Query psy2143
Match_columns 149
No_of_seqs 181 out of 878
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 17:08:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2143.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2143hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00096 40S ribosomal protein 100.0 3.8E-46 8.2E-51 291.7 8.3 106 44-149 3-108 (143)
2 KOG0898|consensus 100.0 2E-45 4.4E-50 288.2 5.6 103 47-149 13-115 (152)
3 TIGR01025 rpsS_arch ribosomal 100.0 5.8E-42 1.3E-46 266.0 8.4 98 52-149 1-98 (135)
4 PRK04038 rps19p 30S ribosomal 100.0 1.3E-41 2.8E-46 263.8 8.9 96 51-149 2-97 (134)
5 COG0185 RpsS Ribosomal protein 99.9 1.6E-25 3.5E-30 165.2 5.4 63 82-149 1-63 (93)
6 CHL00050 rps19 ribosomal prote 99.8 1.3E-21 2.8E-26 143.6 5.5 61 84-149 3-63 (92)
7 PRK00357 rpsS 30S ribosomal pr 99.8 2.1E-21 4.5E-26 142.7 5.3 62 83-149 2-63 (92)
8 TIGR01050 rpsS_bact ribosomal 99.8 3.1E-21 6.6E-26 141.7 5.6 61 84-149 3-63 (92)
9 PLN03147 ribosomal protein S19 99.8 1.5E-19 3.2E-24 133.3 5.2 58 84-149 1-58 (92)
10 PF00203 Ribosomal_S19: Riboso 99.8 2.3E-19 4.9E-24 128.4 5.5 61 84-149 1-61 (81)
11 KOG0899|consensus 99.7 4.9E-17 1.1E-21 119.5 5.0 60 82-149 10-69 (93)
12 PF03131 bZIP_Maf: bZIP Maf tr 84.9 0.73 1.6E-05 33.0 2.2 35 61-104 1-35 (92)
13 PRK14034 citrate synthase; Pro 77.7 2.5 5.5E-05 37.7 3.4 46 13-78 2-48 (372)
14 PRK12351 methylcitrate synthas 76.6 2.7 5.8E-05 37.6 3.3 46 15-78 9-55 (378)
15 cd06101 citrate_synt Citrate s 72.4 3.2 7E-05 35.1 2.6 24 55-78 22-46 (265)
16 PRK12350 citrate synthase 2; P 72.3 3.4 7.4E-05 36.8 2.8 24 55-78 24-48 (353)
17 PRK14035 citrate synthase; Pro 68.0 5.4 0.00012 35.6 3.1 47 12-78 1-48 (371)
18 cd06116 CaCS_like Chloroflexus 67.1 5 0.00011 36.0 2.8 47 14-78 5-52 (384)
19 cd06113 citrate_synt_like_1_2 66.8 4.5 9.7E-05 36.5 2.4 24 55-78 37-67 (406)
20 cd06117 Ec2MCS_like_1 Subgroup 65.7 5.9 0.00013 35.2 2.9 43 18-78 3-46 (366)
21 cd06109 BsCS-I_like Bacillus s 64.9 5.8 0.00013 35.0 2.7 24 55-78 22-46 (349)
22 cd06108 Ec2MCS_like Escherichi 64.8 5.9 0.00013 35.3 2.7 24 55-78 22-46 (363)
23 cd06118 citrate_synt_like_1 Ci 63.7 5.7 0.00012 34.8 2.4 24 55-78 22-46 (358)
24 TIGR03738 PRTRC_C PRTRC system 63.0 5.9 0.00013 28.1 1.9 28 53-80 6-34 (66)
25 PRK14036 citrate synthase; Pro 62.7 6.9 0.00015 35.0 2.8 47 14-78 4-51 (377)
26 PRK14033 citrate synthase; Pro 60.8 7.8 0.00017 34.5 2.8 47 13-78 8-56 (375)
27 cd06115 AthCS_per_like Arabido 60.5 7.5 0.00016 35.2 2.7 24 55-78 48-72 (410)
28 cd06107 EcCS_AthCS-per_like Es 60.0 7.6 0.00017 34.8 2.6 47 14-78 5-52 (382)
29 TIGR01798 cit_synth_I citrate 59.9 8.1 0.00018 35.0 2.8 24 55-78 55-79 (412)
30 TIGR01800 cit_synth_II 2-methy 59.6 7.6 0.00017 34.3 2.5 23 56-78 23-46 (368)
31 PRK12349 citrate synthase 3; P 59.5 8.3 0.00018 34.2 2.7 47 13-78 4-52 (369)
32 PRK14037 citrate synthase; Pro 59.5 8.6 0.00019 34.3 2.8 47 14-78 4-51 (377)
33 cd06111 DsCS_like Cold-active 58.9 9 0.00019 33.9 2.8 24 55-78 22-46 (362)
34 PLN02456 citrate synthase 58.8 8.3 0.00018 35.5 2.7 24 55-78 87-111 (455)
35 PRK09569 type I citrate syntha 58.8 6.8 0.00015 35.9 2.1 23 56-78 61-93 (437)
36 cd06110 BSuCS-II_like Bacillus 58.3 8.6 0.00019 33.8 2.6 24 55-78 22-46 (356)
37 PF00285 Citrate_synt: Citrate 58.2 5.5 0.00012 34.8 1.4 23 56-78 22-45 (356)
38 cd06112 citrate_synt_like_1_1 58.2 9.3 0.0002 34.0 2.8 25 54-78 23-48 (373)
39 cd06114 EcCS_like Escherichia 56.1 10 0.00022 34.1 2.7 25 54-78 49-74 (400)
40 PRK14032 citrate synthase; Pro 55.9 9.3 0.0002 35.0 2.5 24 55-78 67-97 (447)
41 PRK05614 gltA type II citrate 53.4 12 0.00025 34.1 2.7 24 55-78 68-92 (419)
42 PRK06224 citrate synthase; Pro 52.7 13 0.00029 31.2 2.7 42 55-102 20-62 (263)
43 COG4075 Uncharacterized conser 45.8 39 0.00084 26.1 4.1 68 52-120 30-101 (110)
44 cd06105 ScCit1-2_like Saccharo 45.3 15 0.00033 33.5 2.1 23 56-78 59-91 (427)
45 PRK00635 excinuclease ABC subu 45.2 16 0.00035 39.1 2.6 27 54-80 1646-1672(1809)
46 cd06103 ScCS-like Saccharomyce 45.0 15 0.00033 33.5 2.1 22 57-78 60-91 (426)
47 PF07647 SAM_2: SAM domain (St 43.3 24 0.00052 22.6 2.3 23 55-77 24-47 (66)
48 cd06106 ScCit3_like Saccharomy 41.0 18 0.0004 33.0 2.0 23 56-78 59-91 (428)
