Query 026234
Match_columns 241
No_of_seqs 132 out of 406
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 05:23:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026234.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026234hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0778 Protease, Ulp1 family 100.0 8E-40 1.7E-44 316.2 9.7 125 90-225 318-443 (511)
2 COG5160 ULP1 Protease, Ulp1 fa 100.0 2.7E-36 5.9E-41 290.7 8.6 131 86-227 377-508 (578)
3 PLN03189 Protease specific for 100.0 1.2E-33 2.5E-38 272.0 10.7 135 82-226 279-423 (490)
4 PF02902 Peptidase_C48: Ulp1 p 99.9 1.3E-22 2.9E-27 170.9 6.6 112 104-224 1-141 (216)
5 KOG0779 Protease, Ulp1 family 99.6 2.3E-16 5E-21 156.7 3.1 130 91-223 354-496 (595)
6 KOG3246 Sentrin-specific cyste 99.5 4E-14 8.6E-19 125.3 6.5 129 90-231 17-160 (223)
7 KOG0779 Protease, Ulp1 family 88.3 0.1 2.2E-06 53.0 -1.1 138 86-225 97-254 (595)
8 PF03290 Peptidase_C57: Vaccin 73.4 5.8 0.00013 38.9 4.9 71 160-230 229-320 (423)
9 PRK11836 deubiquitinase; Provi 51.2 16 0.00036 34.9 3.4 23 158-180 215-237 (403)
10 PRK14848 deubiquitinase SseL; 30.9 30 0.00065 32.6 1.7 17 164-180 190-206 (317)
11 PF06051 DUF928: Domain of Unk 26.9 40 0.00086 29.4 1.7 17 169-185 89-105 (189)
12 COG5026 Hexokinase [Carbohydra 23.3 1.7E+02 0.0037 29.5 5.4 103 55-159 57-175 (466)
13 PF09369 DUF1998: Domain of un 20.6 1.5E+02 0.0033 21.8 3.6 41 191-231 33-77 (84)
No 1
>KOG0778 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8e-40 Score=316.25 Aligned_cols=125 Identities=22% Similarity=0.278 Sum_probs=113.8
Q ss_pred eeeeeccceecccCCCCChHHHHHHHHHHHhhcCcc-cCCcEEEEeccccccccCCCCccchhhhhcccCCcccceEEEe
Q 026234 90 SSVKCKDMITKRKKNKLDSGKFEHLLDNLWRSFSED-KKAGFTYLDSLWFDLYRKPSSKAKVLTWIKRKHIFSKKYVLVP 168 (241)
Q Consensus 90 ~~v~~~D~i~l~~~~wLND~IInFYl~~L~~~~~~~-~~~~~h~FnSFFy~kL~~~~~y~~VkrWTKkvDIFskdyIfVP 168 (241)
++||..|+.||++++||||+||||||++|.++...+ +.+++|+||||||++|.. .||++|+||||++|||++|+||||
T Consensus 318 i~It~~dl~tl~~~~WLNDevINfYm~ll~ers~~~~~yp~~h~FnTFFy~kL~~-~gy~~VkRWTk~v~if~~d~i~vP 396 (511)
T KOG0778|consen 318 IDITGKDLQTLRPGNWLNDEVINFYMELLKERSKKDSKYPKVHAFNTFFYTKLVG-RGYAGVKRWTKKVDIFDKDIIFVP 396 (511)
T ss_pred ccccHHHHhhccCccchhHHHHHHHHHHHHhhccccCCCceEEEEechhhhhhhh-cchHHHHhHhhccCccccceeEee
Confidence 999999999999999999999999999999997654 378999999999999995 589999999999999999999999
Q ss_pred ccCCCceeEEEEecCCCCCCCCCCCceEEEEeCCCCCCCCChHHHHHHHHHHHHhhh
Q 026234 169 IVCWRHWNLLILCNFGGSFESKTRTPCMLLLDSLEMSNPWRFEPDIRKYVTLYFFGV 225 (241)
Q Consensus 169 In~~~HWsL~IIc~p~~~~~~~~~~p~Il~lDSL~~~~~~~l~~~IR~YL~~E~k~~ 225 (241)
||..+|||||||. .+.++|.|||||+|..++.+ +.|.+||++|+.++
T Consensus 397 IH~~vHW~l~vid---------~r~k~i~y~DS~~~~~nr~~-~aL~~Yl~~E~~~k 443 (511)
T KOG0778|consen 397 IHLGVHWCLAVID---------LREKTIEYYDSLGGGPNRIC-DALAKYLQDESRDK 443 (511)
T ss_pred eecCceEEEEEEE---------cccceEEEeeccCCCCcchH-HHHHHHHHHHHhhh
