Query psy7216
Match_columns 102
No_of_seqs 175 out of 1161
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 21:05:33 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7216.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7216hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00092 aconitate hydratase-l 99.9 8.5E-26 1.8E-30 188.9 10.9 101 2-102 795-896 (898)
2 PLN00070 aconitate hydratase 99.9 1.3E-25 2.9E-30 188.2 10.9 101 2-102 831-934 (936)
3 PRK12881 acnA aconitate hydrat 99.9 3.3E-25 7.3E-30 185.4 11.0 101 2-102 783-888 (889)
4 PRK09277 aconitate hydratase; 99.9 2.7E-25 5.9E-30 185.7 10.3 101 1-102 781-886 (888)
5 COG1048 AcnA Aconitase A [Ener 99.9 4.5E-25 9.7E-30 182.9 10.8 101 2-102 756-860 (861)
6 TIGR01341 aconitase_1 aconitat 99.9 5E-25 1.1E-29 184.0 11.0 101 2-102 772-876 (876)
7 TIGR01342 acon_putative aconit 99.9 4.6E-25 1E-29 181.0 9.0 98 1-101 552-652 (658)
8 PRK00439 leuD 3-isopropylmalat 99.9 8.1E-25 1.8E-29 153.7 7.9 89 1-101 71-159 (163)
9 TIGR02084 leud 3-isopropylmala 99.9 1.1E-24 2.4E-29 152.1 6.7 87 1-99 70-156 (156)
10 KOG0452|consensus 99.9 1.8E-25 3.9E-30 180.0 1.6 101 2-102 791-892 (892)
11 PRK07229 aconitate hydratase; 99.9 5.9E-24 1.3E-28 174.4 8.9 97 1-101 546-644 (646)
12 TIGR02087 LEUD_arch 3-isopropy 99.9 6.7E-24 1.5E-28 147.9 7.7 85 1-100 70-154 (154)
13 TIGR02333 2met_isocit_dHY 2-me 99.9 1.6E-23 3.4E-28 174.6 10.6 99 2-102 755-857 (858)
14 PRK14023 homoaconitate hydrata 99.9 1.6E-23 3.5E-28 147.5 6.7 86 1-100 72-157 (166)
15 PLN00072 3-isopropylmalate iso 99.9 3.1E-23 6.8E-28 153.1 7.1 88 1-100 152-240 (246)
16 TIGR01340 aconitase_mito aconi 99.9 2.5E-22 5.3E-27 166.6 7.6 94 2-97 646-745 (745)
17 PRK11413 putative hydratase; P 99.8 7.6E-21 1.7E-25 157.6 8.4 93 2-100 651-751 (751)
18 TIGR00139 h_aconitase homoacon 99.8 1.6E-20 3.5E-25 155.0 7.0 89 1-101 605-712 (712)
19 COG0066 LeuD 3-isopropylmalate 99.8 9.7E-20 2.1E-24 129.9 7.2 90 1-101 85-179 (191)
20 cd01578 AcnA_Mitochon_Swivel M 99.7 2.8E-18 6E-23 118.7 3.5 56 2-60 93-149 (149)
21 PRK14812 hypothetical protein; 99.7 3.1E-17 6.7E-22 110.1 5.3 79 1-91 13-92 (119)
22 TIGR00171 leuD 3-isopropylmala 99.7 3.8E-17 8.2E-22 117.1 6.0 79 1-91 92-174 (188)
23 PRK01641 leuD isopropylmalate 99.7 4.1E-17 8.9E-22 117.9 5.9 79 1-91 90-172 (200)
24 KOG0453|consensus 99.7 4.2E-17 9.1E-22 132.3 5.8 97 2-100 676-775 (778)
25 cd01579 AcnA_Bact_Swivel Bacte 99.7 1.7E-17 3.8E-22 111.6 2.7 51 1-53 71-121 (121)
26 PRK09238 bifunctional aconitat 99.7 1.9E-16 4.2E-21 132.3 9.3 81 6-101 260-341 (835)
27 cd01580 AcnA_IRP_Swivel Aconit 99.7 3.5E-17 7.6E-22 115.1 3.8 51 2-52 120-170 (171)
28 cd00404 Aconitase_swivel Aconi 99.7 5E-17 1.1E-21 104.0 3.1 50 1-52 38-87 (88)
29 TIGR00117 acnB aconitate hydra 99.6 2.6E-15 5.6E-20 125.5 8.6 84 2-101 258-342 (844)
30 PLN00094 aconitate hydratase 2 99.6 6.1E-15 1.3E-19 123.7 7.5 85 2-101 329-414 (938)
31 cd01577 IPMI_Swivel Aconatase- 99.6 1.3E-15 2.8E-20 98.0 2.6 52 1-53 40-91 (91)
32 PF00694 Aconitase_C: Aconitas 99.5 3.2E-15 6.9E-20 101.8 1.6 34 1-34 97-130 (131)
33 cd01674 Homoaconitase_Swivel H 99.4 4E-14 8.6E-19 95.9 1.3 34 1-34 68-101 (129)
34 cd01576 AcnB_Swivel Aconitase 99.2 9.7E-12 2.1E-16 84.7 3.7 44 3-52 87-130 (131)
35 KOG0454|consensus 98.4 8.9E-08 1.9E-12 76.0 1.7 90 2-99 370-460 (502)
36 PF06434 Aconitase_2_N: Aconit 97.2 0.0016 3.4E-08 47.3 6.3 80 7-100 94-173 (204)
37 COG1049 AcnB Aconitase B [Ener 80.0 1.7 3.7E-05 37.0 2.8 77 9-98 264-340 (852)
38 cd00562 NifX_NifB This CD repr 34.4 29 0.00062 21.2 1.6 32 3-34 59-90 (102)
39 PF02579 Nitro_FeMo-Co: Dinitr 34.3 27 0.00059 21.0 1.4 31 3-33 51-81 (94)
40 COG4811 Predicted membrane pro 30.0 54 0.0012 22.8 2.4 25 9-33 103-127 (152)
41 PF10937 DUF2638: Protein of u 28.6 44 0.00096 22.1 1.8 20 72-93 93-112 (112)
42 cd00851 MTH1175 This uncharact 26.0 45 0.00097 20.3 1.4 31 4-34 62-92 (103)
43 smart00484 XPGI Xeroderma pigm 25.3 1.6E+02 0.0035 17.7 3.8 40 2-43 1-40 (73)
44 KOG3357|consensus 20.2 60 0.0013 22.5 1.2 25 3-27 110-134 (167)
No 1
>PTZ00092 aconitate hydratase-like protein; Provisional
Probab=99.93 E-value=8.5e-26 Score=188.92 Aligned_cols=101 Identities=64% Similarity=1.071 Sum_probs=92.9
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEec-CCCCCCCceEEEEecCCeEEEEEecCC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRI-PDDAKPHQKLQVEVDDGRKFSVILRFD 80 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl-~~~~~~g~~v~~~~~~g~~~~~~~~~~ 80 (102)
++||++||||+||+|||++||+|+|+|||+|.++++++.+.+++++.++|++ .+.++||+.++++.++|++|++.++++
T Consensus 795 ~~lGvraVIA~SF~rIh~~Nli~~GvlPL~f~~~~~~~~l~~~~~~~i~i~~~~~~l~p~~~v~v~~~~G~~~~~~~r~d 874 (898)
T PTZ00092 795 YLQGVKAVIAESFERIHRSNLVGMGILPLQFLNGENADSLGLTGKEQFSIDLNSGELKPGQDVTVKTDTGKTFDTILRID 874 (898)
T ss_pred HHhCCcEEEEecHHHHHHhhhhhcCcceeecCCcccHHHhcCCCCeEEEEeccccccCCCCeEEEEeCCCcEEEEEEeCC
Confidence 6899999999999999999999999999999999999998887888999986 566889987877667889999999999
Q ss_pred CHHHHHHHHhCChHHHHHHhhC
Q psy7216 81 TEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~~~ 102 (102)
|+.|++|+++||+|||++++++
T Consensus 875 t~~e~~y~~~GGiL~yv~~~~~ 896 (898)
T PTZ00092 875 TEVEVEYFKHGGILQYVLRKLV 896 (898)
T ss_pred CHHHHHHHHcCCHHHHHHHHHh
Confidence 9999999999999999999875
No 2
>PLN00070 aconitate hydratase
Probab=99.93 E-value=1.3e-25 Score=188.19 Aligned_cols=101 Identities=60% Similarity=1.059 Sum_probs=91.5
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCC---CCCCceEEEEecCCeEEEEEec
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDD---AKPHQKLQVEVDDGRKFSVILR 78 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~---~~~g~~v~~~~~~g~~~~~~~~ 78 (102)
++|||+||||+||+|||++||+|+|+|||+|+++++++.++..|++.++|++.+. ++||+.++++.++|++|++.++
T Consensus 831 ~~lGvkaVIA~SF~rIhrsNli~~GiLPL~f~~~~~~~~l~~~g~~~~~i~l~~~~~~l~p~~~~~v~~~~g~~~~~~~r 910 (936)
T PLN00070 831 MLLGVKAVIAKSFERIHRSNLVGMGIIPLCFKSGEDADTLGLTGHERYTIDLPSNISEIKPGQDVTVTTDNGKSFTCTLR 910 (936)
T ss_pred HHhCCcEEEEccHHHHHHhhhhhcCcceEEeCCcccHHHHhcCCCceEEEeccccccccCCCCEEEEEeCCCeEEEEEEe
Confidence 5899999999999999999999999999999999999999887888888887543 7889877776678899999999
Q ss_pred CCCHHHHHHHHhCChHHHHHHhhC
Q psy7216 79 FDTEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 79 ~~~~~e~~ii~aGGll~~~~~~~~ 102 (102)
+||+.|++|+++||+|||++++++
T Consensus 911 ~dt~~E~~~~~~GGiL~~v~r~~~ 934 (936)
T PLN00070 911 FDTEVELAYFDHGGILPYVIRNLI 934 (936)
T ss_pred CCCHHHHHHHHcCCHHHHHHHHHh
Confidence 999999999999999999999875
No 3
>PRK12881 acnA aconitate hydratase; Provisional
Probab=99.92 E-value=3.3e-25 Score=185.37 Aligned_cols=101 Identities=52% Similarity=0.900 Sum_probs=88.3
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEec-CCCCCCCceEEEEe--cCC--eEEEEE
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRI-PDDAKPHQKLQVEV--DDG--RKFSVI 76 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl-~~~~~~g~~v~~~~--~~g--~~~~~~ 76 (102)
+++||+||||+||+||||+|++|+|+|||+|+++.+++.++++++|.++|+. .+.+.||+++++.+ ++| .++++.
