Query psy363
Match_columns 59
No_of_seqs 53 out of 55
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 21:37:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy363.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/363hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3526|consensus 99.7 3.1E-18 6.7E-23 130.5 4.5 55 3-57 572-628 (629)
2 PF01483 P_proprotein: Proprot 85.8 2.2 4.8E-05 24.6 4.2 23 3-25 65-87 (87)
3 PF03677 UPF0137: Uncharacteri 64.7 0.25 5.4E-06 35.7 -4.8 24 13-36 100-123 (243)
4 smart00212 UBCc Ubiquitin-conj 40.0 28 0.0006 21.7 2.1 21 16-36 26-46 (145)
5 KOG2960|consensus 39.4 24 0.00052 26.3 2.0 21 10-30 192-214 (328)
6 cd00195 UBCc Ubiquitin-conjuga 38.1 32 0.00069 21.3 2.2 20 17-36 27-46 (141)
7 COG4718 Phage-related protein 36.5 39 0.00085 21.9 2.4 28 3-30 22-55 (111)
8 PTZ00390 ubiquitin-conjugating 34.1 44 0.00095 21.7 2.4 21 16-36 29-49 (152)
9 PLN00172 ubiquitin conjugating 33.2 42 0.0009 21.6 2.2 21 16-36 28-48 (147)
10 COG4935 Regulatory P domain of 32.7 91 0.002 21.6 3.9 27 3-30 103-129 (177)
11 cd03409 Chelatase_Class_II Cla 30.2 23 0.00049 20.2 0.5 13 22-34 3-16 (101)
12 PRK07688 thiamine/molybdopteri 20.5 79 0.0017 23.0 1.9 20 12-31 308-327 (339)
No 1
>KOG3526|consensus
Probab=99.72 E-value=3.1e-18 Score=130.47 Aligned_cols=55 Identities=42% Similarity=0.741 Sum_probs=51.6
Q ss_pred eeEEEeCCCCCceeEEEEEEEEEeecCCCCCCCCCC--CCCcchHHHHHHHHHhhhh
Q psy363 3 ALQISFNSQEPNHGFIKEWTLMIHGTRDPPYSSLPV--SDPHSKLAIVKKAHQDRLK 57 (59)
Q Consensus 3 ~L~v~~~~~~~~~G~l~eWtL~LhGT~~~PY~~~~~--~~~~sKL~ivkkah~~~~~ 57 (59)
+|+++|+|.+++.|+|+||+||||||+++||+-+.| ++++|||++|||||+++.+
T Consensus 572 ~learf~gp~~~~g~lkew~lmlhgt~eapy~~i~piv~~~~skla~vkkah~ek~~ 628 (629)
T KOG3526|consen 572 RLEARFQGPGAHAGTLKEWELMLHGTREAPYNLIEPIVGQTNSKLATVKKAHLEKRS 628 (629)
T ss_pred EEEEeccCCcccccchhheeeeeeccccCcccccccccccchhhHHHHHHHhhhhhc
Confidence 699999999999999999999999999999977766 9999999999999998865
No 2
>PF01483 P_proprotein: Proprotein convertase P-domain; InterPro: IPR002884 This domain, termed the P domain is approximately 150 amino acids in length and C-terminal to a serine endopeptidase domain which belong to MEROPS peptidase family S8 (clan SB), subfamily S8B (kexin). The domain is primarily associated with the calcium-dependent serine endopeptidases, kex2/subtilisin proprotein convertases (PCs), which have been identified in all eukaryotes [] and in the gammaproteobacteria, Nostoc (cyanobacteria) and in Streptomyces avermitilis. The P domain appears necessary for folding and maintaining the endopeptidase catalytic domain and to regulate its calcium and acidic pH dependence. In addition, contained within the middle of the P domain in most PC family members is the cognate integrin binding RGD sequence [], which may be required for intracellular compartmentalization and maintenance of enzyme stability within the ER. The integrity of the RGD sequence of proprotein convertase PC1 is critical for its zymogen and C-terminal processing and for its cellular trafficking [, ]. The carboxy-terminal tail provides uniqueness to each PC family member being the least conserved region of all convertases [].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1P8J_E 1OT5_B 2ID4_A 1R64_A 3HJR_A.
