Query 021758
Match_columns 308
No_of_seqs 217 out of 1495
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 05:27:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2661 Peptidase family M48 [ 100.0 1.8E-52 3.9E-57 399.1 6.9 234 1-308 44-283 (424)
2 COG4783 Putative Zn-dependent 99.6 3.7E-16 8E-21 156.1 8.6 106 121-308 32-138 (484)
3 COG4784 Putative Zn-dependent 99.6 1.1E-14 2.4E-19 141.3 9.1 111 118-308 21-132 (479)
4 COG0501 HtpX Zn-dependent prot 99.0 3E-10 6.5E-15 105.2 4.1 47 261-308 115-165 (302)
5 PRK02870 heat shock protein Ht 98.9 5.7E-09 1.2E-13 101.5 11.0 45 263-308 133-181 (336)
6 PF01435 Peptidase_M48: Peptid 98.9 6.2E-10 1.3E-14 98.4 3.9 67 235-308 28-97 (226)
7 PRK03982 heat shock protein Ht 98.7 1.4E-08 3E-13 96.1 5.7 44 264-308 86-133 (288)
8 PRK01345 heat shock protein Ht 98.7 1.9E-08 4.1E-13 96.9 5.5 63 237-308 66-132 (317)
9 PRK03001 M48 family peptidase; 98.5 9.8E-08 2.1E-12 90.1 5.7 44 264-308 85-132 (283)
10 PRK04897 heat shock protein Ht 98.5 9.7E-08 2.1E-12 91.0 5.4 64 236-308 78-145 (298)
11 PRK03072 heat shock protein Ht 98.5 1.1E-07 2.4E-12 90.3 5.2 64 236-308 68-135 (288)
12 PRK05457 heat shock protein Ht 98.5 1.6E-07 3.4E-12 89.3 5.4 45 263-308 94-142 (284)
13 PRK01265 heat shock protein Ht 98.5 1.7E-07 3.8E-12 90.9 5.6 63 237-308 82-148 (324)
14 PRK02391 heat shock protein Ht 98.4 2.8E-07 6E-12 88.1 5.6 64 236-308 74-141 (296)
15 KOG2719 Metalloprotease [Gener 93.0 0.12 2.5E-06 52.5 4.5 44 265-308 236-288 (428)
16 PF13203 DUF2201_N: Putative m 80.9 1.6 3.5E-05 41.1 3.4 43 265-308 26-68 (292)
17 PF05569 Peptidase_M56: BlaR1 66.1 5 0.00011 37.8 2.7 42 266-308 160-204 (299)
18 PF04228 Zn_peptidase: Putativ 43.5 13 0.00028 36.2 1.5 36 273-308 136-178 (292)
19 PF10263 SprT-like: SprT-like 40.4 41 0.00089 28.4 4.0 25 283-308 44-68 (157)
20 PF09715 Plasmod_dom_1: Plasmo 38.4 14 0.0003 28.8 0.7 31 2-32 1-31 (67)
21 PRK04351 hypothetical protein; 38.3 26 0.00056 30.8 2.4 31 277-308 39-69 (149)
22 COG3590 PepO Predicted metallo 36.2 8.8 0.00019 40.9 -1.0 36 273-308 450-495 (654)
23 PF10026 DUF2268: Predicted Zn 34.5 24 0.00051 31.8 1.6 25 282-308 49-73 (195)
24 TIGR01519 plasmod_dom_1 Plasmo 32.7 20 0.00044 28.1 0.8 31 2-32 1-31 (70)
25 PF07225 NDUF_B4: NADH-ubiquin 30.3 29 0.00063 30.0 1.4 48 62-117 46-100 (125)
26 smart00731 SprT SprT homologue 27.8 36 0.00079 29.1 1.6 27 281-308 41-67 (146)
27 PF04450 BSP: Peptidase of pla 26.0 93 0.002 28.7 4.0 27 282-308 74-104 (205)
28 cd03688 eIF2_gamma_II eIF2_gam 24.8 17 0.00036 31.0 -1.0 32 275-306 79-111 (113)
29 COG5275 BRCT domain type II [G 22.2 61 0.0013 31.0 2.1 33 272-305 150-184 (276)
30 PF06114 DUF955: Domain of unk 21.4 1.3E+02 0.0028 23.1 3.5 40 264-308 6-50 (122)
No 1
>KOG2661 consensus Peptidase family M48 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.8e-52 Score=399.14 Aligned_cols=234 Identities=29% Similarity=0.457 Sum_probs=214.8
Q ss_pred ChhhhhhhHHHHHHhh-cccCCCCCCCcccccc-ccccCC----CCCcccccCCcccceeeccccccccCCCCCCCCcce
Q 021758 1 MAYYRRAKAALDAFRN-LSSKAVPKSPVQESCS-RVYSNG----SANSAKFSSGFYSYSCISQRLRNSYCNPNFNTAKRY 74 (308)
Q Consensus 1 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~ 74 (308)
|.|||+.|+.+|.+++ ++++|.|+++...+.+ .+.++. .+...+.+.|++++.+.-+.++..-+|||.+.+.+|
T Consensus 44 ~~~~~~~~~~~~~l~~~~~~~i~~~t~~~t~~n~~~~~~~~~~~~t~v~S~~v~l~~~~~s~Rn~Ng~~y~rFqsnp~~y 123 (424)
T KOG2661|consen 44 HFYSTFNNKRTGGLSSTKSKEIWRITSKCTVWNDAFSRQLLIKEVTAVPSLSVLLPLSPASIRNINGHTYPRFQSNPVPY 123 (424)
T ss_pred eeeeeecchhcccccccCCccceecccccceehhhhhhccchhhhhcccccccccccchhhhhccCccccchhhcCCccH
Confidence 7899999999999999 9999999999877776 333322 445578899999999999999999999999999999
Q ss_pred eEeecceeeeeccCCCCccccCCchhHHHHHHHHHHHHHHHhhccCccCCccchhccCCCHHHHHHHHHHHHHHHHHHhc
Q 021758 75 YYVDRYHVQHFRPRGPRKWLQNPRTVFIVVVIGSGAFITLYLGNLETVPYTKRTHFVLLSKAVERQLGESQFQQMKAAFK 154 (308)
Q Consensus 75 y~~~~~~~~hf~~rg~~~w~~~~r~~~~~~~vg~g~~~~~y~~~lEtvP~TgR~rfillS~~~E~~LGeq~y~qil~e~~ 154 (308)
