Query 013433
Match_columns 443
No_of_seqs 201 out of 525
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 03:48:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013433.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013433hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2232 Ceramidases [Signal tr 100.0 2E-119 5E-124 921.1 26.3 389 1-436 50-447 (734)
2 PF04734 Ceramidase_alk: Neutr 100.0 1E-110 2E-115 910.7 28.5 370 1-435 20-390 (674)
3 PTZ00487 ceramidase; Provision 100.0 8E-109 2E-113 892.5 38.4 372 1-435 58-431 (715)
4 COG3356 Predicted membrane pro 97.7 0.00036 7.7E-09 75.4 12.1 117 1-131 413-533 (578)
5 PF09843 DUF2070: Predicted me 97.4 0.0014 3.1E-08 61.5 11.2 115 2-130 43-162 (179)
6 PF14552 Tautomerase_2: Tautom 61.9 17 0.00036 30.2 4.8 45 30-76 26-75 (82)
7 PF01282 Ribosomal_S24e: Ribos 59.3 22 0.00048 29.6 5.1 35 44-80 11-45 (84)
8 PTZ00397 macrophage migration 55.4 34 0.00075 29.4 5.9 50 23-75 49-103 (116)
9 PF09580 Spore_YhcN_YlaJ: Spor 35.6 87 0.0019 28.8 5.7 45 19-72 92-140 (177)
10 TIGR03196 pucD xanthine dehydr 31.2 2.6E+02 0.0057 32.3 9.6 98 30-130 476-574 (768)
11 cd06808 PLPDE_III Type III Pyr 26.0 4.3E+02 0.0093 24.2 8.6 76 34-129 109-191 (211)
12 TIGR03194 4hydrxCoA_A 4-hydrox 25.1 2.6E+02 0.0055 32.2 8.2 95 33-130 456-551 (746)
13 PRK00111 hypothetical protein; 25.1 1.4E+02 0.003 28.5 5.1 54 19-77 106-162 (180)
14 PRK01178 rps24e 30S ribosomal 24.4 1.5E+02 0.0033 25.6 4.8 45 34-80 19-63 (99)
15 PTZ00450 macrophage migration 23.9 2E+02 0.0044 25.1 5.6 44 29-74 54-102 (113)
16 COG3657 Uncharacterized protei 23.3 44 0.00095 28.9 1.2 26 288-332 36-61 (100)
17 PF14908 DUF4496: Domain of un 22.7 2.2E+02 0.0047 25.3 5.7 38 93-130 92-129 (140)
18 COG0409 HypD Hydrogenase matur 21.3 81 0.0018 33.0 2.9 32 47-79 12-44 (364)
19 PF15601 Imm42: Immunity prote 21.0 2.8E+02 0.006 25.4 6.0 57 63-123 72-133 (134)
20 KOG3424 40S ribosomal protein 20.7 1.4E+02 0.0031 26.8 4.0 34 45-80 34-67 (132)
21 PRK09970 xanthine dehydrogenas 20.2 4.3E+02 0.0094 30.4 8.8 95 33-130 472-568 (759)
22 PF01924 HypD: Hydrogenase for 20.1 53 0.0012 34.5 1.4 35 45-79 2-37 (355)
23 TIGR00991 3a0901s02IAP34 GTP-b 20.1 7.3E+02 0.016 25.7 9.6 72 33-118 122-195 (313)
No 1
>KOG2232 consensus Ceramidases [Signal transduction mechanisms]
Probab=100.00 E-value=2.3e-119 Score=921.06 Aligned_cols=389 Identities=74% Similarity=1.190 Sum_probs=376.0
Q ss_pred CCcccCCCCccceeecceEEEEEEEEcCCCCEEEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCC
Q 013433 1 MMGYANMEQIASGIHFRLRARTFIVAEPQGNRVVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPG 80 (443)
Q Consensus 1 m~GYa~~~q~a~GIhdrL~ARAfVl~d~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPg 80 (443)
||||++..|.+.|||.||+|||||++++.++|++||++|.+|+.+.++.+|.+||+++||++|.++||.||+||||+||+
T Consensus 50 mMGYan~~QvasGIh~Rl~aRaFIvaep~gnRv~FVs~DagM~sq~lkleVi~RLqarYG~lY~~~NVaiSGtHTHagPg 129 (734)
T KOG2232|consen 50 MMGYANSEQVASGIHFRLRARAFIVAEPQGNRVAFVSLDAGMASQGLKLEVIERLQARYGNLYTEDNVAISGTHTHAGPG 129 (734)
T ss_pred eccccchhhhhchheeeeeeeeEEEecCCCceEEEEecchhhhhhhhHHHHHHHHHHhhcccccccceeEecccccCCCc
Confidence 89999999999999999999999999988899999999999999999999999999999999999999999999999999
Q ss_pred CCccchhhhccccccchhHHHHHHHHHHHHHHHHHhcCCceEEEEEEEEeccccccCChhhhcCCChhhcCCCCCCCCCe
Q 013433 81 GYLQYVVYIVTSLGFVRQSFDALVDGIEKSVLQAHENLRPGSIFVNKGELLDASISRSPSAYLNNPASERGKYKYNVDKE 160 (443)
Q Consensus 81 g~~~~~l~~i~~~Gf~~~y~~~lvdgIveAI~~A~~nl~Pa~L~~g~g~~~~~~iNRs~~ay~~NP~~eR~~y~g~vD~~ 160 (443)
||++|.+|.++++||+++.|+.+|++|.++|.+||+||+|++|.+++|++.++++||||++|++||.+||++|+.++|++
T Consensus 130 Gylqy~~y~vtslGFv~QsF~~mv~Gi~~sI~qAhenlrpG~iflnkg~llda~vNRSPssYL~NPa~ERsky~~d~DKe 209 (734)
T KOG2232|consen 130 GYLQYVLYIVTSLGFVRQSFDVMVDGIEQSIIQAHENLRPGSIFLNKGELLDAGVNRSPSSYLNNPAEERSKYEYDVDKE 209 (734)
T ss_pred ceeeeeeeeehhcccchHHHHHHHHHHHHHHHHHHhcCCCCeEEecccceecccccCChhHHhcChHhhhhcCccccCce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEEeCCCCcEE---EEEeeeecccccC---CCCcccc---CChHHHHHHHHHHHHhhccCCCCCcccccccCCCcc
Q 013433 161 MTLLKFVDDQWGPVG---SFNWFATHGTSMS---RTNSLIS---GDNKGAAARFMEDWFEQSNAGHSSADELVSEGIPRR 231 (443)
Q Consensus 161 m~vL~f~~~dG~~ig---~L~~fA~HpTsl~---~~N~lIS---~D~~G~As~~lE~~~~~~~~~~~~~~~~~~~~~~~~ 231 (443)
|++|||+|..+.++| +..||++|+++|+ +.|+++| +|+.||++++||++.+
T Consensus 210 mtllkfVD~q~~~~Gar~m~dWf~~h~~~~n~~~n~~r~Vss~isd~~~~a~~Lle~~~~-------------------- 269 (734)
T KOG2232|consen 210 MTLLKFVDLQWGPLGARFMEDWFEVHNGSMNSSRNSPRRVSSIISDNVGYASLLLEKASN-------------------- 269 (734)
T ss_pred eEEEEEEeccCCccchHHHHHHHHhcccccccccCCcceecccccccccHHHHHHHHhhC--------------------