T Consensus 783 ~~lGv~aVIA~SFaRIh~~Nli~~GilpL~f~~~~~~~~l~l~g~d~i~I~~~~~~i~p~~~v~v~~~~~~G~~~~~~~~ 862 (889)
T PRK12881 783 RLLGVKAVIAESFERIHRSNLVGMGVLPLQFKGGDSRQSLGLTGGETFDIEGLPGEIKPRQDVTLVIHRADGSTERVPVL 862 (889)
T ss_pred HHhCCcEEEEecHHHHHHhhhhhcCcceEEeCCccchhhcCcCCCCEEEEeCCccccCCCCeEEEEEEeCCCCEEEEEEE
Confidence 6899999999999999999999999999999988899988877899999984 44578888776644 466 467778
Q ss_pred ecCCCHHHHHHHHhCChHHHHHHhhC
Q psy7216 77 LRFDTEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 77 ~~~~~~~e~~ii~aGGll~~~~~~~~ 102 (102)
++++|+.|++|+++||+|||++++++
T Consensus 863 ~r~dt~~e~e~~~aGGiL~yv~~~~~ 888 (889)
T PRK12881 863 CRIDTPIEVDYYKAGGILPYVLRQLL 888 (889)
T ss_pred eccCCHHHHHHHHcCCHHHHHHHHhh
Confidence 88889999999999999999999875
No 4
>PRK09277 aconitate hydratase; Validated
Probab=99.92 E-value=2.7e-25 Score=185.75 Aligned_cols=101 Identities=53% Similarity=0.933 Sum_probs=90.2
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEe-cCCCCCCCceEEEEe--cCC--eEEEE
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIR-IPDDAKPHQKLQVEV--DDG--RKFSV 75 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~id-l~~~~~~g~~v~~~~--~~g--~~~~~ 75 (102)
+++||++||||+||+|||++||+|+|+|||+|+++++++++.++|+|.++|+ +.+ ++||+.+++.+ .+| .+|++
T Consensus 781 ~~~lgi~avia~sf~rI~~~Nli~~Gilpl~~~~~~~~~~lgl~g~e~~~i~~l~~-l~p~~~v~v~~~~~~G~~~~~~~ 859 (888)
T PRK09277 781 TRLLGVKAVIAESFERIHRSNLVGMGVLPLQFKPGESRKTLGLDGTETFDIEGLED-LKPGATVTVVITRADGEVVEFPV 859 (888)
T ss_pred HHHhCCcEEEEecHHHHHHhhHhhcCcceeecCCcccHHHhCCCCCceEEEcCccc-CCCCCEEEEEEEeCCCCEEEEEE
Confidence 3689999999999999999999999999999999999999988899999996 544 88998777654 355 57999
Q ss_pred EecCCCHHHHHHHHhCChHHHHHHhhC
Q psy7216 76 ILRFDTEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 76 ~~~~~~~~e~~ii~aGGll~~~~~~~~ 102 (102)
.+++||+.|++|+++||+|||++++++
T Consensus 860 ~~r~dt~~Ei~y~~~GGiL~yv~r~~~ 886 (888)
T PRK09277 860 LCRIDTAVEVDYYRNGGILQYVLRDLL 886 (888)
T ss_pred EEecCCHHHHHHHHcCCHHHHHHHHHh
Confidence 999999999999999999999999875
No 5
>COG1048 AcnA Aconitase A [Energy production and conversion]
Probab=99.92 E-value=4.5e-25 Score=182.86 Aligned_cols=101 Identities=54% Similarity=0.853 Sum_probs=88.6
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEec--CC--eEEEEEe
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVD--DG--RKFSVIL 77 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~--~g--~~~~~~~ 77 (102)
++|||+||||+||+||||+|++|||+|||+|+++.+++++..+|++.+.++..+.+.|+.++++.++ +| .++.+.+
T Consensus 756 ~lLGv~AVIAeSFeRIHrSNLi~mGvLPLqf~~~~~~~~l~l~g~e~~~i~~~~~~~p~~~~~v~~~~~dg~~~~~~~~~ 835 (861)
T COG1048 756 RLLGVKAVIAESFERIHRSNLIGMGVLPLQFPNGETYDKLGLDGEETIDIGGLENLKPGATVTVTVTRGDGPVEEFPVLC 835 (861)
T ss_pred hhcCeeeeeehhHHHHHHhhcccceeeeeeccCCCChhhcCCCCceeEeecccccCCCCceEEEEEEcCCCceEEEeeee
Confidence 6899999999999999999999999999999999999999988888888776655667777766653 45 3688888
Q ss_pred cCCCHHHHHHHHhCChHHHHHHhhC
Q psy7216 78 RFDTEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 78 ~~~~~~e~~ii~aGGll~~~~~~~~ 102 (102)
+++|+.|++|+++||+|||++++++
T Consensus 836 r~dt~~E~~y~k~GGiL~~v~~~~~ 860 (861)
T COG1048 836 RIDTAEEIEYYKAGGILNYVKRDLL 860 (861)
T ss_pred ecCCHHHHHHHHcCchHHHHHHHhh
Confidence 8999999999999999999999864
No 6
>TIGR01341 aconitase_1 aconitate hydratase 1. This model represents one form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It is found in bacteria, archaea, and eukaryotic cytosol. It has been shown to act also as an iron-responsive element binding protein in animals and may have the same role in other eukaryotes.
Probab=99.92 E-value=5e-25 Score=183.97 Aligned_cols=101 Identities=57% Similarity=0.920 Sum_probs=90.1
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEe--cCC--eEEEEEe
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEV--DDG--RKFSVIL 77 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~--~~g--~~~~~~~ 77 (102)
++|||+||||+||+||||+|++|+|+|||+|+++++++++.++|+|.++|...+.++||+.+++.. .+| .+|++.+
T Consensus 772 ~~lGv~avia~sf~rI~~~N~~~~Gilpl~~~~~~~~~~l~l~g~e~~~i~~~~~l~pg~~v~v~~~~~~g~~~~~~~~~ 851 (876)
T TIGR01341 772 KLLGVKAVIAESFERIHRSNLVGMGVIPLQFPQGEDAETLGLTGDETIDIDGIKDLKPGKEVTVTFTNSKGEKITFKCVL 851 (876)
T ss_pred HHhCCcEEEEccHHHHHHhhHhhcCcceEecCCCCCHHHhCCCCCCeEEEcCccccCCCCEEEEEEEcCCCCEEEEEEEE
Confidence 689999999999999999999999999999999999999998899999996333478898777654 367 5799999
Q ss_pred cCCCHHHHHHHHhCChHHHHHHhhC
Q psy7216 78 RFDTEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 78 ~~~~~~e~~ii~aGGll~~~~~~~~ 102 (102)
++||+.|++|+++||+|||++++++
T Consensus 852 r~dt~~E~~~~~~GGiL~yv~r~~~ 876 (876)
T TIGR01341 852 RIDTEVELDYYKHGGILQYVLRKFL 876 (876)
T ss_pred ecCCHHHHHHHHcCCHHHHHHHhhC
Confidence 9999999999999999999999975
No 7
>TIGR01342 acon_putative aconitate hydratase, putative, Aquifex type. This model represents a small family of proteins homologous (and likely functionally equivalent to) aconitase 1. Members are found, so far in the anaerobe Clostridium acetobutylicum, in the microaerophilic, early-branching bacterium Aquifex aeolicus, and in the halophilic archaeon Halobacterium sp. NRC-1. No member is experimentally characterized.
Probab=99.92 E-value=4.6e-25 Score=180.99 Aligned_cols=98 Identities=31% Similarity=0.457 Sum_probs=83.0
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEe--cCCCCCCCceEE-EEecCCeEEEEEe
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIR--IPDDAKPHQKLQ-VEVDDGRKFSVIL 77 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~id--l~~~~~~g~~v~-~~~~~g~~~~~~~ 77 (102)
++++||+||||+||||||+|||+|+|+|||+|+++++++.++. ||+ ++|+ +++.+.+|+..+ .+.++|.++.+++
T Consensus 552 ~~~lGv~aVIA~SFarIf~~N~in~Gllpl~~~d~~~~~~i~~-Gd~-l~id~~l~~~~~~g~~~~i~~~~~g~~~~~~~ 629 (658)
T TIGR01342 552 PMFLGVEAVIAKSFARIHHANLFNFGILPLEFDNEEDYAKFEL-GDD-IEIPDDLAAALADGEDEFTINKNDDEEALATL 629 (658)
T ss_pred HHHHCCCEEEEecHHHHHHhhhhhcCcceEEecChhhHHHhCC-CCE-EEECchhhhhcCCCCceEEEEecCCeEEEEeC
Confidence 3689999999999999999999999999999997778988877 666 6887 776677885333 3446778888887
Q ss_pred cCCCHHHHHHHHhCChHHHHHHhh
Q psy7216 78 RFDTEVDILYYKHGGILNYMIRKM 101 (102)
Q Consensus 78 ~~~~~~e~~ii~aGGll~~~~~~~ 101 (102)
++ |++|++|+++||++||++++.