|+.+++.|+||+|++.-+|++|+|++++++++|+.++++|||+|+|++|+|||+||+++|+++|+.||+.+|+++++||+
T Consensus 124 s~~~r~~~~sfkpn~~dk~f~n~rk~f~~lf~G~~~~~vfyfthlE~~Pit~Rsrfillskp~ekllge~~ye~im~eyq 203 (424)
T KOG2661|consen 124 SLMIRKWWQSFKPNKKDKVFENIRKNFWKLFLGLLLFVVFYFTHLEVSPITGRSRFILLSKPQEKLLGELEYEAIMEEYQ 203 (424)
T ss_pred HHHHHHHHHhcCCCCccchhhhHHHHHHHHHhhccceEEEEEeeeeeeccCCcceeeeccCHHHHHhhHHHHHHHHHHhc
Confidence 99999999999999999999999999999998876667899999999999999999999999999999999999999999
Q ss_pred CCCCCCCChhhHHHHHHHHHHHHHHHhcccccccccccCCCCccccccccchhhhhHHhhhhcccccccccCcccccccc
Q 021758 155 GKILPAIHPDSVRVRLIAKDIIEALQRGLKHETVWSDMGYASTETDFVNEGRAARDTLRALSENSERGKTEGKWHQEDEI 234 (308)
Q Consensus 155 ~kiLP~~hP~s~rVr~Ia~rIi~a~~~~l~~e~~~~~~gy~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~l 234 (308)
++|||+.||++.+|++|+++||+++..
T Consensus 204 ~~mLp~~hp~sl~V~~vlk~iIea~~~----------------------------------------------------- 230 (424)
T KOG2661|consen 204 NDMLPEKHPRSLAVKEVLKHIIEANKD----------------------------------------------------- 230 (424)
T ss_pred CccCCcCCchhhHHHHHHHHHHHHhcc-----------------------------------------------------
Confidence 999999999999999999999998520
Q ss_pred cchHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEeCCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 235 LDDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCLPGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 235 ~~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfalPGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
...+++..|+++||+||.+||||||||+||||||+|..|++||+||+|||||+
T Consensus 231 ---------------------~~slsgIkWeihVVndPipNAFvLPgGKvfVFtgiLn~ck~ddglAtvLgHE~ 283 (424)
T KOG2661|consen 231 ---------------------VPSLSGIKWEIHVVNDPIPNAFVLPGGKVFVFTGILNSCKDDDGLATVLGHEI 283 (424)
T ss_pred ---------------------CCcccCceeEEEEecCCCCceeeccCCeEEEEechhhcccChHHHHHHHHHHH
Confidence 01256889999999999999999999999999999999999999999999995
No 2
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=99.64 E-value=3.7e-16 Score=156.08 Aligned_cols=106 Identities=29% Similarity=0.438 Sum_probs=85.6
Q ss_pred ccCCccchhccCCCHHHHHHHHHHHHHHHHHHhcCCCCCCCChh-hHHHHHHHHHHHHHHHhcccccccccccCCCCccc
Q 021758 121 TVPYTKRTHFVLLSKAVERQLGESQFQQMKAAFKGKILPAIHPD-SVRVRLIAKDIIEALQRGLKHETVWSDMGYASTET 199 (308)
Q Consensus 121 tvP~TgR~rfillS~~~E~~LGeq~y~qil~e~~~kiLP~~hP~-s~rVr~Ia~rIi~a~~~~l~~e~~~~~~gy~~~~~ 199 (308)
..|.+|....-.+|+++|..+|...+.|+..+ ..++ .||+ ...|+.++++|++
T Consensus 32 ~lp~ig~~~~s~ls~~qev~~g~~~~~Qlr~~--~~~i--~D~el~~yv~~~g~rL~~---------------------- 85 (484)
T COG4783 32 LLPDIGVSAGSTLSPAQEVALGDPANAQLRGS--VPLI--RDPELEEYVNSLGQRLAA---------------------- 85 (484)
T ss_pred hcchhhhhhhhcCCHHHHHHhhHHHHHHhccC--CCCc--CCHHHHHHHHHHHHHHHH----------------------
Confidence 46888999999999999999999877776553 2232 2343 3345555555544
Q ss_pred cccccchhhhhHHhhhhcccccccccCcccccccccchHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEe
Q 021758 200 DFVNEGRAARDTLRALSENSERGKTEGKWHQEDEILDDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCL 279 (308)
Q Consensus 200 ~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~l~~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfal 279 (308)
.+++++.+++|++|+|+.+|||++
T Consensus 86 --------------------------------------------------------~a~~~~~~f~f~lV~d~~iNAFA~ 109 (484)
T COG4783 86 --------------------------------------------------------AADLVKTPFTFFLVNDDSINAFAT 109 (484)
T ss_pred --------------------------------------------------------hcCCCCCCeEEEEecCCccchhhc
Confidence 344567789999999999999999
Q ss_pred CCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 280 PGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 280 PGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
|||+|+|+||||..++||+|||+||||||
T Consensus 110 ~Gg~v~vntGLll~ae~esElagViAHEi 138 (484)
T COG4783 110 PGGYVVVNTGLLLTAENESELAGVIAHEI 138 (484)
T ss_pred CCceEEEehHHHHhcCCHHHHHHHHHHHH