Confidence 999999999999999 5999999999999 8899999 9999999999998721
Q ss_pred ccccccccccchhHHHHHhhhcCCCCCCchhhhhhhhhhhcccccccCCCCeEEEeecCCCCCCCCCCCCccccCCCCCC
Q 013433 232 VSDIISDFRNNHHELLELAASFQSPPGKAATKILSVARRVRGILREAEKPGFVSAFCQSNCGDVSPNVLGAFCIDSGLPC 311 (443)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~FVaafaqsn~GDvSPN~~g~~c~d~g~~c 311 (443)
..+.+|+.+.+.+|.++.||. ..++.||+||||||+||||||++||||+|||+||
T Consensus 270 ---------------------~~~~pG~~v~~~~~~~~rvr~----~~k~~FVsAFcqsN~GDVSPNilG~~CidtG~~C 324 (734)
T KOG2232|consen 270 ---------------------PNSMPGKSVTRSSSVARRVRN----ADKGKFVSAFCQSNCGDVSPNILGPFCIDTGLPC 324 (734)
T ss_pred ---------------------cccCCCcccccchhhhhhhhc----ccccchhhhhhhccCCCCCcccccchhhcCCCcc
Confidence 124578999999999999996 7889999999999999999999999999999999
Q ss_pred CCCCCccCCCCcccccCCCCCCCCchhHHHHHHHHHHHHHHHHhhcCcccccceeeEEEeeecceeEEecCCCCCCCCcc
Q 013433 312 DFNHSTCGGKNEMCYGRGPGYPDEFESTRIIGERQFRKAVDLFNKASEKLEGKIDYRHSYLDFSQLEVTIPKQNGGSETV 391 (443)
Q Consensus 312 ~~~~s~c~g~~~~c~~~GP~~~d~~~s~~iig~rq~~~a~~l~~~~~~~l~g~v~~~~~~vdm~~~~v~~~~~~~~~~~~ 391 (443)
|+++|||+|++++|+|+|||+|||||||+|||+|||++|++||+.++++++|+|+|+|+||||++++|.+|...+....+
T Consensus 325 d~~~StC~g~~~~C~~rGPG~pD~FeSTrIiGer~~k~A~eLfnkaSeevqG~v~~~H~~vD~s~l~vt~n~~~~~se~v 404 (734)
T KOG2232|consen 325 DFNHSTCPGGNEMCYGRGPGYPDEFESTRIIGERQFKMALELFNKASEEVQGKVDYRHQYVDFSNLNVTLNKLSGKSEVV 404 (734)
T ss_pred ccccCcCCCCCcceeccCCCCcchhhhhhHHhHHHHHHHHHHHHhhHHHhcCcccceeEeeccccceeEecCcCCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998887888899
Q ss_pred cCCccccCccccccCCCCCCCCCCcCCCCCccCCchhhhhhceee
Q 013433 392 KTCPAAMGFAFAAGTTDGPGAFDFTQGDDKVTYNCFIHGFRIVLC 436 (443)
Q Consensus 392 ~tc~~a~G~sfaaGt~DGpg~~~f~qg~~~~~~~~~~~~~~~~~~ 436 (443)
||||||||||||||||||||+|+|+||++. +||||+.||++|-
T Consensus 405 ktC~~AmGf~FAAGTtDGpGafdF~QG~~~--gnpfW~~VRn~l~ 447 (734)
T KOG2232|consen 405 KTCPAAMGFSFAAGTTDGPGAFDFTQGDDQ--GNPFWRLVRNVLK 447 (734)
T ss_pred ccCcccccccccccccCCCCccccccCCcC--CChHHHHHHHHHc
Confidence 999999999999999999999999999965 8999999999873
No 2
>PF04734 Ceramidase_alk: Neutral/alkaline non-lysosomal ceramidase; InterPro: IPR006823 This family represents a group of neutral/alkaline ceramidases found in both bacteria and eukaryotes [, , ]. They hydrolyse the sphingolipid ceramide into sphingosine and free fatty acid.; PDB: 2ZXC_A 2ZWS_A.
Probab=100.00 E-value=1e-110 Score=910.69 Aligned_cols=370 Identities=59% Similarity=0.940 Sum_probs=261.0
Q ss_pred CCcccCCCCccceeecceEEEEEEEEc-CCCCEEEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCC
Q 013433 1 MMGYANMEQIASGIHFRLRARTFIVAE-PQGNRVVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGP 79 (443)
Q Consensus 1 m~GYa~~~q~a~GIhdrL~ARAfVl~d-~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgP 79 (443)
||||+.+.|+++|||||||||||||++ .+++|+|||++|+++++++++++|+++|++++|.+|+++||+|++|||||||
T Consensus 20 m~GYa~~~q~a~GihdrLyARAfVl~~~~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~g~~y~~~nViIsaTHTHSgP 99 (674)
T PF04734_consen 20 MMGYANRSQVATGIHDRLYARAFVLEDDDGGTRVVFVSLDLLMIPQEVRDEVRERLAAKYGILYDEENVIISATHTHSGP 99 (674)
T ss_dssp EESS--SS-EEEEESS--EEEEEEEEESSS--EEEEEEESSS---HHHHHHHHHHHHHHSTTT-SGGGEEEEE--BSBEE
T ss_pred cCCCCCCCCCccceecceEEEEEEEEecCCCCEEEEEEeCccccCHHHHHHHHHHHHHhhcCCCChheEEEEeEecCCCC
Confidence 899999999999999999999999994 2479999999999999999999999999999998899999999999999999
Q ss_pred CCCccchhhhccccccchhHHHHHHHHHHHHHHHHHhcCCceEEEEEEEEeccccccCChhhhcCCChhhcCCCCCCCCC
Q 013433 80 GGYLQYVVYIVTSLGFVRQSFDALVDGIEKSVLQAHENLRPGSIFVNKGELLDASISRSPSAYLNNPASERGKYKYNVDK 159 (443)
Q Consensus 80 gg~~~~~l~~i~~~Gf~~~y~~~lvdgIveAI~~A~~nl~Pa~L~~g~g~~~~~~iNRs~~ay~~NP~~eR~~y~g~vD~ 159 (443)
+|+.++++++++..||+++|+++|+++|++||++|+++|+|++|.++++++.++++|||+.+|++||++||.+|++++||
T Consensus 100 gg~~~~~~~~~~~~gf~~~~~~~lv~gIv~aI~~A~~~L~pa~l~~g~g~~~~a~~NRs~~ay~~NP~~er~~y~g~vD~ 179 (674)
T PF04734_consen 100 GGYSHYLLYNITSGGFDPEYYDALVDGIVEAIEQAHENLQPARLGFGTGELSDANINRSPSAYLRNPAEERARYDGPVDP 179 (674)
T ss_dssp ----SSHHHHGGGTB--HHHHHHHHHHHHHHHHHHHTT-EEEEEEEEEEE--SSEEETTHHHHTT-T--T-TT-TTS---
T ss_pred CccccccccccccccchHHHHHHHHHHHHHHHHHHHHhCCcEEEEEeEEEecceeecCCchhhhcCccccccccCCCcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEEeCCCCcEEEEEeeeecccccCCCCccccCChHHHHHHHHHHHHhhccCCCCCcccccccCCCcccccccccc
Q 013433 160 EMTLLKFVDDQWGPVGSFNWFATHGTSMSRTNSLISGDNKGAAARFMEDWFEQSNAGHSSADELVSEGIPRRVSDIISDF 239 (443)
Q Consensus 160 ~m~vL~f~~~dG~~ig~L~~fA~HpTsl~~~N~lIS~D~~G~As~~lE~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 239 (443)
+|++|+|++.+|+++|+|+|||||||+|+++|++||+|||||++++||+.++.
