Query 027274
Match_columns 225
No_of_seqs 40 out of 42
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 07:30:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027274.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027274hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02075 RuvC: Crossover junct 99.2 2.5E-11 5.4E-16 99.4 6.4 125 90-223 1-129 (149)
2 PRK00039 ruvC Holliday junctio 98.9 5.9E-09 1.3E-13 87.3 9.0 126 89-222 3-131 (164)
3 cd00529 RuvC_resolvase Hollida 98.7 5.5E-08 1.2E-12 79.7 7.5 125 89-222 1-129 (154)
4 TIGR00228 ruvC crossover junct 98.4 1.1E-06 2.5E-11 74.0 8.2 124 90-222 1-127 (156)
5 PF04312 DUF460: Protein of un 97.1 0.0016 3.5E-08 54.7 6.5 61 86-163 30-90 (138)
6 COG2433 Uncharacterized conser 96.7 0.0036 7.8E-08 63.0 6.3 103 89-222 245-354 (652)
7 COG0817 RuvC Holliday junction 95.3 0.036 7.9E-07 47.7 5.4 123 91-222 1-127 (160)
8 PF01548 DEDD_Tnp_IS110: Trans 95.3 0.04 8.6E-07 43.1 5.2 104 90-222 1-107 (144)
9 PF07066 DUF3882: Lactococcus 94.9 0.01 2.3E-07 50.8 1.1 67 136-205 52-118 (159)
10 PF04848 Pox_A22: Poxvirus A22 92.5 1.1 2.5E-05 37.6 8.9 109 89-222 2-111 (143)
11 PF11215 DUF3010: Protein of u 86.5 3.3 7.1E-05 35.1 7.1 99 90-203 3-110 (138)
12 smart00732 YqgFc Likely ribonu 85.0 6.2 0.00013 28.6 7.2 49 89-146 2-51 (99)
13 PF07318 DUF1464: Protein of u 70.3 31 0.00068 33.0 8.9 117 92-220 1-141 (343)
14 PLN02683 pyruvate dehydrogenas 56.0 21 0.00045 33.5 4.9 40 110-162 254-293 (356)
15 COG2183 Tex Transcriptional ac 51.0 49 0.0011 35.1 7.0 76 84-159 326-424 (780)
16 CHL00144 odpB pyruvate dehydro 49.5 30 0.00066 32.0 4.8 40 110-162 227-266 (327)
17 PF01385 OrfB_IS605: Probable 46.5 16 0.00034 29.9 2.2 41 62-108 104-144 (227)
18 COG2945 Predicted hydrolase of 38.4 33 0.00071 31.1 3.1 42 130-188 83-124 (210)
19 PRK11892 pyruvate dehydrogenas 36.6 62 0.0013 31.8 4.9 41 110-163 366-406 (464)
20 PTZ00391 transport protein par 34.0 30 0.00064 29.9 2.1 19 173-191 117-135 (168)
21 PF04051 TRAPP: Transport prot 34.0 32 0.0007 28.1 2.2 23 170-192 109-131 (152)
22 COG1829 Predicted archaeal kin 32.7 76 0.0017 29.9 4.6 68 90-163 18-85 (283)
23 PF08373 RAP: RAP domain; Int 31.3 41 0.00089 22.7 2.1 21 181-201 25-45 (58)
24 PRK13782 phosphocarrier protei 30.5 55 0.0012 24.3 2.8 28 130-158 39-66 (82)
25 TIGR01003 PTS_HPr_family Phosp 28.2 64 0.0014 23.9 2.8 27 131-158 40-66 (82)
26 PRK05444 1-deoxy-D-xylulose-5- 27.8 83 0.0018 31.1 4.3 50 100-162 465-524 (580)
27 TIGR00204 dxs 1-deoxy-D-xylulo 27.5 98 0.0021 31.2 4.7 41 110-163 521-561 (617)
28 PRK12388 fructose-1,6-bisphosp 27.2 86 0.0019 30.1 4.0 130 55-189 34-221 (321)
29 PHA03377 EBNA-3C; Provisional 26.6 50 0.0011 35.3 2.5 36 97-136 500-540 (1000)
30 PRK12315 1-deoxy-D-xylulose-5- 26.3 1.1E+02 0.0023 30.7 4.7 40 110-162 487-526 (581)
31 COG2441 Predicted butyrate kin 25.5 71 0.0015 30.9 3.2 121 91-219 1-149 (374)
32 COG0107 HisF Imidazoleglycerol 25.1 3.6E+02 0.0078 25.3 7.5 85 83-192 118-204 (256)
33 PHA02533 17 large terminase pr 24.6 83 0.0018 31.4 3.6 66 86-158 313-380 (534)
34 KOG4774 Uncharacterized conser 23.4 39 0.00085 30.1 1.0 14 173-186 73-86 (190)
35 PRK10850 PTS system phosphohis 22.3 1E+02 0.0022 23.4 2.9 28 131-159 40-67 (85)
36 PRK07440 hypothetical protein; 21.9 64 0.0014 23.5 1.7 33 119-151 3-35 (70)
37 cd00367 PTS-HPr_like Histidine 21.6 1.2E+02 0.0025 21.9 3.0 28 130-158 35-62 (77)
38 PF00009 GTP_EFTU: Elongation 20.8 3.5E+02 0.0075 21.9 6.0 62 108-193 67-128 (188)
39 PTZ00182 3-methyl-2-oxobutanat 20.3 1.6E+02 0.0035 27.7 4.4 40 110-162 259-298 (355)
40 PRK09212 pyruvate dehydrogenas 20.2 1.6E+02 0.0034 27.2 4.3 41 110-163 227-267 (327)
No 1
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=99.21 E-value=2.5e-11 Score=99.43 Aligned_cols=125 Identities=19% Similarity=0.269 Sum_probs=87.1
Q ss_pred EEEECCCCC-ceEEEEecCCCCceeeeeeCCCcccccccccccccC--HHHHHHHHHhcCCCCCcEEEEeecccCCCCCc
Q 027274 90 ALGIDPDLS-GALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLD--AKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGK 166 (225)
Q Consensus 90 IIGIDPG~s-GALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlD--aksl~~lLr~l~~P~gt~a~lEkv~~mPgqGv 166 (225)
|+|||||++ -+.||++.++. .++.+|.-+++..-....-.||. .+.+.++|+.+. | ..++||++ |-++..
T Consensus 1 ILGIDPgl~~tG~avi~~~~~--~~~~i~~G~I~t~~~~~~~~Rl~~I~~~l~~li~~~~-P--~~vaiE~~--f~~~n~ 73 (149)
T PF02075_consen 1 ILGIDPGLSNTGYAVIEEDGG--KLRLIDYGTIKTSSKDSLPERLKEIYEELEELIEEYN-P--DEVAIEEI--FFGKNP 73 (149)
T ss_dssp EEEEE--SSEEEEEEEEEETT--EEEEEEEEEEE---S--HHHHHHHHHHHHHHHHHHH-----SEEEEEE---S----H
T ss_pred CEEECCCCCCeeEEEEEeeCC--EEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHhhC-C--CEEEeehh--hhccCH
Confidence 799999998 89999998653 67788887776432222334554 567777888777 4 78999996 567789
Q ss_pred ceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhccc
Q 027274 167 QGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVFT 223 (225)
Q Consensus 167 qS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lfp 223 (225)
+|++..|+..|++.-++...|+|+..++|++||+.. |- +..+|+.-..+-.++|.
