Query 029364
Match_columns 194
No_of_seqs 106 out of 176
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 11:44:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029364.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029364hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02888 spore_YlmC_YmxH spor 99.9 3.3E-22 7.2E-27 146.7 6.7 67 118-184 1-76 (76)
2 COG1873 Protein implicated in 99.5 1E-13 2.2E-18 104.0 6.8 69 115-184 4-78 (87)
3 PF05239 PRC: PRC-barrel domai 99.3 4.6E-12 9.9E-17 88.3 5.4 71 115-186 2-76 (79)
4 COG3881 PRC-barrel domain cont 98.2 4.9E-06 1.1E-10 70.4 7.2 71 121-191 85-159 (176)
5 COG3881 PRC-barrel domain cont 97.7 0.0001 2.2E-09 62.5 6.1 70 116-186 1-72 (176)
6 cd00226 PRCH Photosynthetic re 94.2 0.18 3.9E-06 45.0 7.2 61 120-183 146-207 (246)
7 PRK13829 rimM 16S rRNA-process 74.1 19 0.00042 29.3 7.4 66 117-185 89-157 (162)
8 TIGR01150 puhA photosynthetic 54.3 22 0.00047 32.3 4.4 36 121-157 150-185 (252)
9 COG0806 RimM RimM protein, req 51.7 38 0.00083 28.6 5.3 48 117-169 101-148 (174)
10 KOG0918 Selenium-binding prote 47.8 20 0.00044 35.0 3.4 42 107-161 384-447 (476)
11 PRK14592 rimM 16S rRNA-process 44.6 1.1E+02 0.0024 24.8 6.9 66 117-187 92-162 (165)
12 PRK14591 rimM 16S rRNA-process 43.3 46 0.001 27.2 4.5 36 117-154 100-135 (169)
13 PRK14593 rimM 16S rRNA-process 41.3 1.6E+02 0.0034 24.5 7.3 65 117-184 104-176 (184)
14 PRK14594 rimM 16S rRNA-process 36.8 83 0.0018 25.7 5.0 46 117-170 97-142 (166)
15 TIGR02273 16S_RimM 16S rRNA pr 33.3 85 0.0018 25.3 4.5 48 117-170 95-143 (165)
16 PRK00122 rimM 16S rRNA-process 27.3 93 0.002 25.3 3.8 63 117-185 100-167 (172)
17 PF13861 FLgD_tudor: FlgD Tudo 26.9 77 0.0017 21.7 2.8 53 115-176 3-60 (61)
18 PF03413 PepSY: Peptidase prop 26.5 69 0.0015 20.6 2.4 15 139-153 48-62 (64)
19 PF06115 DUF956: Domain of unk 24.6 40 0.00087 27.5 1.2 15 167-181 47-62 (118)
20 PRK14590 rimM 16S rRNA-process 23.6 1.6E+02 0.0035 24.3 4.6 37 117-155 97-134 (171)
21 PF07533 BRK: BRK domain; Int 23.6 49 0.0011 22.5 1.3 12 126-137 9-20 (46)
22 PF00122 E1-E2_ATPase: E1-E2 A 23.0 48 0.001 26.8 1.4 24 164-188 43-66 (230)
23 PF13028 DUF3889: Protein of u 22.2 1.6E+02 0.0034 23.1 4.0 28 130-157 68-95 (97)
24 PF02470 MCE: mce related prot 20.7 1.4E+02 0.0031 20.8 3.3 29 132-160 24-53 (81)
25 smart00592 BRK domain in trans 20.7 54 0.0012 22.2 1.0 12 126-137 7-18 (45)
26 PF00181 Ribosomal_L2: Ribosom 20.6 2.4E+02 0.0052 20.4 4.5 44 135-181 33-76 (77)
No 1
>TIGR02888 spore_YlmC_YmxH sporulation protein, YlmC/YmxH family. Members of this family belong to the broader family of PRC-barrel domain proteins (see Pfam model pfam05239), but are found only in endospore-forming bacteria of the Firmicutes lineage. Most such species have exactly two members of this family and all have at least one; the function is unknown. One of two members from Bacillus subtilis, YmxH, is strongly induced by the mother cell-specific sigma-E factor.
Probab=99.86 E-value=3.3e-22 Score=146.66 Aligned_cols=67 Identities=24% Similarity=0.281 Sum_probs=60.5
Q ss_pred EecccccceeEeccCCceeeee--eeEEEECCCCEEEEEEECCC-----CCCCCCe-EEeccCcceec-eEEEEec
Q 029364 118 RRSNLLAKQVISIQSAMSLGFV--SQLWVDTTSWVVLVVEVRPN-----LLSGEPE-RLLLEDICQVF-FFICVVY 184 (194)
Q Consensus 118 KrSdL~~KEVINi~dG~RLG~I--sDL~VD~~sG~V~AIiV~~~-----~f~ge~e-~IpWe~I~KIG-DVILVe~ 184 (194)
|+|||++|||||++||+|||+| .|+++|+++|+|.||++|++ ||+++.+ .|||++|+||| |+|||+.