T Consensus 180 ~~~vLrf~~~dG~~ig~L~nfAvHpTsl~~~N~lIS~D~~G~aa~~lE~~~~~--------------------------- 232 (674)
T PF04734_consen 180 EMTVLRFRDADGKPIGVLNNFAVHPTSLGNTNRLISGDNKGYAAYLLEKELGG--------------------------- 232 (674)
T ss_dssp EEEEEEEEETTS-EEEEEEE----B-SS-TT--SBB-HHHHHHHHHHHHTT-----------------------------
T ss_pred ceeEEEEEeCCCCEEEEEEEEcccceeccCCCCeecCCcHhHHHHHHHHhhcc---------------------------
Confidence 99999999999999999999999999999999999999999999999987531
Q ss_pred ccchhHHHHHhhhcCCCCCCchhhhhhhhhhhcccccccCCCCeEEEeecCCCCCCCCCCCCccccCCCCCCCCCCCccC
Q 013433 240 RNNHHELLELAASFQSPPGKAATKILSVARRVRGILREAEKPGFVSAFCQSNCGDVSPNVLGAFCIDSGLPCDFNHSTCG 319 (443)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~FVaafaqsn~GDvSPN~~g~~c~d~g~~c~~~~s~c~ 319 (443)
.+.+.++|||||+|+|+||||||+.||||+|+|+|||+++|||+
T Consensus 233 ------------------------------------~~~~~~~fVaaFaq~n~GDvsPN~~g~~c~~~g~~c~~~~s~c~ 276 (674)
T PF04734_consen 233 ------------------------------------DLAGKPPFVAAFAQGNAGDVSPNTLGPFCEDTGLPCDFEHSTCG 276 (674)
T ss_dssp ----------------------------------------STT-EEEEE-SS-TTEES-SS-------------------
T ss_pred ------------------------------------cccCCCCeEEEEccCCcccccccccccccccccccccccccccc
Confidence 01446899999999999999999999999999999999999999
Q ss_pred CCCcccccCCCCCCCCchhHHHHHHHHHHHHHHHHhhcCcccccceeeEEEeeecceeEEecCCCCCCCCcccCCccccC
Q 013433 320 GKNEMCYGRGPGYPDEFESTRIIGERQFRKAVDLFNKASEKLEGKIDYRHSYLDFSQLEVTIPKQNGGSETVKTCPAAMG 399 (443)
Q Consensus 320 g~~~~c~~~GP~~~d~~~s~~iig~rq~~~a~~l~~~~~~~l~g~v~~~~~~vdm~~~~v~~~~~~~~~~~~~tc~~a~G 399 (443)
|+.++|+++||++ ||||||+|||+|||++|++||++++++|+|+|+++|+||||++++|+ +.+|++++.+||||||||
T Consensus 277 ~~~~~~~~~Gp~~-d~~~s~~iig~rq~~~A~~l~~~~~~~~~g~v~~~~~~vdm~~~~v~-~~~~~~~~~~~tc~~a~G 354 (674)
T PF04734_consen 277 GKNELCHGRGPGK-DMFESTRIIGERQFDKARELYDSASEELTGPVDSRHQYVDMSNVTVD-PPFTGDGKTVRTCPAAMG 354 (674)
T ss_dssp ----SSSTSSSTS--HHHHHHHHHHHHHHHHHHHHHHT-EEE-S-EEEEEEEEE-TT-EE--GGGT-TSS-EE-----EE
T ss_pred ccccccCCCCCCc-cchHHHHHHHHHHHHHHHHHhhccCcccCCCEeEEEEEEcCCCeEEc-cCCCCCCCcCcccccccc
Confidence 9999999999996 99999999999999999999999999999999999999999999999 888999999999999999
Q ss_pred ccccccCCCCCCCCCCcCCCCCccCCchhhhhhcee
Q 013433 400 FAFAAGTTDGPGAFDFTQGDDKVTYNCFIHGFRIVL 435 (443)
Q Consensus 400 ~sfaaGt~DGpg~~~f~qg~~~~~~~~~~~~~~~~~ 435 (443)
||||||||||||.|+|+||+++...||||+.+|++|
T Consensus 355 ~sfaAGt~DGpg~~~f~qg~~~~~~~p~w~~v~~~~ 390 (674)
T PF04734_consen 355 YSFAAGTEDGPGAFDFTQGDTEVEGNPFWDLVRDFL 390 (674)
T ss_dssp ----SSSSSSS-SS---SSS------HHHHHHT-SS
T ss_pred cccccccccCCCcccccCCCcccccchHHHHHhhhc
Confidence 999999999999999999998656799999999987
No 3
>PTZ00487 ceramidase; Provisional
Probab=100.00 E-value=7.7e-109 Score=892.54 Aligned_cols=372 Identities=48% Similarity=0.854 Sum_probs=351.4
Q ss_pred CCcccCCCCccceeecceEEEEEEEEcCCCCEEEEEEeccCcccHHHHHHHHHHHHHHhC-CCCCCCcEEEEeeccCCCC
Q 013433 1 MMGYANMEQIASGIHFRLRARTFIVAEPQGNRVVFVNLDACMASQIVKIKVIERLKARYG-DLYTEKNVAISGIHTHAGP 79 (443)
Q Consensus 1 m~GYa~~~q~a~GIhdrL~ARAfVl~d~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~G-~~i~~~nVlIsATHTHSgP 79 (443)
||||+.+.|+++|||||||||||||+|..++|+|||++|+++++++++++|+++|+++|| ++|+++||+|++|||||||
T Consensus 58 m~GYa~~~q~a~GvhdrLyARAfVl~d~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~Gi~~y~~~NVllsATHTHSGP 137 (715)
T PTZ00487 58 MMGYAMPDQRTKGIHFRQRARAFVFADSPGNRAVYVSTDSCMIFQEVKIGVVPKLQEIFGPDLYTLDNVLLSGTHTHSGP 137 (715)
T ss_pred ccccccCCcCccceecceeEEEEEEEeCCCCEEEEEEEcccCCCHHHHHHHHHHHHHHhCcCcCChhhEEEEeeecCCCC
Confidence 899999999999999999999999976448999999999999999999999999999999 7789999999999999999
Q ss_pred CCCccchhhhccccccchhHHHHHHHHHHHHHHHHHhcCCceEEEEEEEEeccccccCChhhhcCCChhhcCCCCCCCCC
Q 013433 80 GGYLQYVVYIVTSLGFVRQSFDALVDGIEKSVLQAHENLRPGSIFVNKGELLDASISRSPSAYLNNPASERGKYKYNVDK 159 (443)
Q Consensus 80 gg~~~~~l~~i~~~Gf~~~y~~~lvdgIveAI~~A~~nl~Pa~L~~g~g~~~~~~iNRs~~ay~~NP~~eR~~y~g~vD~ 159 (443)
++|.++.+|+++++||+++|+++|+++|++||++||++|+|++|.++++++.++++|||+.+|++||++||.+|++++||
T Consensus 138 gg~~~~~l~~~ts~Gf~~qy~~~lvdgIv~AI~~A~~nL~Pa~l~~g~g~~~~aniNRs~~ay~~NP~~er~~y~g~vD~ 217 (715)
T PTZ00487 138 AGFSFYALYGITTLGFYKKNFDTICEGIVQAIVKAHKSVQPARMYTNSGELWNSNINRSPTAYDNNPEEEKAMYDGNVDK 217 (715)
T ss_pred cccccccccccccccccHHHHHHHHHHHHHHHHHHHhcCCcEEEEEeeEEeccccccCChhhhhcCchhhccccCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEEeCCCCcEEEEEeeeecccccCCCCccccCChHHHHHHHHHHHHhhccCCCCCcccccccCCCcccccccccc
Q 013433 160 EMTLLKFVDDQWGPVGSFNWFATHGTSMSRTNSLISGDNKGAAARFMEDWFEQSNAGHSSADELVSEGIPRRVSDIISDF 239 (443)
Q Consensus 160 ~m~vL~f~~~dG~~ig~L~~fA~HpTsl~~~N~lIS~D~~G~As~~lE~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 239 (443)
+|+||+|++.+|+++|+|+|||||||+|+++|++||+|||||++++||+.++... ..