T Consensus 74 ~s~~~l~~arGvi~l~~~~~~i~v~~y~P~~vKk~vtG~--G~A~KeqV~~mv~~ll~ 129 (149)
T PF02075_consen 74 KSALKLGQARGVILLAAAQRGIPVFEYTPSEVKKAVTGN--GRASKEQVAFMVRKLLG 129 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHTTT--EEEEEHHHHHHHHTSS--TT--HHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEEEECHHHHHHHhhCC--CccCHHHHHHHHHHHhC
Confidence 999999999999999999999999999999999986 44 46778877777776664
No 2
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=98.92 E-value=5.9e-09 Score=87.32 Aligned_cols=126 Identities=17% Similarity=0.245 Sum_probs=86.0
Q ss_pred cEEEECCCC-CceEEEEecCCCCceeeeeeCCCcccccccccccccC--HHHHHHHHHhcCCCCCcEEEEeecccCCCCC
Q 027274 89 WALGIDPDL-SGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLD--AKSMIMLLRSLDAPIGTTAYVEQSIPYPQDG 165 (225)
Q Consensus 89 ~IIGIDPG~-sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlD--aksl~~lLr~l~~P~gt~a~lEkv~~mPgqG 165 (225)
.|+|||||+ +=+.|+++.+++ ...++|.=+++..-..-.-.|+- ...+.++|..+. | ..++||+.- | +++
T Consensus 3 ~iLGIDPgl~~tG~avi~~~~~--~~~~~~~G~i~t~~~~~~~~Rl~~I~~~l~~~i~~~~-P--d~vaiE~~f-~-~~n 75 (164)
T PRK00039 3 RILGIDPGLRRTGYGVIEVEGR--RLSYVASGVIRTPSDLDLPERLKQIYDGLSELIDEYQ-P--DEVAIEEVF-F-NKN 75 (164)
T ss_pred EEEEEccccCceeEEEEEecCC--eEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEehhh-h-ccC
Confidence 589999997 668999998754 35555544332110000011211 144555555554 4 788999974 2 356
Q ss_pred cceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhcc
Q 027274 166 KQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF 222 (225)
Q Consensus 166 vqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lf 222 (225)
.+|++.+|+.+|++...|...|+|++.++|.+||++. .-++..+|+.-..+..+++
T Consensus 76 ~~sa~~l~~arGvi~la~~~~~ipv~ey~P~~VKk~v-tG~G~A~K~qV~~mv~~~l 131 (164)
T PRK00039 76 PQSALKLGQARGVAILAAAQRGLPVAEYTPLQVKKAV-VGYGRADKEQVQHMVKRLL 131 (164)
T ss_pred hHHHHHHHHHHHHHHHHHHHcCCCEEEECHHHhhhhh-cCCCCCCHHHHHHHHHHHh
Confidence 7899999999999999999999999999999999987 2124567776666665554
No 3
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=98.69 E-value=5.5e-08 Score=79.67 Aligned_cols=125 Identities=15% Similarity=0.216 Sum_probs=83.4
Q ss_pred cEEEECCCC-CceEEEEecCCCCceeeeeeCCCccccccccccccc--CHHHHHHHHHhcCCCCCcEEEEeecccCCCCC
Q 027274 89 WALGIDPDL-SGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRL--DAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDG 165 (225)
Q Consensus 89 ~IIGIDPG~-sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~Rkrl--Daksl~~lLr~l~~P~gt~a~lEkv~~mPgqG 165 (225)
.|+|||||+ +=+.|+++.+++ ..+++|.=++...-..-.-.|+ =...+.+++..+. | +.++||+.- |.. +
T Consensus 1 rILGIDPGl~~~G~av~~~~~~--~~~~~~~g~i~t~~~~~~~~rl~~I~~~l~~~i~~~~-P--d~vaiE~~~-~~~-n 73 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGR--KLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQ-P--DVVAIERVF-FAK-N 73 (154)
T ss_pred CEEEEccCcCceEEEEEEeeCC--eEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEEEhh-ccc-C
Confidence 389999999 458999987653 4444444333211000000111 1234444554444 5 699999874 233 4
Q ss_pred cceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhcc
Q 027274 166 KQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVF 222 (225)
Q Consensus 166 vqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lf 222 (225)
..+.+..|..+|++..+|...|+|++.++|.++|++. |- ++.+|+....+...++
T Consensus 74 ~~s~~~l~~~~Gvi~~~~~~~~i~v~e~~P~~vKk~~tG~--G~A~KeqV~~mv~~~l 129 (154)
T cd00529 74 PDSALKLGQARGALILALANRNLPVFEYTPNQVKKAVTGY--GKADKDQVQHMVKRLL 129 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHcCCCEEEEccCeeEEEEECC--CCCCHHHHHHHHHHHh
Confidence 6788899999999999999999999999999999998 32 4667777666665554
No 4
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=98.41 E-value=1.1e-06 Score=74.03 Aligned_cols=124 Identities=15% Similarity=0.168 Sum_probs=86.3
Q ss_pred EEEECCCCCc-eEEEEecCCCCceeeeeeCCCccccccccccccc--CHHHHHHHHHhcCCCCCcEEEEeecccCCCCCc
Q 027274 90 ALGIDPDLSG-ALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRL--DAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGK 166 (225)
Q Consensus 90 IIGIDPG~sG-ALAvL~~~~~~~~~~V~DmPt~~v~vg~~~Rkrl--Daksl~~lLr~l~~P~gt~a~lEkv~~mPgqGv 166 (225)
|||||||++. +.+|++..++ ...++|.=++... ....-.|| =...+.++|..+. | ..+.||++- =....
T Consensus 1 ILGIDPGl~~tG~gvi~~~~~--~~~~v~~G~I~t~-~~~~~~RL~~I~~~l~~~i~~y~-P--~~~aiE~~F--~~~N~ 72 (156)
T TIGR00228 1 ILGIDPGSRVTGYGVIRQVGR--QLSYLGSGCIRTK-VDDLPSRLKLIYAGVTEIITQFQ-P--NYFAIEQVF--MAKNA 72 (156)
T ss_pred CEeECcccccccEEEEEecCC--eEEEEEeeEEECC-CCCHHHHHHHHHHHHHHHHHHhC-C--CEEEEeHHh--hccCH
Confidence 6999999976 6889887654 3455554444211 00111122 2345666666666 5 688999984 22478
Q ss_pred ceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhcc
Q 027274 167 QGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF 222 (225)
Q Consensus 167 qS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lf 222 (225)
+|++..|+..|++.=.+...|+|++..+|.++|+.. .-++..+|+.-..|..+++
T Consensus 73 ~sa~~lg~arGvilla~~~~~ipv~Ey~P~~vKkav-tG~G~A~KeQV~~mV~~lL 127 (156)
T TIGR00228 73 DSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTV-VGIGSAEKSQVQHMVRRLL 127 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEECHHHHHHHh-cCCCCCCHHHHHHHHHHHc
Confidence 899999999999999999999999999999999987 2124566776666666555
No 5
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=97.08 E-value=0.0016 Score=54.67 Aligned_cols=61 Identities=20% Similarity=0.378 Sum_probs=48.8
Q ss_pred CCccEEEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCC
Q 027274 86 DSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQ 163 (225)
Q Consensus 86 ~~~~IIGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPg 163 (225)
....|+|||||.+=|||+|+-+|. ++++=.. |.+|-..++++|.+++.| +++---|++||.