T Consensus 1 r~seL~~keVIni~~G~~lG~v~~~Dl~iD~~~G~I~aiIi~~~~~~~~~~~~~~~~~Ipw~~I~kIG~DvIlV~~ 76 (76)
T TIGR02888 1 RLSDLRGKEIINVNDGERLGVIGNIDLEIDEEDGRILSLIIPGKGKKFGLFSKGEEIEIPWDAIKKIGSDVILVDV 76 (76)
T ss_pred CHHHccCCCEEECCCCcEeeccccceEEEECCCCEEEEEEEeCCCcEEEeecCCcEEEEEhhhccEECCCEEEEeC
Confidence 5799999999999999999999 89999999999999999873 5555555 49999999999 9999984
No 2
>COG1873 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]
Probab=99.47 E-value=1e-13 Score=103.98 Aligned_cols=69 Identities=26% Similarity=0.247 Sum_probs=58.6
Q ss_pred ceEEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCC---CC--CCCCe-EEeccCcceeceEEEEec
Q 029364 115 QVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPN---LL--SGEPE-RLLLEDICQVFFFICVVY 184 (194)
Q Consensus 115 qmmKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~---~f--~ge~e-~IpWe~I~KIGDVILVe~ 184 (194)
.||++|+|.+|+|+|. +|++||.|.|+.+|.++|+|.++.|.++ +| +++.. .|||+.|++|||.|++..
T Consensus 4 ~~~~~s~l~gk~V~~~-~G~~vG~V~dv~ld~~~g~i~~l~v~~~~~~l~~~~k~~~v~IP~~~V~aIGd~III~~ 78 (87)
T COG1873 4 EMMRLSELLGKEVITN-DGKYVGTVSDVVLDIKEGKITGLLVIPTNKGLFLFGKGKEVIVPYEYVKAIGDIIIIKD 78 (87)
T ss_pred hhheHHHhcCcEEEcC-CCeEEEEEEeEEEEccCCcEEEEEEecCCccccccCCCcEEEEehhHeEEecCEEEEec
Confidence 4789999999999999 9999999999999999999999999754 44 33324 499999999996666653
No 3
>PF05239 PRC: PRC-barrel domain; InterPro: IPR007903 The PRC-barrel is an all beta barrel domain found in photosynthetic reaction centre subunit H of the purple bacteria. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the C terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain [].; PDB: 2QGG_A 3H9N_A 2WJN_H 2PRC_H 5PRC_H 2X5V_H 1DXR_H 1R2C_H 3G7F_H 1PRC_H ....
Probab=99.29 E-value=4.6e-12 Score=88.33 Aligned_cols=71 Identities=20% Similarity=0.221 Sum_probs=61.8
Q ss_pred ceEEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCC-CCC--CCCeEEeccCcceec-eEEEEecCC
Q 029364 115 QVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPN-LLS--GEPERLLLEDICQVF-FFICVVYFP 186 (194)
Q Consensus 115 qmmKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~-~f~--ge~e~IpWe~I~KIG-DVILVe~~~ 186 (194)
.+++.|||.+++|+|.+ |+++|.|.|+.+|+.+|+|.++++..+ +|+ ++...+||+++.++| |.|+|+...
T Consensus 2 ~~~~~s~l~g~~V~~~~-G~~iG~V~di~id~~~~~i~~i~v~~~~~~~~~~~~~~iP~~~~v~~~~~~i~v~~~~ 76 (79)
T PF05239_consen 2 DEFRLSELIGKEVIDRD-GEKIGKVKDIVIDPKTGKIVGIVVSSGGFFGIGGKKVLIPWDQIVDIGGDRIIVDPPK 76 (79)
T ss_dssp CHGCHHHHTTSEEEETT-SCEEEEEEEEEEETTTTEEEEEEEEETTSTCSSSEEEEEEGGEEEEECTTEEEESSST
T ss_pred CeEEhHHccCCEEEcCC-CCEEEEEEEEEEeCCCCCEEEEEEcCCCccCcCCcEEEEcCeEeEEecCCEEEEcCCC
Confidence 46889999999999998 999999999999999999999999876 333 344569999888888 999998754
No 4
>COG3881 PRC-barrel domain containing protein [General function prediction only]
Probab=98.19 E-value=4.9e-06 Score=70.35 Aligned_cols=71 Identities=15% Similarity=0.152 Sum_probs=63.2
Q ss_pred ccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCCC---CCCeEEeccCcceec-eEEEEecCCccccc
Q 029364 121 NLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLS---GEPERLLLEDICQVF-FFICVVYFPVHDMV 191 (194)
Q Consensus 121 dL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f~---ge~e~IpWe~I~KIG-DVILVe~~~v~~~~ 191 (194)
++++.++++-++|.+||.|.|+.+|.++|+|+|.++..+||+ +....|+=.+-+++| |.++|..+..+.|+
T Consensus 85 e~m~mk~~lt~dG~iLGmveDVyFdek~gkIvgyevS~GffADlt~gRkiira~~~v~vgKD~~ivs~~~~~~~~ 159 (176)
T COG3881 85 EIMNMKVILTYDGTILGMVEDVYFDEKTGKIVGYEVSRGFFADLTSGRKIIRAGNYVLVGKDLFIVSNDKNLSFV 159 (176)
T ss_pred HhhcCceEeccCCcEeeeeeEEEEeccCCcEEEEEecCchhhhccCCceEEECCCcEEecccEEEecCCcchhhh
Confidence 466778888999999999999999999999999999999995 345678899999999 99999998887765
No 5
>COG3881 PRC-barrel domain containing protein [General function prediction only]
Probab=97.67 E-value=0.0001 Score=62.51 Aligned_cols=70 Identities=17% Similarity=0.114 Sum_probs=61.9
Q ss_pred eEEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCC-CCCCCCeEEeccCcceec-eEEEEecCC
Q 029364 116 VMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPN-LLSGEPERLLLEDICQVF-FFICVVYFP 186 (194)
Q Consensus 116 mmKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~-~f~ge~e~IpWe~I~KIG-DVILVe~~~ 186 (194)
|++--+|.+.+|++..||.+||.|.|+-+|.+.++|.++.+..+ +| ..-.++|..+|.-|| |.|+...+.