T Consensus 218 ~m~vLrf~~~dGkpig~L~~fA~H~Tsl~~~N~lISgD~~G~Aa~~lEk~~~~~~--------------------~~--- 274 (715)
T PTZ00487 218 NMTVLRIEDMNGNPFAAISFFAVHCTSMNNTNHLISGDNKGYASYLWEKYKNGND--------------------SF--- 274 (715)
T ss_pred ceEEEEEEcCCCCEEEEEEEEeecccccCCCCceecCchHHHHHHHHHHHhccCc--------------------cC---
Confidence 9999999999999999999999999999999999999999999999999853200 00
Q ss_pred ccchhHHHHHhhhcCCCCCCchhhhhhhhhhhcccccccCCCCeEEEeecCCCCCCCCCCCCccccCCCCCCCCCCCccC
Q 013433 240 RNNHHELLELAASFQSPPGKAATKILSVARRVRGILREAEKPGFVSAFCQSNCGDVSPNVLGAFCIDSGLPCDFNHSTCG 319 (443)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~FVaafaqsn~GDvSPN~~g~~c~d~g~~c~~~~s~c~ 319 (443)
++.++|||||+|+|+||||||++||||+| |+|||+++|||+
T Consensus 275 --------------------------------------pg~~~FVAaF~qg~~GDvsPn~~g~~c~~-g~~c~~~~stc~ 315 (715)
T PTZ00487 275 --------------------------------------PGVGPFIAAFGQSNEGDVSPNTRGPTCRD-GIPCDYKTSTCN 315 (715)
T ss_pred --------------------------------------CCCCceeEEEccCCcccCCCCCCCCcccc-CCcccccccccC
Confidence 22356999999999999999999999999 999999999999
Q ss_pred CCCcccccCCCCCC-CCchhHHHHHHHHHHHHHHHHhhcCcccccceeeEEEeeecceeEEecCCCCCCCCcccCCcccc
Q 013433 320 GKNEMCYGRGPGYP-DEFESTRIIGERQFRKAVDLFNKASEKLEGKIDYRHSYLDFSQLEVTIPKQNGGSETVKTCPAAM 398 (443)
Q Consensus 320 g~~~~c~~~GP~~~-d~~~s~~iig~rq~~~a~~l~~~~~~~l~g~v~~~~~~vdm~~~~v~~~~~~~~~~~~~tc~~a~ 398 (443)
|++|.|+|+||++. ||||||+|||+|||++|++||++++++|+|+|+++|+||||++++|. +.+++++..++||||||
T Consensus 316 g~~~~c~~~GP~~~~d~~~~t~~iG~rq~~~A~~l~~~~~~~l~G~v~~~h~~~dm~~~~v~-~~~~~~~~~~~tC~aa~ 394 (715)
T PTZ00487 316 GTTEECWGLGPGKDGDMFESTQIIGGNQFNKALELFNNASIQVSGPIQYRHTWLNFTNVSVE-PPYNSGVQVATTCRGAM 394 (715)
T ss_pred CcccceeccCCCCccchhhHHHHHHHHHHHHHHHHHhcCCcccccccceEEEEEeccccEec-cccCCCCCcceeccccc
Confidence 99999999999986 79999999999999999999999999999999999999999999997 66777888999999999
Q ss_pred CccccccCCCCCCCCCCcCCCCCccCCchhhhhhcee
Q 013433 399 GFAFAAGTTDGPGAFDFTQGDDKVTYNCFIHGFRIVL 435 (443)
Q Consensus 399 G~sfaaGt~DGpg~~~f~qg~~~~~~~~~~~~~~~~~ 435 (443)
|||||||||||||.|+|+||++....||||+.+|+++
T Consensus 395 G~sfaAGt~DGpg~f~f~qg~~~~~~~p~w~~~~~~~ 431 (715)
T PTZ00487 395 GYSFAAGTTDGPGAFNFKQGDNSTKGNPFWNFIGSFI 431 (715)
T ss_pred CcccccccCCCCCCccccCCCCCcCCCcHHHHHhhhc
Confidence 9999999999999999999997555699999999864
No 4
>COG3356 Predicted membrane protein [Function unknown]
Probab=97.68 E-value=0.00036 Score=75.39 Aligned_cols=117 Identities=20% Similarity=0.250 Sum_probs=91.5
Q ss_pred CCcccCCC---CccceeecceEEEEEEEEcCCCCEEEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCC
Q 013433 1 MMGYANME---QIASGIHFRLRARTFIVAEPQGNRVVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHA 77 (443)
Q Consensus 1 m~GYa~~~---q~a~GIhdrL~ARAfVl~d~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHS 77 (443)
++||+..+ +...|+ -+..+||++++.+ ++|.++|.+|.=-+..+++++|++++.+. .+++.+..|-||.
T Consensus 413 rvG~ar~~~~~~~~~Gl-g~~Gi~a~v~d~g-~~Rta~Vl~DsNNi~~~L~~~v~~~v~~l------v~~veV~TTDtH~ 484 (578)
T COG3356 413 RVGYARGKPLVDAEDGL-GPGGIRAAVVDTG-DTRTAYVLFDSNNITTELREEVRKAVRDL------VSEVEVVTTDTHY 484 (578)
T ss_pred cceeeccCCCCCCCCCc-CcCceEEEEEecC-CeEEEEEEEeCCCCcHHHHHHHHHHHHhh------hcEEEEEecCCce
Confidence 47888732 444554 5789999999997 99999999999999999999888888774 4699999999998
Q ss_pred CCC-CCccchhhhccccccchhHHHHHHHHHHHHHHHHHhcCCceEEEEEEEEec
Q 013433 78 GPG-GYLQYVVYIVTSLGFVRQSFDALVDGIEKSVLQAHENLRPGSIFVNKGELL 131 (443)
Q Consensus 78 gPg-g~~~~~l~~i~~~Gf~~~y~~~lvdgIveAI~~A~~nl~Pa~L~~g~g~~~ 131 (443)
--+ .... ....|.. +-..+|.+.++.++++|.++++|+++...+.+++
T Consensus 485 vn~~~~~~-----~~pvg~r-~d~~~I~~~v~~~v~~A~~dle~ve~g~~~v~v~ 533 (578)
T COG3356 485 VNGRLVLG-----YNPVGSR-EDLGEIADEVAKAVEEAEKDLEPVEVGVRTVKVK 533 (578)
T ss_pred eccccccc-----ccccccc-ccHHHHHHHHHHHHHHHHhccccceeEEEEEEEE
Confidence 654 2222 1123333 3456899999999999999999999988887773
No 5
>PF09843 DUF2070: Predicted membrane protein (DUF2070); InterPro: IPR019204 This domain of unknown function is found in various bacterial and archael hypothetical proteins, as well as in prokaryotic polyketide synthase.