T Consensus 30 ~~~lIVGiDPG~ttgiAildL~G~-----~l~l~S~---------R~~~~~evi~~I~~~G~P---viVAtDV~p~P~ 90 (138)
T PF04312_consen 30 RRYLIVGIDPGTTTGIAILDLDGE-----LLDLKSS---------RNMSRSEVIEWISEYGKP---VIVATDVSPPPE 90 (138)
T ss_pred CCCEEEEECCCceeEEEEEecCCc-----EEEEEee---------cCCCHHHHHHHHHHcCCE---EEEEecCCCCcH
Confidence 445799999999999999999984 4444333 778999999999999864 556667788885
No 6
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=96.66 E-value=0.0036 Score=63.02 Aligned_cols=103 Identities=17% Similarity=0.229 Sum_probs=71.2
Q ss_pred cEEEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcce
Q 027274 89 WALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQG 168 (225)
Q Consensus 89 ~IIGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS 168 (225)
.|+|||||++=|||+|+-+| +|+|+-.. |-+|...+++++.+++.| +++-=-|++||+
T Consensus 245 lIVGIDPGiTtgiAvldldG-----evl~~~S~---------r~~~~~eVve~I~~lG~P---vvVAtDVtp~P~----- 302 (652)
T COG2433 245 LIVGIDPGITTGIAVLDLDG-----EVLDLESR---------RGIDRSEVVEFISELGKP---VVVATDVTPAPE----- 302 (652)
T ss_pred eEEEeCCCceeeEEEEecCC-----cEEeeecc---------ccCCHHHHHHHHHHcCCc---eEEEccCCCChH-----
Confidence 68999999999999999998 57777655 789999999999999975 556667899997
Q ss_pred eecccchhHHHHHHHHHhCCeeeEeC-----chhhH--hHhCCCCCCCchhhHHHhhhhcc
Q 027274 169 WWSGGFGYGLWIGILVASGFSVVPIP-----SLTWK--NWYGLSGGTSTKVCINTLILSVF 222 (225)
Q Consensus 169 ~fsfG~gyGlw~GVL~A~Gipvv~Vt-----Pq~WK--k~~gL~~~gstKd~Sr~~A~~lf 222 (225)
..+=|-+.+|-..+... --+|. +..+++...+---|+.+-|+..|
T Consensus 303 ---------~V~KiAasf~A~ly~P~~dLsveEK~~~~r~~~~~~~ddH~RDALAAA~kAY 354 (652)
T COG2433 303 ---------TVKKIAASFNAVLYTPDRDLSVEEKQEALRTLKISVSDDHERDALAAAYKAY 354 (652)
T ss_pred ---------HHHHHHHHcCCcccCCcccCCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHH
Confidence 33433333333322211 12455 33455544555567777777655
No 7
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=95.32 E-value=0.036 Score=47.65 Aligned_cols=123 Identities=17% Similarity=0.225 Sum_probs=79.1
Q ss_pred EEECCCCC-ceEEEEecCCCCceeeeeeCCCccccccccccccc--CHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcc
Q 027274 91 LGIDPDLS-GALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRL--DAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ 167 (225)
Q Consensus 91 IGIDPG~s-GALAvL~~~~~~~~~~V~DmPt~~v~vg~~~Rkrl--Daksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvq 167 (225)
+|||||+. =+.+|++.++. ....++.=++...-.--.-.|| =-+.+.++|..+. | ..+.||++- =.-..+
T Consensus 1 lGIDPGl~~~G~gvI~~~~~--~l~~v~~G~I~t~~~~~l~~RL~~l~~~l~~vl~~~~-P--~~~AIE~~F--~~kN~~ 73 (160)
T COG0817 1 LGIDPGLRRTGYGVIEVEGR--QLSYLASGVIRTSSDAPLAERLKQLYDGLSEVLDEYQ-P--DEVAIEQVF--VNKNAD 73 (160)
T ss_pred CCcCCCccccceEEEEccCC--eEEEEeeeEEecCCCccHHHHHHHHHHHHHHHHHHhC-C--CeeehhHHH--HhcChH
Confidence 69999985 46888888764 4554444333211000000111 1234445566555 4 688999982 123678
Q ss_pred eeecccchhHHHHHHHHHhCCeeeEeCchhhHhHh-CCCCCCCchhhHHHhhhhcc
Q 027274 168 GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWY-GLSGGTSTKVCINTLILSVF 222 (225)
Q Consensus 168 S~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~-gL~~~gstKd~Sr~~A~~lf 222 (225)
|....|+.-|++.=.++-.++||..-+|++=||+. |- +.-+|+.--.|-.+++
T Consensus 74 s~lklgQARGv~~la~~~~~l~v~eY~p~~VKkavvG~--G~A~K~QVq~MV~~lL 127 (160)
T COG0817 74 SALKLGQARGVALLAAARRGLPVFEYTPNQVKKAVVGN--GKADKEQVQHMVKRLL 127 (160)
T ss_pred HHHHHHHHHHHHHHHHHHcCCChhhccHHHHHHHhhcC--CcccHHHHHHHHHHHh
Confidence 99999999999999999999999999998766665 54 4556665555554444
No 8
>PF01548 DEDD_Tnp_IS110: Transposase; InterPro: IPR002525 Transposase proteins are necessary for efficient DNA transposition. This entry represents the N-terminal region of the pilin gene inverting protein (PIVML) and members of the IS111A/IS1328/IS1533 family of transposases [, ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=95.29 E-value=0.04 Score=43.15 Aligned_cols=104 Identities=17% Similarity=0.182 Sum_probs=66.3
Q ss_pred EEEECCCCCceEE-EEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcce
Q 027274 90 ALGIDPDLSGALA-VLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQG 168 (225)
Q Consensus 90 IIGIDPG~sGALA-vL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS 168 (225)
+||||-+..--.+ +++..+. ....+..++.+ -+-..+.++|..+. ..++.+|.-+
T Consensus 1 ~vGiDv~k~~~~v~v~~~~~~--~~~~~~~~~~~----------~~~~~l~~~l~~~~---~~~v~~E~tg--------- 56 (144)
T PF01548_consen 1 FVGIDVSKDTHDVCVIDPNGE--KLRRFKFENDP----------AGLEKLLDWLASLG---PVLVVMEATG--------- 56 (144)
T ss_pred eEEEEcccCeEEEEEEcCCCc--EEEEEEEeccc----------cchhHHhhhhcccc---cccccccccc---------
Confidence 6899998775433 3444431 33333344332 11255566666553 3667777543
Q ss_pred eecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCC--CCCCCchhhHHHhhhhcc
Q 027274 169 WWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGL--SGGTSTKVCINTLILSVF 222 (225)
Q Consensus 169 ~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL--~~~gstKd~Sr~~A~~lf 222 (225)
|+++ .|.-.|...|++|+.|.|..=|..-+. ....++|.||+.+|.-++
T Consensus 57 ----~y~~-~l~~~L~~~g~~v~~vnp~~~~~~~~~~~~~~KtD~~DA~~ia~~~~ 107 (144)
T PF01548_consen 57 ----GYWR-PLADFLQDAGIEVVVVNPLQVKRFRKSLGRRAKTDKIDARAIARLLR 107 (144)
T ss_pred ----ccch-hhhhheeccccccccccccccccccccccccccccccchHHHHHHHh
Confidence 2333 566678889999999999876666532 567899999999997654
No 9
>PF07066 DUF3882: Lactococcus phage M3 protein; InterPro: IPR009773 This family consists of several Lactococcus bacteriophage 712, middle-3 (M3) proteins of around 160 residues in length. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The function of this family is unknown.
Probab=94.95 E-value=0.01 Score=50.84 Aligned_cols=67 Identities=16% Similarity=0.226 Sum_probs=51.0
Q ss_pred HHHHHHHHhcCCCCCcEEEEeecccCCCCCcceeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCC
Q 027274 136 KSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLS 205 (225)
Q Consensus 136 ksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~ 205 (225)
..|...+..++. .+-..+||+ .-|.. ..+++-+.|.-=|.+.|.|-+.-=.+++|.+++|+++...+
T Consensus 52 s~Lk~ii~~~d~-~~y~i~IE~-~vmg~-Nqqs~i~l~~~~G~iLG~l~~~~n~~~fIn~s~W~kY~lis 118 (159)
T PF07066_consen 52 SELKTIIQKYDL-KFYIIVIEK-PVMGP-NQQSSIKLGIATGIILGRLINRANGYYFINVSTWRKYWLIS 118 (159)
T ss_pred HHHHHHHHHhCC-CcceEEEec-ccccc-cccceEEEEEEeEEEeeeeecccCcEEEecHHHhhhheeee
Confidence 334444556664 457789998 44444 78999999999999999987552379999999999999874
No 10
>PF04848 Pox_A22: Poxvirus A22 protein; InterPro: IPR006932 This family, representing the Poxvirus A22 protein, is a Holliday junction resolvase, it specifically cleaves and resolves four-way DNA Holliday junctions into linear duplex products. ; GO: 0000287 magnesium ion binding, 0000400 four-way junction DNA binding, 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination
Probab=92.46 E-value=1.1 Score=37.62 Aligned_cols=109 Identities=15% Similarity=0.037 Sum_probs=67.6
Q ss_pred cEEEECCCCC-ceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcc
Q 027274 89 WALGIDPDLS-GALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQ 167 (225)
Q Consensus 89 ~IIGIDPG~s-GALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvq 167 (225)
.|++||+|.. =|+|+++.++. .+.++|.--++..... ...-+.+ ++. ..-.++.||+.... +.