T Consensus 630 ~l-~~~e~ei~~aGGlln~~~~~~ 652 (658)
T TIGR01342 630 DA-SEREKEILAAGGKLNLIKNKH 652 (658)
T ss_pred CC-CHHHHHHHHcCCHHHHHHHhh
Confidence 67 999999999999999999875
No 8
>PRK00439 leuD 3-isopropylmalate dehydratase small subunit; Reviewed
Probab=99.91 E-value=8.1e-25 Score=153.68 Aligned_cols=89 Identities=24% Similarity=0.442 Sum_probs=73.4
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecCC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRFD 80 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~~ 80 (102)
++++|++||||+||||||+|||+|+|+||+++++ +++.++. | +.++||+.+ + .| .+.++|+++++. ++
T Consensus 71 l~~~Gi~aVIA~SFa~If~rN~~n~Gll~i~~~~--~~~~l~~-g-d~i~idl~~----~-~v-~~~~~g~~~~f~-~l- 138 (163)
T PRK00439 71 LKAAGVSAVIAKSFARIFYRNAINIGLPVLECDE--AVDKIED-G-DEVEVDLET----G-VI-TNLTTGEEYKFK-PI- 138 (163)
T ss_pred HHHHCCCeEEEehHHHHHHhhHHhcCCCeEEchh--HHHhcCC-C-CEEEEECCC----C-EE-EeCCCCeEEEEe-eC-
Confidence 4689999999999999999999999999999975 4777754 4 569999753 4 34 233558888887 46
Q ss_pred CHHHHHHHHhCChHHHHHHhh
Q psy7216 81 TEVDILYYKHGGILNYMIRKM 101 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~~ 101 (102)
|+++++++++||++||++++.
T Consensus 139 ~~~~~~il~aGGl~~~~~~~~ 159 (163)
T PRK00439 139 PEFMLEILKAGGLIEYLKKKG 159 (163)
T ss_pred CHHHHHHHHcCCHHHHHHHhc
Confidence 999999999999999999874
No 9
>TIGR02084 leud 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The members of the seed for this model are those sequences which are gene clustered with other genes involved in leucine biosynthesis and include some archaea.
Probab=99.91 E-value=1.1e-24 Score=152.08 Aligned_cols=87 Identities=24% Similarity=0.483 Sum_probs=69.6
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecCC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRFD 80 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~~ 80 (102)
++++||+||||+||||||+|||+|+|+|++++ +..++.++. | +.++||+++ + +| .+.++|++++++ ++
T Consensus 70 l~~~Gi~aVIA~SFarIf~rN~iN~GLp~~~~--~~~~~~l~~-g-d~i~idl~~----~-~v-~~~~~g~~~~~~-~~- 137 (156)
T TIGR02084 70 IKASGISCVIAKSFARIFYRNAINIGLPIVES--EEAVDEIEE-G-DEVEVDLEK----G-II-KNLTKGKEYKAT-PF- 137 (156)
T ss_pred HHHhCCCEEEEehHHHHHHhhhhhCCCCeecC--HHHHHHhCC-C-CEEEEECCC----C-EE-EEecCCEEEEee-cC-
Confidence 46899999999999999999999999744433 346777764 5 459999853 4 23 345678999998 47
Q ss_pred CHHHHHHHHhCChHHHHHH
Q psy7216 81 TEVDILYYKHGGILNYMIR 99 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~ 99 (102)
|+++++++++|||++|+++
T Consensus 138 ~~~~~~il~~GGl~~~~~~ 156 (156)
T TIGR02084 138 PEFLQKIMKAGGLLNYVKK 156 (156)
T ss_pred CHHHHHHHHcCCHHHHhhC
Confidence 9999999999999999874
No 10
>KOG0452|consensus
Probab=99.91 E-value=1.8e-25 Score=180.01 Aligned_cols=101 Identities=69% Similarity=1.149 Sum_probs=95.3
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCC-CCCCceEEEEecCCeEEEEEecCC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDD-AKPHQKLQVEVDDGRKFSVILRFD 80 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~-~~~g~~v~~~~~~g~~~~~~~~~~ 80 (102)
.++||+||||+||+||||+|++.|||+||+|..+++.|.+.+.|.|.++|.+.+. ++||+.++++.++|+.|.+.+++|
T Consensus 791 ~LlGvKAViaeS~ErIHrsnLvGmGIiPl~f~~Ge~AdtLgLtG~E~yti~lP~~~lkPgq~i~v~~dtGk~F~~~~rFd 870 (892)
T KOG0452|consen 791 FLLGVKAVIAESYERIHRSNLVGMGIIPLQFLPGEDADTLGLTGRERYTIHLPENILKPGQDITVTTDTGKVFVCTLRFD 870 (892)
T ss_pred hhhhhHHHHHHHHHHHHhhccccceeeeeeecCCCChhhcCcccceeEEEECCcccCCCCceEEEEecCCcEEEEEEEec
Confidence 3689999999999999999999999999999999999999999999999999887 999998887777899999999999
Q ss_pred CHHHHHHHHhCChHHHHHHhhC
Q psy7216 81 TEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~~~ 102 (102)
++.|+.++++||+|||+.++|+
T Consensus 871 teVeltyy~~GGiL~y~iRk~~ 892 (892)
T KOG0452|consen 871 TEVELTYYKNGGILNYMIRKLS 892 (892)
T ss_pred ceEEEEEEecCCcHHHHHhhcC
Confidence 9999999999999999999874
No 11
>PRK07229 aconitate hydratase; Validated
Probab=99.90 E-value=5.9e-24 Score=174.36 Aligned_cols=97 Identities=33% Similarity=0.523 Sum_probs=80.3
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEE-ecCCCCCCCceEEEE-ecCCeEEEEEec
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTI-RIPDDAKPHQKLQVE-VDDGRKFSVILR 78 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~i-dl~~~~~~g~~v~~~-~~~g~~~~~~~~ 78 (102)
++++||+||||+|||||||||++|+|+|||+|+++++++.++. | |.++| |+++.. ++.++++. .++|++++++++
T Consensus 546 ~~~lGv~aVIA~SFarIf~~N~in~Gllpl~~~~~~~~~~l~~-g-d~i~i~dl~~~~-~~~~v~v~~~~~~~~~~~~~~ 622 (646)
T PRK07229 546 PRYLGVKAVLAKSFARIHKANLINFGILPLTFADPADYDKIEE-G-DVLEIEDLREFL-PGGPLTVVNVTKDEEIEVRHT 622 (646)
T ss_pred HHHHCCCEEEEeCHHHHHHhhHHhcCCceEEecChHhHhhcCC-C-CEEEEccchhcC-CCCeEEEEEecCCEEEEEEcc
Confidence 3689999999999999999999999999999977677887765 4 56888 776533 44444443 356789999878
Q ss_pred CCCHHHHHHHHhCChHHHHHHhh
Q psy7216 79 FDTEVDILYYKHGGILNYMIRKM 101 (102)
Q Consensus 79 ~~~~~e~~ii~aGGll~~~~~~~ 101 (102)
+ |++|++|+++||++||+++++
T Consensus 623 l-~~~e~~i~~aGGll~~~~~~~ 644 (646)
T PRK07229 623 L-SERQIEILLAGGALNLIKKKL 644 (646)
T ss_pred C-CHHHHHHHHcCCHHHHHHHhc
Confidence 8 999999999999999999975
No 12
>TIGR02087 LEUD_arch 3-isopropylmalate dehydratase, small subunit. This subfamily is most closely related to the 3-isopropylmalate dehydratase, small subunits which form TIGR00171. This subfamily includes the members of TIGR02084 which are gene clustered with other genes of leucine biosynthesis. The rest of the subfamily includes mainly archaeal species which exhibit two hits to this model. In these cases it is possible that one or the other of the hits does not have a 3-isopropylmalate dehydratase activity but rather one of the other related aconitase-like activities.
Probab=99.90 E-value=6.7e-24 Score=147.85 Aligned_cols=85 Identities=22% Similarity=0.483 Sum_probs=69.0
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecCC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRFD 80 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~~ 80 (102)
++++|++||||+||||||+|||+|+|+||+++++ +.++. | +.++||+.+ + +|+ .++|+++++. ++
T Consensus 70 l~~~Gi~aVIA~SFa~If~rN~in~Glp~i~~~~----~~i~~-g-d~i~vdl~~----~-~v~--~~~g~~~~~~-~l- 134 (154)
T TIGR02087 70 LKAAGIAAVIAESFARIFYRNAINIGLPLIEAKT----EGIKD-G-DEVTVDLET----G-EIR--VNGNEEYKGE-PL- 134 (154)
T ss_pred HHHhCCCEEEeehHHHHHHhhhhhcCCCcEecCH----HHCCC-C-CEEEEECCC----C-EEE--ECCCeEEEEe-CC-
Confidence 4679999999999999999999999998887764 34443 4 458999853 3 343 4677888885 46
Q ss_pred CHHHHHHHHhCChHHHHHHh
Q psy7216 81 TEVDILYYKHGGILNYMIRK 100 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~ 100 (102)
|+.+++++++||++||++++
T Consensus 135 ~~~~~~i~~aGGl~~~~~~~ 154 (154)
T TIGR02087 135 PDFLLEILREGGLLEYLKKR 154 (154)
T ss_pred CHHHHHHHHcCCHHHHHhcC
Confidence 99999999999999999975
No 13
>TIGR02333 2met_isocit_dHY 2-methylisocitrate dehydratase, Fe/S-dependent. Members of this family appear in an operon for the degradation of propionyl-CoA via 2-methylcitrate. This family is homologous to aconitases A and B and appears to act the part as 2-methylisocitrate dehydratase, the enzyme after PrpD and before PrpB. In Escherichia coli, which lacks a member of this family, 2-methylisocitrate dehydratase activity was traced to aconitase B (TIGR00117) (PubMed:12473114).