Confidence 9999999999995 45699999999998644544 89999999999544
No 2
>COG5160 ULP1 Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.7e-36 Score=290.67 Aligned_cols=131 Identities=21% Similarity=0.317 Sum_probs=119.3
Q ss_pred cccceeeeeccceecccCCCCChHHHHHHHHHHHhhcC-cccCCcEEEEeccccccccCCCCccchhhhhcccCCcccce
Q 026234 86 GKNSSSVKCKDMITKRKKNKLDSGKFEHLLDNLWRSFS-EDKKAGFTYLDSLWFDLYRKPSSKAKVLTWIKRKHIFSKKY 164 (241)
Q Consensus 86 gk~~~~v~~~D~i~l~~~~wLND~IInFYl~~L~~~~~-~~~~~~~h~FnSFFy~kL~~~~~y~~VkrWTKkvDIFskdy 164 (241)
++..+.||-+|+.+|++++||||+||||||+||.++.. ..+++++|+||||||++|.. .||++|+|||+++|||++||
T Consensus 377 ~~~~i~IT~~D~~~L~~~~wLNDtIIdFy~k~ls~~sk~~s~~~~vh~FnTFFYT~Lsr-rGy~gVrrW~kk~dif~~k~ 455 (578)
T COG5160 377 DRSSIEITNQDFKRLRNGDWLNDTIIDFYMKLLSKISKNTSKREQVHLFNTFFYTKLSR-RGYSGVRRWTKKTDIFSKKY 455 (578)
T ss_pred CcCcceeehHhhhhhccccchhhHHHHHHHHHHHHhccCcccccceEEeehhhHHHHHH-HHhHHHHHHHhccCccccce
Confidence 88999999999999999999999999999999966543 34688999999999999984 58999999999999999999
Q ss_pred EEEeccCCCceeEEEEecCCCCCCCCCCCceEEEEeCCCCCCCCChHHHHHHHHHHHHhhhhh
Q 026234 165 VLVPIVCWRHWNLLILCNFGGSFESKTRTPCMLLLDSLEMSNPWRFEPDIRKYVTLYFFGVFV 227 (241)
Q Consensus 165 IfVPIn~~~HWsL~IIc~p~~~~~~~~~~p~Il~lDSL~~~~~~~l~~~IR~YL~~E~k~~~~ 227 (241)
||||||..+||+|||||++. +.|+|+|||++. +..+.+.||.||.+|||..-.
T Consensus 456 I~iPIni~~HW~l~II~~~~---------~~i~~~DSLan~-~~~v~~~L~~Y~ldE~k~~~~ 508 (578)
T COG5160 456 IFIPINISYHWFLAIIDNPK---------KNILYFDSLANT-HDPVLEFLRSYLLDEYKIQHD 508 (578)
T ss_pred EEEEecccceEEEEEeecCc---------ceeEEecccccC-cHHHHHHHHHHHHHHHhcccC
Confidence 99999999999999999775 899999999996 577888999999999987543
No 3
>PLN03189 Protease specific for SMALL UBIQUITIN-RELATED MODIFIER (SUMO); Provisional
Probab=100.00 E-value=1.2e-33 Score=272.03 Aligned_cols=135 Identities=16% Similarity=0.198 Sum_probs=117.5
Q ss_pred eeee-cccceeeeeccceecccCCCCChHHHHHHHHHHHhhcC--cccCCcEEEEeccccccccCC---CCccchhhhhc
Q 026234 82 SLIK-GKNSSSVKCKDMITKRKKNKLDSGKFEHLLDNLWRSFS--EDKKAGFTYLDSLWFDLYRKP---SSKAKVLTWIK 155 (241)
Q Consensus 82 ~l~y-gk~~~~v~~~D~i~l~~~~wLND~IInFYl~~L~~~~~--~~~~~~~h~FnSFFy~kL~~~---~~y~~VkrWTK 155 (241)
+++. ++..++||.+|+.+|.|++||||+||||||++|.++.. +...+++|+||||||++|.+. .+|++|+|||+
T Consensus 279 vlvs~~~~~i~IT~~DL~~L~Pg~WLNDeVINfYm~LL~er~~~~p~~~~k~h~FNTFFytkL~~~~~~ygY~~VrRWTk 358 (490)
T PLN03189 279 VLVTHENSNIDITGEILRCLKPGAWLNDEVINLYLELLKEREAREPKKFLKCHFFNTFFYKKLVSGKSGYDYKAVRRWTT 358 (490)
T ss_pred eeeecCCCceEEEHHHhhccCCCCccCHHHHHHHHHHHHHhhhcCcccccceEEEehHHHHHHhhcCCcCChHHHHHHhh
Confidence 3444 67789999999999999999999999999999988643 234568999999999999764 27999999997
Q ss_pred c----cCCcccceEEEeccCCCceeEEEEecCCCCCCCCCCCceEEEEeCCCCCCCCChHHHHHHHHHHHHhhhh
Q 026234 156 R----KHIFSKKYVLVPIVCWRHWNLLILCNFGGSFESKTRTPCMLLLDSLEMSNPWRFEPDIRKYVTLYFFGVF 226 (241)
Q Consensus 156 k----vDIFskdyIfVPIn~~~HWsL~IIc~p~~~~~~~~~~p~Il~lDSL~~~~~~~l~~~IR~YL~~E~k~~~ 226 (241)
