Query 043458
Match_columns 736
No_of_seqs 185 out of 408
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 05:16:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043458.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043458hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04153 NOT2_3_5: NOT2 / NOT3 100.0 4.3E-41 9.2E-46 310.5 10.6 124 603-728 1-134 (134)
2 COG5601 CDC36 General negative 100.0 2E-38 4.3E-43 299.6 3.3 162 566-728 1-172 (172)
3 COG5665 NOT5 CCR4-NOT transcri 99.9 5.1E-27 1.1E-31 247.5 5.4 105 623-730 439-546 (548)
4 KOG2150 CCR4-NOT transcription 99.9 1.7E-26 3.7E-31 252.4 8.1 122 606-730 441-574 (575)
5 KOG2151 Predicted transcriptio 99.9 2.4E-23 5.2E-28 215.8 5.4 133 540-674 179-312 (312)
6 KOG2151 Predicted transcriptio 99.7 4.5E-17 9.8E-22 169.5 5.1 169 549-729 3-175 (312)
7 PHA02456 zinc metallopeptidase 41.1 25 0.00054 34.2 2.9 60 32-102 42-103 (141)
8 PF05523 FdtA: WxcM-like, C-te 15.7 1.3E+02 0.0028 28.6 2.7 35 644-689 29-63 (131)
9 PF00770 Peptidase_C5: Adenovi 11.2 36 0.00078 35.0 -2.5 31 703-733 47-78 (183)
10 PTZ00186 heat shock 70 kDa pre 10.8 95 0.0021 36.8 0.3 29 436-464 624-652 (657)
No 1
>PF04153 NOT2_3_5: NOT2 / NOT3 / NOT5 family; InterPro: IPR007282 NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=100.00 E-value=4.3e-41 Score=310.54 Aligned_cols=124 Identities=51% Similarity=0.941 Sum_probs=115.8
Q ss_pred hhhhcCCCCCCCCC-CCCCccCCCCCCc------CCCCCCC---cchhhccCCcceEEEEeecCCCcHHHHHHHHHHhhc
Q 043458 603 LHKTFGSPWSDEPA-KGDPEFTVPQCYY------AKQPPAL---HQGYFSKFTVETLFYIFYSMPKDEAQLYAANELYNR 672 (736)
Q Consensus 603 Ly~TF~SPWsd~P~-r~DPEF~IPsCY~------~qqPPpL---q~~kfqKFseETLFYIFYsmPGD~lQllAA~ELynR 672 (736)
||++|.+||++.++ ..+++|.+|.||. ++.|+++ .+.+|++|++||||||||++|+|++|++||+||++|
T Consensus 1 L~~sf~sp~~~~~~~~~~~~y~~P~~~~~~~~~~p~~p~~~~~~~~~~~~k~~~eTLFyiFY~~p~~~~Q~~AA~eL~~R 80 (134)
T PF04153_consen 1 LYSSFASPPSDSDSRQQEPQYQIPSCYLPTPSSYPQRPPPIILDSPEKFQKFSEETLFYIFYYMPGDYQQLLAAKELYKR 80 (134)
T ss_pred CccccCCCCCCCCCCCCCCCCCCCCCcCcCccccCCCcCcccccchHHHhhcCCceEEEEEeecCCcHHHHHHHHHHHHC
Confidence 68999999999988 7899999999998 4556555 678999999999999999999999999999999999
Q ss_pred CceeeccceeeeeccCCCCCcccCCcceeeEEEEEccccccccccCceeEechhhh
Q 043458 673 GWFYHKEHRLWFIRVPNVEPLVKTNAYERGSYHCFDPNTFETIRKDNFVVHYEMLE 728 (736)
Q Consensus 673 GWRYHKe~rlWFtR~~n~ePkvkT~~yErGsYiyFDp~tW~kvrKENFvLdYe~LE 728 (736)
+|||||++++||+|++ ++.+.++.+|+|+|+|||+++|++++|+||+|+|++||