49 PF13543 KSR1-SAM: SAM like do 40.1 21 0.00046 28.0 1.9 21 60-80 90-110 (129)
50 cd06102 citrate_synt_like_2 Ci 38.4 30 0.00065 29.9 2.8 24 55-78 32-56 (282)
51 PF12936 Kri1_C: KRI1-like fam 35.5 38 0.00082 25.1 2.6 29 53-81 26-61 (93)
52 PF14454 Prok_Ub: Prokaryotic 31.1 36 0.00078 23.8 1.8 28 53-80 7-35 (65)
53 TIGR00630 uvra excinuclease AB 30.7 40 0.00087 33.7 2.6 28 53-80 774-801 (924)
54 PF06528 Phage_P2_GpE: Phage P 28.9 74 0.0016 20.3 2.8 21 59-79 8-28 (39)
55 COG0178 UvrA Excinuclease ATPa 27.2 52 0.0011 33.4 2.7 31 51-81 766-796 (935)
56 KOG3265|consensus 26.7 46 0.00099 29.0 2.0 22 125-146 84-109 (250)
57 TIGR01793 cit_synth_euk citrat 26.3 50 0.0011 30.3 2.3 23 56-78 62-94 (427)
58 PF09447 Cnl2_NKP2: Cnl2/NKP2 25.2 28 0.0006 24.5 0.3 34 69-102 20-58 (67)
59 COG0372 GltA Citrate synthase 25.0 54 0.0012 29.8 2.2 23 56-78 40-63 (390)
60 PF10109 FluMu_gp41: Mu-like p 24.5 77 0.0017 21.0 2.4 20 60-79 56-75 (82)
61 TIGR01689 EcbF-BcbF capsule bi 22.8 61 0.0013 24.8 1.8 22 59-80 100-121 (126)
62 PF05361 PP1_inhibitor: PKC-ac 21.6 28 0.0006 28.0 -0.3 14 60-73 73-86 (144)
63 cd00166 SAM Sterile alpha moti 21.4 63 0.0014 19.8 1.4 19 59-77 26-44 (63)
No 1
>PTZ00096 40S ribosomal protein S15; Provisional
Probab=100.00 E-value=3.8e-46 Score=291.71 Aligned_cols=106 Identities=70% Similarity=1.072 Sum_probs=102.2
Q ss_pred hHHhhcccceeeeEEecCCchHhhCCChHHHHHHhhhhhhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEecccc
Q psy2143 44 EETQKKKRTFRKFTFRGVDLDQLLDMPTEQLMELMHCRARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRN 123 (149)
Q Consensus 44 ~~~~~kkrtfkkFtYRG~~leeL~~Ms~eel~~LlpaR~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~ 123 (149)
.++++|+|+|++|+|||++||||++||+|||++|+||||||+|.||+..+|.+||+||+++++++++++||++|+||+|+
T Consensus 3 ~~~~~k~r~~k~f~yRG~~l~~L~~m~~~e~~~L~~aR~RR~~~RGl~~~~~~LlkKirk~~~~~~~~~k~~~ikT~~R~ 82 (143)
T PTZ00096 3 YEQLKKKRTFKKFTYRGVELEKLLALPEEELVELFRARQRRRINRGIKRKHPTLLKKLRKAKKATKPGEKPKAVKTHLRD 82 (143)
T ss_pred ccccccccccceeeeecCCHHHHHcCCHHHHHHHcCcccccccccCCCHHHHHHHHHHHHHhhhcccccCCcceeEeccc
Confidence 35678889999999999999999999999999999999999999999999999999999999998889999999999999
Q ss_pred ceeccCcccceEEEeeCCceeeEeeC
Q psy2143 124 MIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 124 siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
|+|||+|||++|+|||||+|++|+|+
T Consensus 83 ~~IlP~mVG~ti~VyNGK~fv~V~I~ 108 (143)
T PTZ00096 83 MIIVPEMVGSVVGVYNGKQFNNVEIK 108 (143)
T ss_pred CeeCccccCcEEEEEcCCeeEeeEec
Confidence 99999999999999999999999996
No 2
>KOG0898|consensus
Probab=100.00 E-value=2e-45 Score=288.21 Aligned_cols=103 Identities=83% Similarity=1.214 Sum_probs=101.6
Q ss_pred hhcccceeeeEEecCCchHhhCCChHHHHHHhhhhhhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEecccccee
Q psy2143 47 QKKKRTFRKFTFRGVDLDQLLDMPTEQLMELMHCRARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMII 126 (149)
Q Consensus 47 ~~kkrtfkkFtYRG~~leeL~~Ms~eel~~LlpaR~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siI 126 (149)
++|||||++|+|||++||+|+|||.+||++|+|||+||+++|||+.++..||++||+|++++++++||++|+||.|||||
T Consensus 13 ~kKKRTFrkftyrGVdld~Lldms~~~~~~l~~ar~rrR~~RGL~~k~~~liKklrkAkk~A~~~ekpe~VkTHlR~mII 92 (152)
T KOG0898|consen 13 LKKKRTFRKFTYRGVDLDQLLDMSTEQLVKLFPARQRRRLNRGLTRKPHSLIKKLRKAKKEAPPMEKPEVVKTHLRNMII 92 (152)
T ss_pred HhhhhhhhhccccCCCHHHHhcCCHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHhhcCcccCcHHHHHHhhccee
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcccceEEEeeCCceeeEeeC
Q psy2143 127 VPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 127 lPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
+|||||+.|||||||.|++||||
T Consensus 93 ~PEMvGs~VGVyNGK~FnqvEiK 115 (152)
T KOG0898|consen 93 VPEMVGSMVGVYNGKTFNQVEIK 115 (152)
T ss_pred eHhhhcceEEEecCcccceeecc
Confidence 99999999999999999999996
No 3
>TIGR01025 rpsS_arch ribosomal protein S19(archaeal)/S15(eukaryotic). This model represents eukaryotic ribosomal protein S15 and its archaeal equivalent. It excludes bacterial and organellar ribosomal protein S19. The nomenclature for the archaeal members is unresolved and given variously as S19 (after the more distant bacterial homologs) or S15.