+ ++||++|+||||||.+.||+|+||+++. ++|+|||||++.++. +.+.|++||.+|++++.
T Consensus 359 ~kKigv~Lfs~D~IFIPIh~n~HWsLaVId~k~---------k~I~yyDSLgg~~~~-vL~~L~rYL~~E~kdK~ 423 (490)
T PLN03189 359 QKKLGYHLIDCDKIFVPIHQEIHWTLAVINKKD---------QKFQYLDSLKGRDPK-ILDALAKYYVDEVKDKS 423 (490)
T ss_pred hcccccccccCceEEeeeecCCeeEEEEEEcCC---------CeEEEEeCCCCCCHH-HHHHHHHHHHHHHhhhc
Confidence 5 4799999999999999999999999875 799999999998665 55789999999998765
No 4
>PF02902 Peptidase_C48: Ulp1 protease family, C-terminal catalytic domain This family belongs to family C48 of the peptidase classification.; InterPro: IPR003653 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 contain cysteine peptidases belonging to MEROPS peptidase family C48 (Ulp1 endopeptidase family, clan CE). The protein fold of the peptidase domain for members of this family resembles that of adenain, the type example for clan CE. This group of sequences also contains a number of hypothetical proteins, which have not yet been characterised, and non-peptidase homologues. These are proteins that have either been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of the peptidases in the family. The Ulp1 endopeptidase family contain the deubiquitinating enzymes (DUB) that can de-conjugate ubiquitin or ubiquitin-like proteins from ubiquitin-conjugated proteins. They can be classified in 3 families according to sequence homology [, ]: Ubiquitin carboxyl-terminal hydrolase (UCH) (see PDOC00127 from PROSITEDOC), Ubiquitin-specific processing protease (UBP) (see PDOC00750 from PROSITEDOC), and ubiquitin-like protease (ULP) specific for de-conjugating ubiquitin-like proteins. In contrast to the UBP pathway, which is very redundant (16 UBP enzymes in yeast), there are few ubiquitin-like proteases (only one in yeast, Ulp1). Ulp1 catalyses two critical functions in the SUMO/Smt3 pathway via its cysteine protease activity. Ulp1 processes the Smt3 C-terminal sequence (-GGATY) to its mature form (-GG), and it de-conjugates Smt3 from the lysine epsilon-amino group of the target protein []. Crystal structure of yeast Ulp1 bound to Smt3 [] revealed that the catalytic and interaction interface is situated in a shallow and narrow cleft where conserved residues recognise the Gly-Gly motif at the C-terminal extremity of Smt3 protein. Ulp1 adopts a novel architecture despite some structural similarity with other cysteine protease. The secondary structure is composed of seven alpha helices and seven beta strands. The catalytic domain includes the central alpha helix, beta-strands 4 to 6, and the catalytic triad (Cys-His-Asp). This profile is directed against the C-terminal part of ULP proteins that displays full proteolytic activity [].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1EUV_A 2HL8_A 2HKP_A 2HL9_A 1XT9_A 2BKQ_C 2BKR_A 2IO1_E 1TH0_B 1TGZ_A ....