Probab=85.84 E-value=2.2 Score=24.61 Aligned_cols=23 Identities=17% Similarity=0.518 Sum_probs=16.2
Q ss_pred eeEEEeCCCCCceeEEEEEEEEE
Q psy363 3 ALQISFNSQEPNHGFIKEWTLMI 25 (59)
Q Consensus 3 ~L~v~~~~~~~~~G~l~eWtL~L 25 (59)
+|+|.........|.|+.|+|.|
T Consensus 65 ~L~v~D~~~~~~~G~l~~w~L~~ 87 (87)
T PF01483_consen 65 TLRVTDRNSPGDTGTLNSWSLTF 87 (87)
T ss_dssp EEEEEEBSSTTS-EEEEEEEEEE
T ss_pred EEEEEECCCCCCcEEEEEEEEEC
Confidence 46665535667889999999975
No 3
>PF03677 UPF0137: Uncharacterised protein family (UPF0137); InterPro: IPR005350 This family of bacterial proteins includes a number of plasmid-encoded virulence proteins.
Probab=64.67 E-value=0.25 Score=35.71 Aligned_cols=24 Identities=29% Similarity=0.682 Sum_probs=21.5
Q ss_pred CceeEEEEEEEEEeecCCCCCCCC
Q psy363 13 PNHGFIKEWTLMIHGTRDPPYSSL 36 (59)
Q Consensus 13 ~~~G~l~eWtL~LhGT~~~PY~~~ 36 (59)
-..|++..|-+..+||++.||+-+
T Consensus 100 y~egtFSaWl~l~ygnrqt~YN~L 123 (243)
T PF03677_consen 100 YREGTFSAWLILTYGNRQTPYNFL 123 (243)
T ss_pred CccchHHHHHHHHHccccCchHHH
Confidence 457999999999999999999766
No 4
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=40.03 E-value=28 Score=21.72 Aligned_cols=21 Identities=33% Similarity=0.518 Sum_probs=17.7
Q ss_pred eEEEEEEEEEeecCCCCCCCC
Q psy363 16 GFIKEWTLMIHGTRDPPYSSL 36 (59)
Q Consensus 16 G~l~eWtL~LhGT~~~PY~~~ 36 (59)
+-+.+|..++.|.++.||.+.
T Consensus 26 ~~~~~w~~~i~gp~~~~y~g~ 46 (145)
T smart00212 26 DNLLEWTGTIVGPPGTPYEGG 46 (145)
T ss_pred CChheEEEEEEcCCCCCcCCc
Confidence 357899999999999999654
No 5
>KOG2960|consensus
Probab=39.41 E-value=24 Score=26.28 Aligned_cols=21 Identities=33% Similarity=0.729 Sum_probs=17.5
Q ss_pred CCCCceeEEEEEEEEE--eecCC
Q psy363 10 SQEPNHGFIKEWTLMI--HGTRD 30 (59)
Q Consensus 10 ~~~~~~G~l~eWtL~L--hGT~~ 30 (59)
|.....|++..|+|+- ||||+
T Consensus 192 g~~rvaGVVTNWtLV~qnHgtQs 214 (328)
T KOG2960|consen 192 GEVRVAGVVTNWTLVTQNHGTQS 214 (328)
T ss_pred CceEEEEEEeeeEEeeeccCccc
Confidence 4556779999999985 99998
No 6
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=38.13 E-value=32 Score=21.35 Aligned_cols=20 Identities=35% Similarity=0.615 Sum_probs=16.5
Q ss_pred EEEEEEEEEeecCCCCCCCC
Q psy363 17 FIKEWTLMIHGTRDPPYSSL 36 (59)
Q Consensus 17 ~l~eWtL~LhGT~~~PY~~~ 36 (59)
-+.+|.+.|+|-.+.||.+.
T Consensus 27 ~~~~w~~~i~g~~~t~y~g~ 46 (141)
T cd00195 27 NLLEWHGTIRGPPDTPYEGG 46 (141)
T ss_pred ChhEEEEEEecCCCCCccCC
Confidence 46789999999989888653
No 7
>COG4718 Phage-related protein [Function unknown]
Probab=36.54 E-value=39 Score=21.91 Aligned_cols=28 Identities=14% Similarity=0.367 Sum_probs=19.3
Q ss_pred eeEEEeCCCCCce------eEEEEEEEEEeecCC
Q psy363 3 ALQISFNSQEPNH------GFIKEWTLMIHGTRD 30 (59)
Q Consensus 3 ~L~v~~~~~~~~~------G~l~eWtL~LhGT~~ 30 (59)
...|+|-+...|. -.++.|.|.+.|+++
T Consensus 22 V~~v~fGDGYeQr~~~GLN~~l~t~~vt~~~~~~ 55 (111)
T COG4718 22 VRTVRFGDGYEQRRAAGLNNDLKTWSVTFRVTKE 55 (111)
T ss_pred EEEEEcCCChhhhcccccCcccceeEEEEEeeHH
Confidence 4556665443332 468889999999988
No 8
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=34.15 E-value=44 Score=21.69 Aligned_cols=21 Identities=19% Similarity=0.577 Sum_probs=17.6
Q ss_pred eEEEEEEEEEeecCCCCCCCC
Q psy363 16 GFIKEWTLMIHGTRDPPYSSL 36 (59)
Q Consensus 16 G~l~eWtL~LhGT~~~PY~~~ 36 (59)
.-+.+|...+.|-.+.||.+.