T Consensus 81 ~Wryhk~~~~W~~r~~--~~~~~~~~~e~g~y~~FD~~~W~~~~k~~f~~~y~~LE 134 (134)
T PF04153_consen 81 GWRYHKEYKTWFQRDS--EPKPITEQYERGSYVYFDPESWEKRRKKNFTFDYSDLE 134 (134)
T ss_pred CcEEecCcCEEeeECC--CCCccccceeeeeEEEechHHhcCcchhccEEeHHHcC
Confidence 9999999999999988 66788899999999999999999999889999999998
No 2
>COG5601 CDC36 General negative regulator of transcription subunit [Transcription]
Probab=100.00 E-value=2e-38 Score=299.65 Aligned_cols=162 Identities=33% Similarity=0.586 Sum_probs=144.1
Q ss_pred ccchhhhhhhcCCCCcccccccccccCCCCCC----CchhhhhhhcCCCCCCCCC-CCCCccCCCCCCcCCCCCCC----
Q 043458 566 GLLGLLSVIKMSDPDLTSLALGIDLTTLGLNL----NSTENLHKTFGSPWSDEPA-KGDPEFTVPQCYYAKQPPAL---- 636 (736)
Q Consensus 566 GLlGLLsvIRmsDPDLtSLALG~DLTtLGLNL----NS~E~Ly~TF~SPWsd~P~-r~DPEF~IPsCY~~qqPPpL---- 636 (736)
+|.-|+.+++++|.+++++.+|.||.++++++ .+.+.+..+|.|||++... +.+|.|.+|.||....+|++
T Consensus 1 ml~~l~pl~~ied~e~s~~~lg~Dl~s~~~sl~~p~~~qDr~~~t~~sPwae~tkk~vqp~f~lP~cy~n~p~pp~f~~~ 80 (172)
T COG5601 1 MLNILKPLEQIEDEEQSIHDLGKDLLSEILSLVRPKKYQDRPSTTLYSPWAESTKKPVQPMFMLPNCYPNAPNPPIFKVN 80 (172)
T ss_pred CchhhhhHHHHHHhhhhHHHhchhHHHHHHhhcCcccccccccccccChhhhhccCcccchhcCccccCCCCCCCceecc
Confidence 45678889999999999999999999988776 3345578889999999843 36899999999986555553
Q ss_pred -cchhhccCCcceEEEEeecCCCcHHHHHHHHHHhhcCceeeccceeeeeccCCCCCcccCCcceeeEEEEEcccccccc
Q 043458 637 -HQGYFSKFTVETLFYIFYSMPKDEAQLYAANELYNRGWFYHKEHRLWFIRVPNVEPLVKTNAYERGSYHCFDPNTFETI 715 (736)
Q Consensus 637 -q~~kfqKFseETLFYIFYsmPGD~lQllAA~ELynRGWRYHKe~rlWFtR~~n~ePkvkT~~yErGsYiyFDp~tW~kv 715 (736)
...++..|++||||||||++|+|++|+.|+.||.+|+|||||.+|+|+|.++.|+|.+.++..|||+|++|||..|+++
T Consensus 81 ~~~~k~~~f~dETLFyiFY~~P~dvlQe~ay~el~krnwrfhK~lk~wlT~~p~m~P~~~~~~~ergsyvfFDP~~W~k~ 160 (172)
T COG5601 81 IEDMKMDNFHDETLFYIFYSFPNDVLQEKAYDELLKRNWRFHKMLKCWLTFNPGMSPATADHVKERGSYVFFDPFSWSKV 160 (172)
T ss_pred hHHHHHHhhccceeEEEEeeCCcHHHHHHHHHHHHHhchhhhhhheeeeccCCCCCccccccccccceEEEEcchhHHHH
Confidence 2457899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCceeEechhhh
Q 043458 716 RKDNFVVHYEMLE 728 (736)
Q Consensus 716 rKENFvLdYe~LE 728 (736)
.++ |.|+|..++
T Consensus 161 ~~d-fll~y~av~ 172 (172)
T COG5601 161 SLD-FLLDYKAVR 172 (172)
T ss_pred hHH-HHHHHHhhC
Confidence 996 999998764
No 3
>COG5665 NOT5 CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=99.93 E-value=5.1e-27 Score=247.52 Aligned_cols=105 Identities=38% Similarity=0.640 Sum_probs=95.5
