 Identities=33% Similarity=0.486 Sum_probs=11.4
Q ss_pred eccCCeeEEEEEcCC
Q psy3964 21 GELDGKPYWQVKNSW 35 (65)
Q Consensus 21 g~~~~~~yW~i~NSw 35 (65)
..|++--||+..|+-
T Consensus 57 nsedgyiywi~pnnt 71 (135)
T PHA02885 57 NSEDGYIYWIGPNNT 71 (135)
T ss_pred cCCCceEEEEeCCCC
Confidence 356678899999974
No 34
>smart00230 CysPc Calpain-like thiol protease family. Calpain-like thiol protease family (peptidase family C2). Calcium activated neutral protease (large subunit).
Probab=21.88 E-value=1.3e+02 Score=21.09 Aligned_cols=28 Identities=21% Similarity=0.439 Sum_probs=21.5
Q ss_pred CCCeEEEEEEEeccCCee--EEEEEcCCCC
Q psy3964 10 GLDHAVLAVGYGELDGKP--YWQVKNSWST 37 (65)
Q Consensus 10 ~~~Hav~ivG~g~~~~~~--yW~i~NSwg~ 37 (65)
..+||-.|++...-++.. .-.++|-||.
T Consensus 226 v~~HaYsVl~v~~~~~~~~~Ll~lrNPWg~ 255 (318)
T smart00230 226 VKGHAYSVTDVREVQGRRQELLRLRNPWGQ 255 (318)
T ss_pred ccCccEEEEEEEEEecCCeEEEEEECCCCC
Confidence 358999999987644444 7899999983
Done!