T Consensus 2 ii~sIDiGikNlA~~iie~~~~--~i~~~~i~~~~~~~~~---~~~~~~d---l~~----~~~d~VlIErQ~~r---~~- 65 (143)
T PF04848_consen 2 IILSIDIGIKNLAYCIIEFEGN--KIRVIDISKVDWSRDW---EYRILKD---LLK----YEADTVLIERQPPR---NP- 65 (143)
T ss_pred eEEEEecCCCceeEEEEEcCCC--eEEEEEeccCCcccch---HHHHHHH---Hhh----ccCCEEEEecCCCC---Cc-
Confidence 4899999985 59999998764 4888888777633110 0111122 222 33489999997522 32
Q ss_pred eeecccchhHHHHHHHHHhCCeeeEeCchhhHhHhCCCCCCCchhhHHHhhhhcc
Q 027274 168 GWWSGGFGYGLWIGILVASGFSVVPIPSLTWKNWYGLSGGTSTKVCINTLILSVF 222 (225)
Q Consensus 168 S~fsfG~gyGlw~GVL~A~Gipvv~VtPq~WKk~~gL~~~gstKd~Sr~~A~~lf 222 (225)
+-. =.+.+.|-+.-.+..|+.|.|. ++-..-..-|+.|..++.+++
T Consensus 66 -~~~---i~~fI~~~f~~~~~kv~~v~p~-----~~~~~Y~~RKk~SVe~~~~~~ 111 (143)
T PF04848_consen 66 -NVK---IVHFIHGYFYIKNTKVICVSPK-----MKGWSYRERKKRSVEVFKNWI 111 (143)
T ss_pred -chh---HHHHHHHHhccCCceEEEECcc-----cccCCHHHHHHHHHHHHHHHH
Confidence 111 2347788888889999999998 432112345667777766543
No 11
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=86.48 E-value=3.3 Score=35.05 Aligned_cols=99 Identities=11% Similarity=0.021 Sum_probs=64.4
Q ss_pred EEEECCCCCce-EEEEecCCCCceeeeeeCCCcccccccccccccCHHHHH-------HHHHhcCCCCCcEEEEeecccC
Q 027274 90 ALGIDPDLSGA-LAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMI-------MLLRSLDAPIGTTAYVEQSIPY 161 (225)
Q Consensus 90 IIGIDPG~sGA-LAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~-------~lLr~l~~P~gt~a~lEkv~~m 161 (225)
|+||+=-.+=| ||+|+.++. ..++.|+-+.++.+. +.-|..+|. .|+..+.+ ..+|+-|+..
T Consensus 3 vCGVELkgneaii~ll~~~~~--~~~~pdcr~~k~~l~----~~~~~~~vr~Fq~~f~kl~~dy~V--d~VvIk~R~~-- 72 (138)
T PF11215_consen 3 VCGVELKGNEAIICLLSLDDG--LFQLPDCRVRKFSLS----DDNSTEEVRKFQFTFAKLMEDYKV--DKVVIKERAT-- 72 (138)
T ss_pred EEEEEEecCeEEEEEEecCCC--ceECCccceeEEEcC----CCccHHHHHHHHHHHHHHHHHcCC--CEEEEEeccc--
Confidence 67776544444 567777654 677777777777665 344555444 45555543 3677777763
Q ss_pred CCCCcceeecccchhHHHHHHHHHh-CCeeeEeCchhhHhHhC
Q 027274 162 PQDGKQGWWSGGFGYGLWIGILVAS-GFSVVPIPSLTWKNWYG 203 (225)
Q Consensus 162 PgqGvqS~fsfG~gyGlw~GVL~A~-Gipvv~VtPq~WKk~~g 203 (225)
-|+.+.|.-+| -++|++.+. +++|.+|+|++=|..++
T Consensus 73 KGKfAGga~~F-----KmEaaIQL~~~~~V~lvs~~~ik~~lK 110 (138)
T PF11215_consen 73 KGKFAGGAVGF-----KMEAAIQLIDDVEVELVSPATIKAQLK 110 (138)
T ss_pred CCCccCCchhH-----HHHHHHHhcCCCcEEEECHHHHHHHHh
Confidence 23333343333 578888888 99999999999998874
No 12
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=84.95 E-value=6.2 Score=28.63 Aligned_cols=49 Identities=24% Similarity=0.395 Sum_probs=29.2
Q ss_pred cEEEECCCCCc-eEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcC
Q 027274 89 WALGIDPDLSG-ALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLD 146 (225)
Q Consensus 89 ~IIGIDPG~sG-ALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~ 146 (225)
.++|||+|.+. .+|+++.++. ..+....|+.. +..-..+.+.+++..+.
T Consensus 2 ~ilgiD~Ggt~i~~a~~d~~g~--~~~~~~~~~~~-------~~~~~~~~l~~~i~~~~ 51 (99)
T smart00732 2 RVLGLDPGRKGIGVAVVDETGK--LADPLEVIPRT-------NKEADAARLKKLIKKYQ 51 (99)
T ss_pred cEEEEccCCCeEEEEEECCCCC--EecCEEEEEec-------CcchHHHHHHHHHHHhC
Confidence 37999999766 4566665553 44444444431 12334677777777654
No 13
>PF07318 DUF1464: Protein of unknown function (DUF1464); InterPro: IPR009927 This family consists of several hypothetical archaeal proteins of around 350 residues in length. The function of this family is unknown.
Probab=70.25 E-value=31 Score=33.05 Aligned_cols=117 Identities=21% Similarity=0.230 Sum_probs=67.7
Q ss_pred EECCCCCc-eEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhc-CC-----CCC---cEEEEeecccC
Q 027274 92 GIDPDLSG-ALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSL-DA-----PIG---TTAYVEQSIPY 161 (225)
Q Consensus 92 GIDPG~sG-ALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l-~~-----P~g---t~a~lEkv~~m 161 (225)
|||||.++ .+|++++.+ ....-+..||..|. =|+..++++|+.. .+ |.| .+..+++....
T Consensus 1 GIDpGT~s~dv~~~dd~g--~v~~~~~ipt~~v~--------~~p~~iv~~l~~~~~~dlIa~psGyG~pl~~~~ei~d~ 70 (343)
T PF07318_consen 1 GIDPGTKSFDVCGLDDDG--KVIFYFSIPTEEVA--------KNPSIIVEELEEFGDIDLIAGPSGYGLPLKRIREITDR 70 (343)
T ss_pred CCCCCCCcEEEEEEccCC--cEEEEeeccHHHhh--------hCHHHHHHHHHhccCCCEEEeCCcCCcccccccccchh
Confidence 89999986 466666633 36677788988644 2578899999987 21 111 11122222211
Q ss_pred CCCCcceeecccc-------hhHHHHHHHHHhCCeeeEeCch-------hhHhHhCCCCCCCchhhHHHhhhh
Q 027274 162 PQDGKQGWWSGGF-------GYGLWIGILVASGFSVVPIPSL-------TWKNWYGLSGGTSTKVCINTLILS 220 (225)
Q Consensus 162 PgqGvqS~fsfG~-------gyGlw~GVL~A~Gipvv~VtPq-------~WKk~~gL~~~gstKd~Sr~~A~~ 220 (225)
.--. -.+..+. |..-+.=-|...++|+++.+.- .|.|.-...-+..+|-.+-.+|++
T Consensus 71 e~~l--~tl~~~~~~g~~~~Glr~~~~~l~~~~l~~~~iPgVi~LptVP~~RK~N~IDmGTaDKva~a~lai~ 141 (343)
T PF07318_consen 71 EIFL--LTLIEESEVGRRIGGLRKLVRELAESNLPAYFIPGVIHLPTVPAWRKINRIDMGTADKVASAALAIY 141 (343)
T ss_pred hhhc--eEeecccccccccccHHHHHHHHHhCCCCEEEeCceeccCCCchHhhhcccccCcHhHHHHHHHHHH
Confidence 1111 1122221 2333443458889998887654 688777654455678888777664
No 14
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=55.96 E-value=21 Score=33.53 Aligned_cols=40 Identities=28% Similarity=0.383 Sum_probs=33.2
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP 162 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP 162 (225)
|..++|+|++++ |-||.+.|.+.++..+ .+++||+.....