T Consensus 1 Mit~~EleG~pVys~~tg~~lg~V~Dvif~~~gdrvl~flvnkggwf-h~h~~lp~~~i~Sig~k~Imi~vp~ 72 (176)
T COG3881 1 MITSRELEGAPVYSTKTGEKLGAVDDVIFNFSGDRVLGFLVNKGGWF-HKHCCLPVKNIVSIGSKMIMIYVPY 72 (176)
T ss_pred CccchhhcCCceEEecccccccceeeEEEecCCCeEEEEEEecCcEE-eeeeeeeecceeeeccceEEEeccc
Confidence 56677999999999999999999999999999999999999665 54 456679999999999 999987654
No 6
>cd00226 PRCH Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase. Subunit H is positioned mainly in the cytoplasm with one transmembrane alpha helix. Provides proton transfer pathway (water channels) connecting the terminal quinone electron acceptor of RC, to the aqueous phase. Found in photosynthetic bacteria: alpha, beta, and gamma proteobacteria.
Probab=94.24 E-value=0.18 Score=45.01 Aligned_cols=61 Identities=21% Similarity=0.186 Sum_probs=49.5
Q ss_pred cccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCCCCCCeEEeccCcceec-eEEEEe
Q 029364 120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVF-FFICVV 183 (194)
Q Consensus 120 SdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f~ge~e~IpWe~I~KIG-DVILVe 183 (194)
.|+++..|+.. ||+.+|.|+|+|+|-.+|.|.-++|..+. ++++-.|| -.+.+|- +.|.|+
T Consensus 146 ~DprGl~V~g~-DGevvGtV~Dv~vD~~e~~iRYLeVdtg~-~gkkVLLP-i~~~rId~~~V~V~ 207 (246)
T cd00226 146 VDPRGLPVVGA-DGEVAGKVTDLWVDRPEQLFRYLEVELAG-GGRTVLLP-MGFAKVKSDRVKVT 207 (246)
T ss_pred CCCCCCEeEcC-CCcEeEEEEEEEEcCCcceEEEEEEEcCC-CCCEEEEE-eEEEEecCCEEEEe
Confidence 58999999998 99999999999999999999999997654 35555677 4445666 777776
No 7
>PRK13829 rimM 16S rRNA-processing protein RimM; Provisional
Probab=74.05 E-value=19 Score=29.30 Aligned_cols=66 Identities=18% Similarity=0.021 Sum_probs=43.6
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCC-CCCCCCeEEec-cCcceec-eEEEEecC
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPN-LLSGEPERLLL-EDICQVF-FFICVVYF 185 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~-~f~ge~e~IpW-e~I~KIG-DVILVe~~ 185 (194)
.=..||.+-+|+ .+|..||.|.++ +++-.+-|..|..+.+ +++.+...||+ +.+..+= -.|.|+.+
T Consensus 89 yY~~dLiG~~V~--~~g~~lG~V~~v-~~~ga~dvlvV~~~~~~~~~~k~~LIP~v~~~V~~~~~~I~v~~p 157 (162)
T PRK13829 89 YYYHELRGLPVY--VDGEPLGEVVDV-EDAGAQDLLVIRHVGGSLRARATYFVPLQAPYVRVELDGITADAI 157 (162)
T ss_pred EEehhccCeEEE--ECCEeeEEEEEE-ecCCCceEEEEEeCCCCCccCceEEEccccceEEccCCEEEEeCC
Confidence 668999999999 799999999997 4555566665554444 33334445775 4443333 56666653
No 8
>TIGR01150 puhA photosynthetic reaction center, subunit H, bacterial. This model describes the photosynthetic reaction center H subunit in non-oxygenic photosynthetic bacteria. The reaction center is an integral membrane pigment-protein that carries out light-driven electron transfer reactions. At the core of reaction center is a collection light-harvesting cofactors and closely associated polypeptides. The core protein complex is made of L, M and H subunits. The common cofactors include bacterichlorophyll, bacteriopheophytins, ubiquinone and no-heme ferrous iron. The net result of electron tranfer reactions is the establishment of proton electrochemical gradient and production of reducing equivalents in the form of NADH. Ultimately, the process results in the reduction of C02 to carbohydrates(C6H12O6) In non-oxygenic organisms, the electron donor is an organic acid rather than water. Much of our current functional understanding of photosynthesis comes from the structural determination
Probab=54.29 E-value=22 Score=32.33 Aligned_cols=36 Identities=25% Similarity=0.346 Sum_probs=31.0
Q ss_pred ccccceeEeccCCceeeeeeeEEEECCCCEEEEEEEC
Q 029364 121 NLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVR 157 (194)
Q Consensus 121 dL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~ 157 (194)
|-+++.|+-- ||.--|.|+|+|||.-.-.|.-+.|.