Probab=99.90 E-value=1.6e-23 Score=174.64 Aligned_cols=99 Identities=39% Similarity=0.752 Sum_probs=88.3
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEe--cCC--eEEEEEe
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEV--DDG--RKFSVIL 77 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~--~~g--~~~~~~~ 77 (102)
+++|++||||+||+|||++||+|+|+|||+|.++++++++.++|+|.++|. . .++||+++++.+ .+| .+|++.+
T Consensus 755 ~~lGv~avia~sf~rI~~~Nl~~~G~lpl~f~~~~~~~~l~l~g~e~~~i~-~-~~~p~~~~~v~~~~~~g~~~~~~~~~ 832 (858)
T TIGR02333 755 RLAGVEAIVAEGFERIHRTNLVGMGVLPLEFKPGTNRHTLGLDGTETFDVV-G-EITPRADLTLVVTRKNGEKLEVPVTC 832 (858)
T ss_pred HHhCceEEEEccHHHHHHhhhhhcCcceEEeCCCCChhhcCCCCCeeEEec-c-CCCCCCeEEEEEEeCCCCEEEEEEEE
Confidence 689999999999999999999999999999999999999988899988883 2 367898877765 467 4789999
Q ss_pred cCCCHHHHHHHHhCChHHHHHHhhC
Q psy7216 78 RFDTEVDILYYKHGGILNYMIRKML 102 (102)
Q Consensus 78 ~~~~~~e~~ii~aGGll~~~~~~~~ 102 (102)
++||+.|++|+++||+|||+.++++
T Consensus 833 r~dt~~ei~y~~~GgiL~~v~~~~~ 857 (858)
T TIGR02333 833 RLDTAEEVSVYEAGGVLQRFAQDFL 857 (858)
T ss_pred EcCCHHHHHHHHcCCHHHHHHHHhh
Confidence 9999999999999999999999875
No 14
>PRK14023 homoaconitate hydratase small subunit; Provisional
Probab=99.89 E-value=1.6e-23 Score=147.47 Aligned_cols=86 Identities=31% Similarity=0.488 Sum_probs=70.7
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecCC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRFD 80 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~~ 80 (102)
++++|++||||+||||||++||+|+|+||++++ ++++.++. | +.++||+.+ + +++ .+|+++++.+ +
T Consensus 72 l~~~Gi~aVIA~SFa~If~rN~~n~Gll~~~~~--~~~~~l~~-g-d~i~vDl~~----~-~v~---~~g~~~~~~~-~- 137 (166)
T PRK14023 72 LKMLGIGAIIAKSYARIFYRNLVNLGIPPFESE--EVVDALED-G-DEVELDLET----G-VLT---RGGETFQLRP-P- 137 (166)
T ss_pred HHHHCCCEEEEehHHHHHHhhhhhcCCCccCCH--HHHHHhCC-C-CEEEEECCC----C-EEE---ECCEEEEEee-C-
Confidence 367999999999999999999999999998753 35777764 5 459999863 3 332 3678888886 4
Q ss_pred CHHHHHHHHhCChHHHHHHh
Q psy7216 81 TEVDILYYKHGGILNYMIRK 100 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~ 100 (102)
++++++++++|||++|++++
T Consensus 138 ~~~~~~il~aGGl~~~~~~~ 157 (166)
T PRK14023 138 PEFLLEALKEGSILEYYRKH 157 (166)
T ss_pred CHHHHHHHHcCCHHHHHHHh
Confidence 99999999999999999985
No 15
>PLN00072 3-isopropylmalate isomerase/dehydratase small subunit; Provisional
Probab=99.89 E-value=3.1e-23 Score=153.13 Aligned_cols=88 Identities=27% Similarity=0.376 Sum_probs=70.1
Q ss_pred CcccCeeEEEecchhhhhhhccccCc-cceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMG-IAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRF 79 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~G-ilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~ 79 (102)
++++||+||||+||||||+||++|+| ++|++.+ ...++.++. || .++||+++ + .| .+.++|++|.+++ .
T Consensus 152 L~~~GI~aVIA~SFArIF~rN~iN~GLllpi~~~-~~~~e~i~~-Gd-~i~VDl~~----~-~v-~n~t~g~~~~~~p-~ 221 (246)
T PLN00072 152 LGAAGAKAVVAESYARIFFRNSVATGEVYPLESE-VRICEECKT-GD-VVTVELGN----S-VL-INHTTGKEYKLKP-I 221 (246)
T ss_pred HHHcCCCEEEECcHHHHHHHHHHhCCcceeeccc-HHHHHhcCC-CC-EEEEECCC----C-EE-EECCCCeEEEecC-C
Confidence 46899999999999999999999999 7888753 345676664 54 58999852 3 23 4457889998876 2
Q ss_pred CCHHHHHHHHhCChHHHHHHh
Q psy7216 80 DTEVDILYYKHGGILNYMIRK 100 (102)
Q Consensus 80 ~~~~e~~ii~aGGll~~~~~~ 100 (102)
+ .+++++++|||++|++++
T Consensus 222 -~-~~~~Il~aGGl~~y~r~~ 240 (246)
T PLN00072 222 -G-DAGPVIDAGGIFAYARKT 240 (246)
T ss_pred -H-HHHHHHHcCCHHHHHHhh
Confidence 4 499999999999999986
No 16
>TIGR01340 aconitase_mito aconitate hydratase, mitochondrial. This model represents mitochondrial forms of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase.
Probab=99.87 E-value=2.5e-22 Score=166.55 Aligned_cols=94 Identities=27% Similarity=0.446 Sum_probs=76.5
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCC--CCceEEEEe--cCC--eEEEE
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAK--PHQKLQVEV--DDG--RKFSV 75 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~--~g~~v~~~~--~~g--~~~~~ 75 (102)
++|||+||||+|||||||+||+|+|+|||+|.++++++.+.. ||+...+++++... +++.+++.+ .+| .++++
T Consensus 646 ~~lGv~aVIA~SFaRI~~~Nlin~Gilpl~~~~~~~~~~i~~-gd~~~~~~l~~~~~~~~~~~~~~~i~~~~g~~~~~~~ 724 (745)
T TIGR01340 646 RHLGGRIIITKSFARIHETNLKKQGVLPLTFANEADYDKIQP-GDEVATLNLYEMLKNGGGGEVDLRVTKKNGKVFEIKL 724 (745)
T ss_pred HHhCCcEEEEehHHHHHHhhhhhcCceeEEecCCccHhhcCC-CCEEEEcChhhccccCCCCeEEEEEEeCCCcEEEEEE
Confidence 689999999999999999999999999999987788988875 77765555655432 255565443 345 57888
Q ss_pred EecCCCHHHHHHHHhCChHHHH
Q psy7216 76 ILRFDTEVDILYYKHGGILNYM 97 (102)
Q Consensus 76 ~~~~~~~~e~~ii~aGGll~~~ 97 (102)
.+++ |+.|++|+++||+|||+
T Consensus 725 ~~~l-t~~E~~~~~aGGiLny~ 745 (745)
T TIGR01340 725 KHTV-SKDQIGFFKAGSALNLM 745 (745)
T ss_pred EeeC-CHHHHHHHHcCCcccCC
Confidence 8888 99999999999999985
No 17
>PRK11413 putative hydratase; Provisional
Probab=99.83 E-value=7.6e-21 Score=157.59 Aligned_cols=93 Identities=20% Similarity=0.293 Sum_probs=68.3
Q ss_pred cccCeeEEEecchhhhhhh-ccccCccceEEeCCCCChhhhccCCCeEEEEec-CCCCCCCc-eEEEEe--cCC--eEEE
Q psy7216 2 LFQGVKAVIAESYERIHRS-NLVGMGIAPLQFLPGENADSLKLTGKERYTIRI-PDDAKPHQ-KLQVEV--DDG--RKFS 74 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~-N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl-~~~~~~g~-~v~~~~--~~g--~~~~ 74 (102)
|+||++||||+||||||+| |++|+|||||+|++. ..++. | |.++|+. ++.+..+. .++..+ .+| +.++
T Consensus 651 r~LGi~AVIAkSFARIf~RsNlIN~GilpL~f~~~---~~i~~-G-D~l~id~~~~~l~~~~~~~~~~i~~~~~~~~~~~ 725 (751)
T PRK11413 651 RVLGGLANIAEEYATKRYRSNVINWGMLPFQMAEE---PTFEV-G-DYIYIPGIRAALDNPGTTFKGYVIHEDAPVTEIT 725 (751)
T ss_pred HHhCceEEEEeeehHHHHhhhhhhcCccceecCch---hhCCC-C-CEEEEechhhhhhcCCCceeEEEEeCCCceeeEE
Confidence 7899999999999999555 999999999999864 25554 4 5588884 34444332 233222 232 4566
Q ss_pred EEe-cCCCHHHHHHHHhCChHHHHHHh
Q psy7216 75 VIL-RFDTEVDILYYKHGGILNYMIRK 100 (102)
Q Consensus 75 ~~~-~~~~~~e~~ii~aGGll~~~~~~ 100 (102)
+.+ ++ |+++++|+++||++||++++
T Consensus 726 ~~~~~l-~~~~~eil~aGGllny~k~~ 751 (751)
T PRK11413 726 LYMESL-TAEEREIIKAGCLINYNKNR 751 (751)
T ss_pred EEeCCC-CHHHHHHHHcCCHHHHhhcC
Confidence 664 56 99999999999999999863
No 18
>TIGR00139 h_aconitase homoaconitase. Homoaconitase, aconitase, and 3-isopropylmalate dehydratase have similar overall structures, but 3-isopropylmalate dehydratase is split into large (leuC) and small (leuD) chains in eubacteria. Several pairs of archaeal proteins resemble leuC and leuD over their lengths but are even closer to the respective domains of homoaconitase, and their identity is uncertain.