T Consensus 254 GI~v~VId~~~i---------kPlD~~~l~~~~~~t~----~vvtvEE~~~~G 293 (356)
T PLN02683 254 GISAEVINLRSI---------RPLDRDTINASVRKTN----RLVTVEEGWPQH 293 (356)
T ss_pred CCCEEEEECCCC---------CccCHHHHHHHHhhcC----eEEEEeCCCcCC
Confidence 346899999999 7899999999998554 799999987543
No 15
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=50.97 E-value=49 Score=35.06 Aligned_cols=76 Identities=20% Similarity=0.278 Sum_probs=49.4
Q ss_pred CCCCccEEEECCCCCc--eEEEEecCCCC-ceeeeeeCCCc--------------------ccccccccccccCHHHHHH
Q 027274 84 NADSQWALGIDPDLSG--ALAVLKSDHNG-CSAEVFDTPHL--------------------PVLVGKRVRKRLDAKSMIM 140 (225)
Q Consensus 84 ~~~~~~IIGIDPG~sG--ALAvL~~~~~~-~~~~V~DmPt~--------------------~v~vg~~~RkrlDaksl~~ 140 (225)
.++++-++|+|||..= .+||++.-|.- .+..|+..|.. +|.+|++.=.|--.+.+.+
T Consensus 326 P~~~~~~lglDPg~rtG~k~Avvd~tGk~l~~~~Iyp~~p~~~~~~~~~~l~~l~~~~~Ve~iaIGngTaSrete~fv~~ 405 (780)
T COG2183 326 PAKPKATLGLDPGFRTGCKVAVVDDTGKLLDTATIYPHPPVNQSDKAEATLKDLIRKYKVELIAIGNGTASRETEKFVAD 405 (780)
T ss_pred CCCCcceeecCCccccccEEEEEcCCCceeceeEEEcCCCccchHHHHHHHHHHHHHhCceEEEEecCCcchhHHHHHHH
Confidence 6777889999999865 45666665432 23446677731 3556777666777777778
Q ss_pred HHHhcCCCCCcEEEEeecc
Q 027274 141 LLRSLDAPIGTTAYVEQSI 159 (225)
Q Consensus 141 lLr~l~~P~gt~a~lEkv~ 159 (225)
+|+.+..+.-..++|++.+
T Consensus 406 vl~~~~~~~~~~viVsEag 424 (780)
T COG2183 406 VLKELPKEKVLKVIVSEAG 424 (780)
T ss_pred HHHhccCCCCcEEEEcccc
Confidence 8887743444566666553
No 16
>CHL00144 odpB pyruvate dehydrogenase E1 component beta subunit; Validated
Probab=49.46 E-value=30 Score=31.98 Aligned_cols=40 Identities=23% Similarity=0.299 Sum_probs=32.7
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP 162 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP 162 (225)
|-.++|+|++++ +-+|.+.|.+.+++.. .++.+|+.....
T Consensus 227 Gi~~~VId~~~i---------kPlD~~~i~~~~~~t~----~vv~vEE~~~~g 266 (327)
T CHL00144 227 GYDPEIIDLISL---------KPLDLGTISKSVKKTH----KVLIVEECMKTG 266 (327)
T ss_pred CCCEEEEecCcC---------CCCCHHHHHHHHHhhC----cEEEEECCCCCC
Confidence 346899999999 6799999999998554 799999886543
No 17
>PF01385 OrfB_IS605: Probable transposase; InterPro: IPR001959 This entry represents a conserved region of a probable transposase family, which is found in a number of uncharacterised bacterial proteins. A novel insertion sequence (IS)-like element of the Bacillus PS3 (Thermophilic bacterium PS-3) that promotes expression of the alanine carrier protein-encoding gene belongs to this entry, including IS891 [], IS1136 [], and IS1341 []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=46.54 E-value=16 Score=29.90 Aligned_cols=41 Identities=20% Similarity=0.270 Sum_probs=29.2
Q ss_pred hcccccccCCCCCCCccccccCCCCCccEEEECCCCCceEEEEecCC
Q 027274 62 QNWLDSLTFPPLHVHDLTANQTNADSQWALGIDPDLSGALAVLKSDH 108 (225)
Q Consensus 62 ~~~l~~ls~~~~~~~~~~~~~~~~~~~~IIGIDPG~sGALAvL~~~~ 108 (225)
..|..++++--+.. +....+..+||||+|..-.+++.+.++
T Consensus 104 ~~~yl~i~~~~~~~------~~~~~~~~~vgVDlGi~~~a~~~~~~~ 144 (227)
T PF01385_consen 104 GKWYLSITVEVEVE------PPPPDTEKVVGVDLGIKNLATVSSGDG 144 (227)
T ss_pred hhcccccccccccc------ccccccceeeeeccccceeeccccccc
Confidence 67887777654332 134556789999999998877776665
No 18
>COG2945 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]
Probab=38.41 E-value=33 Score=31.07 Aligned_cols=42 Identities=24% Similarity=0.464 Sum_probs=31.4
Q ss_pred ccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcceeecccchhHHHHHHHHHhCC
Q 027274 130 RKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASGF 188 (225)
Q Consensus 130 RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS~fsfG~gyGlw~GVL~A~Gi 188 (225)
=.+-|+++.++||+... | .....|-.||+||-|++...|.-.
T Consensus 83 GE~~Da~aaldW~~~~h-p----------------~s~~~~l~GfSFGa~Ia~~la~r~ 124 (210)
T COG2945 83 GELEDAAAALDWLQARH-P----------------DSASCWLAGFSFGAYIAMQLAMRR 124 (210)
T ss_pred chHHHHHHHHHHHHhhC-C----------------CchhhhhcccchHHHHHHHHHHhc
Confidence 35568888888888665 2 122367789999999999998766
No 19
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=36.56 E-value=62 Score=31.79 Aligned_cols=41 Identities=22% Similarity=0.410 Sum_probs=33.3
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQ 163 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPg 163 (225)
|-.++|+|++++ |-||.+.|.+.++... .++.+|+.....|
T Consensus 366 GI~~~VIdl~tl---------kPlD~~~i~~sv~kt~----~vvtvEE~~~~gG 406 (464)
T PRK11892 366 GIDAEVIDLRTI---------RPMDTETIVESVKKTN----RLVTVEEGWPQSG 406 (464)
T ss_pred CCCEEEEECCCC---------CcCCHHHHHHHHHhcC----eEEEEeCCCcCCc
Confidence 456899999999 6799999999998544 7999999875443
No 20
>PTZ00391 transport protein particle component (TRAPP) superfamily; Provisional
Probab=34.00 E-value=30 Score=29.93 Aligned_cols=19 Identities=32% Similarity=0.548 Sum_probs=17.1
Q ss_pred cchhHHHHHHHHHhCCeee
Q 027274 173 GFGYGLWIGILVASGFSVV 191 (225)
Q Consensus 173 G~gyGlw~GVL~A~Gipvv 191 (225)
-|-.|+++|+|.++|||-.
T Consensus 117 aF~~GII~G~L~~~Gf~a~ 135 (168)
T PTZ00391 117 AFAAGIVEGILCSAEFPAN 135 (168)
T ss_pred hhhHHHHHHHHhhCCCCcE
Confidence 4788999999999999976
No 21
>PF04051 TRAPP: Transport protein particle (TRAPP) component; InterPro: IPR007194 TRAPP plays a key role in the targeting and/or fusion of ER-to-Golgi transport vesicles with their acceptor compartment. TRAPP is a large multimeric protein that contains at least 10 subunits. This family contains many TRAPP family proteins. The Bet3 subunit is one of the better characterised TRAPP proteins and has a dimeric structure [] with hydrophobic channels. The channel entrances are located on a putative membrane-interacting surface that is distinctively flat, wide and decorated with positively charged residues. Bet3 is proposed to localise TRAPP to the Golgi [].; PDB: 2J3R_A 1WC9_A 2J3T_A 2PWN_A 2J3W_E 1WC8_A 3CUE_N 2C0J_B 3KXC_A 2CFH_A ....
Probab=33.96 E-value=32 Score=28.12 Aligned_cols=23 Identities=26% Similarity=0.263 Sum_probs=18.7
Q ss_pred ecccchhHHHHHHHHHhCCeeeE
Q 027274 170 WSGGFGYGLWIGILVASGFSVVP 192 (225)
Q Consensus 170 fsfG~gyGlw~GVL~A~Gipvv~ 192 (225)
.-.-+-.|++.|+|.++||+..+
T Consensus 109 ~~~~f~~GiIrGaL~~lg~~~~V 131 (152)
T PF04051_consen 109 NYLAFPCGIIRGALESLGFPAEV 131 (152)
T ss_dssp HTTHHHHHHHHHHHHHTTEEEEE
T ss_pred chhhhHHHHHHHHHHHCCCceEE
Confidence 34457789999999999999853
No 22
>COG1829 Predicted archaeal kinase (sugar kinase superfamily) [General function prediction only]
Probab=32.65 E-value=76 Score=29.91 Aligned_cols=68 Identities=25% Similarity=0.278 Sum_probs=43.2
Q ss_pred EEEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCC
Q 027274 90 ALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQ 163 (225)
Q Consensus 90 IIGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPg 163 (225)
+++=||..+|++-+==.=+.|-+++|--.|...|..++ +++|.......+..+. |.+ +=|....++|.