Q ss_pred CCCCCCcCCCCCCC--cchhhccCCcceEEEEeecCCCcHHHHHHHHHHhhcCceeeccceeeeeccCCCCCcccCCcce
Q 043458 623 TVPQCYYAKQPPAL--HQGYFSKFTVETLFYIFYSMPKDEAQLYAANELYNRGWFYHKEHRLWFIRVPNVEPLVKTNAYE 700 (736)
Q Consensus 623 ~IPsCY~~qqPPpL--q~~kfqKFseETLFYIFYsmPGD~lQllAA~ELynRGWRYHKe~rlWFtR~~n~ePkvkT~~yE 700 (736)
.+|. |++++|..+ ...+|.+|+.||||||||+.+|+++|++||+||++|.|||||+|++||+|.. ||+.+|+.+|
T Consensus 439 ~~Ps-~~P~~PL~~F~S~~if~k~D~DTLFfiFY~~~GTyQQY~Aa~eLKk~SWRFHkKY~TWFQR~~--EPK~IT~~~E 515 (548)
T COG5665 439 KAPS-KKPDDPLSRFSSARIFMKFDLDTLFFIFYHYQGTYQQYLAARELKKRSWRFHKKYRTWFQREI--EPKPITGKSE 515 (548)
T ss_pred CCCC-CCCCCccccccHHHHHHhcCccceEEEeeeccchHHHHHHHHHHHhhhhhhhcchhhhhhhhc--ccccccCccc
Confidence 3444 455666554 4678999999999999999999999999999999999999999999999998 9999999999
Q ss_pred eeEEEEEcc-ccccccccCceeEechhhhcC
Q 043458 701 RGSYHCFDP-NTFETIRKDNFVVHYEMLEKR 730 (736)
Q Consensus 701 rGsYiyFDp-~tW~kvrKENFvLdYe~LE~r 730 (736)
+|+|.|||+ .+|..++|.+|+|.|++||+.
T Consensus 516 ~Gs~ryFDy~~~W~~rKK~DF~F~Y~YLE~~ 546 (548)
T COG5665 516 EGSWRYFDYKKSWLARKKNDFVFNYEYLEKL 546 (548)
T ss_pred cCceeEeeccchHHHhhcccceeehhhhhhc
Confidence 999999998 699999999999999999974
No 4
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=99.93 E-value=1.7e-26 Score=252.36 Aligned_cols=122 Identities=32% Similarity=0.604 Sum_probs=103.6
Q ss_pred hcCCCCCCCCCC--------CCCc--cCCCCCCcCCCCCCC--cchhhccCCcceEEEEeecCCCcHHHHHHHHHHhhcC
Q 043458 606 TFGSPWSDEPAK--------GDPE--FTVPQCYYAKQPPAL--HQGYFSKFTVETLFYIFYSMPKDEAQLYAANELYNRG 673 (736)
Q Consensus 606 TF~SPWsd~P~r--------~DPE--F~IPsCY~~qqPPpL--q~~kfqKFseETLFYIFYsmPGD~lQllAA~ELynRG 673 (736)
.+..+|.-.|.. .+|. +..|. |+.+.++++ ...++.+|+.||||||||+++++++|++||+||++|.
T Consensus 441 ~~e~a~~~~~~psdsE~pq~y~pk~p~~tp~-~~~q~~~~~~ds~~~~~rl~~dTLFfiFY~~qgt~eQylAaKeLkk~s 519 (575)
T KOG2150|consen 441 ALEAACKLVPIPSDSEKPQGYLPKTPLPTPS-YFPQTPPSLTDSTEITERLDPDTLFFIFYYQQGTYEQYLAAKELKKRS 519 (575)
T ss_pred HHHhhhccCCCCchhhcccCCCCCCCCCCCc-cCCCCCCcccchhhHHhhccccceeeEEeeecchHHHHHHHHHHhhcc
Confidence 345555555443 3333 33443 445566655 4678999999999999999999999999999999999
Q ss_pred ceeeccceeeeeccCCCCCcccCCcceeeEEEEEccccccccccCceeEechhhhcC
Q 043458 674 WFYHKEHRLWFIRVPNVEPLVKTNAYERGSYHCFDPNTFETIRKDNFVVHYEMLEKR 730 (736)
Q Consensus 674 WRYHKe~rlWFtR~~n~ePkvkT~~yErGsYiyFDp~tW~kvrKENFvLdYe~LE~r 730 (736)
|||||++.+||+|+. ||+..|+.||+|+|+|||+..|+.++|++|+|+|.+||+.