Confidence 99999999999999999999999999996
No 3
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=99.55 E-value=1.1e-14 Score=141.31 Aligned_cols=111 Identities=27% Similarity=0.445 Sum_probs=90.5
Q ss_pred ccCccCCccchhccCCCHHHHHH-HHHHHHHHHHHHhcCCCCCCCChhhHHHHHHHHHHHHHHHhcccccccccccCCCC
Q 021758 118 NLETVPYTKRTHFVLLSKAVERQ-LGESQFQQMKAAFKGKILPAIHPDSVRVRLIAKDIIEALQRGLKHETVWSDMGYAS 196 (308)
Q Consensus 118 ~lEtvP~TgR~rfillS~~~E~~-LGeq~y~qil~e~~~kiLP~~hP~s~rVr~Ia~rIi~a~~~~l~~e~~~~~~gy~~ 196 (308)
.|...|-|+-.-+..|++.++.. ||.++-..|+++|++.. .||-.+| .+.||+.++
T Consensus 21 ~~~~~Ps~~p~~v~~v~~n~~laqmgar~hprIla~yggeY---~D~Kler---~Vari~g~l----------------- 77 (479)
T COG4784 21 ESGVQPSDNPQTVDNVQKNDPLAQMGARQHPRILATYGGEY---RDPKLER---MVARIVGAL----------------- 77 (479)
T ss_pred ccccCCCCCcchHHHhhccChHhHhhhhhChhHHHhcCCcc---CCHHHHH---HHHHHHhHh-----------------
Confidence 56778999999999999988776 99999999999999764 3554332 233444332
Q ss_pred ccccccccchhhhhHHhhhhcccccccccCcccccccccchHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCce
Q 021758 197 TETDFVNEGRAARDTLRALSENSERGKTEGKWHQEDEILDDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINA 276 (308)
Q Consensus 197 ~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~l~~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NA 276 (308)
+..++.++..|.+.|+|+|.+||
T Consensus 78 ---------------------------------------------------------t~~S~~p~q~YriTilnSP~INA 100 (479)
T COG4784 78 ---------------------------------------------------------TAVSENPQQTYRITILNSPNINA 100 (479)
T ss_pred ---------------------------------------------------------hhhccCCCceEEEEEecCCCccc
Confidence 12244567899999999999999
Q ss_pred eEeCCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 277 FCLPGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 277 falPGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
|+||||.++|+.|||..+.++.|||+||+|||
T Consensus 101 FALPGGYlYitRGLlAland~sEvAAVl~HEm 132 (479)
T COG4784 101 FALPGGYLYITRGLLALANDSSEVAAVLAHEM 132 (479)
T ss_pred cccCCceEEEehhHHHHcCCHHHHHHHHHhhh
Confidence 99999999999999999999999999999997
No 4
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=3e-10 Score=105.20 Aligned_cols=47 Identities=40% Similarity=0.673 Sum_probs=43.8
Q ss_pred CCCeEEEEEeCCCCceeEeCC----CeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 261 GLNWEVLVVNEPVINAFCLPG----GKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 261 ~~~w~v~Vv~~~~~NAfalPG----G~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
...|++.|++++.+||||+|+ |+|+|++||++.+ |||||++|||||+
T Consensus 115 ~~~~~v~i~~~~~~NAFa~g~~~~~~~V~vt~gLl~~l-~~dEl~aVlaHEl 165 (302)
T COG0501 115 PHMPEVYILETPQPNAFALGGGPKNGRVVVTTGLLDLL-NDDELEAVLAHEL 165 (302)
T ss_pred CCCCeeEEecCCCccceecCCCCCCeeEEecHHHHhhC-CHHHHHHHHHHHH
Confidence 447999999999999999999 7999999999966 9999999999996
No 5
>PRK02870 heat shock protein HtpX; Provisional
Probab=98.94 E-value=5.7e-09 Score=101.54 Aligned_cols=45 Identities=29% Similarity=0.566 Sum_probs=42.2
Q ss_pred CeEEEEEeCCCCceeEe----CCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 263 NWEVLVVNEPVINAFCL----PGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 263 ~w~v~Vv~~~~~NAfal----PGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+++++++++.+||||+ |++.|+|++||++.+ |+|||++||||||
T Consensus 133 ~p~V~vi~~~~~NAFA~G~~~~~~~Ivvt~GLL~~L-~~dEL~aVlAHEL 181 (336)
T PRK02870 133 MPKVYIIDAPYMNAFASGYSEKSAMVAITTGLLEKL-DRDELQAVMAHEL 181 (336)
T ss_pred CCeEEEEcCCCCceEEecCCCCCcEEEEehHHhhhC-CHHHHHHHHHHHH
Confidence 46999999999999999 578999999999998 9999999999996
No 6
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=98.93 E-value=6.2e-10 Score=98.42 Aligned_cols=67 Identities=33% Similarity=0.503 Sum_probs=48.7
Q ss_pred cchHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEeCCCe---EEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 235 LDDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCLPGGK---IVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 235 ~~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfalPGG~---I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+++++++.++. +++..+.....|+++|++++.+||||+|+|. |+|++||+..+ |+|||++|||||+