Probab=97.43 E-value=0.0014 Score=61.52 Aligned_cols=115 Identities=20% Similarity=0.147 Sum_probs=85.0
Q ss_pred CcccCCCCccceeec---ceEEEEEEEEcCCCCEEEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCC
Q 013433 2 MGYANMEQIASGIHF---RLRARTFIVAEPQGNRVVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAG 78 (443)
Q Consensus 2 ~GYa~~~q~a~GIhd---rL~ARAfVl~d~~~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSg 78 (443)
.||+... +.-+-|. +.-.++++++.+ ++|.++|.+|---+.+.++++|++.+.+. .+.+.|..|.||+-
T Consensus 43 ~G~~~~~-~~~~~~~~lg~~gi~~~~v~~~-g~~~~lv~~DsNNm~~~lr~~i~~~~~~~------~d~~ev~TTDtH~~ 114 (179)
T PF09843_consen 43 VGYAEAE-PFLGEHEGLGIGGISALVVEVG-GQRSALVLADSNNMEPGLREKIREALGDV------VDEVEVMTTDTHFV 114 (179)
T ss_pred cceEecc-CCCCCCCCcCccccEEEEEEeC-CcEEEEEEEECCCCCHHHHHHHHHHHhhh------cceeEEecCcccEE
Confidence 4665532 2234443 456899999985 89999999999999999999888888774 36799999999996
Q ss_pred CCCCc--cchhhhccccccchhHHHHHHHHHHHHHHHHHhcCCceEEEEEEEEe
Q 013433 79 PGGYL--QYVVYIVTSLGFVRQSFDALVDGIEKSVLQAHENLRPGSIFVNKGEL 130 (443)
Q Consensus 79 Pgg~~--~~~l~~i~~~Gf~~~y~~~lvdgIveAI~~A~~nl~Pa~L~~g~g~~ 130 (443)
-+-.. .|+.++. -. -.+.+.+.+.+++++|.++++|+++.+.+..+
T Consensus 115 ~~~~~g~~y~~vG~---~~---~~~~i~~~~~~~~~~A~~~l~~v~~~~~~~~~ 162 (179)
T PF09843_consen 115 NGESGGNGYWPVGP---LI---PPREIIESRREAVSEAERDLEPVEVGYKEVYV 162 (179)
T ss_pred ccEECCccceeccc---cC---CHHHHHHHHHHHHHHHHhcccccEEEEEEEEE
Confidence 54211 1222211 01 34578888999999999999999999988885
No 6
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=61.85 E-value=17 Score=30.16 Aligned_cols=45 Identities=18% Similarity=0.273 Sum_probs=29.6
Q ss_pred CCEEEEEEeccC-ccc----HHHHHHHHHHHHHHhCCCCCCCcEEEEeeccC
Q 013433 30 GNRVVFVNLDAC-MAS----QIVKIKVIERLKARYGDLYTEKNVAISGIHTH 76 (443)
Q Consensus 30 ~~rvv~Vs~Dl~-~i~----~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTH 76 (443)
...+++|.+.+. +=+ +.+...+.++|+++.| |++++|+|+-+-++
T Consensus 26 s~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~~~g--i~p~Dv~I~l~e~~ 75 (82)
T PF14552_consen 26 SDDFVIIQITSGAGRSTEQKKALYRALAERLAEKLG--IRPEDVMIVLVENP 75 (82)
T ss_dssp -TT-EEEEEEECS---HHHHHHHHHHHHHHHHHHH-----GGGEEEEEEEE-
T ss_pred CCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHcC--CCHHHEEEEEEECC
Confidence 467888888887 333 3456677888888899 99999999988775
No 7
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 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 [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=59.33 E-value=22 Score=29.59 Aligned_cols=35 Identities=23% Similarity=0.317 Sum_probs=30.4
Q ss_pred cHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCC
Q 013433 44 SQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPG 80 (443)
Q Consensus 44 ~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPg 80 (443)
+.--+.+|+++|++.++ .++++|+|-.-+||-|-+
T Consensus 11 ~Tpsr~ei~~klA~~~~--~~~~~ivv~~~~t~fG~~ 45 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLN--VDPDLIVVFGIKTEFGGG 45 (84)
T ss_dssp SS--HHHHHHHHHHHHT--STGCCEEEEEEEESSSSS
T ss_pred CCCCHHHHHHHHHHHhC--CCCCeEEEeccEecCCCc
Confidence 34458899999999999 899999999999999886
No 8
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=55.38 E-value=34 Score=29.44 Aligned_cols=50 Identities=12% Similarity=0.096 Sum_probs=37.4
Q ss_pred EEEEcCCCCEEEEEEeccCc-ccH----HHHHHHHHHHHHHhCCCCCCCcEEEEeecc
Q 013433 23 FIVAEPQGNRVVFVNLDACM-ASQ----IVKIKVIERLKARYGDLYTEKNVAISGIHT 75 (443)
Q Consensus 23 fVl~d~~~~rvv~Vs~Dl~~-i~~----~v~~~V~~~L~~~~G~~i~~~nVlIsATHT 75 (443)
+++. +....+++|.+.+++ ... .+..+|-+.|++.+| +++++|+|.-+=.
T Consensus 49 m~f~-g~~~p~a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lg--i~~~rv~I~f~~~ 103 (116)
T PTZ00397 49 MRFG-GSHDGCCFVRVTSIGGISRSNNSSIAAAITKILASHLK--VKSERVYIEFKDC 103 (116)
T ss_pred EEEC-CCCCceEEEEEEEecCCCHHHHHHHHHHHHHHHHHHhC--cCcccEEEEEEEC
Confidence 3443 346799999999665 443 466778888888999 9999999987543
No 9
>PF09580 Spore_YhcN_YlaJ: Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); InterPro: IPR019076 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain.