Probab=99.87 E-value=1.3e-22 Score=170.89 Aligned_cols=112 Identities=21% Similarity=0.389 Sum_probs=90.7
Q ss_pred CCCChHHHHHHHHHHHhhc--CcccCCcEEEEeccccccccCC-------------------CCccchhhhhccc---CC
Q 026234 104 NKLDSGKFEHLLDNLWRSF--SEDKKAGFTYLDSLWFDLYRKP-------------------SSKAKVLTWIKRK---HI 159 (241)
Q Consensus 104 ~wLND~IInFYl~~L~~~~--~~~~~~~~h~FnSFFy~kL~~~-------------------~~y~~VkrWTKkv---DI 159 (241)
+||||+||||||++|.++. .+...+++++|||+|++++... ..+.++.+|++.. ++
T Consensus 1 ~wLnd~iId~y~~~l~~~~~~~~~~~~~~~~~~~~f~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (216)
T PF02902_consen 1 EWLNDSIIDFYLEYLRHRLESENKNSKRVHFFSSFFYQKLTECFKQFKKDKERSKFKWNESKDFYNGVQRWFRKKNKKNL 80 (216)
T ss_dssp --EEHHHHHHHHHHHHHHTCCTHHTSTTEEEE-THHHHHHH----HHHCCH--S-----HHHHCHHHCGGGGTTCCTSTG
T ss_pred CcCCHHHHHHHHHHHHHhhccCccCCCcEEEECceeeeccccccccccccccccccchhhhhHhhhhhhhhhhccccccc
Confidence 6999999999999998654 3456789999999999988711 1468999999887 99
Q ss_pred cccceEEEeccC-CCceeEEEEecCCCCCCCCCCCceEEEEeCCCCCCC----CChHHHHHHHHHHHHhh
Q 026234 160 FSKKYVLVPIVC-WRHWNLLILCNFGGSFESKTRTPCMLLLDSLEMSNP----WRFEPDIRKYVTLYFFG 224 (241)
Q Consensus 160 FskdyIfVPIn~-~~HWsL~IIc~p~~~~~~~~~~p~Il~lDSL~~~~~----~~l~~~IR~YL~~E~k~ 224 (241)
|++|+||+|||. +.||+|+||+.+. .+|.+||||++... ......++.||..++..
T Consensus 81 ~~~~~i~iPin~~~~HW~l~vi~~~~---------~~i~~~DSl~~~~~~~~~~~~~~~~~~~l~~~~~~ 141 (216)
T PF02902_consen 81 FDKDYIFIPININNNHWVLLVIDLPK---------KRIYVYDSLGSSNNDKRYKRVIENIIPFLKREYKK 141 (216)
T ss_dssp GGSSEEEEEEEETTTEEEEEEEETTT---------TEEEEE-TTSTSSH-HHHHHHHHHHHHHHHHHHHH
T ss_pred cccCEEEEEEechhhccceeEEcccc---------cEEEEEeccccccccccchhhhhhhhhhhhhcccc
Confidence 999999999999 8999999999876 68999999999754 13446789999988854
No 5
>KOG0779 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=2.3e-16 Score=156.73 Aligned_cols=130 Identities=19% Similarity=0.352 Sum_probs=103.1
Q ss_pred eeeeccceecccCCCCChHHHHHHHHHHHhh-cC-cccCCcEEEEeccccccccCC-----------CCccchhhhhccc
Q 026234 91 SVKCKDMITKRKKNKLDSGKFEHLLDNLWRS-FS-EDKKAGFTYLDSLWFDLYRKP-----------SSKAKVLTWIKRK 157 (241)
Q Consensus 91 ~v~~~D~i~l~~~~wLND~IInFYl~~L~~~-~~-~~~~~~~h~FnSFFy~kL~~~-----------~~y~~VkrWTKkv 157 (241)
+|+..|+..+..+++|||.|+|||++++... +. .+..+..|+|++|||.++... ....++++|++.+
T Consensus 354 ~v~~~Dl~cl~~~e~L~d~i~dfyl~~i~~~~l~~~~~s~~~h~f~tffyk~l~~~~~~~~~d~~~~~~~~~~~~~~~~~ 433 (595)