T Consensus 28 ~~~~~L~~~v~~------l~~~~~~~~~~~~v~v~~~~~~NA~~~g~~~~~~I~v~~~ll~~~-~~~el~aVlaHEl 97 (226)
T PF01435_consen 28 LEDPELRRIVEE------LARRAGLGIPPPRVYVIDSPSPNAFATGGGPRKRIVVTSGLLESL-SEDELAAVLAHEL 97 (226)
T ss_dssp -HHHHHHHHHHH------HHHHHHCTSS--EEEEE--SSEEEEEETTTC--EEEEEHHHHHHS-SHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHH------HHHHhcCCCCCCeEEEEcCCCCcEEEEccCCCcEEEEeChhhhcc-cHHHHHHHHHHHH
Confidence 456666666653 1222223445689999999999999999999 99999999655 9999999999996
No 7
>PRK03982 heat shock protein HtpX; Provisional
Probab=98.73 E-value=1.4e-08 Score=96.07 Aligned_cols=44 Identities=30% Similarity=0.489 Sum_probs=40.1
Q ss_pred eEEEEEeCCCCceeEe---C-CCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 264 WEVLVVNEPVINAFCL---P-GGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 264 w~v~Vv~~~~~NAfal---P-GG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+++|++++.+|||++ | +|.|+|++||++.+ |+|||++|||||+
T Consensus 86 p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~l-~~~El~AVlAHEl 133 (288)
T PRK03982 86 PKVAIVPTQTPNAFATGRDPKHAVVAVTEGILNLL-NEDELEGVIAHEL 133 (288)
T ss_pred CeEEEEeCCCcceEEeccCCCCeEEEeehHHHhhC-CHHHHHHHHHHHH
Confidence 4899999999999999 4 46788999999998 8999999999996
No 8
>PRK01345 heat shock protein HtpX; Provisional
Probab=98.69 E-value=1.9e-08 Score=96.91 Aligned_cols=63 Identities=22% Similarity=0.362 Sum_probs=48.0
Q ss_pred hHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEeC----CCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 237 DKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCLP----GGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 237 D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfalP----GG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
+|++.+.++. ++...+++ ..+++|++++.+|||+++ ++.|+|++|||+.+ |+|||++||||||
T Consensus 66 ~p~L~~~v~~------La~~agi~--~p~v~vid~~~~NAFa~G~~~~~~~V~vt~gLL~~L-~~dEL~aVlAHEl 132 (317)
T PRK01345 66 APELYRMVRD------LARRAGLP--MPKVYIIDNPQPNAFATGRNPENAAVAATTGLLQRL-SPEEVAGVMAHEL 132 (317)
T ss_pred CHHHHHHHHH------HHHHcCCC--CCcEEEEcCCCcceEEecCCCCCeEEEechHHHhhC-CHHHHHHHHHHHH
Confidence 4555555432 23334444 248999999999999994 34799999999998 8899999999996
No 9
>PRK03001 M48 family peptidase; Provisional
Probab=98.54 E-value=9.8e-08 Score=90.07 Aligned_cols=44 Identities=30% Similarity=0.466 Sum_probs=39.8
Q ss_pred eEEEEEeCCCCceeEeCC----CeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 264 WEVLVVNEPVINAFCLPG----GKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 264 w~v~Vv~~~~~NAfalPG----G~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+++|++++.+|||+.+. +.|+|++||++.+ |+|||++||||||
T Consensus 85 p~v~v~~~~~~NAfa~G~~~~~~~Ivvt~gLl~~l-~~~El~aVlAHEl 132 (283)
T PRK03001 85 PKVYLINEDQPNAFATGRNPEHAAVAATTGILRVL-SEREIRGVMAHEL 132 (283)
T ss_pred CeEEEecCCCcceEEecCCCCCeEEEecHHHHhhC-CHHHHHHHHHHHH
Confidence 489999999999999964 3599999999988 9999999999996
No 10
>PRK04897 heat shock protein HtpX; Provisional
Probab=98.53 E-value=9.7e-08 Score=91.05 Aligned_cols=64 Identities=23% Similarity=0.404 Sum_probs=49.4
Q ss_pred chHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEeC----CCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 236 DDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCLP----GGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 236 ~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfalP----GG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
++|++.+.++. ++...+++ ..++++++++.+|||+.+ ++.|+|++||++.+ |+|||++|||||+
T Consensus 78 ~~p~L~~~v~~------la~~~gip--~p~v~v~~~~~~NAfa~G~~~~~~~v~vt~gLl~~l-~~~El~aVlAHEl 145 (298)
T PRK04897 78 EAPELWHIVED------MAMVAQIP--MPRVFIIDDPSPNAFATGSSPKNAAVAVTTGLLAIM-NREELEGVIGHEI 145 (298)