Probab=100.00 E-value=5.8e-42 Score=265.99 Aligned_cols=98 Identities=62% Similarity=0.988 Sum_probs=93.8
Q ss_pred ceeeeEEecCCchHhhCCChHHHHHHhhhhhhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcc
Q psy2143 52 TFRKFTFRGVDLDQLLDMPTEQLMELMHCRARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMV 131 (149)
Q Consensus 52 tfkkFtYRG~~leeL~~Ms~eel~~LlpaR~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemV 131 (149)
+|++|+|||+++|+|++|+++||++|+||||||+++||+++.+.+||+||+++++.+..+++|++||||+|+|+|+|+||
T Consensus 1 ~~~~f~yrG~~l~~L~~m~~~e~~~l~~ar~RRs~~RG~~~~~~~Llkki~k~~~~~~~g~k~~~IKT~sR~s~IlP~~V 80 (135)
T TIGR01025 1 TFKEFRYRGYTLEELQDMSLEELAKLLPARQRRRLKRGLTPKQKKLLKKLRKAKKEAPKGEKPEVIRTHCRDMIILPEMV 80 (135)
T ss_pred CCceEeecccCHHHHHcCCHHHHHHHcCcccCcccccCCchhhHHHHHHHHHHHhccccccCCcceEEeccCCeeChhhc
Confidence 58999999999999999999999999999999999999999999999999999877666778899999999999999999
Q ss_pred cceEEEeeCCceeeEeeC
Q psy2143 132 GSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 132 G~tv~VyNGK~Fv~V~Ik 149 (149)
|++|+|||||.|++|+|+
T Consensus 81 G~ti~VyNGk~fv~v~I~ 98 (135)
T TIGR01025 81 GSTVGVYNGKEFVQVEIK 98 (135)
T ss_pred CcEEEEEcCCeeEEEEec
Confidence 999999999999999996
No 4
>PRK04038 rps19p 30S ribosomal protein S19P; Provisional
Probab=100.00 E-value=1.3e-41 Score=263.76 Aligned_cols=96 Identities=45% Similarity=0.829 Sum_probs=90.6
Q ss_pred cceeeeEEecCCchHhhCCChHHHHHHhhhhhhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCc
Q psy2143 51 RTFRKFTFRGVDLDQLLDMPTEQLMELMHCRARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEM 130 (149)
Q Consensus 51 rtfkkFtYRG~~leeL~~Ms~eel~~LlpaR~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPem 130 (149)
++|++|+|||+++|||++||+|||++|+||||||++|||++.++.+||+||+++++.+ ++|++||||+|+|+|+|+|
T Consensus 2 ~~~~~f~yrG~~l~~L~~m~~~~~~~l~~ar~RRsl~KGp~~~~~~LlkKi~k~~~~~---~k~~~ikT~sR~s~IlP~~ 78 (134)
T PRK04038 2 KRWKEFTYRGYTLEELQEMSLEEFAELLPARQRRSLKRGLTPEQRKLLEKIRKARREK---KKGRVIRTHVRDMIILPEM 78 (134)
T ss_pred CccceeeecccCHHHHHcCCHHHHHHHcchhhhhhhccCCCcchHHHHHHHHHHHhcc---cCCcceeEeccCCeeChhh
Confidence 6899999999999999999999999999999999999999998999999999987743 3557899999999999999
Q ss_pred ccceEEEeeCCceeeEeeC
Q psy2143 131 VGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 131 VG~tv~VyNGK~Fv~V~Ik 149 (149)
||++|+|||||+|++|+|+
T Consensus 79 VG~ti~VyNGk~fv~v~I~ 97 (134)
T PRK04038 79 VGLTIAVYNGKEFVEVEIV 97 (134)
T ss_pred cCeEEEEecCceeEeEEec
Confidence 9999999999999999996
No 5
>COG0185 RpsS Ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=1.6e-25 Score=165.17 Aligned_cols=63 Identities=43% Similarity=0.585 Sum_probs=57.6
Q ss_pred hhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 82 ARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 82 ~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
+||||+|||+ .+.+||+|++++++. ++ .++||||||+|+|||+|||+||+|||||+|+||+|+
T Consensus 1 ~~RSlkkGp~-~~~~Ll~Kv~~~~~~---~~-k~~IkT~sR~stIlPemVG~ti~VhNGk~~vpV~I~ 63 (93)
T COG0185 1 MRRSLKKGPF-VDKHLLKKVRKAKES---GK-KKPIKTWSRRSTILPEMVGLTIAVHNGKKFVPVEIT 63 (93)
T ss_pred CCcccccCcc-ccHHHHHHHHHHHhc---cC-CCcceeeecccEechhhcCcEEEEEcCceEEEEEec
Confidence 5899999999 779999999999874 22 378999999999999999999999999999999995
No 6
>CHL00050 rps19 ribosomal protein S19
Probab=99.84 E-value=1.3e-21 Score=143.61 Aligned_cols=61 Identities=30% Similarity=0.437 Sum_probs=54.8
Q ss_pred hhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 84 RRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 84 Rsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
||+|+|++.+ .+||+++++++.. +++++|+||+|+|+|||+|||++|+|||||+|++|+|+
T Consensus 3 RS~wKgpfv~-~~Ll~ki~~~~~~----~~~~~ikT~sR~s~IlP~~vg~t~~VyNGk~fv~v~I~ 63 (92)
T CHL00050 3 RSLKKNPFVA-NHLLKKIEKLNTK----EEKEIIVTWSRASTIIPTMIGHTIAVHNGKEHIPIYIT 63 (92)
T ss_pred CccccCcccC-HHHHHHHHHhhhc----cCCccceEEccccEeChhhcCcEEEEEcCceEEEEEEc
Confidence 8999999988 8999999987542 23567999999999999999999999999999999995
No 7
>PRK00357 rpsS 30S ribosomal protein S19; Reviewed
Probab=99.84 E-value=2.1e-21 Score=142.73 Aligned_cols=62 Identities=32% Similarity=0.458 Sum_probs=55.6
Q ss_pred hhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 83 RRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 83 RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
-||+|||++.+ .+||+++++++.. + ++++|+||+|+|+|+|+|||++|+||||++|++|+|+
T Consensus 2 ~RS~~Kgp~v~-~~Ll~ki~k~~~~---~-~~~~ikT~sR~s~IlP~~vg~~i~VyNGk~fv~v~I~ 63 (92)
T PRK00357 2 ARSLKKGPFVD-GHLLKKVEKANES---G-DKKVIKTWSRRSTILPEFVGLTIAVHNGRKHVPVYVT 63 (92)
T ss_pred CcccccCcccc-HHHHHHHHHHhhc---c-CCCceEEeeccCCcCHHHCCceEEEEcCCeeEeEEec
Confidence 38999999988 8999999988653 2 3567999999999999999999999999999999985
No 8
>TIGR01050 rpsS_bact ribosomal protein S19, bacterial/organelle. the Archaea may be designated S15 or S19.