T KOG0779|consen 354 QVNNNDLVCLEEGEFLNDTIKDFYLEYIRQYLLSQKELSNDRHIFSTFFYKRLCRKLRQKSNDQIQDNRAVRLRTWTRHF 433 (595)
T ss_pred ceeccchhhccccchhhhhhhhhhhHHHHHhhhcccccCcchhhhhhHHHhhhhhhhhhhhhhhhhccccCceeeeeecc
Confidence 8999999999999999999999999999754 33 556788999999999987653 1568899999999
Q ss_pred CCcccceEEEeccCCCceeEEEEecCCCCCCCCCCCceEEEEeCCCCCCCCChHHHHHHHHHHHHh
Q 026234 158 HIFSKKYVLVPIVCWRHWNLLILCNFGGSFESKTRTPCMLLLDSLEMSNPWRFEPDIRKYVTLYFF 223 (241)
Q Consensus 158 DIFskdyIfVPIn~~~HWsL~IIc~p~~~~~~~~~~p~Il~lDSL~~~~~~~l~~~IR~YL~~E~k 223 (241)
|+|.++||++|+|+..||.|+|||+|+...++... .+..++++......+...+..++..+|.
T Consensus 434 d~~~k~yi~~P~~E~~hw~laiic~p~~e~es~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 496 (595)
T KOG0779|consen 434 DLFNKDYVFVPTHERFHWKLAIICNPDLETETPRP---RLELLILKLSADFPIVENILDFMKVASI 496 (595)
T ss_pred ccccceeEEecCchHhhhhccccccCccccCcccc---chhhhhhccccccchhhhhhhhhhhccc
Confidence 99999999999999999999999999876544322 3444555544444445566667666663
No 6
>KOG3246 consensus Sentrin-specific cysteine protease (Ulp1 family) [General function prediction only]
Probab=99.49 E-value=4e-14 Score=125.29 Aligned_cols=129 Identities=16% Similarity=0.270 Sum_probs=93.8
Q ss_pred eeeeeccceecccCCCCChHHHHHHHHHHHhhcCcccCCcEEEEec---cccccccCCCCccchhhhhcccCCcccceEE
Q 026234 90 SSVKCKDMITKRKKNKLDSGKFEHLLDNLWRSFSEDKKAGFTYLDS---LWFDLYRKPSSKAKVLTWIKRKHIFSKKYVL 166 (241)
Q Consensus 90 ~~v~~~D~i~l~~~~wLND~IInFYl~~L~~~~~~~~~~~~h~FnS---FFy~kL~~~~~y~~VkrWTKkvDIFskdyIf 166 (241)
+.++..|+..|++..||||.+|+||.+||..+-... .+..|+++. ||.. ....-+.+..-....|+++|+|||
T Consensus 17 v~Lr~sDVdlL~~p~wlnD~~I~F~~e~l~~~~~~s-~~~~~ll~P~~t~~l~---~~~~~~e~~~~~~pl~l~~k~~if 92 (223)
T KOG3246|consen 17 VSLRQSDVDLLQPPEWLNDRLIDFYYEYLEHRRSRS-EPDLHLLRPSLTFFLR---HAPNPEEIAMVLDPLDLNDKDFIF 92 (223)
T ss_pred hhhhhhhhhhcCCCchhhhhHHHHHHHHHHHhhccc-CcchhccCHHHHHHHH---hCCCcHHHHHhcChhhcCCCceEE
Confidence 445667888999999999999999999997653222 122466553 3332 222345666666778999999999
Q ss_pred EeccCC---------CceeEEEEecCCCCCCCCCCCceEEEEeCCCCCCCC---ChHHHHHHHHHHHHhhhhhcccc
Q 026234 167 VPIVCW---------RHWNLLILCNFGGSFESKTRTPCMLLLDSLEMSNPW---RFEPDIRKYVTLYFFGVFVCLCT 231 (241)
Q Consensus 167 VPIn~~---------~HWsL~IIc~p~~~~~~~~~~p~Il~lDSL~~~~~~---~l~~~IR~YL~~E~k~~~~~~~~ 231 (241)
+|||.+ .||+|.|+.-|. -...||||+++.+.. .+.++++.+|..+....-+|.|.