T ss_pred hhHHHHHHHHH------HHHHcCCC--CCcEEEecCCCCceEEeccCCCCcEEEeehHHHhhC-CHHHHHHHHHHHH
Confidence 34666665543 23334443 348999999999999995 35699999999999 9999999999996
No 11
>PRK03072 heat shock protein HtpX; Provisional
Probab=98.51 E-value=1.1e-07 Score=90.33 Aligned_cols=64 Identities=16% Similarity=0.261 Sum_probs=49.1
Q ss_pred chHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEeC---CC-eEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 236 DDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCLP---GG-KIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 236 ~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfalP---GG-~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
++|++.+.++. ++...+++ ..+++|++++.+|||+.. ++ .|+|++||++.+ |+|||++|||||+
T Consensus 68 ~~p~L~~~v~~------la~~~g~p--~p~vyv~~~~~~NAFa~G~~~~~~~v~vt~gLl~~l-~~~El~aVlAHEl 135 (288)
T PRK03072 68 QAPAMYRIVRE------LSTAARQP--MPRLYISPTAAPNAFATGRNPRNAAVCCTEGILQIL-NERELRGVLGHEL 135 (288)
T ss_pred hhHHHHHHHHH------HHHHcCCC--CCCEEEecCCCCceEEecCCCCCcEEEecHHHHHhC-CHHHHHHHHHHHH
Confidence 46666666543 23334443 348999999999999993 22 489999999998 9999999999996
No 12
>PRK05457 heat shock protein HtpX; Provisional
Probab=98.48 E-value=1.6e-07 Score=89.28 Aligned_cols=45 Identities=33% Similarity=0.549 Sum_probs=40.0
Q ss_pred CeEEEEEeCCCCceeEeCC----CeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 263 NWEVLVVNEPVINAFCLPG----GKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 263 ~w~v~Vv~~~~~NAfalPG----G~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
..+++|++++.+|||+.+. +.|+|++||++.+ |+|||++|||||+
T Consensus 94 ~p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~L-~~~El~aVlAHEl 142 (284)
T PRK05457 94 MPEVAIYHSPEINAFATGASKNNSLVAVSTGLLQNM-SRDEVEAVLAHEI 142 (284)
T ss_pred CCCEEEEeCCCceEEEecCCCCCeEEEeehHHhhhC-CHHHHHHHHHHHH
Confidence 3579999999999999963 3489999999999 8999999999996
No 13
>PRK01265 heat shock protein HtpX; Provisional
Probab=98.47 E-value=1.7e-07 Score=90.90 Aligned_cols=63 Identities=24% Similarity=0.394 Sum_probs=48.6
Q ss_pred hHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEe----CCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 237 DKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCL----PGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 237 D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfal----PGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
+|++.+.++. ++...+.+ ..++++++++.+|||+. +++.|+|++||++.+ |+|||.+|||||+
T Consensus 82 ~~~L~~~v~~------la~~~g~~--~p~vyv~~~~~~NAfa~G~~~~~~~Ivvt~gLl~~l-~~~El~aVlAHEl 148 (324)
T PRK01265 82 YGWLYSIVAE------VAKYNGIR--VPKVYIADVPFPNAFAYGSPIAGKRIAITLPLLKIL-NRDEIKAVAGHEL 148 (324)
T ss_pred cHHHHHHHHH------HHHHcCCC--CCeEEEecCCCCCeEEeccCCCCCEEEEehHHHhhC-CHHHHHHHHHHHH
Confidence 4555555542 23334443 45899999999999996 357899999999999 9999999999996
No 14
>PRK02391 heat shock protein HtpX; Provisional
Probab=98.43 E-value=2.8e-07 Score=88.15 Aligned_cols=64 Identities=23% Similarity=0.328 Sum_probs=48.0
Q ss_pred chHHHHHHhhhcccccccccccCCCCCCeEEEEEeCCCCceeEeCC----CeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 236 DDKWVQQSRKKGQEKGLQSATSHLDGLNWEVLVVNEPVINAFCLPG----GKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 236 ~D~~v~~~~~~g~~~~~~~~~s~l~~~~w~v~Vv~~~~~NAfalPG----G~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
++|++.+.++. ++...+.+ ..++++++++.+|||+.+. +.|+|++||++.+ |+|||.+|||||+
T Consensus 74 ~~p~L~~~v~~------la~~~~~~--~p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~L-~~~El~aVlaHEl 141 (296)
T PRK02391 74 EYPELHAMVER------LCALADLP--KPRVAVADSDVPNAFATGRSPKNAVVCVTTGLMRRL-DPDELEAVLAHEL 141 (296)
T ss_pred hCHHHHHHHHH------HHHHcCCC--CCcEEEEeCCCCceEEecCCCCCcEEEecHHHHhhC-CHHHHHHHHHHHH
Confidence 35566655542 23334443 2489999999999999943 3589999999998 8999999999996
No 15
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=93.05 E-value=0.12 Score=52.55 Aligned_cols=44 Identities=23% Similarity=0.381 Sum_probs=34.0