Probab=99.84 E-value=3.1e-21 Score=141.73 Aligned_cols=61 Identities=38% Similarity=0.543 Sum_probs=55.2
Q ss_pred hhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 84 RRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 84 Rsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
||+|||++.+ .+||+++++++.. .++++|+||+|+|+|||+|||++|+||||++|++|+|+
T Consensus 3 RS~wKgpfv~-~~Ll~ki~k~~~~----~~~~~ikT~sR~s~IlP~~vg~~i~VynGk~fv~v~I~ 63 (92)
T TIGR01050 3 RSLKKGPFVD-HHLLKKVEKLNES----GKKKVIKTWSRRSTIIPEMIGHTIAVHNGKKFIPVYIT 63 (92)
T ss_pred cccccCcccc-HHHHHHHHHhhcc----cCCCceEEEecccEEChHHCCcEEEEEcCceEEEEEeC
Confidence 8999999988 8999999987632 24577999999999999999999999999999999985
No 9
>PLN03147 ribosomal protein S19; Provisional
Probab=99.78 E-value=1.5e-19 Score=133.33 Aligned_cols=58 Identities=24% Similarity=0.300 Sum_probs=50.4
Q ss_pred hhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 84 RRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 84 Rsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
||+|+|++.+ .+|+ ++.+++.. ..+|+||||+|+|||+|||++|+|||||+|++|+|+
T Consensus 1 RS~wKGPfv~-~~L~-k~~~~~~~------~~~iktwSR~S~IlP~~vg~ti~VyNGk~fv~v~It 58 (92)
T PLN03147 1 QAIWKGAFVD-AFLA-RIKKKRDL------LLGKKIWSHRSSILPDFVDCSVLIYNGKTHIRCKIT 58 (92)
T ss_pred CCCccCcccc-HHHH-HHHHHHhc------CCceeEEcccceECHHHcCCEEEEeCCCceEEEEec
Confidence 8999999988 6675 57776542 247999999999999999999999999999999985
No 10
>PF00203 Ribosomal_S19: Ribosomal protein S19; InterPro: IPR002222 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 [, ]. The small subunit ribosomal proteins can be categorised as: primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins. The small ribosomal subunit protein S19 contains 88-144 amino acid residues. In Escherichia coli, S19 is known to form a complex with S13 that binds strongly to 16S ribosomal RNA. Experimental evidence [] has revealed that S19 is moderately exposed on the ribosomal surface, and is designated a secondary rRNA binding protein. S19 belongs to a family of ribosomal proteins [, ] that includes: eubacterial S19; algal and plant chloroplast S19; cyanelle S19; archaebacterial S19; plant mitochondrial S19; and eukaryotic S15 ('rig' protein).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 2XZM_S 2XZN_S 2ZKQ_s 3U5C_P 3O30_I 3U5G_P 3O2Z_I 3IZB_R 1S1H_S 1XMO_S ....
Probab=99.78 E-value=2.3e-19 Score=128.42 Aligned_cols=61 Identities=41% Similarity=0.667 Sum_probs=52.1
Q ss_pred hhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 84 RRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 84 Rsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
|++|+|++.. .++|+++++... .++ +++|+||+|+|+|+|+|||++|+|||||+|++|+|+
T Consensus 1 Rs~~K~~~~~-~~~l~k~~~~~~---~~~-k~~ikt~~R~s~IlP~~vg~~i~VyNGk~f~~i~I~ 61 (81)
T PF00203_consen 1 RSLWKGPFVL-KKLLKKIKKLNP---SKK-KKVIKTHSRSSTILPEMVGKTIGVYNGKKFVPIKIT 61 (81)
T ss_dssp CCSSSSTHHH-HHHHHHHHHHHC---TTS-TSEEEESSTTSBBSGTGTTSEEEEESSSSEEEEECS
T ss_pred CCCCcccchh-HHHHHHHHHHhh---cCC-CcceEEEeCCCCcccceeceEEEEecCceEEEEEec
Confidence 7899999966 777788776543 233 488999999999999999999999999999999985
No 11
>KOG0899|consensus
Probab=99.67 E-value=4.9e-17 Score=119.52 Aligned_cols=60 Identities=32% Similarity=0.388 Sum_probs=52.5
Q ss_pred hhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEeccccceeccCcccceEEEeeCCceeeEeeC
Q psy2143 82 ARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTHLRNMIIVPEMVGSVVGVYNGKTFNQVEIK 149 (149)
Q Consensus 82 ~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKThsR~siIlPemVG~tv~VyNGK~Fv~V~Ik 149 (149)
.-||+|+|++.. ..|+++..+++. ..+|+||+|.++|||+|||++|.|||||+|++|+|.
T Consensus 10 m~RSvwK~P~V~-~~~~rk~~~~~~-------~~pikt~sRasTIlP~~Vg~~~~IhNGk~~v~vkIt 69 (93)
T KOG0899|consen 10 MTRSVWKGPFVV-KFLLRKIEKLKG-------KAPIKTWSRASTILPTMVGHTFAIHNGKEHVPVKIT 69 (93)
T ss_pred HHHHhhcCcchh-HHHHHHHHHhcC-------CCceeehhhhcchhhhhhCceEEEecCcceeeEEee
Confidence 458999999987 888888776643 235999999999999999999999999999999984
No 12
>PF03131 bZIP_Maf: bZIP Maf transcription factor; InterPro: IPR004826 There are several different types of Maf transcription factors with different roles in the cell. MafG and MafH are small Mafs which lack a putative transactivation domain. They behave as transcriptional repressors when they dimerize among themselves. However they also serve as transcriptional activators by dimerizing with other (usually larger) basic-zipper proteins and recruiting them to specific DNA-binding sites. Maf transcription factors contain a conserved basic region leucine zipper (bZIP) domain, which mediates their dimerization and DNA binding property. Neural retina-specific leucine zipper proteins also belong to this family. Together with the basic region, the Maf extended homology region (EHR), conserved only within the Maf family, defines the DNA binding specific to Mafs. This structure enables Mafs to make a broader area of contact with DNA and to recognise longer DNA sequences. In particular, the two residues at the beginning of helix H2 are positioned to recognise the flanking region []. Small Maf proteins heterodimerize with Fos and may act as competitive repressors of the NF2-E2 transcription factor. In mouse, Maf1 may play an early role in axial patterning. Defects in these proteins are a cause of autosomal dominant retinitis pigmentosa. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2KZ5_A 3A5T_A 1K1V_A 1SKN_P 2WT7_B 2WTY_B.
