Query 025989
Match_columns 245
No_of_seqs 174 out of 626
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 11:53:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025989.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025989hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05922 Inhibitor_I9: Peptida 99.3 1.4E-12 3E-17 95.5 4.3 76 112-191 1-80 (82)
2 KOG1153 Subtilisin-related pro 25.0 1.3E+02 0.0029 30.6 5.0 103 110-217 80-240 (501)
3 cd04852 Peptidases_S8_3 Peptid 20.1 52 0.0011 29.8 1.1 24 194-217 24-51 (307)
4 PRK11009 aphA acid phosphatase 17.9 96 0.0021 28.1 2.3 43 163-206 190-236 (237)
5 PF03927 NapD: NapD protein; 17.6 1.1E+02 0.0023 23.2 2.2 16 170-185 55-70 (79)
6 PF13266 DUF4057: Protein of u 16.1 84 0.0018 30.1 1.5 36 163-206 51-87 (302)
7 PRK10553 assembly protein for 14.6 1.2E+02 0.0026 23.7 1.9 16 170-185 58-73 (87)
8 TIGR01672 AphA HAD superfamily 13.3 1.7E+02 0.0036 26.6 2.6 40 167-206 194-236 (237)
9 cd00952 CHBPH_aldolase Trans-o 12.5 6.1E+02 0.013 23.5 6.2 34 152-188 139-172 (309)
10 PF05273 Pox_RNA_Pol_22: Poxvi 12.3 1.9E+02 0.0042 25.8 2.6 41 174-214 53-95 (185)
No 1
>PF05922 Inhibitor_I9: Peptidase inhibitor I9; InterPro: IPR010259 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. Limited proteolysis of most large protein precursors is carried out in vivo by the subtilisin-like pro-protein convertases. Many important biological processes such as peptide hormone synthesis, viral protein processing and receptor maturation involve proteolytic processing by these enzymes []. The subtilisin-serine protease (SRSP) family hormone and pro-protein convertases (furin, PC1/3, PC2, PC4, PACE4, PC5/6, and PC7/7/LPC) act within the secretory pathway to cleave polypeptide precursors at specific basic sites, generating their biologically active forms. Serum proteins, pro-hormones, receptors, zymogens, viral surface glycoproteins, bacterial toxins, amongst others, are activated by this route []. The SRSPs share the same domain structure, including a signal peptide, the pro-peptide, the catalytic domain, the P/middle or homo B domain, and the C terminus. Proteinase propeptide inhibitors (sometimes refered to as activation peptides) are responsible for the modulation of folding and activity of the pro-enzyme or zymogen. The pro-segment docks into the enzyme moiety shielding the substrate binding site, thereby promoting inhibition of the enzyme. Several such propeptides share a similar topology [], despite often low sequence identities []. The propeptide region has an open-sandwich antiparallel-alpha/antiparallel-beta fold, with two alpha-helices and four beta-strands with a (beta/alpha/beta)x2 topology. This group of sequences contain the propeptide domain at the N terminus of peptidases belonging to MEROPS family S8A, subtilisins. A number of the members of this group of sequences belong to MEROPS inhibitor family I9, clan I-. The propeptide is removed by proteolytic cleavage; removal activating the enzyme.; GO: 0004252 serine-type endopeptidase activity, 0042802 identical protein binding, 0043086 negative regulation of catalytic activity; PDB: 3CNQ_P 1SPB_P 3CO0_P 1ITP_A 1V5I_B 1SCJ_B 3P5B_P 2XTJ_P 2W2M_P 2P4E_P ....