Q ss_pred EEEEEeC----CCCceeEeCC---CeEEEcHhHhh-cc-CCHHHHHHHHhcCC
Q 021758 265 EVLVVNE----PVINAFCLPG---GKIVVFTGLLE-HF-RTDAEIATIIGHEV 308 (308)
Q Consensus 265 ~v~Vv~~----~~~NAfalPG---G~I~V~tGLl~-~~-~nddeLAaVLaHEi 308 (308)
.+.|++. ...|||-..= -.|++|.-|+. .. .|+||++||+|||+
T Consensus 236 k~~vi~~s~rs~hsNAyfyG~~~~KRIvIyDtLl~~~~~~~~eel~AVl~HEL 288 (428)
T KOG2719|consen 236 KYRVIDGSKRSSHSNAYFYGLCKNKRIVIYDTLLLEEEHLNNEELVAVLAHEL 288 (428)
T ss_pred EEEEEecCCCCCCCCeeeeeccccceEEEehhhhhhhhccccHHHHHHHHHHh
Confidence 5677772 3489998843 46999999993 33 38999999999996
No 16
>PF13203 DUF2201_N: Putative metallopeptidase domain
Probab=80.93 E-value=1.6 Score=41.13 Aligned_cols=43 Identities=21% Similarity=0.254 Sum_probs=36.6
Q ss_pred EEEEEeCCCCceeEeCCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 265 EVLVVNEPVINAFCLPGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 265 ~v~Vv~~~~~NAfalPGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+.++.++.+-.++..|..|+++-.++..+ +.+|+.+||+||+
T Consensus 26 ~l~~~~~~~~~t~~tDg~~l~~nP~~~~~l-~~~~~~~~l~Hev 68 (292)
T PF13203_consen 26 SLPPVEDDGIPTAATDGRRLYYNPEFLESL-SPEERVGLLLHEV 68 (292)
T ss_pred hCeeeeCCCCceeeEcCcEEEECcHHHhcC-CHHHHHHHHHHHH
Confidence 334455777889999999999999999887 8899999999995
No 17
>PF05569 Peptidase_M56: BlaR1 peptidase M56; InterPro: IPR008756 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M56 (clan M-). The predicted active site residues for members of this family occur in the motif HEXXH. The type example is BlaR1 peptidase from Bacillus licheniformis. Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription.
Probab=66.07 E-value=5 Score=37.82 Aligned_cols=42 Identities=24% Similarity=0.348 Sum_probs=31.6
Q ss_pred EEEEeCCC-CceeEeC--CCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 266 VLVVNEPV-INAFCLP--GGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 266 v~Vv~~~~-~NAfalP--GG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
+.++.++. ...|++. -.+|++-.++++.+ +++|+..||.||+
T Consensus 160 ~~i~~s~~i~sP~~~G~~~p~I~lP~~~~~~~-~~~el~~il~HEl 204 (299)
T PF05569_consen 160 IRIRVSSGISSPFVFGFLRPVIVLPESLLEDL-SEEELRAILLHEL 204 (299)
T ss_pred eEEEEcCCCCCCeeecCcceEEEecCcccccc-CHHHHHHHHHHHH
Confidence 44444443 4567662 15899999999888 9999999999995
No 18
>PF04228 Zn_peptidase: Putative neutral zinc metallopeptidase; InterPro: IPR007343 Members of this family of bacterial proteins are described as hypothetical proteins or zinc metallopeptidases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=43.50 E-value=13 Score=36.16 Aligned_cols=36 Identities=19% Similarity=0.341 Sum_probs=25.8
Q ss_pred CCceeEeC-CCeEEEcHhHhhccC------CHHHHHHHHhcCC
Q 021758 273 VINAFCLP-GGKIVVFTGLLEHFR------TDAEIATIIGHEV 308 (308)
Q Consensus 273 ~~NAfalP-GG~I~V~tGLl~~~~------nddeLAaVLaHEi 308 (308)
..|||=+| +.+|++-..+++.++ .+-..+.|||||.
T Consensus 136 ~~gpFYCp~D~tIYlD~~f~~~L~~~~ga~G~~a~ayVlAHEy 178 (292)
T PF04228_consen 136 ATGPFYCPADQTIYLDLSFFDELQQRFGASGDFAQAYVLAHEY 178 (292)
T ss_pred CCCCEeCCCCCEEEechHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence 35666666 578999998876553 3445678999994
No 19
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=40.41 E-value=41 Score=28.42 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=22.7
Q ss_pred eEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 283 KIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 283 ~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.|.++.-+++. .++++|..+|.|||
T Consensus 44 ~I~ls~~~~~~-~~~~~~~~tL~HEm 68 (157)
T PF10263_consen 44 EIRLSPKLLDR-NPEEELIDTLLHEM 68 (157)
T ss_pred EEEECHHHHHh-hHHHHHHHHHHHHH
Confidence 69999999988 58999999999997
No 20
>PF09715 Plasmod_dom_1: Plasmodium protein of unknown function (Plasmod_dom_1); InterPro: IPR006410 These sequences represent an uncharacterised family consisting of a small number of hypothetical proteins of the malaria parasite Plasmodium falciparum (isolate 3D7).