T Consensus 520 Wrfhkky~tWFqR~~--EpK~itd~~E~G~y~yFD~~~W~qrkK~dFtfeY~yLE~~ 574 (575)
T KOG2150|consen 520 WRFHKKYTTWFQRHE--EPKNITDIYEQGDYRYFDYKDWSQRKKIDFTFEYQYLEDS 574 (575)
T ss_pred eeEeecceeEeeecc--CccchhhhhhcCceEEEehhHhhhhhccceeeehhhccCC
Confidence 999999999999998 9999999999999999999999999999999999999975
No 5
>KOG2151 consensus Predicted transcriptional regulator [Transcription; Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=99.88 E-value=2.4e-23 Score=215.76 Aligned_cols=133 Identities=35% Similarity=0.643 Sum_probs=124.2
Q ss_pred hhcccccccCCCccccccCCCCCCCcccchhhhhhhcCCC-CcccccccccccCCCCCCCchhhhhhhcCCCCCCCCCCC
Q 043458 540 MSAVNQSFRNQDMKSIQAAHSTPDPFGLLGLLSVIKMSDP-DLTSLALGIDLTTLGLNLNSTENLHKTFGSPWSDEPAKG 618 (736)
Q Consensus 540 ~s~~~Qs~rD~slks~Q~~~s~~D~FGLlGLLsvIRmsDP-DLtSLALG~DLTtLGLNLNS~E~Ly~TF~SPWsd~P~r~ 618 (736)
.....|+.+|..+..+.++| ..++|||+|||..||..+. ..+.+.+|.||+++|++++.+++++.+|.+||.+.|+..
T Consensus 179 qk~g~q~~Pdg~v~niP~~m-~t~~fgm~gLL~~ir~~~~~g~~~l~lg~Dl~~lllsla~~~di~~~F~~P~~~~P~~~ 257 (312)
T KOG2151|consen 179 QKVGSQPTPDGYVPNIPSGM-ETGQFGMKGLLTLIRGAQGEGQTTLPLGADLNSLLLSLAVPEDIIPTFQGPWGEVPTSQ 257 (312)
T ss_pred hhcccccCCCCcccCCCcch-hhhhhhhhcchhhheecccCcceeeccCCChhhhhccccccccccccccCCcccCCccc
Confidence 34566888999999999999 8899999999999999776 567899999999999999999999999999999999999
Q ss_pred CCccCCCCCCcCCCCCCCcchhhccCCcceEEEEeecCCCcHHHHHHHHHHhhcCc
Q 043458 619 DPEFTVPQCYYAKQPPALHQGYFSKFTVETLFYIFYSMPKDEAQLYAANELYNRGW 674 (736)
Q Consensus 619 DPEF~IPsCY~~qqPPpLq~~kfqKFseETLFYIFYsmPGD~lQllAA~ELynRGW 674 (736)
+++|.+|.||+. .+++++..++.+|++||||||||++++|.+|+.||.||.+|+|
T Consensus 258 ~~~~~lp~~y~~-v~~~~~~~~~~~~~dE~lff~fyt~~~d~~Q~~aa~el~~r~w 312 (312)
T KOG2151|consen 258 EASFNLPNCYLN-VNPKLQFSKIDQFQDETLFYIFYTFPGDVMQELAAAELLKRNW 312 (312)
T ss_pred chhhhcchhhhc-cCCccchHHHhhhcccceeeeeccCCcchhhhhHHHHhhccCC
Confidence 999999999986 6778888889999999999999999999999999999999999
No 6
>KOG2151 consensus Predicted transcriptional regulator [Transcription; Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=99.66 E-value=4.5e-17 Score=169.48 Aligned_cols=169 Identities=32% Similarity=0.600 Sum_probs=141.8
Q ss_pred CCCccccccCCCCCCCcccchhhhhhhc-CCCCcccccccccccCCCCCCCch-hhhhhhcCCCCCCCCCCCCCccCCCC
Q 043458 549 NQDMKSIQAAHSTPDPFGLLGLLSVIKM-SDPDLTSLALGIDLTTLGLNLNST-ENLHKTFGSPWSDEPAKGDPEFTVPQ 626 (736)
Q Consensus 549 D~slks~Q~~~s~~D~FGLlGLLsvIRm-sDPDLtSLALG~DLTtLGLNLNS~-E~Ly~TF~SPWsd~P~r~DPEF~IPs 626 (736)
|..+..+.+.+ ..|+||+ +..++++ .+|....+++|.||++||+++|.. .+++.+|+.||+++|.+......+|.