Probab=99.82 E-value=1.6e-20 Score=155.00 Aligned_cols=89 Identities=17% Similarity=0.243 Sum_probs=70.4
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhcc------------CCCeEEEEecCCCCCCCceEEEEec
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKL------------TGKERYTIRIPDDAKPHQKLQVEVD 68 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~------------~gd~~~~idl~~~~~~g~~v~~~~~ 68 (102)
++++||+||||+|||||||||++|+|+||++|++ ..+.+.. .| +.+++|+++ |. | .+ +
T Consensus 605 l~~~Gi~~ViA~SFarIf~rN~iN~Gl~~l~~~~--~~~~l~~~~~~~~~~~~~~~G-d~l~vD~~~----g~-i-~~-t 674 (712)
T TIGR00139 605 ILAKGINLVVSGSFGNIFSRNSINNALLGLEIPA--LIKKLREKFGGADKELTRRTG-WFLKWDVAD----AK-I-EV-Q 674 (712)
T ss_pred HHHcCCcEEEEchHHHHHHhHHHhcCCceEEchh--HHHHHHhhhcccccccccCCC-CEEEEEccC----CE-E-EE-C
Confidence 4689999999999999999999999999999985 3455541 25 458999863 43 3 33 5
Q ss_pred CC----e---EEEEEecCCCHHHHHHHHhCChHHHHHHhh
Q psy7216 69 DG----R---KFSVILRFDTEVDILYYKHGGILNYMIRKM 101 (102)
Q Consensus 69 ~g----~---~~~~~~~~~~~~e~~ii~aGGll~~~~~~~ 101 (102)
+| + ++++.+ + +++.++++.+|||++|+++++
T Consensus 675 ~g~~~~~~~~~~~~~~-~-p~~~~eii~~GGl~~~~k~~~ 712 (712)
T TIGR00139 675 EGSLDGGPILEHKVGE-L-GKNLQEIIAKGGLEGWVKNAI 712 (712)
T ss_pred CCcccccceeEEEcCC-C-CHHHHHHHHcCCHHHHHHhcC
Confidence 55 3 666664 6 999999999999999999874
No 19
>COG0066 LeuD 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]
Probab=99.80 E-value=9.7e-20 Score=129.94 Aligned_cols=90 Identities=16% Similarity=0.256 Sum_probs=66.3
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhh-hccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADS-LKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRF 79 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~-~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~ 79 (102)
++.+|++||||+|||||||+||+|+|+||+..+++ +.+. ++...++.++||+++ + .| ...++.++.+ ++
T Consensus 85 Lk~~Gi~~VIA~SFAdIFy~Na~nnG~Lpi~~~~~-~~~~l~~~~~g~~i~VDL~~----~-~v--~~~~~~~~~f--~i 154 (191)
T COG0066 85 LKDYGIRAVIAPSFADIFYRNAINNGLLPIVLAEE-DVTELFEDVPGDEVTVDLET----G-EV--TNPTGGEEPF--EI 154 (191)
T ss_pred HHHcCeeEEEeccHHHHHhhhhhhcCcCceecChH-HHHHHHHhCCCCEEEEEcCC----C-eE--EeCCCCEEEc--cC
Confidence 35789999999999999999999999999987653 2323 322134569999863 3 23 2233444443 46
Q ss_pred CCHHHHHHHHhC----ChHHHHHHhh
Q psy7216 80 DTEVDILYYKHG----GILNYMIRKM 101 (102)
Q Consensus 80 ~~~~e~~ii~aG----Gll~~~~~~~ 101 (102)
+++.++++.+| ||+.|.+++.
T Consensus 155 -~~f~~~~L~~GlD~iGlt~~~~~~i 179 (191)
T COG0066 155 -DDFRREILLNGLDDIGLTLQHKKEI 179 (191)
T ss_pred -CHHHHHHHHcCCcccchHHHHHHHH
Confidence 99999999999 9999998753
No 20
>cd01578 AcnA_Mitochon_Swivel Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. In eukaryotes two isozymes of aconitase are known to exist: one found in the mitochondrial matrix and the other found in the cytoplasm. This is the mitochondrial form. The mitochondrial product is coded by a nuclear gene. Most members of this subfamily are mitochondrial but there are some bacterial members.
Probab=99.72 E-value=2.8e-18 Score=118.69 Aligned_cols=56 Identities=30% Similarity=0.526 Sum_probs=46.0
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEe-cCCCCCCC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIR-IPDDAKPH 60 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~id-l~~~~~~g 60 (102)
+++|++||||+||||||++||+|+|+|||+|+++++++.++. +|.+++. ++ .++||
T Consensus 93 ~~lGv~aVIA~SFarI~~~Nlin~Gilpl~f~~~~~~~~i~~--gd~i~i~~l~-~l~pg 149 (149)
T cd01578 93 RHLGGRAIITKSFARIHETNLKKQGLLPLTFADPADYDKIHP--DDKVDILGLT-DFAPG 149 (149)
T ss_pred HHhCCCEEEEecHHHHHHHHHHhcCCceEEecChHHHHhcCC--CCEEEEecCc-cCCCC
Confidence 689999999999999999999999999999998888888754 4557775 43 24443
No 21
>PRK14812 hypothetical protein; Provisional
Probab=99.69 E-value=3.1e-17 Score=110.06 Aligned_cols=79 Identities=22% Similarity=0.258 Sum_probs=56.5
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhh-ccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSL-KLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRF 79 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~-~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~ 79 (102)
++.+|++||||+|||+||++||+|+|+||++++++ ..+.+ +.+.++.++||+.+ ++|+ ..+.++++.+
T Consensus 13 L~~~Gi~aVIA~SFa~IF~~N~~nnGllpi~~~~~-~~~~l~~~~~g~~i~vDL~~-----~~v~---~~~~~~~f~i-- 81 (119)
T PRK14812 13 LADYGFKVVIAGSFGDIHYNNELNNGMLPIVQPRE-VREKLAQLKPTDQVTVDLEQ-----QKII---SPVEEFTFEI-- 81 (119)
T ss_pred HHHcCCCEEEEchHHHHHHhHHHHCCCCcccCCHH-HHHHHhccCCCCEEEEEcCC-----CEEE---cCCeEEEEEE--
Confidence 36789999999999999999999999999987753 34533 22355679999863 3332 2446777764
Q ss_pred CCHHHHHHHHhC
Q psy7216 80 DTEVDILYYKHG 91 (102)
Q Consensus 80 ~~~~e~~ii~aG 91 (102)
++..+..+.+|
T Consensus 82 -~~~~~~~Ll~G 92 (119)
T PRK14812 82 -DSEWKHKLLNS 92 (119)
T ss_pred -CHHHHHHHHhC
Confidence 55666666655
No 22
>TIGR00171 leuD 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The candidate archaeal leuD proteins are not included in the seed alignment for this model and score below the trusted cutoff.
Probab=99.69 E-value=3.8e-17 Score=117.11 Aligned_cols=79 Identities=19% Similarity=0.294 Sum_probs=60.7
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhh----ccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEE
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSL----KLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVI 76 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~----~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~ 76 (102)
++.+||+||||+|||||||+||+|+|+||++++.. +...+ . +.++.++||+.+ .+|+ ..+|+++++.
T Consensus 92 L~~~Gi~aVIA~SFa~IF~rN~~nnGll~i~~~~~-~i~~~~~~~~-~~g~~i~vDl~~-----~~v~--~~~~~~~~f~ 162 (188)
T TIGR00171 92 LDDYGFKVIIAPSFADIFYNNSFKNGLLPIRLSYD-EVKELFGQVE-NQGLQMTVDLEN-----QLIH--DSEGKVYSFE 162 (188)
T ss_pred HHHcCCCEEEechHHHHHHHHHHHCCCCccccCHH-HHHHHHHHhh-CCCCEEEEECCC-----CEEE--eCCCeEEEEE
Confidence 46789999999999999999999999999999853 23332 2 345679999863 3333 2456778887
Q ss_pred ecCCCHHHHHHHHhC
Q psy7216 77 LRFDTEVDILYYKHG 91 (102)
Q Consensus 77 ~~~~~~~e~~ii~aG 91 (102)
+ +++.++.+-+|
T Consensus 163 --i-~~~~r~~ll~G 174 (188)
T TIGR00171 163 --I-DPFRKHCLING 174 (188)
T ss_pred --e-CHHHHHHHHcC
Confidence 4 89999999888
No 23
>PRK01641 leuD isopropylmalate isomerase small subunit; Provisional
Probab=99.69 E-value=4.1e-17 Score=117.92 Aligned_cols=79 Identities=19% Similarity=0.292 Sum_probs=60.8
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhh----ccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEE
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSL----KLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVI 76 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~----~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~ 76 (102)
++.+||+||||+||+|||++||+|+|+||+++++. +++.+ ..+.++.++||+.+ + +|+ ..|+++++.
T Consensus 90 l~~~Gi~aVIA~SFa~IF~rN~~n~Gll~i~~~~~-~i~~l~~~~~~~~g~~i~vDl~~----~-~v~---~~~~~~~f~ 160 (200)
T PRK01641 90 LADYGFRAVIAPSFADIFYNNCFKNGLLPIVLPEE-DVDELFKLVEANPGAELTVDLEA----Q-TVT---APDKTFPFE 160 (200)
T ss_pred HHHcCCCEEEechHHHHHHHHHHHCCCCeEeeCHH-HHHHHHHHHhcCCCCEEEEEcCC----C-EEe---cCCeEEEEE
Confidence 36789999999999999999999999999999742 33333 11345679999863 3 232 246777776
Q ss_pred ecCCCHHHHHHHHhC
Q psy7216 77 LRFDTEVDILYYKHG 91 (102)
Q Consensus 77 ~~~~~~~e~~ii~aG 91 (102)
+ +++.++++.+|
T Consensus 161 --i-~~~~~~~l~~G 172 (200)
T PRK01641 161 --I-DPFRRHCLLNG 172 (200)
T ss_pred --c-CHHHHHHHHcC
Confidence 5 89999999999
No 24
>KOG0453|consensus
Probab=99.68 E-value=4.2e-17 Score=132.27 Aligned_cols=97 Identities=29% Similarity=0.498 Sum_probs=79.1
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEe--cCCeEEEEEecC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEV--DDGRKFSVILRF 79 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~--~~g~~~~~~~~~ 79 (102)
+++|+++||.+||||||.+|++++|+|||+|.++.+|+++.. .+.+++.-..++.+|+++++.+ .+|++++.++.+
T Consensus 676 r~lGg~~ii~kSFarIhetNlkkqglLpLtfanpadydKi~~--~d~~~~~~L~~~~~gkp~t~~vt~~dg~~~~~kl~h 753 (778)
T KOG0453|consen 676 RHLGGRAIITKSFARIHETNLKKQGLLPLTFANPADYDKIRP--ADKVSIKGLTRRTPGKPLTVVVTKKDGKEVEIKLNH 753 (778)
T ss_pred hhcCCcEEEeehhHHHHHhhhhhcceeeeeccCHHHhhhcCh--hcccchhhhhhhcCCCceeEEEECCCCcEEEEeccc
Confidence 689999999999999999999999999999998889998863 4556666444567888777665 367765555544
Q ss_pred C-CHHHHHHHHhCChHHHHHHh
Q psy7216 80 D-TEVDILYYKHGGILNYMIRK 100 (102)
Q Consensus 80 ~-~~~e~~ii~aGGll~~~~~~ 100 (102)
. ++.|.+|+++|..+|++++.