T Consensus 18 v~~~~p~~SGSiGaGv~l~~gv~v~v~~~~~~~v~~Ng---~~~d~~~~~~v~e~L~-~~~--~~v~~~~~~P~ 85 (283)
T COG1829 18 VIGKDPLKSGSIGAGVALERGVTVEVRFGEGTGVRLNG---KKIDLPITRKVIEKLG-PDG--VGVRIESPVPL 85 (283)
T ss_pred ccCCCCccCCCcceeEEecCceeEEEEecCCceEEECC---eeccchhHHHHHHHhC-ccC--cceEEEecCCC
Confidence 35557777776643111122235777777777777766 7888888888887777 544 23666677774
No 23
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=31.34 E-value=41 Score=22.72 Aligned_cols=21 Identities=33% Similarity=0.680 Sum_probs=19.2
Q ss_pred HHHHHhCCeeeEeCchhhHhH
Q 027274 181 GILVASGFSVVPIPSLTWKNW 201 (225)
Q Consensus 181 GVL~A~Gipvv~VtPq~WKk~ 201 (225)
=+|.++|+.|+.|+-..|.+.
T Consensus 25 r~L~~~G~~Vi~Ip~~eW~~l 45 (58)
T PF08373_consen 25 RHLKALGYKVISIPYYEWNKL 45 (58)
T ss_pred HHHHHCCCEEEEecHHHHHhc
Confidence 469999999999999999986
No 24
>PRK13782 phosphocarrier protein Chr; Provisional
Probab=30.52 E-value=55 Score=24.28 Aligned_cols=28 Identities=29% Similarity=0.398 Sum_probs=23.5
Q ss_pred ccccCHHHHHHHHHhcCCCCCcEEEEeec
Q 027274 130 RKRLDAKSMIMLLRSLDAPIGTTAYVEQS 158 (225)
Q Consensus 130 RkrlDaksl~~lLr~l~~P~gt~a~lEkv 158 (225)
++++|+|++..++ +++++.|+.+-|+--
T Consensus 39 ~~~vdaKSil~ll-sLg~~~g~~v~v~~~ 66 (82)
T PRK13782 39 GKKVNAKSIMGLM-SLAIGTGSMITIITE 66 (82)
T ss_pred CeEEecHhHHHHH-hcCCCCCCEEEEEEe
Confidence 3689999999999 688899998888743
No 25
>TIGR01003 PTS_HPr_family Phosphotransferase System HPr (HPr) Family. The HPr family are bacterial proteins (or domains of proteins) which function in phosphoryl transfer system (PTS) systems. They include energy-coupling components which catalyze sugar uptake via a group translocation mechanism. The functions of most of these proteins are not known, but they presumably function in PTS-related regulatory capacities. All seed members are stand-alone HPr proteins, although the model also recognizes HPr domains of PTS fusion proteins. This family includes the related NPr protein.
Probab=28.21 E-value=64 Score=23.94 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=23.3
Q ss_pred cccCHHHHHHHHHhcCCCCCcEEEEeec
Q 027274 131 KRLDAKSMIMLLRSLDAPIGTTAYVEQS 158 (225)
Q Consensus 131 krlDaksl~~lLr~l~~P~gt~a~lEkv 158 (225)
+..|++++..++ ++++..|+.+.|+--
T Consensus 40 ~~~dakSil~ll-~Lg~~~G~~i~i~~~ 66 (82)
T TIGR01003 40 KEVNAKSIMGIM-MLGAGQGTEVTVSAD 66 (82)
T ss_pred EEEehHhHHHHH-hcCCCCCCEEEEEEe
Confidence 688999999999 688899999888854
No 26
>PRK05444 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=27.84 E-value=83 Score=31.15 Aligned_cols=50 Identities=24% Similarity=0.206 Sum_probs=36.0
Q ss_pred eEEEEecCCCC--c--------eeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274 100 ALAVLKSDHNG--C--------SAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP 162 (225)
Q Consensus 100 ALAvL~~~~~~--~--------~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP 162 (225)
-++++..+... | .++|+|||++ +-+|.+.+.+.++.. +.++.||+.....
T Consensus 465 dvtIia~G~~v~~al~Aa~~L~~~~VId~~~i---------~p~D~~~i~~~~~~~----~~vv~vEe~~~~g 524 (580)
T PRK05444 465 DVAILAFGTMLAEALKAAERLASATVVDARFV---------KPLDEELLLELAAKH----DLVVTVEEGAIMG 524 (580)
T ss_pred CEEEEEccHHHHHHHHHHHHhCCCEEEEeCcC---------CccCHHHHHHHHhcC----CeEEEEECCCCCC
Confidence 56677665322 1 4799999999 568998888888733 4789999987543
No 27
>TIGR00204 dxs 1-deoxy-D-xylulose-5-phosphate synthase. DXP synthase is a thiamine diphosphate-dependent enzyme related to transketolase and the pyruvate dehydrogenase E1-beta subunit. By an acyloin condensation of pyruvate with glyceraldehyde 3-phosphate, it produces 1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine diphosphate (TPP), pyridoxal phosphate, and the isoprenoid building block isopentenyl diphosphate (IPP).
Probab=27.47 E-value=98 Score=31.20 Aligned_cols=41 Identities=24% Similarity=0.289 Sum_probs=32.4
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQ 163 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPg 163 (225)
|..++|+|++++ +-+|.+.+...++... .+++||+.....|
T Consensus 521 gi~~~VId~~~l---------kPlD~e~i~~~~~k~~----~vvtvEE~~~~GG 561 (617)
T TIGR00204 521 GIEATVVDARFV---------KPLDEELILEIAASHE----KLVTVEENAIMGG 561 (617)
T ss_pred CCCEEEEecCcC---------CcCCHHHHHHHHhhcC----eEEEEECCCCccC
Confidence 357899999999 5689999999887444 7899999875443
No 28
>PRK12388 fructose-1,6-bisphosphatase II-like protein; Reviewed
Probab=27.24 E-value=86 Score=30.06 Aligned_cols=130 Identities=15% Similarity=0.173 Sum_probs=74.4
Q ss_pred HHHHhhhhcccccccCCCC---CCCcccccc-----CCCCCc----cEEEECC---------CCCceEEEEecCCCCcee
Q 027274 55 AVAAQMKQNWLDSLTFPPL---HVHDLTANQ-----TNADSQ----WALGIDP---------DLSGALAVLKSDHNGCSA 113 (225)
Q Consensus 55 ~~~~~~~~~~l~~ls~~~~---~~~~~~~~~-----~~~~~~----~IIGIDP---------G~sGALAvL~~~~~~~~~ 113 (225)
++..-||.- ||.+..--. .|+|.++-| |..+++ .=|.+|| |..|||+|+---..|+..
T Consensus 34 AAv~AMR~~-ln~v~~~G~VVIGEGE~DeAPMLyiGE~vG~g~gp~vDIAVDPlEGT~l~A~g~~nAisViA~a~rG~ll 112 (321)
T PRK12388 34 LAVTAMRQA-LNDVAFRGRVVIGEGEIDHAPMLWIGEEVGKGDGPEVDIAVDPIEGTRMVAMGQSNALAVMAFAPRDSLL 112 (321)
T ss_pred HHHHHHHHH-hccCCcceEEEeCCCCcccCCcccCCccccCCCCCceeEEECCcccchhhhCCCCCcEEEEEEcCCCCcC
Confidence 445556653 555543211 144443322 444444 4499999 999999999776655555
Q ss_pred eeeeCCCcccccccccccccCH--------HHHHHHHHhcCCCCCcEEEEeec-c-------------------------
Q 027274 114 EVFDTPHLPVLVGKRVRKRLDA--------KSMIMLLRSLDAPIGTTAYVEQS-I------------------------- 159 (225)
Q Consensus 114 ~V~DmPt~~v~vg~~~RkrlDa--------ksl~~lLr~l~~P~gt~a~lEkv-~------------------------- 159 (225)
..=||=-.|+.||...+-.||. +.++..+. ..+.+-|+++|++= +
T Consensus 113 ~aPd~YM~KiavGp~~~G~idl~~p~~~Nl~~vA~alg-k~v~dltV~vLdRpRH~~lI~eiR~~GarI~Li~DGDVa~a 191 (321)
T PRK12388 113 HAPDMYMKKLVVNRLAAGAIDLSLPLADNLRNVARALG-KPLDKLRMVTLDKPRLSAAIEEATQLGVKVFALPDGDVAAS 191 (321)
T ss_pred CCchhceeeeeECcccCCeecCCCCHHHHHHHHHHHcC-CChhHeEEEEEcCchHHHHHHHHHHcCCeEEEeccccHHHH
Confidence 5444433577888776555543 33333332 23356677777652 1
Q ss_pred ---cCCCCCcceeecccchhHHHHHHHHHhCCe
Q 027274 160 ---PYPQDGKQGWWSGGFGYGLWIGILVASGFS 189 (225)
Q Consensus 160 ---~mPgqGvqS~fsfG~gyGlw~GVL~A~Gip 189 (225)
.+|.-|+--.+..| |.=+|||+|+.+.