Probab=38.40 E-value=14 Score=28.79 Aligned_cols=31 Identities=23% Similarity=0.490 Sum_probs=23.4
Q ss_pred hhhhhhhHHHHHHhhcccCCCCCCCcccccc
Q 021758 2 AYYRRAKAALDAFRNLSSKAVPKSPVQESCS 32 (308)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (308)
++++|+|+.+|+|-++-+.-+=.++++...|
T Consensus 1 sFFKk~klvm~~fDnifidklId~~i~nk~s 31 (67)
T PF09715_consen 1 SFFKKAKLVMDIFDNIFIDKLIDNNIQNKSS 31 (67)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHccccccCCC
Confidence 4799999999999996554444667766655
No 21
>PRK04351 hypothetical protein; Provisional
Probab=38.29 E-value=26 Score=30.82 Aligned_cols=31 Identities=29% Similarity=0.410 Sum_probs=25.5
Q ss_pred eEeCCCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 277 FCLPGGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 277 falPGG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
+-+....|-++.-+++.. .++.|..||.|||
T Consensus 39 ~~l~~~~I~lnp~ll~~~-~~~~l~~vv~HEl 69 (149)
T PRK04351 39 YLLKDHHIEFNPKMLEEY-GLEELIGIIKHEL 69 (149)
T ss_pred eecCCCeEEeCHHHHhhc-cHHHHHhhHHHHH
Confidence 335567899998888865 8999999999996
No 22
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=36.20 E-value=8.8 Score=40.88 Aligned_cols=36 Identities=33% Similarity=0.612 Sum_probs=25.6
Q ss_pred CCceeEeCCCe-EEEcHhHhh--ccC-------CHHHHHHHHhcCC
Q 021758 273 VINAFCLPGGK-IVVFTGLLE--HFR-------TDAEIATIIGHEV 308 (308)
Q Consensus 273 ~~NAfalPGG~-I~V~tGLl~--~~~-------nddeLAaVLaHEi 308 (308)
++|||.-|+-. |+.-.+||. ..+ |=-.+-+||||||
T Consensus 450 ~VNAYYnp~~N~IVFPAAILQ~PFfd~ea~~a~NYGgIGaVIgHEI 495 (654)
T COG3590 450 TVNAYYNPQKNEIVFPAAILQAPFFDPEADSAANYGGIGAVIGHEI 495 (654)
T ss_pred HhhhhcCCCCceEeeeHHhcCCCCCCCCcchhhcccCccceehhhh
Confidence 59999999865 555566664 222 3445889999998
No 23
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=34.52 E-value=24 Score=31.76 Aligned_cols=25 Identities=32% Similarity=0.469 Sum_probs=19.8
Q ss_pred CeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 282 GKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 282 G~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
|+|+++- +..-.+.++|.++||||.
T Consensus 49 ~~i~l~~--~~~~~~~~~l~~~iaHE~ 73 (195)
T PF10026_consen 49 GYIFLFL--LPNDYSLEELPALIAHEY 73 (195)
T ss_pred CEEEEEe--cCCcccHHHHHHHHHHHH
Confidence 5777775 555568899999999994
No 24
>TIGR01519 plasmod_dom_1 Plasmodium falciparum uncharacterized domain. This model represents an uncharacterized domain present in roughly eight hypothetical proteins of the malaria parasite Plasmodium falciparum.
Probab=32.74 E-value=20 Score=28.11 Aligned_cols=31 Identities=19% Similarity=0.379 Sum_probs=23.9
Q ss_pred hhhhhhhHHHHHHhhcccCCCCCCCcccccc
Q 021758 2 AYYRRAKAALDAFRNLSSKAVPKSPVQESCS 32 (308)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (308)
++++|+|+.+|+|-++-+.-+=.++++...|
T Consensus 1 sFFKkaklvm~~fDnifidklid~~v~nk~S 31 (70)
T TIGR01519 1 SFFKRALLLMNIFDNIFIDKLIDNNVHNKGS 31 (70)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHccccccCCC
Confidence 4799999999999996555555677776655
No 25
>PF07225 NDUF_B4: NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4); InterPro: IPR009866 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family contains human NADH-ubiquinone oxidoreductase subunit NDUFB4 and related sequences.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=30.34 E-value=29 Score=29.95 Aligned_cols=48 Identities=27% Similarity=0.410 Sum_probs=28.8
Q ss_pred ccCCCCCC-----CC-cce-eEeecceeeeeccCCCCccccCCchhHHHHHHHHHHHHHHHhh
Q 021758 62 SYCNPNFN-----TA-KRY-YYVDRYHVQHFRPRGPRKWLQNPRTVFIVVVIGSGAFITLYLG 117 (308)
Q Consensus 62 ~~~~~~~~-----~~-~r~-y~~~~~~~~hf~~rg~~~w~~~~r~~~~~~~vg~g~~~~~y~~ 117 (308)
...||+-. ++ -|+ |.-.-..|.||.|.. |+.+++++.+.+.++++|+.