T Consensus 754 t~n~~Qi~~fkaGsaln~~~e~ 775 (778)
T KOG0453|consen 754 TGNKLQIEWFKAGSALNVMKEL 775 (778)
T ss_pred ccchhhhHhhhcchHHHHHHHh
Confidence 4 89999999999999998863
No 25
>cd01579 AcnA_Bact_Swivel Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course of the reaction. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism. This distinct subfamily is found only in bacteria and archea. Its exact characteristics are not known.
Probab=99.68 E-value=1.7e-17 Score=111.62 Aligned_cols=51 Identities=37% Similarity=0.763 Sum_probs=43.2
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEec
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRI 53 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl 53 (102)
++.+|++||||+||+|||+|||+|+|+||+++++++.++.++. || .++||+
T Consensus 71 l~~~Gi~aVIA~SFa~If~rN~in~Gll~i~~~~~~~~~~~~~-gd-~i~id~ 121 (121)
T cd01579 71 PMYLGVRAVLAKSFARIHRANLINFGILPLTFADEDDYDRFEQ-GD-QLELPL 121 (121)
T ss_pred HHHHCCCEEEEccHHHHHHhHHhhcCcceEEecChhhHhhcCC-CC-EEEcCC
Confidence 4679999999999999999999999999999987667777665 54 477764
No 26
>PRK09238 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated
Probab=99.67 E-value=1.9e-16 Score=132.27 Aligned_cols=81 Identities=17% Similarity=0.235 Sum_probs=64.0
Q ss_pred eeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeE-EEEEecCCCHHH
Q psy7216 6 VKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRK-FSVILRFDTEVD 84 (102)
Q Consensus 6 v~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~-~~~~~~~~~~~e 84 (102)
+++|||+|||||||+|++|+|+||++|+ ++.++. || .++||+.+ |. + .+ ++|+. +++.+ .++++
T Consensus 260 g~~VIa~SfArIFf~Nain~GlLpIe~d----~~~i~~-Gd-~i~Id~~~----g~-I-~~-~~g~~~~~f~l--~p~~~ 324 (835)
T PRK09238 260 GGVVLGGKIAPIFFNTMEDSGALPIELD----VSKLNM-GD-VIDIYPYK----GK-I-RN-ETGEVIATFKL--KTDVL 324 (835)
T ss_pred EEEEEeCchHHHHHhhhHHcCCceEEeC----HHHcCC-CC-EEEEECCC----CE-E-Ee-CCCeEEEEEec--CcHHH
Confidence 4999999999999999999999999995 566654 54 58999753 42 3 22 45543 66654 38999
Q ss_pred HHHHHhCChHHHHHHhh
Q psy7216 85 ILYYKHGGILNYMIRKM 101 (102)
Q Consensus 85 ~~ii~aGGll~~~~~~~ 101 (102)
+++++|||++||++.|-
T Consensus 325 ~div~AGGli~~i~gr~ 341 (835)
T PRK09238 325 LDEVRAGGRIPLIIGRG 341 (835)
T ss_pred HHHHHcCChHHHHHhcc
Confidence 99999999999998764
No 27
>cd01580 AcnA_IRP_Swivel Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group also includes sequences that have been shown to act as an iron-responsive element (IRE) binding protein in animals and may have the same role in other eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=99.67 E-value=3.5e-17 Score=115.06 Aligned_cols=51 Identities=78% Similarity=1.144 Sum_probs=47.4
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEe
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIR 52 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~id 52 (102)
+++|++||||+||+|||++||+|+|+|||+|+++++++.+.++|+|.++|.
T Consensus 120 ~~lGi~aVIA~SFarI~~~Nli~~Gllpl~~~~~~~~~~l~l~g~e~~~i~ 170 (171)
T cd01580 120 FLLGVKAVIAESFERIHRSNLVGMGILPLQFPPGENADSLGLTGEETYDII 170 (171)
T ss_pred HHhCCCEEEEccHHHHHHhhHhhcCcceEEeCCccCHHhhCCCCceeEEee
Confidence 679999999999999999999999999999999999999998899887764
No 28
>cd00404 Aconitase_swivel Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. The aconitase family contains the following proteins: - Iron-responsive element binding protein (IRE-BP). IRE-BP is a cytosolic protein that binds to iron-responsive elements (IREs). IREs are stem-loop structures found in the 5'UTR of ferritin, and delta aminolevulinic acid synthase mRNAs, and in the 3'UTR of transferrin receptor mRNA. IRE-BP also express aconitase activity. - 3-isopropylmalate dehydratase (isopropylmalate isomerase), the enzyme that catalyzes the second step in the biosynthesis of leucine. - Homoaconitase (homoaconitate hydratase), an enzyme that participates in the alpha-aminoadipate pathway of lysine biosynthesis and that converts cis-homoaconitate into homoisocitric acid.
Probab=99.66 E-value=5e-17 Score=103.96 Aligned_cols=50 Identities=38% Similarity=0.555 Sum_probs=42.6
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEe
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIR 52 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~id 52 (102)
++++|+++|||+||+|||+||++|+|+||++|++..+++.++. | |.+++|
T Consensus 38 l~~~Gi~aVia~sfa~If~rN~~n~Gll~l~~~~~~~~~~i~~-g-d~l~id 87 (88)
T cd00404 38 LRLLGGRAVIAKSFARIFFRNLVDQGLLPLEFADPEDYLKLHT-G-DELDIY 87 (88)
T ss_pred HHHhCCCEEEEeCHHHHHHhhHHhcCCceEEecCcchhhhcCC-C-CEEEeC
Confidence 4689999999999999999999999999999997767777754 4 446665
No 29
>TIGR00117 acnB aconitate hydratase 2. Aconitate hydratase (aconitase) is an enzyme of the TCA cycle. This model describes aconitase 2, AcnB, which has weak similarity to aconitase 1. It is found almost exclusively in the Proteobacteria.