T Consensus 150 DPrG~pV~g~-Dg~v~GtV~D~WVDr~E~~iRYlEVe 185 (252)
T TIGR01150 150 DPRGLPVVAA-DGEVAGKVTDLWVDRPEQYFRYLEVE 185 (252)
T ss_pred CCCCCeeEcC-CCceeeEEEEEEEcCccceeeEEEEE
Confidence 5678888875 99999999999999999988887773
No 9
>COG0806 RimM RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]
Probab=51.70 E-value=38 Score=28.59 Aligned_cols=48 Identities=21% Similarity=0.274 Sum_probs=36.8
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCCCCCCeEEe
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLL 169 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f~ge~e~Ip 169 (194)
.=..||.+-+|++.. |+.||.|+++ +++-.+.|..|..+ +++....||
T Consensus 101 fY~~DLiG~~V~~~~-g~~lG~V~~i-~~~Ga~Dvl~V~~~---~~~k~~LIP 148 (174)
T COG0806 101 FYYHDLIGLEVVTED-GELLGKVTEI-LETGANDVLVVKAK---GGKKERLIP 148 (174)
T ss_pred EEeEeecCcEEEcCC-CcEEEEEEEE-eeCCCccEEEEEec---CCCcEEEec
Confidence 668999999999998 9999999986 57777777777652 222344577
No 10
>KOG0918 consensus Selenium-binding protein [Inorganic ion transport and metabolism]
Probab=47.81 E-value=20 Score=34.97 Aligned_cols=42 Identities=31% Similarity=0.368 Sum_probs=32.1
Q ss_pred ccccccccceEEecccccceeEeccCCcee----------------------eeeeeEEEECCCCEEEEEEECCCCC
Q 029364 107 KVKLRRGRQVMRRSNLLAKQVISIQSAMSL----------------------GFVSQLWVDTTSWVVLVVEVRPNLL 161 (194)
Q Consensus 107 ~~~~~~~~qmmKrSdL~~KEVINi~dG~RL----------------------G~IsDL~VD~~sG~V~AIiV~~~~f 161 (194)
-+..++++|||.+|- ||+|| |++-+++||+..|.+ .+-+.||
T Consensus 384 Grkl~GGPQMlQLSL----------DGKRLYVt~SLys~WD~QFYPE~v~~G~~miqidvdt~~g~~---~lN~~fl 447 (476)
T KOG0918|consen 384 GRKLRGGPQMLQLSL----------DGKRLYVTNSLYSAWDRQFYPELVSKGSHMIQIDVDTVKGGL---SLNPDFL 447 (476)
T ss_pred CccccCCceeEEecc----------CCcEEEEEchhhhhhHhhhCHHHHhcCceEEEEeeeccCCce---eeCccce
Confidence 456789999999984 77777 678899999998864 4555554
No 11
>PRK14592 rimM 16S rRNA-processing protein RimM; Provisional
Probab=44.61 E-value=1.1e+02 Score=24.85 Aligned_cols=66 Identities=12% Similarity=0.205 Sum_probs=43.4
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCCCCCCeEEeccC--cceec---eEEEEecCCc
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLED--ICQVF---FFICVVYFPV 187 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f~ge~e~IpWe~--I~KIG---DVILVe~~~v 187 (194)
.=..||.+-+|++. +|..||.|.++ +++-.+.|..|..+.. ++...||+-+ |.+|= -.|.|+.++.