Probab=84.85 E-value=0.73 Score=33.04 Aligned_cols=35 Identities=23% Similarity=0.476 Sum_probs=26.4
Q ss_pred CCchHhhCCChHHHHHHhhhhhhhhhcCCCCcchhHHHHHHHHH
Q psy2143 61 VDLDQLLDMPTEQLMELMHCRARRRFARGIKRKPMALVKKLRKA 104 (149)
Q Consensus 61 ~~leeL~~Ms~eel~~LlpaR~RRsl~RGl~~k~~~LLkKlrka 104 (149)
++-|+|..||.+||-.++ +|++.++...|+.+|.-
T Consensus 1 ~s~eeL~~m~v~efn~~L---------~~lt~~q~~~lK~~RRr 35 (92)
T PF03131_consen 1 FSDEELVSMSVREFNRLL---------RGLTEEQIAELKQRRRR 35 (92)
T ss_dssp --HHHHHHS-HHHHHHHC---------TTS-HHHHHHHHHHHHH
T ss_pred CCHHHHhhCCHHHHHHHH---------HcCCHHHHHHHHHHHHH
Confidence 367899999999997777 78888888888888753
No 13
>PRK14034 citrate synthase; Provisional
Probab=77.67 E-value=2.5 Score=37.65 Aligned_cols=46 Identities=22% Similarity=0.383 Sum_probs=33.9
Q ss_pred ccccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 13 VVPRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+|++++.|++..++.|-.=.| ....|||++++||.+ -++||.+-||
T Consensus 2 ~~~~GL~gv~~~~s~is~i~~--------------------~~L~YRGy~i~dLa~~~~fEeva~LL 48 (372)
T PRK14034 2 TVTRGLEGVVATTSSVSSIID--------------------DTLTYVGYNIDDLAENASFEEVVYLL 48 (372)
T ss_pred CCCCCCCCceEeeeEeeccCC--------------------CeEEECCccHHHHhccCCHHHHHHHH
Confidence 577888888887776643111 038999999999996 6789987764
No 14
>PRK12351 methylcitrate synthase; Provisional
Probab=76.59 E-value=2.7 Score=37.61 Aligned_cols=46 Identities=22% Similarity=0.329 Sum_probs=36.0
Q ss_pred ccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 15 PRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+.++.|++-.+|-|-.-.|++ ....|||++++||.+ -++||.+-||
T Consensus 9 ~~GL~gv~~~~T~is~i~~~~------------------g~L~YRGy~I~dLa~~~~feeva~LL 55 (378)
T PRK12351 9 SVALSGVVAGNTALCTVGKSG------------------NDLHYRGYDILDLAEHCEFEEVAHLL 55 (378)
T ss_pred CCCCCCeeeccccCeeEecCC------------------CEEEECCccHHHHHhcCCHHHHHHHH
Confidence 457788888888887666653 369999999999996 6789987764
No 15
>cd06101 citrate_synt Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the
Probab=72.41 E-value=3.2 Score=35.10 Aligned_cols=24 Identities=21% Similarity=0.484 Sum_probs=20.9
Q ss_pred eeEEecCCchHhh-CCChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLL-DMPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~-~Ms~eel~~Ll 78 (149)
+..|||++++||. +++++|.+-||
T Consensus 22 ~l~yRGy~i~dL~~~~~f~ev~~LL 46 (265)
T cd06101 22 GLRYRGYPIEELAENSSFEEVAYLL 46 (265)
T ss_pred EEEECCeeHHHHHhcCCHHHHHHHH
Confidence 4789999999998 88899988774
No 16
>PRK12350 citrate synthase 2; Provisional
Probab=72.32 E-value=3.4 Score=36.76 Aligned_cols=24 Identities=29% Similarity=0.646 Sum_probs=20.6
Q ss_pred eeEEecCCchHhhCC-ChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLDM-PTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~M-s~eel~~Ll 78 (149)
...||||+++||-+- ++||.+-||
T Consensus 24 ~L~YRGy~i~dLa~~~sFeEva~LL 48 (353)
T PRK12350 24 ALRYRGVDIEDLVGRVTFEDVWALL 48 (353)
T ss_pred EEEECCccHHHHhccCCHHHHHHHH
Confidence 478999999999975 799988874
No 17
>PRK14035 citrate synthase; Provisional
Probab=68.03 E-value=5.4 Score=35.59 Aligned_cols=47 Identities=26% Similarity=0.415 Sum_probs=34.3
Q ss_pred cccccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 12 AVVPRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
|.+..++.||+..++.|-.=.| . +..|||++++||.+ -++||++-||
T Consensus 1 ~~~~~Gl~~v~~~~s~Is~id~---------------~-----~L~YRGy~i~dLa~~~~Feeva~LL 48 (371)
T PRK14035 1 AELQRGLEGVIAAETKISSIID---------------S-----QLTYAGYDIDDLAENASFEEVIFLL 48 (371)
T ss_pred CCCCCCCCCceEeeeeeeEecC---------------C-----EeEECCccHHHHHhcCCHHHHHHHH
Confidence 3467788888888776643211 0 38999999999997 5789988774
No 18
>cd06116 CaCS_like Chloroflexus aurantiacus (Ca) citrate synthase (CS)_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). This group is similar to gram-negative Escherichia coli (Ec) CS (type II, gltA) and Arabidopsis thaliana (Ath) peroxisomal (Per) CS. However EcCS and AthPerCS are not found in this group. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers w
Probab=67.10 E-value=5 Score=35.97 Aligned_cols=47 Identities=23% Similarity=0.347 Sum_probs=34.6
Q ss_pred cccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 14 VPRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+..++.||+-.++.|-.-.|+ + -+..|||++++||.+ -+++|++-||
T Consensus 5 ~~~Gl~~v~~~~t~Is~iDg~--------------~----G~L~YRGy~I~dL~~~~~feEv~yLL 52 (384)
T cd06116 5 YDPAYLNTASCKSAITYIDGE--------------K----GILRYRGYPIEQLAEQSSYLEVAYLL 52 (384)