Probab=99.60 E-value=2.6e-15 Score=125.52 Aligned_cols=84 Identities=15% Similarity=0.180 Sum_probs=66.6
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeE-EEEEecCC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRK-FSVILRFD 80 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~-~~~~~~~~ 80 (102)
|.+| .+|||+|||||||||++|.|+||++++ .+.++. || .++||+.+ |. + .+. +|++ +++.+ +
T Consensus 258 k~~G-~~Via~sfArIFfrnain~Gl~~ie~~----~~~l~~-GD-~i~Id~~~----G~-I-~n~-~g~~~~~f~~-~- 321 (844)
T TIGR00117 258 KRGG-GLCLGGKIAPIFFNTMEDSGALPIEVD----VSNLNM-GD-VIDIYPYK----GE-I-TNH-EGELLATFEL-K- 321 (844)
T ss_pred cccc-ceEEeccChHhhhcchhhcCCCeEEeC----HhhcCC-CC-EEEEECCC----CE-E-EeC-CCCEEEEeee-C-
Confidence 5688 999999999999999999999999986 445554 54 58999853 53 2 333 4554 88865 4
Q ss_pred CHHHHHHHHhCChHHHHHHhh
Q psy7216 81 TEVDILYYKHGGILNYMIRKM 101 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~~ 101 (102)
|++.+++++|||++||+.-|-
T Consensus 322 p~~l~div~AGGli~~i~gr~ 342 (844)
T TIGR00117 322 PETLLDEVRAGGRIPLIIGRG 342 (844)
T ss_pred CHHHHHHHHcCCchhhhhccc
Confidence 899999999999999987653
No 30
>PLN00094 aconitate hydratase 2; Provisional
Probab=99.57 E-value=6.1e-15 Score=123.75 Aligned_cols=85 Identities=16% Similarity=0.144 Sum_probs=69.0
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEE-EEEecCC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKF-SVILRFD 80 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~-~~~~~~~ 80 (102)
|.+|+.| ||+|||||||||++|.|+||++|+ .+.++. || .++||..+ |. +.+.++|+++ ++++ +
T Consensus 329 K~~G~~~-ia~sfArIFfrnain~G~~~Ie~~----v~~i~~-GD-~I~id~~~----G~--I~n~~~g~~~~~f~~-~- 393 (938)
T PLN00094 329 KRTGGVC-IGGKIAPIFFNTMEDSGALPIEMD----VKNLNM-GD-VIDIYPYE----GV--VKRHGTDEVITTFSL-K- 393 (938)
T ss_pred ccccceE-eeceecHHHhhchhhcCCceEecc----HhhcCC-CC-EEEEEcCC----CE--EEecCCCeEEEeccC-C-
Confidence 5689999 999999999999999999999986 445554 55 58999763 63 3445678888 7764 5
Q ss_pred CHHHHHHHHhCChHHHHHHhh
Q psy7216 81 TEVDILYYKHGGILNYMIRKM 101 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~~~ 101 (102)
|++.+++++|||++||++-|-
T Consensus 394 p~~l~d~vrAGGli~~i~gr~ 414 (938)
T PLN00094 394 TPVLLDEVRAGGRIPLIIGRG 414 (938)
T ss_pred ChHHHHHHHcCCcHhhhhccc
Confidence 999999999999999998753
No 31
>cd01577 IPMI_Swivel Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-isopropylmalate. IPMI is involved in fungal and bacterial leucine biosynthesis and is also found in eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=99.56 E-value=1.3e-15 Score=97.97 Aligned_cols=52 Identities=23% Similarity=0.433 Sum_probs=39.3
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEec
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRI 53 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl 53 (102)
++++|+++|||+||+|||++|++|+|++|+++.++...+ ...+.++.+++|+
T Consensus 40 l~~~Gi~avia~sFa~If~~N~~n~Gllp~~~~~~~~~~-~~~~~g~~i~vdl 91 (91)
T cd01577 40 LKDAGIRAVIAESFARIFFRNAINNGLLPVTLADEDVEE-VEAKPGDEVEVDL 91 (91)
T ss_pred HHHhCCCEEEEchHHHHHHhhHhhCCCcceeeChhhhhH-hhcCCCCEEEEeC
Confidence 467999999999999999999999999999887643332 2222344577663
No 32
>PF00694 Aconitase_C: Aconitase C-terminal domain CAUTION: The Prosite patterns do not match this domain.; InterPro: IPR000573 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop [, ]. Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) []. Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway []. The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) [, ]. As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated []. IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis []. Although IRP2 is homologous to IRP1, IRP2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes []. In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica [, ]. In S. enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. 3-isopropylmalate dehydratase (or isopropylmalate isomerase; 4.2.1.33 from EC) catalyses the stereo-specific isomerisation of 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate. This enzyme performs the second step in the biosynthesis of leucine, and is present in most prokaryotes and many fungal species. The prokaryotic enzyme is a heterodimer composed of a large (LeuC) and small (LeuD) subunit, while the fungal form is a monomeric enzyme. Both forms of isopropylmalate are related and are part of the larger aconitase family []. Aconitases are mostly monomeric proteins which share four domains in common and contain a single, labile [4Fe-4S] cluster. Three structural domains (1, 2 and 3) are tightly packed around the iron-sulphur cluster, while a fourth domain (4) forms a deep active-site cleft. The prokaryotic enzyme is encoded by two adjacent genes, leuC and leuD, corresponding to aconitase domains 1-3 and 4 respectively [, ]. LeuC does not bind an iron-sulphur cluster. It is thought that some prokaryotic isopropylamalate dehydrogenases can also function as homoaconitase 4.2.1.36 from EC, converting cis-homoaconitate to homoisocitric acid in lysine biosynthesis []. Homoaconitase has been identified in higher fungi (mitochondria) and several archaea and one thermophilic species of bacteria, Thermus thermophilus []. This entry represents the 'swivel' domain found at the C-terminal of eukaryotic mAcn, cAcn/IPR1 and IRP2, and bacterial AcnA. This domain has a three layer beta/beta/alpha structure, and in cytosolic Acn is known to rotate between the cAcn and IRP1 forms of the enzyme. This domain is also found in the small subunit of isopropylmalate dehydratase (LeuD). More information about these proteins can be found at Protein of the Month: Aconitase [].; GO: 0008152 metabolic process; PDB: 2PKP_A 2B3Y_A 2B3X_A 1V7L_B 1C97_A 1NIT_A 8ACN_A 1C96_A 1ACO_A 1NIS_A ....
Probab=99.52 E-value=3.2e-15 Score=101.84 Aligned_cols=34 Identities=47% Similarity=0.765 Sum_probs=29.9
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLP 34 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~ 34 (102)
++.+||+||||+||+|||++||+|+||||+++++
T Consensus 97 l~~~Gi~aVIA~SFa~If~~N~~n~Gllpl~~~~ 130 (131)
T PF00694_consen 97 LKDLGIRAVIAESFARIFRRNLINNGLLPLEFPE 130 (131)
T ss_dssp HHHTTEEEEEESSB-HHHHHHHHHTT-EEEEESC
T ss_pred HHHhCCeEEEechHHHHHHHHHHhCCceEEEecC
Confidence 3679999999999999999999999999999975
No 33
>cd01674 Homoaconitase_Swivel Homoaconitase swivel domain. This family includes homoaconitase and other uncharacterized proteins of the Aconitase family. Homoaconitase is part of an unusual lysine biosynthesis pathway found only in filamentous fungi, in which lysine is synthesized via the alpha-aminoadipate pathway. In this pathway, homoaconitase catalyzes the conversion of cis-homoaconitic acid into homoisocitric acid. The reaction mechanism is believed to be similar to that of other aconitases. This is the swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=99.42 E-value=4e-14 Score=95.87 Aligned_cols=34 Identities=18% Similarity=0.363 Sum_probs=31.9
Q ss_pred CcccCeeEEEecchhhhhhhccccCccceEEeCC
Q psy7216 1 MLFQGVKAVIAESYERIHRSNLVGMGIAPLQFLP 34 (102)
Q Consensus 1 ~~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~ 34 (102)
++.+||+||||+||||||+||++|+|+||+++++
T Consensus 68 l~~~Gi~~VIA~SFa~If~rN~iN~Gl~~i~~~~ 101 (129)
T cd01674 68 LLAKGIPLVVSGSFGNIFSRNSINNALLSIELPF 101 (129)
T ss_pred HHHcCccEEEechHHHHHHHhhHhcCCCeEechH
Confidence 4789999999999999999999999999999975
No 34
>cd01576 AcnB_Swivel Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. The domain structure of Aconitase B is different from other Aconitases in that he swivel domain that is found at N-terminus of B family is normally found at C-terminus for other Aconitases. In most members of the family, there is also a HEAT domain before domain 4, which is believed to play a role in protein-protein interaction.
Probab=99.22 E-value=9.7e-12 Score=84.72 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=35.1
Q ss_pred ccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEe
Q psy7216 3 FQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIR 52 (102)
Q Consensus 3 ~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~id 52 (102)
.+|++||||+||||||+||++|+|+||++++ .+.++. | +.+++|
T Consensus 87 ~~g~~aVia~sfa~IF~rNa~n~Gl~~i~~~----~~~~~~-G-D~l~vD 130 (131)
T cd01576 87 KRAGGVVLGGKIAPIFFNTAEDSGALPIQLD----VSVLDM-G-DILNID 130 (131)
T ss_pred cceEEEEEeCchhHHHHhhHHHcCCceEEeC----HHHcCC-C-CEEEeC
Confidence 4589999999999999999999999999986 334433 4 446665
No 35
>KOG0454|consensus
Probab=98.42 E-value=8.9e-08 Score=75.96 Aligned_cols=90 Identities=26% Similarity=0.327 Sum_probs=55.3
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEE-EEEecCC
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKF-SVILRFD 80 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~-~~~~~~~ 80 (102)
.+.|+++|+|+||+|||++|++.+|.+|..-+...-.+.... + +..++.+..+. +. ..+++++|+.+ ++++ +
T Consensus 370 ~~~GakaivA~Sya~IFfrN~~atG~l~~~~s~~~v~de~~~-~-dv~~v~l~~dg--~~-~~i~~t~~k~~f~lkP-~- 442 (502)
T KOG0454|consen 370 GAAGAKAIVAPSYARIFFRNSVATGELPPLPSEVRVCDECVT-G-DVYTVELSVDG--GN-QLINHTTGKVYFKLKP-F- 442 (502)
T ss_pred hhcccceecchhHHHHHHHhHHhcCCccCCCceeeeccccee-c-ceeeEEcccCC--cc-eeeeeecccceeecCc-c-
Confidence 578999999999999999999999987764332222333322 3 34666665432 22 23556677665 5443 1
Q ss_pred CHHHHHHHHhCChHHHHHH
Q psy7216 81 TEVDILYYKHGGILNYMIR 99 (102)
Q Consensus 81 ~~~e~~ii~aGGll~~~~~ 99 (102)
..---..-+||+..|.++
T Consensus 443 -~~aclV~~ad~I~~~~~k 460 (502)
T KOG0454|consen 443 -GDACLVIDADGIFAYARK 460 (502)
T ss_pred -cccCcccCchHHHHhhcc
Confidence 112224456777777665
No 36
>PF06434 Aconitase_2_N: Aconitate hydratase 2 N-terminus; InterPro: IPR015929 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop [, ]. Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) []. Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway []. The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) [, ]. As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated []. IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis []. Although IRP2 is homologous to IRP1, IRP2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes []. In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica [, ]. In S. enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. This entry represents the N-terminal region of bacterial aconitase B (AcnB), which consists of both a HEAT-like domain and a 'swivel' domain. HEAT-like domains are usually implicated in protein-protein interactions, while the 'swivel' domain is usually a mobile unit in proteins that carry it. In AcnB, this N-terminal region was shown to be sufficient for dimerisation and for AcnB binding to mRNA. An iron-mediated dimerisation mechanism may be responsible for switching AcnB between its catalytic and regulatory roles, as dimerisation requires iron while mRNA binding is inhibited by iron. More information about these proteins can be found at Protein of the Month: Aconitase [].; GO: 0003994 aconitate hydratase activity, 0006099 tricarboxylic acid cycle; PDB: 1L5J_B.