Probab=35.56 E-value=87 Score=28.77 Aligned_cols=45 Identities=22% Similarity=0.275 Sum_probs=30.4
Q ss_pred EEEEEEEEcCCCCEEEEEEeccC---cccHHHHHHHHHHHHHHhCCCCCC-CcEEEEe
Q 013433 19 RARTFIVAEPQGNRVVFVNLDAC---MASQIVKIKVIERLKARYGDLYTE-KNVAISG 72 (443)
Q Consensus 19 ~ARAfVl~d~~~~rvv~Vs~Dl~---~i~~~v~~~V~~~L~~~~G~~i~~-~nVlIsA 72 (443)
.|+++|.++ -+||.+++- .....+..+|+++|++.+ +. .+|.||+
T Consensus 92 ~A~vvv~~~-----~a~Vav~~~~~~~~~~~i~~~V~~~v~~~~----p~~~~V~Vs~ 140 (177)
T PF09580_consen 92 DATVVVTDD-----NAYVAVDLDFNRFNTKKIKKKVEKAVKSAD----PRIYNVYVST 140 (177)
T ss_pred EEEEEEECC-----EEEEEEEecccccchhHHHHHHHHHHHHhC----CCccEEEEEc
Confidence 477777754 377777776 555566777777776654 34 7999985
No 10
>TIGR03196 pucD xanthine dehydrogenase D subunit. This gene has been characterized in B. subtilis as the molybdopterin binding-subunit of xanthine dehydrogenase (pucD), acting in conjunction with pucC, the FAD-binding subunit and pucE, the FeS-binding subunit. The more common XDH complex (GenProp0640) includes the xdhB gene which is related to pucD. It appears that most of the relatives of pucD outside of this narrow clade are involved in other processes as they are found in unrelated genomic contexts, contain the more common XDH complex and/or do not appear to process purines to allantoin.
Probab=31.18 E-value=2.6e+02 Score=32.30 Aligned_cols=98 Identities=12% Similarity=0.099 Sum_probs=59.6
Q ss_pred CCEEEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCCCCccchhhhcc-ccccchhHHHHHHHHHH
Q 013433 30 GNRVVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPGGYLQYVVYIVT-SLGFVRQSFDALVDGIE 108 (443)
Q Consensus 30 ~~rvv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPgg~~~~~l~~i~-~~Gf~~~y~~~lvdgIv 108 (443)
++-.+-|.+-..-+.|.....+.+.+++.+| ++.++|-|...-|...|.+...+---... .......--+.|.+++.
T Consensus 476 Gsv~v~v~~g~~d~GQG~~T~~aQiaAe~LG--ip~e~V~v~~~DT~~~p~~~gt~~Sr~t~~~G~Av~~Aa~~l~~kl~ 553 (768)
T TIGR03196 476 GTVKIRAHFACAECGQGFLAAAEQIAMEELG--CAAEDISIAIADTAKGPKAGSSSASRGTSMSGGAIQGACAAFAAQLK 553 (768)
T ss_pred CCeEEEEEECCCCcCCCHHHHHHHHHHHHhC--CCHHHEEEecCCCCCCCCCCCCchhhhhHhHHHHHHHHHHHHHHHHH
Confidence 5434556666677778888888899999999 99999999999998888532211000000 11234455566677765
Q ss_pred HHHHHHHhcCCceEEEEEEEEe
Q 013433 109 KSVLQAHENLRPGSIFVNKGEL 130 (443)
Q Consensus 109 eAI~~A~~nl~Pa~L~~g~g~~ 130 (443)
+...+.+ ...|..|.+..+.+
T Consensus 554 ~~aa~~l-~~~~~~~~~~~g~~ 574 (768)
T TIGR03196 554 ARAAETA-GLPAEVVEAPAENL 574 (768)
T ss_pred HHHHHHh-CCChhhEEEeCCee
Confidence 5443322 33444455544433
No 11
>cd06808 PLPDE_III Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes. The fold type III PLP-dependent enzyme family is predominantly composed of two-domain proteins with similarity to bacterial alanine racemases (AR) including eukaryotic ornithine decarboxylases (ODC), prokaryotic diaminopimelate decarboxylases (DapDC), biosynthetic arginine decarboxylases (ADC), carboxynorspermidine decarboxylases (CANSDC), and similar proteins. AR-like proteins contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. These proteins play important roles in the biosynthesis of amino acids and polyamine. The family also includes the single-domain YBL036c-like proteins, which contain a single PLP-binding TIM-barrel domain without any N- or C-terminal extensions. Due to the lack of a second domain, these p
Probab=25.98 E-value=4.3e+02 Score=24.16 Aligned_cols=76 Identities=17% Similarity=0.203 Sum_probs=42.1
Q ss_pred EEEEeccC------cccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCCCCccchhhhccccccchhHHHHHHHHH
Q 013433 34 VFVNLDAC------MASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPGGYLQYVVYIVTSLGFVRQSFDALVDGI 107 (443)
Q Consensus 34 v~Vs~Dl~------~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPgg~~~~~l~~i~~~Gf~~~y~~~lvdgI 107 (443)
++|-+|.. ++..+-..++.+++++ . +++-|.+-|||.+.... +.+++....+.+
T Consensus 109 v~lrv~~g~~~~R~G~~~~e~~~~~~~i~~-----~--~~l~l~Gl~~H~~~~~~-------------~~~~~~~~~~~~ 168 (211)
T cd06808 109 VLLRIDTGDENGKFGVRPEELKALLERAKE-----L--PHLRLVGLHTHFGSADE-------------DYSPFVEALSRF 168 (211)
T ss_pred EEEEEcCCCCCCCCCCCHHHHHHHHHHHHh-----C--CCCcEEEEEEecCCCCC-------------CHHHHHHHHHHH
Confidence 56777776 5555444455555543 2 37899999999987631 123344444555
Q ss_pred HHHHHHHHh-cCCceEEEEEEEE
Q 013433 108 EKSVLQAHE-NLRPGSIFVNKGE 129 (443)
Q Consensus 108 veAI~~A~~-nl~Pa~L~~g~g~ 129 (443)
.+.+.+..+ ....-.|.+|.|-
T Consensus 169 ~~~~~~l~~~~~~~~~i~~Ggg~ 191 (211)
T cd06808 169 VAALDQLGELGIDLEQLSIGGSF 191 (211)
T ss_pred HHHHHHHHhcCCCCCEEEECCCC
Confidence 444444322 2344456666443
No 12
>TIGR03194 4hydrxCoA_A 4-hydroxybenzoyl-CoA reductase, alpha subunit. This model represents the largest chain, alpha, of the enzyme 4-hydroxybenzoyl-CoA reductase. In species capable of degrading various aromatic compounds by way of benzoyl-CoA, this enzyme can convert 4-hydroxybenzoyl-CoA to benzoyl-CoA.
Probab=25.12 E-value=2.6e+02 Score=32.23 Aligned_cols=95 Identities=8% Similarity=-0.030 Sum_probs=62.3
Q ss_pred EEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCCCCccchhhh-ccccccchhHHHHHHHHHHHHH
Q 013433 33 VVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPGGYLQYVVYI-VTSLGFVRQSFDALVDGIEKSV 111 (443)
Q Consensus 33 vv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPgg~~~~~l~~-i~~~Gf~~~y~~~lvdgIveAI 111 (443)
-+.|.+-..-+.|.....+.+.+++.+| ++.++|-|...=|...|.++..+---. .........--+.|.+++.+..