T Consensus 92 ~y~~dLiG~~V~~~-~g~~lG~V~~v-~~~ga~dvlvI~~~~~---~ke~LIP~v~~~V~~IDle~k~I~v~~pe~ 162 (165)
T PRK14592 92 FYQSDLIGMEVKLE-DNTIYGYIKKI-YNFGSCDIIEISLTST---KKSTMLPFTKEIFPHINVKERYIILVPPEI 162 (165)
T ss_pred EEHHHcCCcEEEcC-CCCEEEEEEEE-ccCCCccEEEEEECCC---CcEEEEecchhcccEEECCCCEEEEECccc
Confidence 55899999999997 57889999997 4655666666653221 2333577532 44553 5677766544
No 12
>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional
Probab=43.34 E-value=46 Score=27.23 Aligned_cols=36 Identities=28% Similarity=0.353 Sum_probs=28.7
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEE
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVV 154 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AI 154 (194)
.-..||.+-+|++. +|..||.|.++ +++-.+.|..|
T Consensus 100 ~Y~~dLiG~~V~d~-~g~~lG~V~~v-~~~ga~dll~I 135 (169)
T PRK14591 100 VYFKDLIGCSVKNI-NNDSFGVVVDI-IETGANEVLVC 135 (169)
T ss_pred EEeeeecCcEEEeC-CCCEEEEEEEE-eecCCceEEEE
Confidence 66999999999995 78899999997 45555666554
No 13
>PRK14593 rimM 16S rRNA-processing protein RimM; Provisional
Probab=41.32 E-value=1.6e+02 Score=24.49 Aligned_cols=65 Identities=17% Similarity=0.133 Sum_probs=39.5
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCC-C--CCCeEEeccC--cceec---eEEEEec
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLL-S--GEPERLLLED--ICQVF---FFICVVY 184 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f-~--ge~e~IpWe~--I~KIG---DVILVe~ 184 (194)
.=..||.+-+|++ +|..||.|.++. ++-.+-|..|.-....- . ++...||+-+ |.+|= -.|.|+.
T Consensus 104 yY~~dLiGl~V~~--~g~~lG~V~~v~-~~ga~dvlvV~~~~~~~~~~~~ke~LIP~~~~~V~~VDle~k~I~v~~ 176 (184)
T PRK14593 104 FFYCDLVGLSVVE--ENEILGKVIEIQ-RISQTDYFMVETTLSLVEKGLAKIFLIPYRDFYIQEILLQDKKITTHN 176 (184)
T ss_pred EEeehccCcEEEE--CCEEeEEEEEEc-cCCCceEEEEEeccccccCCCCcEEEEeChhhhhceEecCCCEEEEeC
Confidence 5689999999997 499999999973 54444555443221111 1 2344589744 44553 4555553
No 14
>PRK14594 rimM 16S rRNA-processing protein RimM; Provisional
Probab=36.81 E-value=83 Score=25.73 Aligned_cols=46 Identities=15% Similarity=0.127 Sum_probs=33.5
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCCCCCCeEEec
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLL 170 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f~ge~e~IpW 170 (194)
.=..||.+-+|++ . |..||.|.++ +++-.+-+..|. + .++.-.||+
T Consensus 97 ~Y~~dLiG~~V~~-~-g~~lG~V~~v-~~~ga~dll~V~-~----~~ke~LIPf 142 (166)
T PRK14594 97 YYFGKLIGYAIVN-D-GKELGEVVSF-FECLNSVLLEVK-V----GIKLFFVPF 142 (166)
T ss_pred EeHhHccCeEEEE-C-CEEEEEEEEE-eeCCCcEEEEEE-e----CCEEEEEeC
Confidence 6689999999999 4 9999999997 465566666554 2 233445886
No 15
>TIGR02273 16S_RimM 16S rRNA processing protein RimM. This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.
Probab=33.27 E-value=85 Score=25.27 Aligned_cols=48 Identities=21% Similarity=0.300 Sum_probs=33.9
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEE-CCCCCCCCCeEEec
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEV-RPNLLSGEPERLLL 170 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV-~~~~f~ge~e~IpW 170 (194)
.-..||.+.+|++ .+|..||.|.|+ ++.-.+.+..|.. +. ++.-.||+
T Consensus 95 ~y~~dLiG~~V~d-~~~~~lG~V~~v-~~~~a~dll~V~~~~~----~ke~liP~ 143 (165)
T TIGR02273 95 YYWTDLIGLEVVT-EEGEELGKVVEI-LETGANDVLVVRSKKG----KKEVLIPF 143 (165)
T ss_pred EEhhHhCCcEEEc-CCCcEEEEEEEE-ecCCCccEEEEEECCC----CcEEEEEC
Confidence 6789999999999 467889999997 4555566666654 22 23335775
No 16
>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional
Probab=27.27 E-value=93 Score=25.29 Aligned_cols=63 Identities=22% Similarity=0.218 Sum_probs=40.6
Q ss_pred EEecccccceeEeccCCceeeeeeeEEEECCCCEEEEEEECCCCCCCCCeEEecc-C-cceec---eEEEEecC
Q 029364 117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLE-D-ICQVF---FFICVVYF 185 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG~IsDL~VD~~sG~V~AIiV~~~~f~ge~e~IpWe-~-I~KIG---DVILVe~~ 185 (194)
.-..||.+-+|++- +|..||.|.++ .+.-.+.+..|. .. +++.-.||+- . |.+|= -.|.|+.+
T Consensus 100 ~y~~dLiG~~V~d~-~g~~lG~V~~v-~~~~a~dll~I~-~~---~~~e~liP~~~~~V~~iD~~~~~I~v~~p 167 (172)
T PRK00122 100 YYWHDLIGLEVVDE-DGEELGKVTDI-LETGANDVLVVL-KD---KKEERLIPFVEEVVKEVDLEAKRITVDWP 167 (172)
T ss_pred EEHHHhCCcEEEeC-CCcEEEEEEEE-ccCCCceEEEEE-CC---CCCEEEEecChhhCCEEECCCCEEEEeCC
Confidence 77899999999995 68899999997 455556555553 21 2233458863 2 23332 46666643
No 17
>PF13861 FLgD_tudor: FlgD Tudor-like domain; PDB: 3OSV_A 3C12_A.