T Consensus 46 q~~nP~~~gli~DPAL~Rw~~a~~~~~y~~FRpTP--------ktsllg~~~~v~P~i~~~~~ 100 (125)
T PF07225_consen 46 QYNNPHRKGLIFDPALQRWAYARAVNIYEYFRPTP--------KTSLLGLGFGVVPLIFYYYV 100 (125)
T ss_pred HcCCCCCCCccCChHHHHHHHHHHhCcccccccCc--------hHHHHHHHHHHHHHHHHHhh
Confidence 45666631 22 467 554447899998874 77777766655544444433
No 26
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=27.76 E-value=36 Score=29.07 Aligned_cols=27 Identities=19% Similarity=0.212 Sum_probs=23.6
Q ss_pred CCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 281 GGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 281 GG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+.|.++.-|++.. .++.|..||.|||
T Consensus 41 ~~~I~ln~~l~~~~-~~~~l~~~l~HEm 67 (146)
T smart00731 41 SAEIRLNPKLLTEN-GRDRLRETLLHEL 67 (146)
T ss_pred CCEEEeCHHHHhhc-cHHHHHhhHHHHH
Confidence 68899999888865 7889999999996
No 27
>PF04450 BSP: Peptidase of plants and bacteria; InterPro: IPR007541 These basic secretory proteins (BSPs) are believed to be part of the plants defence mechanism against pathogens [].
Probab=25.98 E-value=93 Score=28.69 Aligned_cols=27 Identities=19% Similarity=0.315 Sum_probs=23.2
Q ss_pred CeEEEcHhHhhccCC----HHHHHHHHhcCC
Q 021758 282 GKIVVFTGLLEHFRT----DAEIATIIGHEV 308 (308)
Q Consensus 282 G~I~V~tGLl~~~~n----ddeLAaVLaHEi 308 (308)
..|.++...|....+ .+|+.+||-|||
T Consensus 74 ~~I~~S~~~i~~~~~~~~~~~Ei~Gvl~HE~ 104 (205)
T PF04450_consen 74 KEIHFSARYIAKYPADGDVRDEIIGVLYHEM 104 (205)
T ss_pred cEEEEeHHHHhhcccccchHHHHHHHHHHHH
Confidence 689999999998753 469999999996
No 28
>cd03688 eIF2_gamma_II eIF2_gamma_II: this subfamily represents the domain II of the gamma subunit of eukaryotic translation initiation factor 2 (eIF2-gamma) found in Eukaryota and Archaea. eIF2 is a G protein that delivers the methionyl initiator tRNA to the small ribosomal subunit and releases it upon GTP hydrolysis after the recognition of the initiation codon. eIF2 is composed three subunits, alpha, beta and gamma. Subunit gamma shows strongest conservation, and it confers both tRNA binding and GTP/GDP binding.
Probab=24.76 E-value=17 Score=30.98 Aligned_cols=32 Identities=25% Similarity=0.326 Sum_probs=24.1
Q ss_pred ceeEeCCCeEEEcHhHhhccCCHHHHH-HHHhc
Q 021758 275 NAFCLPGGKIVVFTGLLEHFRTDAEIA-TIIGH 306 (308)
Q Consensus 275 NAfalPGG~I~V~tGLl~~~~nddeLA-aVLaH 306 (308)
=-+|.|||.|.|-|.|...+...|.|+ .|+||
T Consensus 79 l~~a~pGgliGvgT~Ldpsltk~D~l~GqV~g~ 111 (113)
T cd03688 79 LQEAVPGGLIGVGTKLDPTLTKADRLVGQVVGE 111 (113)
T ss_pred ccEEeCCCeEEEccccCccccccceeeEEEeec
Confidence 367899999999999999765445544 56655
No 29
>COG5275 BRCT domain type II [General function prediction only]
Probab=22.23 E-value=61 Score=30.99 Aligned_cols=33 Identities=39% Similarity=0.682 Sum_probs=22.0
Q ss_pred CCCceeEeCCCeEEEcHhHhhccC-CHHH-HHHHHh
Q 021758 272 PVINAFCLPGGKIVVFTGLLEHFR-TDAE-IATIIG 305 (308)
Q Consensus 272 ~~~NAfalPGG~I~V~tGLl~~~~-ndde-LAaVLa 305 (308)
|+-|-=|| -|++||+||.|+.+. ++++ |+-|+|
T Consensus 150 peg~~~cL-~G~~fVfTG~l~TlsR~~a~~lvk~yG 184 (276)
T COG5275 150 PEGERECL-KGKVFVFTGDLKTLSRDDAKTLVKVYG 184 (276)
T ss_pred CCCCcccc-cccEEEEecccccccchhHHHHHHHhC
Confidence 34455566 489999999999653 3333 666654
No 30
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=21.42 E-value=1.3e+02 Score=23.05 Aligned_cols=40 Identities=15% Similarity=0.279 Sum_probs=23.1
Q ss_pred eEEEEEeCCC--CceeEeC---CCeEEEcHhHhhccCCHHHHHHHHhcCC
Q 021758 264 WEVLVVNEPV--INAFCLP---GGKIVVFTGLLEHFRTDAEIATIIGHEV 308 (308)
Q Consensus 264 w~v~Vv~~~~--~NAfalP---GG~I~V~tGLl~~~~nddeLAaVLaHEi 308 (308)
.+|...+... ...++.+ .+.|+|.+. .++.+-..+|+|||
T Consensus 6 i~v~~~~~~~~~~~~~~~~~~~~~~I~in~~-----~~~~~~~f~laHEL 50 (122)
T PF06114_consen 6 IDVVYTDLGPKDLGGFSIPKENNPIIFINSN-----LSPERQRFTLAHEL 50 (122)
T ss_dssp -EEEEE--TT--EEEETT----TTEEEEESS-----S-HHHHHHHHHHHH
T ss_pred EEEEEEcCCCCCcCEEEEecCcCCEEEECCC-----CCHHHHHHHHHHHH
Confidence 3555555443 3344443 567887765 36778899999995
Done!