T Consensus 456 ~v~v~~g~~e~GqG~~T~~~qiaAe~LG--ip~d~V~v~~~DT~~~p~~~gt~~Sr~t~~~G~Av~~Aa~~l~~~l~~~a 533 (746)
T TIGR03194 456 GITLLTGAADIGQGSSTIASQVAAEVLG--VRLSRIRVISADSALTPKDNGSYSSRVTFMVGNAAIDAAEELKGVLVAAA 533 (746)
T ss_pred cEEEEEcCCCCCCCHHHHHHHHHHHHhC--CCHHhEEEEccCCCCCCCCCCChhHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777888888888999999999 999999999999999886443211000 0011234445566667766655
Q ss_pred HHHHhcCCceEEEEEEEEe
Q 013433 112 LQAHENLRPGSIFVNKGEL 130 (443)
Q Consensus 112 ~~A~~nl~Pa~L~~g~g~~ 130 (443)
.+.+ +..|-.|.+..|.+
T Consensus 534 a~~l-~~~~~~l~~~~g~v 551 (746)
T TIGR03194 534 AKKL-DAREEDIECAGEMF 551 (746)
T ss_pred HHHh-CCCHHHEEEECCEE
Confidence 4433 44555677776666
No 13
>PRK00111 hypothetical protein; Provisional
Probab=25.10 E-value=1.4e+02 Score=28.53 Aligned_cols=54 Identities=9% Similarity=0.229 Sum_probs=41.4
Q ss_pred EEEEEEEEcCCCCEEEEEEeccCcccHHH---HHHHHHHHHHHhCCCCCCCcEEEEeeccCC
Q 013433 19 RARTFIVAEPQGNRVVFVNLDACMASQIV---KIKVIERLKARYGDLYTEKNVAISGIHTHA 77 (443)
Q Consensus 19 ~ARAfVl~d~~~~rvv~Vs~Dl~~i~~~v---~~~V~~~L~~~~G~~i~~~nVlIsATHTHS 77 (443)
+++.+-|.++ +++|.+|...+-+++ ..+|+++|.+.+|. -....|.|.+-+++|
T Consensus 106 hT~p~~ikdg----vL~V~~sSsAWAtEL~~~r~~Il~rLNe~LG~-~vV~dIri~GP~~ps 162 (180)
T PRK00111 106 HTKVEMIKDK----KLFITCDSTAWATNLRMMQRQILQVIAEKVGP-DIITELRIFGPQAPS 162 (180)
T ss_pred hcCceEEECC----EEEEEeCCHHHHHHHHhHHHHHHHHHHHHcCc-CceeEEEEECCCCCC
Confidence 3455666664 999999998888876 55788999999983 246789898777776
No 14
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=24.38 E-value=1.5e+02 Score=25.56 Aligned_cols=45 Identities=18% Similarity=0.153 Sum_probs=35.0
Q ss_pred EEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCC
Q 013433 34 VFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPG 80 (443)
Q Consensus 34 v~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPg 80 (443)
+.+.+---+-..--+.+|+++|++.++ -+++.|+|-.-.|+-|-+
T Consensus 19 ~~~~v~h~g~~tpsr~eirekLa~~~~--~~~~~vvv~~~~t~fG~g 63 (99)
T PRK01178 19 IKFEVYHEGSATPSRKDVRKKLAAMLN--ADKELVVVRKIKTEYGMG 63 (99)
T ss_pred EEEEEEeCCCCCCCHHHHHHHHHHHHC--cCCCEEEEEccCccCCCc
Confidence 334444444333448899999999999 899999999999999886
No 15
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=23.86 E-value=2e+02 Score=25.14 Aligned_cols=44 Identities=7% Similarity=0.173 Sum_probs=35.8
Q ss_pred CCCEEEEEEeccCcc-cH----HHHHHHHHHHHHHhCCCCCCCcEEEEeec
Q 013433 29 QGNRVVFVNLDACMA-SQ----IVKIKVIERLKARYGDLYTEKNVAISGIH 74 (443)
Q Consensus 29 ~~~rvv~Vs~Dl~~i-~~----~v~~~V~~~L~~~~G~~i~~~nVlIsATH 74 (443)
+....+||.+-.++. .. .+...+-+.|++++| |+.++|.|.-.=
T Consensus 54 s~~P~A~~~l~siG~~~~~~n~~~s~~i~~~l~~~Lg--Ip~dRiYI~f~d 102 (113)
T PTZ00450 54 STAPAAYVRVEAWGEYAPSKPKMMTPRITAAITKECG--IPAERIYVFYYS 102 (113)
T ss_pred CCCCEEEEEEEEecCcCHHHHHHHHHHHHHHHHHHcC--CCcccEEEEEEc
Confidence 466999999988874 33 466778888899999 999999998874
No 16
>COG3657 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.30 E-value=44 Score=28.87 Aligned_cols=26 Identities=42% Similarity=0.705 Sum_probs=20.5
Q ss_pred ecCCCCCCCCCCCCccccCCCCCCCCCCCccCCCCcccccCCCCC
Q 013433 288 CQSNCGDVSPNVLGAFCIDSGLPCDFNHSTCGGKNEMCYGRGPGY 332 (443)
Q Consensus 288 aqsn~GDvSPN~~g~~c~d~g~~c~~~~s~c~g~~~~c~~~GP~~ 332 (443)
+++|.||+.|=-.| -.|+.+-.||||
T Consensus 36 ~~GN~GD~kpvgeG-------------------V~ELRId~GpGy 61 (100)
T COG3657 36 ALGNFGDVKPVGEG-------------------VSELRIDHGPGY 61 (100)
T ss_pred hcCCCcCccccccc-------------------hhhheeccCCce
Confidence 78899999986443 457788899997
No 17
>PF14908 DUF4496: Domain of unknown function (DUF4496)
Probab=22.72 E-value=2.2e+02 Score=25.30 Aligned_cols=38 Identities=24% Similarity=0.211 Sum_probs=35.5
Q ss_pred cccchhHHHHHHHHHHHHHHHHHhcCCceEEEEEEEEe
Q 013433 93 LGFVRQSFDALVDGIEKSVLQAHENLRPGSIFVNKGEL 130 (443)
Q Consensus 93 ~Gf~~~y~~~lvdgIveAI~~A~~nl~Pa~L~~g~g~~ 130 (443)
.+++++..+..++.++.+|.++..+-++++|.++-|.+
T Consensus 92 ~~~~kd~v~~~l~~~~~~l~~~l~~~~~v~i~fgvG~L 129 (140)
T PF14908_consen 92 CGFSKDVVEACLREIFQALGDALRNGQNVEIDFGVGVL 129 (140)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEEeEEEE
Confidence 46899999999999999999999999999999999988
No 18
>COG0409 HypD Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=21.26 E-value=81 Score=33.01 Aligned_cols=32 Identities=28% Similarity=0.333 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhCCCCCCCcEE-EEeeccCCCC
Q 013433 47 VKIKVIERLKARYGDLYTEKNVA-ISGIHTHAGP 79 (443)
Q Consensus 47 v~~~V~~~L~~~~G~~i~~~nVl-IsATHTHSgP 79 (443)
...+++++|++.. .+..+=+|| |++||||+--
T Consensus 12 ~~~~l~~~I~k~~-~~~~~~~IM~vCG~HthtI~ 44 (364)
T COG0409 12 RILKLVERIKKLS-KLERPLRIMEVCGGHTHTIM 44 (364)
T ss_pred HHHHHHHHHHHHH-hccCceEEEEecCCchHHHH
Confidence 3667777777644 223444665 8999999854
No 19
>PF15601 Imm42: Immunity protein 42
Probab=21.04 E-value=2.8e+02 Score=25.36 Aligned_cols=57 Identities=18% Similarity=0.122 Sum_probs=36.1
Q ss_pred CCCCcEEEEeeccCCCCCCCccchhhhccccccchhHH-----HHHHHHHHHHHHHHHhcCCceEE