Probab=99.32 E-value=1.4e-12 Score=95.50 Aligned_cols=76 Identities=24% Similarity=0.330 Sum_probs=54.3
Q ss_pred eEEEEecCCCCCCCCchhhHHHHHHHHHHhhCCh----hhhhcceeEEecccceeeeeecCHHHHHhhcCCCCeEEEeCC
Q 025989 112 HWLIVMDKPGGEGATKQQMIDCYIKTLAQVVGSE----EEAKKKIYNVSCERYFGFGCELDEETSNKLEGLPGVLFVLPD 187 (245)
Q Consensus 112 tYIVyMd~p~~~~ps~~~~~~~h~s~LaSVLgS~----eeAk~sIlYSYt~sfnGFAArLTeEEAe~Lk~lPGVVSVfPD 187 (245)
.|||.|+..... +...+++.+++.+++.+. ......++|+|+..|+||+|+|+++++++|+++|+|.+|.||
T Consensus 1 ~YIV~~k~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~Gfs~~l~~~~i~~L~~~p~V~~Ve~D 76 (82)
T PF05922_consen 1 RYIVVFKDDASA----ASSFSSHKSWQASILKSALKSASSINAKVLYSYDNAFNGFSAKLSEEEIEKLRKDPGVKSVEPD 76 (82)
T ss_dssp EEEEEE-TTSTH----HCHHHHHHHHHH----HHHHTH-TTT-EEEEEESSTSSEEEEEE-HHHHHHHHTSTTEEEEEEE
T ss_pred CEEEEECCCCCc----chhHHHHHHHHHHHHhhhhhhhcccCCceEEEEeeeEEEEEEEeCHHHHHHHHcCCCeEEEEeC
Confidence 599999876431 223566666666554321 234567899999999999999999999999999999999999
Q ss_pred CCCC
Q 025989 188 SYVD 191 (245)
Q Consensus 188 s~lk 191 (245)
..++
T Consensus 77 ~~v~ 80 (82)
T PF05922_consen 77 QVVS 80 (82)
T ss_dssp CEEE
T ss_pred ceEe
Confidence 8764
No 2
>KOG1153 consensus Subtilisin-related protease/Vacuolar protease B [Posttranslational modification, protein turnover, chaperones]
Probab=24.98 E-value=1.3e+02 Score=30.62 Aligned_cols=103 Identities=21% Similarity=0.197 Sum_probs=69.2
Q ss_pred ceeEEEEecCCCCCCCCchhhHHHHHHHHHHhhC------Chhhh--------------hcceeEEec-ccceeeeeecC
Q 025989 110 YEHWLIVMDKPGGEGATKQQMIDCYIKTLAQVVG------SEEEA--------------KKKIYNVSC-ERYFGFGCELD 168 (245)
Q Consensus 110 ~ktYIVyMd~p~~~~ps~~~~~~~h~s~LaSVLg------S~eeA--------------k~sIlYSYt-~sfnGFAArLT 168 (245)
...|||..... + .++-++.|..|+...-+ +.+++ .-+..+... ..|.|+.-..|
T Consensus 80 ~~~YiV~f~~~----~-~q~~~s~~~~~~~~~h~~s~~~~s~~~~f~~~d~~~s~~~~~~i~~~f~i~~~~~~~y~~~ft 154 (501)
T KOG1153|consen 80 PSRYIVVFKPD----A-SQQKISAHNRWVQQSHEVSSGKLSSEDAFYVKDTSDSKSTFGGIKNVFDIGGRVFRGYTGYFT 154 (501)
T ss_pred ccceEEEeCCC----c-cHHHHHhhhHHHHHHhhhhhccccccceeEeeccccchhhhcccccccccccchhhccccccc
Confidence 37899997722 2 23456666666655543 11111 011122222 37789999999
Q ss_pred HHHHHhhcCCCCeEEEeCCCCCCC----------------------------------CcccCCCc--cee-eceeeeCC
Q 025989 169 EETSNKLEGLPGVLFVLPDSYVDP----------------------------------ENKDYGAE--LFV-NGEIVQRS 211 (245)
Q Consensus 169 eEEAe~Lk~lPGVVSVfPDs~lk~----------------------------------~~kdyG~d--~~I-dggI~Pes 211 (245)
.+-...++..|-+..|-++.+.++ ++-+.|++ .|| |+||-=+.
T Consensus 155 ~~~v~~i~~~p~~~~ve~~~~v~~~~~~~i~~Q~~APwgLaRvsh~~~~~y~~~~~Y~Y~~~aG~gvtaYv~DTGVni~H 234 (501)
T KOG1153|consen 155 GESVCSIRSDPLIKAVEKDSVVEVDKISTIMLQNNAPWGLARVSHREKLKYDSWGNYVYEIDAGKGVTAYVLDTGVNIEH 234 (501)
T ss_pred cceeeeeccCcceeecccccccccccccceecccCCchhhhhhcccccccccchheEEeecccCCCeEEEEecccccccc
Confidence 999999999999999999987766 12334554 455 99999999
Q ss_pred cccccc
Q 025989 212 PERQRR 217 (245)
Q Consensus 212 psf~d~ 217 (245)
|.|.++
T Consensus 235 ~dFegR 240 (501)
T KOG1153|consen 235 PDFEGR 240 (501)
T ss_pred cccccc
Confidence 999988
No 3
>cd04852 Peptidases_S8_3 Peptidase S8 family domain, uncharacterized subfamily 3. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=20.09 E-value=52 Score=29.79 Aligned_cols=24 Identities=13% Similarity=0.207 Sum_probs=18.2
Q ss_pred cccC-CCccee---eceeeeCCcccccc
Q 025989 194 NKDY-GAELFV---NGEIVQRSPERQRR 217 (245)
Q Consensus 194 ~kdy-G~d~~I---dggI~Pespsf~d~ 217 (245)
.+.+ |.+++| ||||.+++|.|.+.