T Consensus 29 ~d~~~w~~~i~GP~~tpY~gg 49 (152)
T PTZ00390 29 GNYRHFKILMEGPDGTPYEGG 49 (152)
T ss_pred CCccEEEEEEEcCCCCCCcCc
Confidence 357889999999999999654
No 9
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=33.23 E-value=42 Score=21.59 Aligned_cols=21 Identities=33% Similarity=0.572 Sum_probs=17.7
Q ss_pred eEEEEEEEEEeecCCCCCCCC
Q psy363 16 GFIKEWTLMIHGTRDPPYSSL 36 (59)
Q Consensus 16 G~l~eWtL~LhGT~~~PY~~~ 36 (59)
.-+.+|...|.|-.+.||.+.
T Consensus 28 ~nl~~w~~~i~GP~~tpyegg 48 (147)
T PLN00172 28 ENLFRWTASIIGPSDSPYAGG 48 (147)
T ss_pred CChheEEEEEECCCCCCCCCC
Confidence 358899999999999999653
No 10
>COG4935 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]
Probab=32.72 E-value=91 Score=21.64 Aligned_cols=27 Identities=19% Similarity=0.380 Sum_probs=19.7
Q ss_pred eeEEEeCCCCCceeEEEEEEEEEeecCC
Q psy363 3 ALQISFNSQEPNHGFIKEWTLMIHGTRD 30 (59)
Q Consensus 3 ~L~v~~~~~~~~~G~l~eWtL~LhGT~~ 30 (59)
+|+|...... +.|.|.-|.|.|.|-..
T Consensus 103 ~L~V~D~~~g-~~Gtf~sW~l~l~~~~~ 129 (177)
T COG4935 103 RLEVQDLAGG-HTGTFHSWGLKLGGEST 129 (177)
T ss_pred EEEEEecCCC-ceeEEEEeEEeeeeecc
Confidence 4666544333 88999999999997653
No 11
>cd03409 Chelatase_Class_II Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the cobaltochelatases, CbiK and CbiX. HemH and SirB are involved in heme and siroheme biosynthesis, respectively, while the cobaltochelatases are associated with cobalamin biosynthesis. Excluded from this family are the ATP-dependent heterotrimeric chelatases (class I) and the multifunctional homodimeric enzymes with dehydrogenase and chelatase activities (class III).
Probab=30.25 E-value=23 Score=20.15 Aligned_cols=13 Identities=31% Similarity=0.588 Sum_probs=9.8
Q ss_pred EEEEeecCCC-CCC
Q psy363 22 TLMIHGTRDP-PYS 34 (59)
Q Consensus 22 tL~LhGT~~~-PY~ 34 (59)
-|+=|||+.+ ||+
T Consensus 3 llv~HGs~~~s~~~ 16 (101)
T cd03409 3 LVVGHGSPYKDPYK 16 (101)
T ss_pred EEEECCCCCCccHH
Confidence 4677999998 654
No 12
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated
Probab=20.51 E-value=79 Score=22.97 Aligned_cols=20 Identities=30% Similarity=0.507 Sum_probs=16.8
Q ss_pred CCceeEEEEEEEEEeecCCC
Q psy363 12 EPNHGFIKEWTLMIHGTRDP 31 (59)
Q Consensus 12 ~~~~G~l~eWtL~LhGT~~~ 31 (59)
.-.-..|+....++|||.++
T Consensus 308 ~~~~~~~~~gr~~i~g~~~~ 327 (339)
T PRK07688 308 EKRLVLFKDGRVLVHGTKDI 327 (339)
T ss_pred CeEEEEEcCCCEEEECCCCH
Confidence 34558889999999999996
Done!