T ss_pred CCCCcCCeeEEeeEeeeEeCC--------------C----CeEEECCccHHHHhccCCHHHHHHHH
Confidence 456788888888777544332 0 458999999999996 6889977764
No 19
>cd06113 citrate_synt_like_1_2 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) a carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) h
Probab=66.79 E-value=4.5 Score=36.47 Aligned_cols=24 Identities=29% Similarity=0.512 Sum_probs=19.9
Q ss_pred eeEEecCCchHhhCC-------ChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLDM-------PTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~M-------s~eel~~Ll 78 (149)
+..|||++++||.+- ++||++-||
T Consensus 37 ~L~yRGy~I~dLa~~~p~~~~~sFEev~yLL 67 (406)
T cd06113 37 KLYYRGYDVEDLVNGAQKENRFGFEETAYLL 67 (406)
T ss_pred eeeECCCcHHHHHhhcccccCCCHHHHHHHH
Confidence 489999999999975 788876664
No 20
>cd06117 Ec2MCS_like_1 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and OAA to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). This group contains proteins similar to the E. coli 2MCS, EcPrpC. EcPrpC is one of two CS isozymes in the gram-negative E. coli. EcPrpC is a dimeric (type I ) CS; it is induced during growth on propionate and prefers PrCoA as a substrate, but has a partial CS activity with AcCoA. This group also includes Salmonella typhimurium PrpC and Ralstonia eutropha (Re) 2-MCS1 which are also induced during growth on propionate, prefer PrCoA as substrate, but can also can use AcCoA. Re 2-MCS1 at a low rate can use butyryl-CoA and valeryl-CoA. A second Ralstonia eu
Probab=65.71 E-value=5.9 Score=35.21 Aligned_cols=43 Identities=21% Similarity=0.318 Sum_probs=30.7
Q ss_pred cccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhh-CCChHHHHHHh
Q psy2143 18 FLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLL-DMPTEQLMELM 78 (149)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~-~Ms~eel~~Ll 78 (149)
+.|++-.+|-|-.-.|++ -...|||++++||. .-+.||.+-||
T Consensus 3 L~gv~~~~T~is~v~~~~------------------g~L~YRGy~i~dLa~~~~FEeva~LL 46 (366)
T cd06117 3 LSGVAAGNTALCTVGRSG------------------NDLHYRGYDILDLAEKCEFEEVAHLL 46 (366)
T ss_pred CCCeeEecccCeeeeccc------------------CEEEECCccHHHHHhcCCHHHHHHHH
Confidence 456666666665555542 26899999999997 45799987764
No 21
>cd06109 BsCS-I_like Bacillus subtilis (Bs) citrate synthase CS-I_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. This group contains proteins similar to BsCS-I, one of two CS isozymes in the gram-positive B. subtilis. The majority of CS activity in B. subtilis is provided by the other isozyme, BsCS-II (not included in this group). BsCS-
Probab=64.90 E-value=5.8 Score=35.02 Aligned_cols=24 Identities=21% Similarity=0.473 Sum_probs=20.5
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+..|||++++||.+ -++||.+-||
T Consensus 22 ~L~YRGy~i~dL~~~~~feev~~LL 46 (349)
T cd06109 22 RLIIRGYSVEDLAGSASFEDVAALL 46 (349)
T ss_pred eEEECCccHHHHHhhCCHHHHHHHH
Confidence 48899999999996 6799988774
No 22
>cd06108 Ec2MCS_like Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and OAA to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). This group contains proteins similar to the E. coli 2MCS, EcPrpC. EcPrpC is one of two CS isozymes in the gram-negative E. coli. EcPrpC is a dimeric (type I ) CS; it is induced during growth on propionate and prefers PrCoA as a substrate though it has partial CS activity with AcCoA. This group also includes Salmonella typhimurium PrpC and Ralstonia eutropha (Re) 2-MCS1 which are also induced during growth on propionate and prefer PrCoA as substrate, but can also use AcCoA. Re 2-MCS1 can use butyryl-CoA and valeryl-CoA at a lower rate. A second Ralstonia eutropha 2MC
Probab=64.84 E-value=5.9 Score=35.26 Aligned_cols=24 Identities=29% Similarity=0.598 Sum_probs=20.5
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
...|||++++||.+ -++||++-||
T Consensus 22 ~L~yRGy~i~dLa~~~sfeeva~LL 46 (363)
T cd06108 22 GLTYRGYDIEDLAENATFEEVAYLL 46 (363)
T ss_pred EEEECCccHHHHHhcCCHHHHHHHH
Confidence 48899999999997 6799988774
No 23
>cd06118 citrate_synt_like_1 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and
Probab=63.72 E-value=5.7 Score=34.85 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=20.6
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
.-.|||++++||.+ .++||.+-||
T Consensus 22 ~l~YRG~~i~dL~~~~~feeva~LL 46 (358)
T cd06118 22 ILRYRGYDIEELAEKSSFEEVAYLL 46 (358)
T ss_pred eEEECCccHHHHHhcCCHHHHHHHH
Confidence 47899999999996 7899988764
No 24
>TIGR03738 PRTRC_C PRTRC system protein C. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein C.