Probab=26.86 E-value=77 Score=21.67 Aligned_cols=53 Identities=25% Similarity=0.323 Sum_probs=33.3
Q ss_pred ceEEecccccceeEeccCCceeeeeeeEEEEC-CCCEEEEEEECCC--CC--CCCCeEEeccCccee
Q 029364 115 QVMRRSNLLAKQVISIQSAMSLGFVSQLWVDT-TSWVVLVVEVRPN--LL--SGEPERLLLEDICQV 176 (194)
Q Consensus 115 qmmKrSdL~~KEVINi~dG~RLG~IsDL~VD~-~sG~V~AIiV~~~--~f--~ge~e~IpWe~I~KI 176 (194)
|++..+.|.+|+|.-- ......+ ..|+|.++....+ .+ ++....+|.++|++|
T Consensus 3 q~lqa~~lIGk~V~~~---------~~~~~~~~~~g~V~sV~~~~g~~~L~l~~~~~~v~l~~V~~v 60 (61)
T PF13861_consen 3 QMLQAASLIGKEVLVP---------KSVAATTLVSGRVESVTFSGGGPMLNLGGGGSTVPLSDVTEV 60 (61)
T ss_dssp HHHHTTCTTTSEEEEE---------EEEEE-EEEEEEEEEEEEETTEEEEEETTTCEEEECCCB-B-
T ss_pred HHHHHHHhcCCEEEEC---------CcEeeeeEEEEEEEEEEEcCCeEEEEEecCCcEEEHHHeEEe
Confidence 5666778888888655 3344433 3688888888765 22 344556889888875
No 18
>PF03413 PepSY: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR005075 This signature, PepSY, is found in the propeptide of members of the MEROPS peptidase family M4 (clan MA(E)), which contains the thermostable thermolysins (3.4.24.27 from EC), and related thermolabile neutral proteases (bacillolysins) (3.4.24.28 from EC) from various species of Bacillus. It is also in many non-peptidase proteins, including Bacillus subtilis YpeB protein - a regulator of SleB spore cortex lytic enzyme - and a large number of eubacterial and archaeal cell wall-associated and secreted proteins which are mostly annotated as 'hypothetical protein'. Many extracellular bacterial proteases are produced as proenzymes. The propeptides usually have a dual function, i.e. they function as an intramolecular chaperone required for the folding of the polypeptide and as an inhibitor preventing premature activation of the enzyme. Analysis of the propeptide region of the M4 family of peptidases reveals two regions of conservation, the PepSY domain and a second domain, proximate to the N terminus, the FTP domain (IPR011096 from INTERPRO), which is also found in isolation in the propeptide of eukaryotic peptidases belong to MEROPS peptidase family M36. Propeptide domain swapping experiments, for example swapping the propeptide domain of PA protease with that of vibrolysin, both propeptides contain the FTP and PepSY domains, allows the PA protease domain to fold correctly and inhibits the C-terminal autoprocessing activity. However, swapping the propeptide of PA protease for the thermolysin propeptide, does not facilitate the correct folding nor the processing of the chimaeric protein into an active peptidase []. Mutational analysis of the Pseudomonas aeruginosa elastase gene revealed two mutations in the propeptide which resulted in the loss of inhibitory activity but not chaperone activity: A-15V and T-153I (where +1 is defined as the first residue of the mature peptidase). Both mutations resulted in peptidase activity, the T-153V mutation being much less effective than the A-15I mutation [] in activating peptidase activity. The T-153V mutation lies N-terminal to the FTP domain while the A-15I mutation is C-terminal to the PepSY domain. Given the diverse range of other proteins, both domains occur in in isolation, the exact function of each is still unclear; though it has been proposed that the PepSY domain primarily has inhibitory activity and in conjunction with the FTP domain in chaperone activity. ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 2GU3_A 3NQZ_A 3NQY_A 2KGY_A.
Probab=26.48 E-value=69 Score=20.59 Aligned_cols=15 Identities=20% Similarity=0.275 Sum_probs=10.4
Q ss_pred eeeEEEECCCCEEEE
Q 029364 139 VSQLWVDTTSWVVLV 153 (194)
Q Consensus 139 IsDL~VD~~sG~V~A 153 (194)
.-.+.||..||+|+.
T Consensus 48 ~~~v~VDa~tG~Il~ 62 (64)
T PF03413_consen 48 EYEVYVDAYTGEILS 62 (64)
T ss_dssp EEEEEEETTT--EEE
T ss_pred EEEEEEECCCCeEEE
Confidence 366779999999986
No 19
>PF06115 DUF956: Domain of unknown function (DUF956); InterPro: IPR010360 This is a family of bacterial sequences with undetermined function.