T Consensus 24 ~~~~~G~gv~VaViDtGid~~hp~f~~~ 51 (307)
T cd04852 24 GAANAGEGIIIGVLDTGIWPEHPSFADV 51 (307)
T ss_pred cccCCCCccEEEEEeCCCCCCCcCcccC
Confidence 3444 446666 99999999999865
No 4
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=17.91 E-value=96 Score=28.11 Aligned_cols=43 Identities=28% Similarity=0.465 Sum_probs=28.9
Q ss_pred eeeecCHHHHHhhcCCCCe--EEEeCCCCCCCC--cccCCCcceeece
Q 025989 163 FGCELDEETSNKLEGLPGV--LFVLPDSYVDPE--NKDYGAELFVNGE 206 (245)
Q Consensus 163 FAArLTeEEAe~Lk~lPGV--VSVfPDs~lk~~--~kdyG~d~~Idgg 206 (245)
+.=.+.+=++.+=++++++ .+- ++..++++ +-.||+||+||+.
T Consensus 190 IGDs~~Di~aA~~AGi~~I~v~~G-~~~~~~~~~~~g~~ge~v~~~s~ 236 (237)
T PRK11009 190 YGDSDNDITAAREAGARGIRILRA-ANSTYKPLPQAGAFGEEVIVNSE 236 (237)
T ss_pred EcCCHHHHHHHHHcCCcEEEEecC-CCCCCCccccccCCCceeeecCC
Confidence 4555566677777777754 332 34455554 8899999999974
No 5
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=17.61 E-value=1.1e+02 Score=23.19 Aligned_cols=16 Identities=31% Similarity=0.551 Sum_probs=13.0
Q ss_pred HHHHhhcCCCCeEEEe
Q 025989 170 ETSNKLEGLPGVLFVL 185 (245)
Q Consensus 170 EEAe~Lk~lPGVVSVf 185 (245)
+..++|+.+|||+++-
T Consensus 55 ~~~~~i~~l~GVlsa~ 70 (79)
T PF03927_consen 55 DLIDAINALPGVLSAS 70 (79)
T ss_dssp HHHHHHCCSTTEEEEE
T ss_pred HHHHHHHcCCCceEEE
Confidence 4556899999999985
No 6
>PF13266 DUF4057: Protein of unknown function (DUF4057)
Probab=16.07 E-value=84 Score=30.07 Aligned_cols=36 Identities=25% Similarity=0.365 Sum_probs=23.6
Q ss_pred eeeecCHHHHHhhcC-CCCeEEEeCCCCCCCCcccCCCcceeece
Q 025989 163 FGCELDEETSNKLEG-LPGVLFVLPDSYVDPENKDYGAELFVNGE 206 (245)
Q Consensus 163 FAArLTeEEAe~Lk~-lPGVVSVfPDs~lk~~~kdyG~d~~Idgg 206 (245)
|...||+|||+.|.+ .|+ +-++ ++..-|.++|.|.+
T Consensus 51 fGgQvT~EEAEsL~KRKpC-------S~~K-~KEmTGSGIF~~~~ 87 (302)
T PF13266_consen 51 FGGQVTEEEAESLNKRKPC-------SGYK-MKEMTGSGIFSANG 87 (302)
T ss_pred cCCcCCHHHHHHHhccCcC-------cccc-ceecccccccccCC
Confidence 789999999998766 222 1111 35566778887443
No 7
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=14.61 E-value=1.2e+02 Score=23.69 Aligned_cols=16 Identities=31% Similarity=0.424 Sum_probs=13.2
Q ss_pred HHHHhhcCCCCeEEEe
Q 025989 170 ETSNKLEGLPGVLFVL 185 (245)
Q Consensus 170 EEAe~Lk~lPGVVSVf 185 (245)
+..+.|..+|||+++-
T Consensus 58 ~~i~~I~~l~GVlsa~ 73 (87)
T PRK10553 58 QTIESVRNVEGVLAVS 73 (87)
T ss_pred HHHHHHHcCCCceEEE
Confidence 5567899999999974
No 8
>TIGR01672 AphA HAD superfamily (subfamily IIIB) phosphatase, TIGR01672. Supporting evidence for the inclusion in the HAD superfamily, whose phosphatase members are magnesium dependent, is the inhibition by EDTA and calcium ions, and stimulation by magnesium ion.