Probab=62.99 E-value=5.9 Score=28.13 Aligned_cols=28 Identities=32% Similarity=0.483 Sum_probs=24.5
Q ss_pred eeeeEEecCCchHh-hCCChHHHHHHhhh
Q psy2143 53 FRKFTFRGVDLDQL-LDMPTEQLMELMHC 80 (149)
Q Consensus 53 fkkFtYRG~~leeL-~~Ms~eel~~Llpa 80 (149)
-|.|.|.|+.|++- -.||.||++.++.+
T Consensus 6 ~RvF~~~gi~L~DP~p~~spe~V~dfYs~ 34 (66)
T TIGR03738 6 SRVFTYNGVRLADPSPAMSPEQVRDFYSA 34 (66)
T ss_pred EEEEEECCeEcCCCCCCCCHHHHHHHHhc
Confidence 36799999999988 78999999998876
No 25
>PRK14036 citrate synthase; Provisional
Probab=62.72 E-value=6.9 Score=34.96 Aligned_cols=47 Identities=15% Similarity=0.198 Sum_probs=33.8
Q ss_pred cccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 14 VPRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+..++.|++..++.|-.=.|+ --...|||++++||.+ .++||++-||
T Consensus 4 ~~~Gl~gv~~~~t~Is~idg~------------------~G~L~yRGy~i~dL~~~~~Feev~~LL 51 (377)
T PRK14036 4 YRPGLEGVPATQSSISYVDGQ------------------KGILEYRGYPIEELAEKSSFLETAYLL 51 (377)
T ss_pred CCCccCCCeeeeeeceEEECC------------------CCEEEECCccHHHHHccCCHHHHHHHH
Confidence 556788888777766443322 0357899999999996 7899977664
No 26
>PRK14033 citrate synthase; Provisional
Probab=60.85 E-value=7.8 Score=34.54 Aligned_cols=47 Identities=21% Similarity=0.280 Sum_probs=32.5
Q ss_pred ccccccccccCCCccc-ccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 13 VVPRCFLGTVNRNTDI-YNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 13 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
.++.++.|++-.++.| +-|. .=-...|||++++||.+ .++||.+-|+
T Consensus 8 ~~~~GL~gv~v~~S~Is~id~-------------------~~g~L~yRG~di~dLa~~~sfeeva~LL 56 (375)
T PRK14033 8 EIKKGLAGVVVDTTAISKVVP-------------------ETNSLTYRGYPVQDLAARCSFEEVAYLL 56 (375)
T ss_pred CCCCCCCCceEeeccCeEEEC-------------------CCCeEEECCccHHHHHhcCCHHHHHHHH
Confidence 4667777877777766 2220 00137899999999996 7889987654
No 27
>cd06115 AthCS_per_like Arabidopsis thaliana (Ath) peroxisomal (Per) CS_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. This group contains three Arabidopsis peroxisomal CS proteins, CYS1, -2, and -3 which are involved in the glyoxylate cycle. AthCYS1, in addition to a peroxisomal targeting sequence, has a predicted secretory signal peptide; it may be targeted to both the secretory pathway and the peroxisomes and is thought to be located in the extracellular matrix. AthCSY1 is expr
Probab=60.49 E-value=7.5 Score=35.24 Aligned_cols=24 Identities=17% Similarity=0.385 Sum_probs=19.7
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
...|||++++||.+ -+++|.+-||
T Consensus 48 ~L~YRGy~I~dLa~~~~feEv~~LL 72 (410)
T cd06115 48 ILRYRGYPIEELAEKSTFLEVAYLL 72 (410)
T ss_pred eEEECCccHHHHHhcCCHHHHHHHH
Confidence 37899999999997 5788877664
No 28
>cd06107 EcCS_AthCS-per_like Escherichia coli (Ec) citrate synthase (CS) gltA and Arabidopsis thaliana (Ath) peroxisomal (Per) CS_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers with both subunits participating in the active site. Type II CSs are unique to gram-negative bacteria and are homohexamers of ide
Probab=60.05 E-value=7.6 Score=34.77 Aligned_cols=47 Identities=21% Similarity=0.299 Sum_probs=31.4
Q ss_pred cccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhCCC-hHHHHHHh
Q psy2143 14 VPRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLDMP-TEQLMELM 78 (149)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~Ms-~eel~~Ll 78 (149)
+..++.||+..++-|-.-.|+ --+..|||++++||.+-+ .||++-||
T Consensus 5 ~~~GL~~v~~~~t~Is~iDg~------------------~G~L~YRGy~I~dLa~~~~feev~yLL 52 (382)
T cd06107 5 YDPGYLNTAVCESSITYIDGD------------------KGILLYRGYPIEQLAESSTYEEVAYLL 52 (382)
T ss_pred CCCCcCCeeeEeeeCeeEeCC------------------CCeEEECCccHHHHHhcCCHHHHHHHH
Confidence 456777777777666432221 124789999999999664 78876664
No 29
>TIGR01798 cit_synth_I citrate synthase I (hexameric type). This model describes one of several distinct but closely homologous classes of citrate synthase, the protein that brings carbon (from acetyl-CoA) into the TCA cycle. This form, class I, is known to be hexameric and allosterically inhibited by NADH in Escherichia coli, Acinetobacter anitratum, Azotobacter vinelandii, Pseudomonas aeruginosa, etc. In most species with a class I citrate synthase, a dimeric class II isozyme is found. The class II enzyme may act primarily on propionyl-CoA to make 2-methylcitrate or be bifunctional, may be found among propionate utilization enzymes, and may be constitutive or induced by propionate. Some members of this model group as class I enzymes, and may be hexameric, but have shown regulatory properties more like class II enzymes.
Probab=59.92 E-value=8.1 Score=35.05 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=19.8
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
...|||++++||.+ -+++|.+-||
T Consensus 55 ~L~YRGy~I~dL~~~~~feEv~yLL 79 (412)
T TIGR01798 55 ILLYRGYPIDQLATKSDYLEVCYLL 79 (412)
T ss_pred EEEECCccHHHHhccCCHHHHHHHH
Confidence 47899999999998 4788876664
No 30
>TIGR01800 cit_synth_II 2-methylcitrate synthase/citrate synthase II. Members of this family are dimeric enzymes with activity as 2-methylcitrate synthase, citrate synthase, or both. Many Gram-negative species have a hexameric citrate synthase, termed citrate synthase I (TIGR01798). Members of this family (TIGR01800) appear as a second citrate synthase isozyme but typically are associated with propionate metabolism and synthesize 2-methylcitrate from propionyl-CoA; citrate synthase activity may be incidental. A number of species, including Thermoplasma acidophilum, Pyrococcus furiosus, and the Antarctic bacterium DS2-3R have a bifunctional member of this family as the only citrate synthase isozyme.