Probab=24.58 E-value=40 Score=27.47 Aligned_cols=15 Identities=20% Similarity=0.131 Sum_probs=13.0
Q ss_pred EEeccCcceec-eEEE
Q 029364 167 RLLLEDICQVF-FFIC 181 (194)
Q Consensus 167 ~IpWe~I~KIG-DVIL 181 (194)
.|||+.|..|+ +|.+
T Consensus 47 QIPW~eI~~V~a~V~f 62 (118)
T PF06115_consen 47 QIPWEEIDYVIASVSF 62 (118)
T ss_pred EeChhheeEEEEEEEE
Confidence 39999999999 8874
No 20
>PRK14590 rimM 16S rRNA-processing protein RimM; Provisional
Probab=23.62 E-value=1.6e+02 Score=24.30 Aligned_cols=37 Identities=19% Similarity=0.312 Sum_probs=28.0
Q ss_pred EEecccccceeEeccCCceee-eeeeEEEECCCCEEEEEE
Q 029364 117 MRRSNLLAKQVISIQSAMSLG-FVSQLWVDTTSWVVLVVE 155 (194)
Q Consensus 117 mKrSdL~~KEVINi~dG~RLG-~IsDL~VD~~sG~V~AIi 155 (194)
.=..||.+-+|+| .+|..|| .|.++ .+.-.+-+..|.
T Consensus 97 ~y~~dLiG~~V~d-~~g~~lGG~V~~v-~~~~a~dllvV~ 134 (171)
T PRK14590 97 FYSEDLIGLQAID-ETGKPLNWKLTDV-QDNPAHPILVFI 134 (171)
T ss_pred EEhHHccCcEEEe-CCCCEeeeEEEEE-ecCCCceEEEEE
Confidence 5589999999999 5888897 99997 355455555443
No 21
>PF07533 BRK: BRK domain; InterPro: IPR006576 BRK is a domain of unknown function found only in the metazoa and in association with CHROMO domain (IPR000953 from INTERPRO) and DEAD/DEAH box helicase domain (IPR011545 from INTERPRO).; GO: 0005515 protein binding, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2DL6_A 2CKA_A 2V0F_A 2V0E_A 2CKC_A.
Probab=23.57 E-value=49 Score=22.50 Aligned_cols=12 Identities=25% Similarity=0.293 Sum_probs=9.4
Q ss_pred eeEeccCCceee
Q 029364 126 QVISIQSAMSLG 137 (194)
Q Consensus 126 EVINi~dG~RLG 137 (194)
.|||+.||++|.
T Consensus 9 ~Vi~~~tGk~l~ 20 (46)
T PF07533_consen 9 PVINRKTGKRLT 20 (46)
T ss_dssp -EEETTTTEEE-
T ss_pred EeEECCCCCCcc
Confidence 589999999985
No 22
>PF00122 E1-E2_ATPase: E1-E2 ATPase p-type cation-transporting ATPase superfamily signature H+-transporting ATPase (proton pump) signature sodium/potassium-transporting ATPase signature; InterPro: IPR008250 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the actuator (A) domain, and some transmembrane helices found in P-type ATPases []. It contains the TGES-loop which is essential for the metal ion binding which results in tight association between the A and P (phosphorylation) domains []. It does not contain the phosphorylation site. It is thought that the large movement of the actuator domain, which is transmitted to the transmembrane helices, is essential to the long distance coupling between formation/decomposition of the acyl phosphate in the cytoplasmic P-domain and the changes in the ion-binding sites buried deep in the membranous region []. This domain has a modulatory effect on the phosphoenzyme processing steps through its nucleotide binding [],[]. P-type (or E1-E2-type) ATPases that form an aspartyl phosphate intermediate in the course of ATP hydrolysis, can be divided into 4 major groups []: (1) Ca2+-transporting ATPases; (2) Na+/K+- and gastric H+/K+-transporting ATPases; (3) plasma membrane H+-transporting ATPases (proton pumps) of plants, fungi and lower eukaryotes; and (4) all bacterial P-type ATPases, except the g2+-ATPase of Salmonella typhimurium, which is more similar to the eukaryotic sequences. However, great variety of sequence analysis methods results in diversity of classification. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0000166 nucleotide binding, 0046872 metal ion binding; PDB: 2XZB_A 1MHS_B 3TLM_A 3A3Y_A 2ZXE_A 3NAL_A 3NAM_A 3NAN_A 2YJ6_B 2IYE_A ....