Q 013433 63 YTEKNVAISGIHTHAGPGGYLQYVVYIVTSLGFVRQSF-----DALVDGIEKSVLQAHENLRPGSI 123 (443)
Q Consensus 63 i~~~nVlIsATHTHSgPgg~~~~~l~~i~~~Gf~~~y~-----~~lvdgIveAI~~A~~nl~Pa~L 123 (443)
++++.|+.-.-.-.--|. |...+-.+++++ .+|| +.+.+.+.+|+..|.+...++.|
T Consensus 72 ~~p~~ViWD~~dl~~~pp-Wg~~i~~~i~~L---~~yFvt~dG~~~f~~l~~a~~~a~~~~~~v~I 133 (134)
T PF15601_consen 72 FPPSEVIWDIEDLSKQPP-WGDNISPDITSL---SDYFVTSDGKDLFEVLFRALESAIEEKVDVVI 133 (134)
T ss_pred CChhhheechhhcccCCC-CcccCCCCCCcH---HHHhcCcchhhHHHHHHHHHHHHHhcCCCeee
Confidence 788888866555544443 323333444443 3566 67777788888888777666654
No 20
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=20.70 E-value=1.4e+02 Score=26.82 Aligned_cols=34 Identities=32% Similarity=0.486 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCC
Q 013433 45 QIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPG 80 (443)
Q Consensus 45 ~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPg 80 (443)
.--..+++++|++.|- .++++|++-+--||-|-+
T Consensus 34 ~vsK~EirEKla~mYk--t~~d~V~vfgfrt~~Ggg 67 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYK--TTPDAVFVFGFRTHFGGG 67 (132)
T ss_pred CCCHHHHHHHHHHHhc--CCcceEEEEEeeeccCCc
Confidence 3347899999999999 899999999999999987
No 21
>PRK09970 xanthine dehydrogenase subunit XdhA; Provisional
Probab=20.16 E-value=4.3e+02 Score=30.43 Aligned_cols=95 Identities=14% Similarity=0.027 Sum_probs=59.5
Q ss_pred EEEEEeccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEee-ccCCCCCCCccchhhh-ccccccchhHHHHHHHHHHHH
Q 013433 33 VVFVNLDACMASQIVKIKVIERLKARYGDLYTEKNVAISGI-HTHAGPGGYLQYVVYI-VTSLGFVRQSFDALVDGIEKS 110 (443)
Q Consensus 33 vv~Vs~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsAT-HTHSgPgg~~~~~l~~-i~~~Gf~~~y~~~lvdgIveA 110 (443)
-+.|.+-..-+.|.....+.+.+++.+| ++.+.|-+... -|...|.+...+---. .........--+.+.+++.+.
T Consensus 472 sv~v~~g~~e~GQG~~T~~aQiaAe~LG--i~~~~V~v~~~~dT~~~p~~~gt~aSr~t~~~g~Av~~Aa~~lr~~l~~~ 549 (759)
T PRK09970 472 TVQVQSGATEIGQGSDTVFSQMVAETVG--IPVSDVRVISTQDTDVTPFDPGAYASRQSYVAGPAIRKAALELKEKILAH 549 (759)
T ss_pred eEEEEECCCCcCCCHHHHHHHHHHHHhC--CCHHhEEEEccCCCCCCCCCCCCchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666667777888889999999999999 99999999866 8877774322100000 001112334445566666665
Q ss_pred HHHHHhcCCceEEEEEEEEe
Q 013433 111 VLQAHENLRPGSIFVNKGEL 130 (443)
Q Consensus 111 I~~A~~nl~Pa~L~~g~g~~ 130 (443)
..+. -+..|-.+.+..|.+
T Consensus 550 aa~~-l~~~~~~l~~~~G~v 568 (759)
T PRK09970 550 AAVM-LHQSAMNLDIIDGHI 568 (759)
T ss_pred HHHH-hCCChHHEEEECCEE
Confidence 4332 344566677766666
No 22
>PF01924 HypD: Hydrogenase formation hypA family; InterPro: IPR002780 HypD is involved in the hyp operon which is needed for the activity of the three hydrogenase isoenzymes in Escherichia coli. HypD is one of the genes needed for formation of these enzymes []. This protein has been found in Gram-negative and Gram-positive bacteria and Archaea. HypD contains many possible metal binding residues, which may bind to nickel. Transposon insertions into HypD resulted in Rhizobium leguminosarum mutants that lacked any hydrogenase activity in symbiosis with peas [].; GO: 0046872 metal ion binding; PDB: 2Z1D_A.
Probab=20.12 E-value=53 Score=34.52 Aligned_cols=35 Identities=23% Similarity=0.231 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCcEE-EEeeccCCCC
Q 013433 45 QIVKIKVIERLKARYGDLYTEKNVA-ISGIHTHAGP 79 (443)
Q Consensus 45 ~~v~~~V~~~L~~~~G~~i~~~nVl-IsATHTHSgP 79 (443)
+++.+.+.++|.+....+=.+=+|| ||+||||+--
T Consensus 2 ~~~~~~l~~~I~~~~~~~~~~i~iMeVCGtHt~aI~ 37 (355)
T PF01924_consen 2 PELAKKLLKEIKKLAKKLGRPIRIMEVCGTHTHAIF 37 (355)
T ss_dssp HHHHHHHHHHHHHHHTT-SS-EEEEE--HHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhccCCCeEEEEeCCcchHHHH
Confidence 5667777777777644111233554 8999999843
No 23
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=20.11 E-value=7.3e+02 Score=25.74 Aligned_cols=72 Identities=15% Similarity=0.234 Sum_probs=43.8
Q ss_pred EEEEE-eccCcccHHHHHHHHHHHHHHhCCCCCCCcEEEEeeccCCCCC-CCccchhhhccccccchhHHHHHHHHHHHH
Q 013433 33 VVFVN-LDACMASQIVKIKVIERLKARYGDLYTEKNVAISGIHTHAGPG-GYLQYVVYIVTSLGFVRQSFDALVDGIEKS 110 (443)
Q Consensus 33 vv~Vs-~Dl~~i~~~v~~~V~~~L~~~~G~~i~~~nVlIsATHTHSgPg-g~~~~~l~~i~~~Gf~~~y~~~lvdgIveA 110 (443)
++||. +|..-+.. .-..+.+.|.+.||..+ ..+++|--||.=+.|. +- -.++|+..--+.+-+.
T Consensus 122 VLyV~rLD~~R~~~-~DkqlLk~Iqe~FG~~i-w~~~IVVfTh~d~~~pd~~------------~~e~fv~~~~~~lq~~ 187 (313)
T TIGR00991 122 LLYVDRLDAYRVDT-LDGQVIRAITDSFGKDI-WRKSLVVLTHAQFSPPDGL------------EYNDFFSKRSEALLRV 187 (313)
T ss_pred EEEEeccCcccCCH-HHHHHHHHHHHHhhhhh-hccEEEEEECCccCCCCCC------------CHHHHHHhcHHHHHHH
Confidence 44442 56554443 33457777888888544 3689999999988763 31 1245555555566667
Q ss_pred HHHHHhcC
Q 013433 111 VLQAHENL 118 (443)
Q Consensus 111 I~~A~~nl 118 (443)
|++|...+
T Consensus 188 i~~~~~~~ 195 (313)
T TIGR00991 188 IHSGAGLK 195 (313)
T ss_pred HHHHhccc
Confidence 77765543
Done!