T Consensus 192 i~~~~~~s~vD~~~GiG---GAPEGVlaAaAlk 221 (321)
T PRK12388 192 VLTCWQDNPYDVMYTIG---GAPEGVISACAVK 221 (321)
T ss_pred HHHhCCCCCeeEEEEcC---CChHHHHHHHHHH
Confidence 45555555555555 5568888887653
No 29
>PHA03377 EBNA-3C; Provisional
Probab=26.56 E-value=50 Score=35.31 Aligned_cols=36 Identities=31% Similarity=0.207 Sum_probs=25.0
Q ss_pred CCceEEEEecCCCCceeeeeeCCCccccc-----ccccccccCHH
Q 027274 97 LSGALAVLKSDHNGCSAEVFDTPHLPVLV-----GKRVRKRLDAK 136 (225)
Q Consensus 97 ~sGALAvL~~~~~~~~~~V~DmPt~~v~v-----g~~~RkrlDak 136 (225)
-+||++|+++| +++|||+-+..-.+ .++-|+-.|.-
T Consensus 500 rrgacvvyd~d----iievidvett~ee~~~~~p~~~~r~~~~~~ 540 (1000)
T PHA03377 500 RRGACVVYDDD----IIEVIDVETTEEEESVTQPAKPHRKVQDGF 540 (1000)
T ss_pred cccceEEecCC----eeEEEecccccccccccCCCCccccccccc
Confidence 37999999865 79999998876444 34445544443
No 30
>PRK12315 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=26.30 E-value=1.1e+02 Score=30.72 Aligned_cols=40 Identities=18% Similarity=0.215 Sum_probs=29.6
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP 162 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP 162 (225)
|-.++|+|+|++ +-+|.+.+.++.+... .++.+|+.....
T Consensus 487 gi~~~Vid~~~i---------kPlD~~~i~~~~~~~~----~vvtvEe~~~~G 526 (581)
T PRK12315 487 GIDATLINPKFI---------TGLDEELLEKLKEDHE----LVVTLEDGILDG 526 (581)
T ss_pred CCCEEEEecCcC---------CCCCHHHHHHHHhhCC----EEEEEcCCCcCC
Confidence 346899999999 5789998777665433 677899876544
No 31
>COG2441 Predicted butyrate kinase [Energy production and conversion]
Probab=25.52 E-value=71 Score=30.89 Aligned_cols=121 Identities=18% Similarity=0.236 Sum_probs=61.9
Q ss_pred EEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEE-eec-ccCCC-----
Q 027274 91 LGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYV-EQS-IPYPQ----- 163 (225)
Q Consensus 91 IGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~l-Ekv-~~mPg----- 163 (225)
+|||||..--=++=-+|.+|..+--+..|+..|. + |+.-+++.|++..+..|++=-| --+ ..+|-
T Consensus 1 ~GIDpGT~smdvfgfdDEsg~vi~~~~I~rdeVt--k------~p~iiv~ii~e~~~e~g~~daivgpSGyGlPlk~are 72 (374)
T COG2441 1 IGIDPGTGSMDVFGFDDESGNVIVDVAIPRDEVT--K------SPRIIVDIIEEVQAEVGGIDAIVGPSGYGLPLKRARE 72 (374)
T ss_pred CCcCCCCCceeEEEEecCCCCEEEEEecCHHHhc--c------CchHHHHHHHHHhhhhccccceeccccCCCcccchhh
Confidence 6999997443333333444445555577777533 2 4556677777665544432111 111 22331
Q ss_pred ----CCcceeecccch-------hHHHH--HHH-HHhCCeeeEe-------CchhhHhHhCCCCCCCchhhHHHhhh
Q 027274 164 ----DGKQGWWSGGFG-------YGLWI--GIL-VASGFSVVPI-------PSLTWKNWYGLSGGTSTKVCINTLIL 219 (225)
Q Consensus 164 ----qGvqS~fsfG~g-------yGlw~--GVL-~A~Gipvv~V-------tPq~WKk~~gL~~~gstKd~Sr~~A~ 219 (225)
+=.-..|.+-.. .|+=. -.. .++.++..++ +--.|.|.=.+.-+-++|-.+..+|+
T Consensus 73 ~~~~eI~laTfi~~sd~~~~lrivglr~Lm~l~~~~~dln~yftPgVIhLpTvP~wRK~nrID~GTaDKl~tv~lai 149 (374)
T COG2441 73 ATNEEIALATFITKSDVERRLRIVGLRELMALMREASDLNIYFTPGVIHLPTVPEWRKVNRIDLGTADKLFTVVLAI 149 (374)
T ss_pred CCchheeeeEeccchhhhhhhccccHHHHHHHHHHhhcCccccccceeecCCCCchhhcCcccccchhHHHHHHHHH
Confidence 222244544432 33221 112 4556665544 33579998776545677777766664
No 32
>COG0107 HisF Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]
Probab=25.06 E-value=3.6e+02 Score=25.28 Aligned_cols=85 Identities=25% Similarity=0.240 Sum_probs=58.6
Q ss_pred CCCCCccE-EEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeec-cc
Q 027274 83 TNADSQWA-LGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQS-IP 160 (225)
Q Consensus 83 ~~~~~~~I-IGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv-~~ 160 (225)
..+|++|| ++||+-..= ++..|.++|+..= ++-.-.+|+-..+..+..+.+- |=+ +.