Probab=23.02 E-value=48 Score=26.84 Aligned_cols=24 Identities=4% Similarity=-0.122 Sum_probs=17.3
Q ss_pred CCeEEeccCcceeceEEEEecCCcc
Q 029364 164 EPERLLLEDICQVFFFICVVYFPVH 188 (194)
Q Consensus 164 e~e~IpWe~I~KIGDVILVe~~~v~ 188 (194)
....++|++|+. ||+|+++..+.+
T Consensus 43 ~~~~i~~~~L~~-GDiI~l~~g~~v 66 (230)
T PF00122_consen 43 RWQKIPSSELVP-GDIIILKAGDIV 66 (230)
T ss_dssp EEEEEEGGGT-T-TSEEEEETTEBE
T ss_pred ccccchHhhccc-eeeeeccccccc
Confidence 344589999987 999999876543
No 23
>PF13028 DUF3889: Protein of unknown function (DUF3889)
Probab=22.16 E-value=1.6e+02 Score=23.08 Aligned_cols=28 Identities=7% Similarity=0.192 Sum_probs=25.4
Q ss_pred ccCCceeeeeeeEEEECCCCEEEEEEEC
Q 029364 130 IQSAMSLGFVSQLWVDTTSWVVLVVEVR 157 (194)
Q Consensus 130 i~dG~RLG~IsDL~VD~~sG~V~AIiV~ 157 (194)
..+|+.-|+.-++..|+.+.+|..|.+.
T Consensus 68 ~~~~kefgV~v~V~f~p~T~ki~~I~~~ 95 (97)
T PF13028_consen 68 REGGKEFGVFVTVSFNPKTEKIISINVE 95 (97)
T ss_pred EcCCeEEEEEEEEEEeCCCCcEEEEEEE
Confidence 4689999999999999999999999874
No 24
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=20.70 E-value=1.4e+02 Score=20.77 Aligned_cols=29 Identities=21% Similarity=0.365 Sum_probs=20.9
Q ss_pred CCceeeeeeeEEEECCCCEEEE-EEECCCC
Q 029364 132 SAMSLGFVSQLWVDTTSWVVLV-VEVRPNL 160 (194)
Q Consensus 132 dG~RLG~IsDL~VD~~sG~V~A-IiV~~~~ 160 (194)
.|-+.|.|.++.++.+.++|.. +.|.+.+
T Consensus 24 ~Gv~VG~V~~i~l~~~~~~v~v~~~i~~~~ 53 (81)
T PF02470_consen 24 RGVEVGKVTSIELDPDGNRVRVTLRIDPDY 53 (81)
T ss_pred CCEEEEEEEEEEEcCCCCEEEEEEEEcCCc
Confidence 6899999999999777666543 4445444
No 25
>smart00592 BRK domain in transcription and CHROMO domain helicases.
Probab=20.68 E-value=54 Score=22.21 Aligned_cols=12 Identities=25% Similarity=0.307 Sum_probs=10.1
Q ss_pred eeEeccCCceee
Q 029364 126 QVISIQSAMSLG 137 (194)
Q Consensus 126 EVINi~dG~RLG 137 (194)
.|||..||++|+
T Consensus 7 ~vi~~~tG~~l~ 18 (45)
T smart00592 7 PVINRETGKKLT 18 (45)
T ss_pred EeeccCCccEec
Confidence 589999999984
No 26
>PF00181 Ribosomal_L2: Ribosomal Proteins L2, RNA binding domain; InterPro: IPR022666 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L2 is one of the proteins from the large ribosomal subunit. This entry represents the best conserved region located in the C-terminal section of these proteins.In Escherichia coli, L2 is known to bind to the 23S rRNA and to have peptidyltransferase activity. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups: Eubacterial L2. Algal and plant chloroplast L2. Cyanelle L2. Archaebacterial L2. Plant L2. Slime mold L2. Marchantia polymorpha mitochondrial L2. Paramecium tetraurelia mitochondrial L2. Fission yeast K5, K37 and KD4. Yeast YL6. Vertebrate L8. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1YIT_A 1Q7Y_C 1YJN_A 3CPW_A 3I56_A 1VQ9_A 1M1K_C 3CC7_A 1YIJ_A 1K9M_C ....
Probab=20.61 E-value=2.4e+02 Score=20.41 Aligned_cols=44 Identities=16% Similarity=0.088 Sum_probs=33.1
Q ss_pred eeeeeeeEEEECCCCEEEEEEECCCCCCCCCeEEeccCcceeceEEE
Q 029364 135 SLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVFFFIC 181 (194)
Q Consensus 135 RLG~IsDL~VD~~sG~V~AIiV~~~~f~ge~e~IpWe~I~KIGDVIL 181 (194)
-.|.|.++.-|+...-=+|++.-.. ++..||+--+=.++||+|.
T Consensus 33 ~~g~V~~i~~DP~Rsa~iAlV~~~~---g~~~yiiA~eg~~vGd~I~ 76 (77)
T PF00181_consen 33 IKGIVIDIEYDPNRSAPIALVKYED---GEKRYIIAPEGMKVGDIIE 76 (77)
T ss_dssp EEEEEEEEEEETTTSSEEEEEEETT---SEEEEEEEBTTEBTTEEEE
T ss_pred CcEEEEEEEecCCcCccEEEEEecC---CcEEEEEeECCCcCCCEEE
Confidence 5699999999999888888877443 4455777666677788874
Done!