Probab=13.34 E-value=1.7e+02 Score=26.55 Aligned_cols=40 Identities=30% Similarity=0.422 Sum_probs=23.9
Q ss_pred cCHHHHHhhcCCCCeEE-EeCCCCCCCC--cccCCCcceeece
Q 025989 167 LDEETSNKLEGLPGVLF-VLPDSYVDPE--NKDYGAELFVNGE 206 (245)
Q Consensus 167 LTeEEAe~Lk~lPGVVS-VfPDs~lk~~--~kdyG~d~~Idgg 206 (245)
+.+=++.+=++++.+.- +=-++.++++ +-.||++|+||+.
T Consensus 194 ~~DI~aAk~AGi~~I~V~~g~~s~~~~~~~~g~~~e~~~~~s~ 236 (237)
T TIGR01672 194 DNDITAAKEAGARGIRILRASNSTYKPLPQAGGYGEEVLVNSE 236 (237)
T ss_pred HHHHHHHHHCCCCEEEEEecCCCCCCCcccccCCCceeeecCC
Confidence 33445555666663322 1233444444 8899999999975
No 9
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=12.49 E-value=6.1e+02 Score=23.46 Aligned_cols=34 Identities=12% Similarity=0.076 Sum_probs=24.7
Q ss_pred eeEEecccceeeeeecCHHHHHhhcCCCCeEEEeCCC
Q 025989 152 IYNVSCERYFGFGCELDEETSNKLEGLPGVLFVLPDS 188 (245)
Q Consensus 152 IlYSYt~sfnGFAArLTeEEAe~Lk~lPGVVSVfPDs 188 (245)
++|.+- ...| ..|+++.+++|.++|+|+.|--..
T Consensus 139 ~iYn~P-~~tg--~~l~~~~l~~L~~~pnivgiKdss 172 (309)
T cd00952 139 AIYANP-EAFK--FDFPRAAWAELAQIPQVVAAKYLG 172 (309)
T ss_pred EEEcCc-hhcC--CCCCHHHHHHHhcCCCEEEEEecC
Confidence 444443 2344 599999999999999999875543
No 10
>PF05273 Pox_RNA_Pol_22: Poxvirus RNA polymerase 22 kDa subunit; InterPro: IPR007937 Vaccinia viral RNA synthesis is carried out by a virus coded, multi-subunit, eukaryotic-like RNA polymerase. RNA polymerase subunits are synthesized throughout infection and the assembled RNA polymerase is packaged into nascent virions late in infection. The RNA polymerase exists in two different forms, one specific for early genes and one specific for late genes. Both forms of the RNA polymerase have in common eight subunits, ranging in size from 147 to 7 kDa This family consists of several poxvirus DNA-dependent RNA polymerase 22 kDa subunits.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0019083 viral transcription
Probab=12.31 E-value=1.9e+02 Score=25.76 Aligned_cols=41 Identities=20% Similarity=0.336 Sum_probs=31.2
Q ss_pred hhcCCCCeEEEeCCC--CCCCCcccCCCcceeeceeeeCCccc
Q 025989 174 KLEGLPGVLFVLPDS--YVDPENKDYGAELFVNGEIVQRSPER 214 (245)
Q Consensus 174 ~Lk~lPGVVSVfPDs--~lk~~~kdyG~d~~IdggI~Pespsf 214 (245)
++...+-|..||-++ .+.+++.|||+-+||-+-.-|++..|
T Consensus 53 kid~~~tVfQvFnEssV~YsP~e~DYGePIiiTs~lq~gHnKf 95 (185)
T PF05273_consen 53 KIDSSKTVFQVFNESSVNYSPLEDDYGEPIIITSFLQPGHNKF 95 (185)
T ss_pred EccCCceeeeeecccceeeccccccCCCcEEEEeccccccccc
Confidence 566778889999888 55667999999999966665655544
Done!