T Consensus 93 lpiNDn~~~~~~~GGsHWSLLV~sr~~---------~~f~hyDS~~n~nt~~a~~l~~kl~~ll~~~~~~~~~~~~~ 160 (223)
T KOG3246|consen 93 LPINDNSNVTRASGGSHWSLLVFSRPD---------GKFYHYDSLSNGNTKDAKSLMKKLRALLKKKFAKRVECKCL 160 (223)
T ss_pred EEecCCCcccccCCCcceEEEEEEeeC---------CcEEEeecccCCCcHHHHHHHHHHHHHHhhhhhhcccccCh
Confidence 999974 399999997765 569999999997543 45668898888876554366654
No 7
>KOG0779 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=88.32 E-value=0.1 Score=52.99 Aligned_cols=138 Identities=13% Similarity=0.120 Sum_probs=94.3
Q ss_pred cccceeeeeccceecccCCCCChHHHHHHHHHHHhhcCcccCCcEEEEeccccccccCC-----------CCccchhhhh
Q 026234 86 GKNSSSVKCKDMITKRKKNKLDSGKFEHLLDNLWRSFSEDKKAGFTYLDSLWFDLYRKP-----------SSKAKVLTWI 154 (241)
Q Consensus 86 gk~~~~v~~~D~i~l~~~~wLND~IInFYl~~L~~~~~~~~~~~~h~FnSFFy~kL~~~-----------~~y~~VkrWT 154 (241)
++...++... .+..-+..+-|++...+|..++ .+.........++|++.+|.++... -.+..|.+|+
T Consensus 97 ~~~~~~~~~~-~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~~ 174 (595)
T KOG0779|consen 97 QKPHAVVPKK-IISVSELRNTNLTEGTFYSDYL-NRIKNIFESVRKFFNQVSYPKFMPNVTSFMPSPLEKCQLQRVFTWT 174 (595)
T ss_pred cCCccccccc-cccchhccccCCcccceecccc-cccccccchhcchhhhcccccccchhhcccCCccccccccccccee
Confidence 4444444433 3455567788999999999988 6655555667899999999876542 1567777788
Q ss_pred --cccCCcccceEEEeccCCCceeEEEEecCCCCCCC---CCCCceEEEEeCCCC--C--CCCChHHHHHHHHHHHHhhh
Q 026234 155 --KRKHIFSKKYVLVPIVCWRHWNLLILCNFGGSFES---KTRTPCMLLLDSLEM--S--NPWRFEPDIRKYVTLYFFGV 225 (241)
Q Consensus 155 --KkvDIFskdyIfVPIn~~~HWsL~IIc~p~~~~~~---~~~~p~Il~lDSL~~--~--~~~~l~~~IR~YL~~E~k~~ 225 (241)
....+|.+++|.++.++..||.+..++.+.....+ +....++..+++-.+ . ........+..++..+|+..
T Consensus 175 i~i~~~~~~~~fi~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~s~~~~~~ 254 (595)
T KOG0779|consen 175 INITRKLFKKLFIKIFKNEPFHFKAVKFLLPSALTKSDVCDIADLEVIFLNSRKDSHSLVISSINSPNIKTFFSKEVKSR 254 (595)
T ss_pred eeeeecchhhhcccCcccCchhhhhhhcccchhccchhhhhhhcccccchhcccchhhhhhcccccccchhhhccccccC
Confidence 66789999999999999999999999999765432 233556666666555 1 11122234566666666544
No 8
>PF03290 Peptidase_C57: Vaccinia virus I7 processing peptidase; InterPro: IPR004970 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 is a group of cysteine peptidases which constitute MEROPS peptidase family C57 (clan CE). The type example is vaccinia virus I7 processing peptidase (vaccinia virus); protein I7 is expressed in the late phase of infection [].