Probab=97.17 E-value=0.0016 Score=47.26 Aligned_cols=80 Identities=18% Similarity=0.235 Sum_probs=47.9
Q ss_pred eEEEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecCCCHHHHH
Q psy7216 7 KAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRFDTEVDIL 86 (102)
Q Consensus 7 ~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~~~~~e~~ 86 (102)
..|+...+|.||+.-+---|-||++++ ...++. | +.++|+-. .|+ + .+ .+|+. -....+.++...+
T Consensus 94 Gvv~G~~IAPIFfnT~edsGaLPIe~d----v~~l~~-G-dvi~I~p~----~gk-i-~~-~~gev-~~~f~l~p~~l~D 159 (204)
T PF06434_consen 94 GVVIGGKIAPIFFNTAEDSGALPIECD----VSSLNT-G-DVITIYPY----EGK-I-YK-ENGEV-ISTFELKPQTLLD 159 (204)
T ss_dssp -EEEEEEE-HHHHHHHHHTT-EEEE-------TT--T-T--EEEEETT----TTE-E-EE-TT--E-EEE---S-TCHHH
T ss_pred CeEECCEEcceEeccccccCCceEEEe----ccccCC-C-cEEEEecC----CcE-E-EC-CCCCE-EEEeecCchhHHH
Confidence 468888999999999999999999985 445554 5 45888864 353 2 22 45542 1222332566778
Q ss_pred HHHhCChHHHHHHh
Q psy7216 87 YYKHGGILNYMIRK 100 (102)
Q Consensus 87 ii~aGGll~~~~~~ 100 (102)
-++|||-++.+.-|
T Consensus 160 evrAGGri~LiiGR 173 (204)
T PF06434_consen 160 EVRAGGRIPLIIGR 173 (204)
T ss_dssp HHHHTSHHHHHHHH
T ss_pred HHhcCCcEEEEech
Confidence 99999999988654
No 37
>COG1049 AcnB Aconitase B [Energy production and conversion]
Probab=80.03 E-value=1.7 Score=36.97 Aligned_cols=77 Identities=17% Similarity=0.272 Sum_probs=50.7
Q ss_pred EEecchhhhhhhccccCccceEEeCCCCChhhhccCCCeEEEEecCCCCCCCceEEEEecCCeEEEEEecCCCHHHHHHH
Q psy7216 9 VIAESYERIHRSNLVGMGIAPLQFLPGENADSLKLTGKERYTIRIPDDAKPHQKLQVEVDDGRKFSVILRFDTEVDILYY 88 (102)
Q Consensus 9 VIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~~gd~~~~idl~~~~~~g~~v~~~~~~g~~~~~~~~~~~~~e~~ii 88 (102)
|+..-.|.||+..+---|-+|++++. ..++. | +.++|+-. .|+ + ++..+|+.+. .+.+-|+..++-+
T Consensus 264 vlG~~IaPIFfnT~ed~GalPI~~dv----~~l~~-G-dvi~i~py----~gk-i-~~~~~ge~v~-~f~lkt~~lldev 330 (852)
T COG1049 264 VLGGKIAPIFFNTMEDAGALPIEVDV----SNLEM-G-DVIDIYPY----EGK-I-RNNNTGEVVA-TFSLKTDVLLDEV 330 (852)
T ss_pred eecCeecceeeeehhhcCCCceEeee----ccccc-c-ceEEeecc----CCe-e-eccCCCcEEE-EeecCchhHHHHH
Confidence 45556788999999999999998853 34444 5 55788743 254 2 3333455322 2233389999999
Q ss_pred HhCChHHHHH
Q psy7216 89 KHGGILNYMI 98 (102)
Q Consensus 89 ~aGGll~~~~ 98 (102)
+|||-++.+.
T Consensus 331 rAGgriplii 340 (852)
T COG1049 331 RAGGRIPLII 340 (852)
T ss_pred hcCCceeEEE
Confidence 9999887543
No 38
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=34.44 E-value=29 Score=21.16 Aligned_cols=32 Identities=22% Similarity=0.361 Sum_probs=26.1
Q ss_pred ccCeeEEEecchhhhhhhccccCccceEEeCC
Q psy7216 3 FQGVKAVIAESYERIHRSNLVGMGIAPLQFLP 34 (102)
Q Consensus 3 ~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~ 34 (102)
..|+.+||+.++..-.+.-+...||-++..+.
T Consensus 59 ~~~v~~vi~~~iG~~a~~~l~~~gI~v~~~~~ 90 (102)
T cd00562 59 LEGCDAVLVGGIGGPAAAKLEAAGIKPIKAAE 90 (102)
T ss_pred HCCCcEEEEcccCccHHHHHHHcCCEEEEcCC
Confidence 46899999999988888888888988876543
No 39
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=34.32 E-value=27 Score=20.96 Aligned_cols=31 Identities=23% Similarity=0.106 Sum_probs=27.4
Q ss_pred ccCeeEEEecchhhhhhhccccCccceEEeC
Q psy7216 3 FQGVKAVIAESYERIHRSNLVGMGIAPLQFL 33 (102)
Q Consensus 3 ~lGv~aVIA~SFarI~~~N~in~Gilpl~~~ 33 (102)
..|+.++|+.++..-.++-+...||-++...
T Consensus 51 ~~~v~~li~~~iG~~~~~~L~~~gI~v~~~~ 81 (94)
T PF02579_consen 51 EEGVDVLICGGIGEGAFRALKEAGIKVYQGA 81 (94)
T ss_dssp HTTESEEEESCSCHHHHHHHHHTTSEEEEST
T ss_pred HcCCCEEEEeCCCHHHHHHHHHCCCEEEEcC
Confidence 3689999999999999999999999998764
No 40
>COG4811 Predicted membrane protein [Function unknown]
Probab=30.04 E-value=54 Score=22.76 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=18.6
Q ss_pred EEecchhhhhhhccccCccceEEeC
Q psy7216 9 VIAESYERIHRSNLVGMGIAPLQFL 33 (102)
Q Consensus 9 VIA~SFarI~~~N~in~Gilpl~~~ 33 (102)
.+=-.||||++-|+--.|++.++..
T Consensus 103 n~~~~YarI~~mNLsEdgvLVi~l~ 127 (152)
T COG4811 103 NVFIEYARIKAMNLSEDGVLVIQLE 127 (152)
T ss_pred EEEEehhhhhhcCcCcCcEEEEEec
Confidence 3334688888888888888887764
No 41
>PF10937 DUF2638: Protein of unknown function (DUF2638); InterPro: IPR020373 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 entry represents a component of the mitochondrial small ribosomal subunit. Mature mitochondrial ribosomes consist of a small (37S) and a large (54S) subunit. The 37S subunit contains at least 33 different proteins and 1 molecule of RNA (15S). The 54S subunit contains at least 45 different proteins and 1 molecule of RNA (21S). This entry is represented by a mitochondrial ribosomal protein of the small subunit, which has similarity to human mitochondrial ribosomal protein MRP-S36 [, , ].
Probab=28.59 E-value=44 Score=22.07 Aligned_cols=20 Identities=25% Similarity=0.380 Sum_probs=15.3
Q ss_pred EEEEEecCCCHHHHHHHHhCCh
Q psy7216 72 KFSVILRFDTEVDILYYKHGGI 93 (102)
Q Consensus 72 ~~~~~~~~~~~~e~~ii~aGGl 93 (102)
+|.-+ ++ ++.|+|+|..||.
T Consensus 93 Rfrr~-p~-se~EiE~InsGGA 112 (112)
T PF10937_consen 93 RFRRK-PI-SEEEIEAINSGGA 112 (112)
T ss_pred hHccC-CC-CHHHHHHHHcCCC
Confidence 34433 35 9999999999995
No 42
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=26.01 E-value=45 Score=20.33 Aligned_cols=31 Identities=23% Similarity=0.195 Sum_probs=25.6
Q ss_pred cCeeEEEecchhhhhhhccccCccceEEeCC
Q psy7216 4 QGVKAVIAESYERIHRSNLVGMGIAPLQFLP 34 (102)
Q Consensus 4 lGv~aVIA~SFarI~~~N~in~Gilpl~~~~ 34 (102)
.|+.+||+.++..-.++-+...||-++..+.
T Consensus 62 ~~v~~vi~~~iG~~~~~~l~~~gI~v~~~~~ 92 (103)
T cd00851 62 EGVDVVIVGGIGPRALNKLRNAGIKVYKGAE 92 (103)
T ss_pred cCCCEEEeCCCCcCHHHHHHHCCCEEEEcCC
Confidence 5899999999988888888888988886553
No 43
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=25.30 E-value=1.6e+02 Score=17.67 Aligned_cols=40 Identities=15% Similarity=0.200 Sum_probs=28.8
Q ss_pred cccCeeEEEecchhhhhhhccccCccceEEeCCCCChhhhcc
Q psy7216 2 LFQGVKAVIAESYERIHRSNLVGMGIAPLQFLPGENADSLKL 43 (102)
Q Consensus 2 ~~lGv~aVIA~SFarI~~~N~in~Gilpl~~~~~~~~~~~~~ 43 (102)
+..|+..|+|+.-|.-.-.-+...|++=.++.+ |.|.+-.
T Consensus 1 ~~~gi~~i~AP~eAeAq~A~L~~~g~vdav~s~--D~D~llf 40 (73)
T smart00484 1 RLMGIPYIVAPYEAEAQCAYLAKSGLVDAIITE--DSDLLLF 40 (73)
T ss_pred CcCCCeEEEcCCcHHHHHHHHHhCCCeeEEEcC--ccceEec
Confidence 467999999999888777777778877666654 3444433
No 44
>KOG3357|consensus
Probab=20.20 E-value=60 Score=22.45 Aligned_cols=25 Identities=20% Similarity=0.530 Sum_probs=22.6
Q ss_pred ccCeeEEEecchhhhhhhccccCcc
Q psy7216 3 FQGVKAVIAESYERIHRSNLVGMGI 27 (102)
Q Consensus 3 ~lGv~aVIA~SFarI~~~N~in~Gi 27 (102)
|-|.+-.+...|-..+.||+..+||
T Consensus 110 yrggkiclt~hfkplwarn~pkfgi 134 (167)
T KOG3357|consen 110 YRGGKICLTDHFKPLWARNVPKFGI 134 (167)
T ss_pred hcCceEeeccccchhhhhcCcchhH
Confidence 5688889999999999999999996
Done!