T Consensus 118 ~~FGsQciVvaIDakr~~-------~g~~~~~~v~~~g-------Gr~~t~~d~~~Wa~~~e~~GAG-------EIlLts 176 (256)
T COG0107 118 DRFGSQCIVVAIDAKRVP-------DGENGWYEVFTHG-------GREDTGLDAVEWAKEVEELGAG-------EILLTS 176 (256)
T ss_pred HHhCCceEEEEEEeeecc-------CCCCCcEEEEecC-------CCcCCCcCHHHHHHHHHHcCCc-------eEEEee
Confidence 47999995 999976520 1111345555332 2222457888888888888763 222 77
Q ss_pred CCCCCcceeecccchhHHHHHHHHHhCCeeeE
Q 027274 161 YPQDGKQGWWSGGFGYGLWIGILVASGFSVVP 192 (225)
Q Consensus 161 mPgqGvqS~fsfG~gyGlw~GVL~A~Gipvv~ 192 (225)
|-.||.+. ||...+..-|..+..|||+-
T Consensus 177 mD~DGtk~----GyDl~l~~~v~~~v~iPvIA 204 (256)
T COG0107 177 MDRDGTKA----GYDLELTRAVREAVNIPVIA 204 (256)
T ss_pred eccccccc----CcCHHHHHHHHHhCCCCEEe
Confidence 88999864 78889999999999999975
No 33
>PHA02533 17 large terminase protein; Provisional
Probab=24.65 E-value=83 Score=31.38 Aligned_cols=66 Identities=9% Similarity=0.088 Sum_probs=35.2
Q ss_pred CCccEEEECCCCCceEEEEecCCCCceeeeeeCCCcccccccccc-cccCHHHHHHHHHhcCC-CCCcEEEEeec
Q 027274 86 DSQWALGIDPDLSGALAVLKSDHNGCSAEVFDTPHLPVLVGKRVR-KRLDAKSMIMLLRSLDA-PIGTTAYVEQS 158 (225)
Q Consensus 86 ~~~~IIGIDPG~sGALAvL~~~~~~~~~~V~DmPt~~v~vg~~~R-krlDaksl~~lLr~l~~-P~gt~a~lEkv 158 (225)
+..-+||+||.-+ ...|.+ ...|+|.|..|-.+=.+-| +.++....++.|+.+.- .-.+.+.||.-
T Consensus 313 ~~~y~ig~D~a~G-----~~~D~s--~~~V~~~~~~~~r~v~~~~~~~~~~~~~a~~I~~l~~~Yn~a~i~id~t 380 (534)
T PHA02533 313 GHKYIATLDVSEG-----RGQDYS--ALHIIDITEYPYKQVAVYHNNTISPLILPDIIVDYLMEYNEAPVYIELN 380 (534)
T ss_pred CceEEEEEECCCC-----CCCcee--EEEEEccCCCCcEEEEEEecCCCCHHHHHHHHHHHHHHhCceEEEEecC
Confidence 3445899999862 112443 5788897765511111222 33666555555544422 21266788864
No 34
>KOG4774 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.44 E-value=39 Score=30.09 Aligned_cols=14 Identities=43% Similarity=0.619 Sum_probs=11.6
Q ss_pred cchhHHHHHHHHHh
Q 027274 173 GFGYGLWIGILVAS 186 (225)
Q Consensus 173 G~gyGlw~GVL~A~ 186 (225)
|+.||++.|+|.|+
T Consensus 73 G~Q~G~~rGtLsal 86 (190)
T KOG4774|consen 73 GLQYGRLRGTLSAL 86 (190)
T ss_pred HHHHHHHHHHHHHH
Confidence 47899999988775
No 35
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=22.28 E-value=1e+02 Score=23.41 Aligned_cols=28 Identities=29% Similarity=0.283 Sum_probs=24.1
Q ss_pred cccCHHHHHHHHHhcCCCCCcEEEEeecc
Q 027274 131 KRLDAKSMIMLLRSLDAPIGTTAYVEQSI 159 (225)
Q Consensus 131 krlDaksl~~lLr~l~~P~gt~a~lEkv~ 159 (225)
++.|++++..++ +++++.|+.+.|+-.+
T Consensus 40 ~~~~akSil~lm-~Lg~~~G~~v~i~~~G 67 (85)
T PRK10850 40 KSASAKSLFKLQ-TLGLTQGTVVTISAEG 67 (85)
T ss_pred eEEchHhHHHHH-hcCCCCCCEEEEEEeC
Confidence 689999999999 6888999999888544
No 36
>PRK07440 hypothetical protein; Provisional
Probab=21.86 E-value=64 Score=23.51 Aligned_cols=33 Identities=18% Similarity=0.112 Sum_probs=21.3
Q ss_pred CCcccccccccccccCHHHHHHHHHhcCCCCCc
Q 027274 119 PHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGT 151 (225)
Q Consensus 119 Pt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt 151 (225)
|.|.|.++++.+.--+...+.++|..+..+...
T Consensus 3 ~~m~i~vNG~~~~~~~~~tl~~lL~~l~~~~~~ 35 (70)
T PRK07440 3 NPITLQVNGETRTCSSGTSLPDLLQQLGFNPRL 35 (70)
T ss_pred CceEEEECCEEEEcCCCCCHHHHHHHcCCCCCe
Confidence 456777777744433455788899888764433
No 37
>cd00367 PTS-HPr_like Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation across the cell membrane. The phosphoryl group from phosphoenolpyruvate is transferred to HPr by enzyme I (EI). Phospho-HPr then transfers the phosphoryl group to one of several sugar-specific phosphoprotein intermediates. The conserved histidine in the N-terminus of HPr serves as an acceptor for the phosphoryl group of EI. In addition to the phosphotransferase proteins HPr and E1, this family also includes the closely related Carbon Catabolite Repressor (CCR) proteins which use the same phosphorylation mechanism and interact with transcriptional regulators to control expression of genes coding for utilization of less favored carbon sources.
Probab=21.63 E-value=1.2e+02 Score=21.93 Aligned_cols=28 Identities=29% Similarity=0.404 Sum_probs=22.8
Q ss_pred ccccCHHHHHHHHHhcCCCCCcEEEEeec
Q 027274 130 RKRLDAKSMIMLLRSLDAPIGTTAYVEQS 158 (225)
Q Consensus 130 RkrlDaksl~~lLr~l~~P~gt~a~lEkv 158 (225)
++.+|++++..++ ++++..|..+.|+--
T Consensus 35 ~~~vdakSil~i~-~L~~~~G~~i~i~~~ 62 (77)
T cd00367 35 GRKANAKSILGLM-SLGAKQGDEITLSAE 62 (77)
T ss_pred CEEEcHHhHHHHH-HcCCCCCCEEEEEEE
Confidence 4789999999998 688888888877643
No 38
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=20.79 E-value=3.5e+02 Score=21.92 Aligned_cols=62 Identities=18% Similarity=0.161 Sum_probs=36.9
Q ss_pred CCCceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCCCCcceeecccchhHHHHHHHHHhC
Q 027274 108 HNGCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQDGKQGWWSGGFGYGLWIGILVASG 187 (225)
Q Consensus 108 ~~~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPgqGvqS~fsfG~gyGlw~GVL~A~G 187 (225)
.++..+.++|+|... +.+.+.++.+......+.+|.-.. | ....---..-.|...+
T Consensus 67 ~~~~~i~~iDtPG~~-------------~f~~~~~~~~~~~D~ailvVda~~-----g------~~~~~~~~l~~~~~~~ 122 (188)
T PF00009_consen 67 ENNRKITLIDTPGHE-------------DFIKEMIRGLRQADIAILVVDAND-----G------IQPQTEEHLKILRELG 122 (188)
T ss_dssp ESSEEEEEEEESSSH-------------HHHHHHHHHHTTSSEEEEEEETTT-----B------STHHHHHHHHHHHHTT
T ss_pred ccccceeeccccccc-------------ceeecccceecccccceeeeeccc-----c------cccccccccccccccc
Confidence 444579999999873 445555555555666666666442 2 1112233445678889
Q ss_pred CeeeEe
Q 027274 188 FSVVPI 193 (225)
Q Consensus 188 ipvv~V 193 (225)
+|+++|
T Consensus 123 ~p~ivv 128 (188)
T PF00009_consen 123 IPIIVV 128 (188)
T ss_dssp -SEEEE
T ss_pred cceEEe
Confidence 997765
No 39
>PTZ00182 3-methyl-2-oxobutanate dehydrogenase; Provisional
Probab=20.28 E-value=1.6e+02 Score=27.69 Aligned_cols=40 Identities=23% Similarity=0.345 Sum_probs=32.0
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYP 162 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mP 162 (225)
|-.+.|+|++++ +-+|.+.|.+.++... .+++||+-....
T Consensus 259 Gi~v~vI~~~~l---------~Pld~e~i~~~~~~~~----~IvvvEE~~~~G 298 (355)
T PTZ00182 259 GISCEVIDLRSL---------RPWDRETIVKSVKKTG----RCVIVHEAPPTC 298 (355)
T ss_pred CCcEEEEEEeeC---------CCCCHHHHHHHHhcCC----EEEEEEeCCCCC
Confidence 346889999999 6789999999997554 789999987543
No 40
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=20.17 E-value=1.6e+02 Score=27.21 Aligned_cols=41 Identities=29% Similarity=0.493 Sum_probs=32.6
Q ss_pred CceeeeeeCCCcccccccccccccCHHHHHHHHHhcCCCCCcEEEEeecccCCC
Q 027274 110 GCSAEVFDTPHLPVLVGKRVRKRLDAKSMIMLLRSLDAPIGTTAYVEQSIPYPQ 163 (225)
Q Consensus 110 ~~~~~V~DmPt~~v~vg~~~RkrlDaksl~~lLr~l~~P~gt~a~lEkv~~mPg 163 (225)
|-.++|+|++++ +-+|.+.|.+.++... .++.+|+-....|
T Consensus 227 Gi~v~vi~~~~l---------~Pld~~~i~~~~~~~~----~vv~vEe~~~~gG 267 (327)
T PRK09212 227 GISVEVIDLRTL---------RPLDTETIIESVKKTN----RLVVVEEGWPFAG 267 (327)
T ss_pred CCcEEEEEEecC---------CCCCHHHHHHHHHhCC----eEEEEcCCCCCCC
Confidence 346889999999 6789999999998555 7899998865443
Done!