T Consensus 3 ~g~~~~ip~~~-~~~q~~~--~~p~~~~v~~p~~~~~~~~~d~~~lg~~~n~~~~~~~~~f~g~~~s~~l~~l~~~~~P~ 79 (312)
T KOG2151|consen 3 DGENTNIPPQM-LSDQPGM--LVPYLSTVKNPSIVQLALGYDLTTLGLNLNLSERKLLMNFAGPWASEPLRHLLDTKVPE 79 (312)
T ss_pred ccccCCCChhh-cccCCCC--CCCccccccCcchhhheeccchhccCcccccccccccccccCcCCCccccccccccCcc
Confidence 34556666555 7789998 6777766 568888899999999999988754 46788899999999999888889999
Q ss_pred CCcCCCC--CCCcchhhccCCcceEEEEeecCCCcHHHHHHHHHHhhcCceeeccceeeeeccCCCCCcccCCcceeeEE
Q 043458 627 CYYAKQP--PALHQGYFSKFTVETLFYIFYSMPKDEAQLYAANELYNRGWFYHKEHRLWFIRVPNVEPLVKTNAYERGSY 704 (736)
Q Consensus 627 CY~~qqP--PpLq~~kfqKFseETLFYIFYsmPGD~lQllAA~ELynRGWRYHKe~rlWFtR~~n~ePkvkT~~yErGsY 704 (736)
||.+... -.+.+..++|+...-|||+||++| |.||..|.||||++.+.|+++-.-..+....+.+++|.|
T Consensus 80 ~~~~~~~~~~~~~~~~~~kv~~~~l~~~~~~~P--------a~e~~~r~~~~~~~~~~~l~~s~yg~~~~~~~~~~~g~~ 151 (312)
T KOG2151|consen 80 EYMTHRHLRSKLPSLRLNKVGERVLFYLFYNLP--------AGELQAREWRFHKSEQVWLTRSQYGGVKELPGNYMKGHF 151 (312)
T ss_pred ccccchhhhhcCCcccccccccccceeeeccCC--------CcccccccccccccccccccccccCCccccccchhhchh
Confidence 9985322 223334489999999999999999 999999999999999999999876667777889999999
Q ss_pred EEEccccccccccCceeEechhhhc
Q 043458 705 HCFDPNTFETIRKDNFVVHYEMLEK 729 (736)
Q Consensus 705 iyFDp~tW~kvrKENFvLdYe~LE~ 729 (736)
..||...|+++.|| -.++|.++|.
T Consensus 152 ~~~~q~s~~~~~ke-~~l~~~~~~~ 175 (312)
T KOG2151|consen 152 NVFDQMSWRKIPKE-LKLAYSDLED 175 (312)
T ss_pred ccccchhhhhcccc-hhhccccccc
Confidence 99999999999998 8888988887
No 7
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=41.12 E-value=25 Score=34.22 Aligned_cols=60 Identities=35% Similarity=0.593 Sum_probs=45.1
Q ss_pred ceeecceeEEEeccccccccccccccccchhhheec--ccccccccccchhhhHHHHHHHhheeeEEeecCCC
Q 043458 32 KLVSFDSVLIKISDLRSLPQAFSCKFAGIKSALYLL--NFKTQKGCFSARNDFLHELLTLLQCRVYLINLPST 102 (736)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (736)
--|+||-|-|-. |+|||..--.|.|. ..+ |. ..||| ||..-|||-...|.|-|-.-+|-|
T Consensus 42 ~E~~~D~VPIYF---~~L~~~LCG~~~~~----i~IDP~~-~~KGC---~~TL~HEL~H~WQ~RsYG~i~PIT 103 (141)
T PHA02456 42 LELAWDPVPIYF---RALPQDLCGQFVGW----IEIDPDY-ANKGC---RDTLAHELNHAWQFRTYGLVQPIT 103 (141)
T ss_pred eEEEeccceeeh---hhcCcchhhcceeE----EEECCcc-cccch---HHHHHHHHHHHHhhhccceeeeee
Confidence 358999999875 67888765445442 122 23 36899 899999999999999998888866
No 8
>PF05523 FdtA: WxcM-like, C-terminal ; InterPro: IPR008894 This entry includes FdtA (Q6T1W8 from SWISSPROT) from Aneurinibacillus thermoaerophilus, which has been characterised as a dTDP-6-deoxy-3,4-keto-hexulose isomerase []. It also includes WxcM (Q93S92 from SWISSPROT) from Xanthomonas campestris pv campestris) []. ; PDB: 2PAK_A 2PAE_A 2PA7_B 2PAM_A.