Probab=73.37 E-value=5.8 Score=38.87 Aligned_cols=71 Identities=14% Similarity=0.111 Sum_probs=41.9
Q ss_pred cccceEEEeccCCCceeEEEEecCCCCC---CCC-------CCCceEEEEeCCCCCC--CC---------ChHHHHHHHH
Q 026234 160 FSKKYVLVPIVCWRHWNLLILCNFGGSF---ESK-------TRTPCMLLLDSLEMSN--PW---------RFEPDIRKYV 218 (241)
Q Consensus 160 FskdyIfVPIn~~~HWsL~IIc~p~~~~---~~~-------~~~p~Il~lDSL~~~~--~~---------~l~~~IR~YL 218 (241)
=++.|+.+|.....||-.+|+.-....- +|. -+-+...+|+.-.|-+ .. .=.+.|.+|+
T Consensus 229 ~~~RyvmFgfcY~~Hwkc~IfDk~~~~v~FydSgG~~P~efhhy~nfyFysfs~gfn~n~~~~s~l~n~n~dIDVLfrfF 308 (423)
T PF03290_consen 229 SKKRYVMFGFCYMSHWKCCIFDKEKKIVYFYDSGGNIPEEFHHYKNFYFYSFSDGFNRNNKSTSNLDNENCDIDVLFRFF 308 (423)
T ss_pred ccccEEEeeeeehhcceEEEEeccccEEEEEcCCCCCHHHcCcCCceEEEEccCccccCCCcccccccccCchHHHHHHH
Confidence 3578999999999999999984332110 111 1122233333222211 00 0145789999
Q ss_pred HHHHhhhhhccc
Q 026234 219 TLYFFGVFVCLC 230 (241)
Q Consensus 219 ~~E~k~~~~~~~ 230 (241)
.+.+....-|+-
T Consensus 309 ~d~f~~~~gciN 320 (423)
T PF03290_consen 309 EDSFGVKYGCIN 320 (423)
T ss_pred HhhcccceeEEE
Confidence 999988877764
No 9
>PRK11836 deubiquitinase; Provisional
Probab=51.25 E-value=16 Score=34.92 Aligned_cols=23 Identities=35% Similarity=0.527 Sum_probs=18.4
Q ss_pred CCcccceEEEeccCCCceeEEEE
Q 026234 158 HIFSKKYVLVPIVCWRHWNLLIL 180 (241)
Q Consensus 158 DIFskdyIfVPIn~~~HWsL~II 180 (241)
.+.-++.=++|||-+.||.|+..
T Consensus 215 ~~~~k~~elFpINtg~HWil~~l 237 (403)
T PRK11836 215 PSWPKEVQLFPINTGGHWILVSL 237 (403)
T ss_pred CCCcccceEEEecCCCcEEEEEe
Confidence 34456677789999999999976
No 10
>PRK14848 deubiquitinase SseL; Provisional
Probab=30.86 E-value=30 Score=32.56 Aligned_cols=17 Identities=24% Similarity=0.350 Sum_probs=14.1
Q ss_pred eEEEeccCCCceeEEEE
Q 026234 164 YVLVPIVCWRHWNLLIL 180 (241)
Q Consensus 164 yIfVPIn~~~HWsL~II 180 (241)
.=++|||-+.||.|+..
T Consensus 190 nevF~INtg~HWil~~~ 206 (317)
T PRK14848 190 NEVFLINTGDHWLLCLF 206 (317)
T ss_pred ceEEEecCCCcEEEEEh
Confidence 34589999999999876
No 11
>PF06051 DUF928: Domain of Unknown Function (DUF928); InterPro: IPR010328 This is a family of uncharacterised bacterial proteins.
Probab=26.92 E-value=40 Score=29.38 Aligned_cols=17 Identities=12% Similarity=0.386 Sum_probs=13.7
Q ss_pred ccCCCceeEEEEecCCC
Q 026234 169 IVCWRHWNLLILCNFGG 185 (241)
Q Consensus 169 In~~~HWsL~IIc~p~~ 185 (241)
++..+||++.|+|++..
T Consensus 89 ~gk~Y~W~~~l~Cd~~~ 105 (189)
T PF06051_consen 89 VGKTYRWYFSLICDPQD 105 (189)
T ss_pred CCCeEEEEEEEEECCCC
Confidence 45568999999998754
No 12
>COG5026 Hexokinase [Carbohydrate transport and metabolism]
Probab=23.34 E-value=1.7e+02 Score=29.51 Aligned_cols=103 Identities=14% Similarity=0.206 Sum_probs=54.4
Q ss_pred eeeccccccccccCCccccc--cccCCc----ceeee--cccceeeeeccceecccCCCCCh----HHHHHHHHHH----
Q 026234 55 FELTAPCFLGTFSCRRRSKR--RVKCKN----TSLIK--GKNSSSVKCKDMITKRKKNKLDS----GKFEHLLDNL---- 118 (241)
Q Consensus 55 ~~~~~p~~~~~~p~~~~~~~--~~~~~~----~~l~y--gk~~~~v~~~D~i~l~~~~wLND----~IInFYl~~L---- 118 (241)
+-+-.|.++...|...-++. .++-+. ..+|- |.+...++..+.. -|.+..++ +++.|--.-|
T Consensus 57 ~l~MIP~~v~~~p~g~e~g~~LaiD~GGTnlRvc~V~l~g~gt~~~~~sks~--lp~e~~~~~~~~~l~~~iadrl~~fi 134 (466)
T COG5026 57 FLPMIPTWVAPLPTGNESGSVLAIDLGGTNLRVCLVVLGGDGTFDIEQSKSF--LPVECRDSESRDELFGFIADRLAAFI 134 (466)
T ss_pred ccccccccccCCCCCCCCCCEEEEecCCceEEEEEEEeCCCCCcccccCccc--CchhhccCCChHHHHHHHHHHHHHHH
Confidence 46778888887776533322 233332 22333 6788888877644 36777665 4444422222
Q ss_pred HhhcCcccCCcEEEEeccccccccCCCCccchhhhhcccCC
Q 026234 119 WRSFSEDKKAGFTYLDSLWFDLYRKPSSKAKVLTWIKRKHI 159 (241)
Q Consensus 119 ~~~~~~~~~~~~h~FnSFFy~kL~~~~~y~~VkrWTKkvDI 159 (241)
.++..+....++-+==||=|..-...-|-..|.||||..+|
T Consensus 135 ~~~~~~~~~~~l~~gfTFSYP~~q~sin~g~l~rwTKgf~i 175 (466)
T COG5026 135 KEQHPSGYGSKLPIGFTFSYPLNQTSINEGQLIRWTKGFDI 175 (466)
T ss_pred HHhCchhccCcceeeEEEeccccccccCceeeEeecccCcc
Confidence 22222222222323234444433322356789999998776
No 13
>PF09369 DUF1998: Domain of unknown function (DUF1998); InterPro: IPR018973 This entry represents a family of DEAD/DEAH-box-containing family of helicases. It includes Hrq1 from Saccharomyces, a putative RecQ helicase []. RecQ helicases are involved in maintaining genomic integrity.
Probab=20.62 E-value=1.5e+02 Score=21.81 Aligned_cols=41 Identities=15% Similarity=0.199 Sum_probs=27.9
Q ss_pred CCCceEEEEeCCCCC-C-CCChHHH--HHHHHHHHHhhhhhcccc
Q 026234 191 TRTPCMLLLDSLEMS-N-PWRFEPD--IRKYVTLYFFGVFVCLCT 231 (241)
Q Consensus 191 ~~~p~Il~lDSL~~~-~-~~~l~~~--IR~YL~~E~k~~~~~~~~ 231 (241)
...+.|++||+..|. + ..++.+. +.+-|..-++.+-.|-|.
T Consensus 33 ~~~~~i~lyD~~~GG~G~~~~l~~~~~~~~ll~~A~~~~~~C~C~ 77 (84)
T PF09369_consen 33 QGPPRIFLYDTVPGGAGYAERLFERERFEELLRRALELLEECDCD 77 (84)
T ss_pred CCccEEEEEECCCCchhhHhhhcChhHHHHHHHHHHHHHHcCCcc
Confidence 457899999998764 2 2445455 666677666777767663
Done!