Probab=15.72 E-value=1.3e+02 Score=28.56 Aligned_cols=35 Identities=34% Similarity=0.856 Sum_probs=20.1
Q ss_pred CCcceEEEEeecCCCcHHHHHHHHHHhhcCceeeccceeeeeccCC
Q 043458 644 FTVETLFYIFYSMPKDEAQLYAANELYNRGWFYHKEHRLWFIRVPN 689 (736)
Q Consensus 644 FseETLFYIFYsmPGD~lQllAA~ELynRGWRYHKe~rlWFtR~~n 689 (736)
|...--||||-.-++ ..|+|.+||+...||.-..+
T Consensus 29 f~i~rvy~i~~~~~~-----------~~RG~H~Hk~~~~~~~~l~G 63 (131)
T PF05523_consen 29 FEIKRVYYIYNVPPG-----------VIRGWHAHKKTTQWFIVLSG 63 (131)
T ss_dssp S---EEEEEES--SS-------------EEEEEESS--EEEEEEES
T ss_pred CCccEEEEEEcCCCC-----------CcccccccccccEEEEEEeC
Confidence 345566777654443 25999999999999987764
No 9
>PF00770 Peptidase_C5: Adenovirus endoprotease; InterPro: IPR000855 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 aminopeptidases belong to the peptidase family C5 (adenain family, clan CE). Several adenovirus proteins are synthesised as precursors, requiring processing by a protease before the virion is assembled [, ]. Until recently, the adenovirus endopeptidase was classified as a serine protease, having been reported to be inhibited by serine protease inhibitors [, ]. However, it has since been shown to be inhibited by cysteine protease inhibitors, and the catalytic residues are believed to be His-54 and Cys-104 [, ].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1NLN_A 1AVP_A.
Probab=11.15 E-value=36 Score=35.01 Aligned_cols=31 Identities=35% Similarity=0.595 Sum_probs=16.6
Q ss_pred EEEEEccccccccc-cCceeEechhhhcCCCC
Q 043458 703 SYHCFDPNTFETIR-KDNFVVHYEMLEKRPAL 733 (736)
Q Consensus 703 sYiyFDp~tW~kvr-KENFvLdYe~LE~rP~l 733 (736)
+++.|||-.|+..+ |.-+.|+|+-|-+|.+|
T Consensus 47 t~YmFDPfGfsd~~L~qiY~FeYe~llrRSAL 78 (183)
T PF00770_consen 47 TFYMFDPFGFSDQKLKQIYQFEYEGLLRRSAL 78 (183)
T ss_dssp EEEEE-TT---HHHHHHHH----HHHHHHHHH
T ss_pred eEEEeCCCCCCHHHHHHHHhhhHHHHHHHHhh
Confidence 78899999998654 34588999998877543
No 10
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=10.79 E-value=95 Score=36.85 Aligned_cols=29 Identities=31% Similarity=0.297 Sum_probs=22.1
Q ss_pred cccCcCcCCCCCCCCCchhhhhhcCCCcC
Q 043458 436 MGRSAGFNLGGTYTSHRPQQQQQHAPSVS 464 (736)
Q Consensus 436 mgrs~gfnlg~~y~~~r~q~qq~~~~~~~ 464 (736)
|..++|-|.|++--+..||||||+++.++
T Consensus 624 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 652 (657)
T PTZ00186 624 YQQAAAANSGSSSNSGEQQQQQQQQQQQN 652 (657)
T ss_pred HhhcccCCCCCCCCchHHHHHHHHHHhhc
Confidence 56678999999988887777766665554
Done!