Probab=59.63 E-value=7.6 Score=34.35 Aligned_cols=23 Identities=30% Similarity=0.644 Sum_probs=19.5
Q ss_pred eEEecCCchHhhC-CChHHHHHHh
Q psy2143 56 FTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
..|||++++||.+ .+++|.+-|+
T Consensus 23 l~yRG~~i~dL~~~~~feeva~LL 46 (368)
T TIGR01800 23 LTYRGYDIEDLAEHASFEEVAYLL 46 (368)
T ss_pred EEECCeeHHHHHhcCCHHHHHHHH
Confidence 7899999999995 7899987664
No 31
>PRK12349 citrate synthase 3; Provisional
Probab=59.53 E-value=8.3 Score=34.24 Aligned_cols=47 Identities=19% Similarity=0.203 Sum_probs=32.4
Q ss_pred ccccccccccCCCcccc-cCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 13 VVPRCFLGTVNRNTDIY-NDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 13 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+++.++.|++..++.|- -| | + =....|||++++||.+ -+++|++-||
T Consensus 4 ~~~~Gl~g~~~~~S~IS~id-~---------------~---~g~L~YRGydi~dLa~~~sFeeva~LL 52 (369)
T PRK12349 4 KFSPGLDGVIAAETKISFLD-T---------------V---KGEIVIQGYDLIELSKTKEYLDIVHLL 52 (369)
T ss_pred cCCCccCCCeeeeeeceeEe-C---------------C---CCEEEECCccHHHHHccCCHHHHHHHH
Confidence 45667777777776662 22 0 0 0237899999999996 5799987764
No 32
>PRK14037 citrate synthase; Provisional
Probab=59.49 E-value=8.6 Score=34.35 Aligned_cols=47 Identities=19% Similarity=0.339 Sum_probs=32.1
Q ss_pred cccccccccCCCcccccCccceeeccccchhHHhhcccceeeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 14 VPRCFLGTVNRNTDIYNDRGEYRTRNFSTVEETQKKKRTFRKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kkrtfkkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
+..+..|++-.++.|-.=+|+ =-...|||++++||.. .+++|.+-|+
T Consensus 4 ~~~GL~gv~~~~t~is~id~~------------------~g~L~yRGy~i~dL~~~~~Feev~~LL 51 (377)
T PRK14037 4 ISKGLENVIIKVTNLTFIDGE------------------KGILRYRGYNIEDLVNYGSYEETIYLM 51 (377)
T ss_pred CCCCCCCCeeeeeeceEEeCC------------------CCEEEECCccHHHHHccCCHHHHHHHH
Confidence 556777777777666432221 0127899999999994 7899977664
No 33
>cd06111 DsCS_like Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2-methylcitrate synthase (2MCS) catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. DsCS, compared with CS from the hyperthermophile Pyrococcus furiosus (not included in this group), has an increase in the size of surface loops, a higher proline content in the loop regions, a more accessible active site, and a highe
Probab=58.88 E-value=9 Score=33.95 Aligned_cols=24 Identities=25% Similarity=0.495 Sum_probs=19.6
Q ss_pred eeEEecCCchHhh-CCChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLL-DMPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~-~Ms~eel~~Ll 78 (149)
...|||++++||. +.++||++-|+
T Consensus 22 ~L~yRG~di~dLa~~~~feeva~LL 46 (362)
T cd06111 22 SLTYRGYPVQDLAENCSFEEVAYLL 46 (362)
T ss_pred eEEECCccHHHHHccCCHHHHHHHH
Confidence 3789999999999 55889987664
No 34
>PLN02456 citrate synthase
Probab=58.85 E-value=8.3 Score=35.46 Aligned_cols=24 Identities=29% Similarity=0.603 Sum_probs=19.9
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
...|||++++||.+ .+.||++-||
T Consensus 87 ~L~YRGy~I~dLa~~~~feevayLL 111 (455)
T PLN02456 87 ILRFRGYPIEELAEKSPFEEVAYLL 111 (455)
T ss_pred EEEECCccHHHHHhcCCHHHHHHHH
Confidence 46899999999997 5788877664
No 35
>PRK09569 type I citrate synthase; Reviewed
Probab=58.76 E-value=6.8 Score=35.88 Aligned_cols=23 Identities=17% Similarity=0.449 Sum_probs=19.1
Q ss_pred eEEecCCchHhhCC----------ChHHHHHHh
Q psy2143 56 FTFRGVDLDQLLDM----------PTEQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~M----------s~eel~~Ll 78 (149)
-.|||++++||.+- +.||++-||
T Consensus 61 l~YRGy~I~dL~~~~p~~~~~~~~~fEev~~LL 93 (437)
T PRK09569 61 IRFRGKTIPETFEALPKAPGSEYPTVESFWYFL 93 (437)
T ss_pred eeECCccHHHHHhhCccccccCCCCHHHHHHHH
Confidence 36999999999977 688877764
No 36
>cd06110 BSuCS-II_like Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. This group contains proteins similar to BsCS-II, the major CS of the gram-positive bacterium Bacillus subtilis. A mutation in the gene which encodes BsCS-II (citZ gene) has been described which resulted in a significant loss of CS activity, partial glutamate auxotrophy, and a sporulation deficiency, a
Probab=58.32 E-value=8.6 Score=33.77 Aligned_cols=24 Identities=25% Similarity=0.499 Sum_probs=19.9
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
...|||++++||.+ .++||.+-|+
T Consensus 22 ~L~yRG~di~dL~~~~~feeva~LL 46 (356)
T cd06110 22 ILIYRGYDIHDLAENSTFEEVAYLL 46 (356)
T ss_pred eEEECCeeHHHHHhcCCHHHHHHHH
Confidence 36899999999995 7899987664
No 37
>PF00285 Citrate_synt: Citrate synthase; InterPro: IPR002020 Citrate synthase 2.3.3.1 from EC is a member of a small family of enzymes that can directly form a carbon-carbon bond without the presence of metal ion cofactors. It catalyses the first reaction in the Krebs' cycle, namely the conversion of oxaloacetate and acetyl-coenzyme A into citrate and coenzyme A. This reaction is important for energy generation and for carbon assimilation. The reaction proceeds via a non-covalently bound citryl-coenzyme A intermediate in a 2-step process (aldol-Claisen condensation followed by the hydrolysis of citryl-CoA). Citrate synthase enzymes are found in two distinct structural types: type I enzymes (found in eukaryotes, Gram-positive bacteria and archaea) form homodimers and have shorter sequences than type II enzymes, which are found in Gram-negative bacteria and are hexameric in structure. In both types, the monomer is composed of two domains: a large alpha-helical domain consisting of two structural repeats, where the second repeat is interrupted by a small alpha-helical domain. The cleft between these domains forms the active site, where both citrate and acetyl-coenzyme A bind. The enzyme undergoes a conformational change upon binding of the oxaloacetate ligand, whereby the active site cleft closes over in order to form the acetyl-CoA binding site []. The energy required for domain closure comes from the interaction of the enzyme with the substrate. Type II enzymes possess an extra N-terminal beta-sheet domain, and some type II enzymes are allosterically inhibited by NADH []. This entry represents types I and II citrate synthase enzymes, as well as the related enzymes 2-methylcitrate synthase and ATP citrate synthase. 2-methylcitrate (2.3.3.5 from EC) synthase catalyses the conversion of oxaloacetate and propanoyl-CoA into (2R,3S)-2-hydroxybutane-1,2,3-tricarboxylate and coenzyme A. This enzyme is induced during bacterial growth on propionate, while type II hexameric citrate synthase is constitutive []. ATP citrate synthase (2.3.3.8 from EC) (also known as ATP citrate lyase) catalyses the MgATP-dependent, CoA-dependent cleavage of citrate into oxaloacetate and acetyl-CoA, a key step in the reductive tricarboxylic acid pathway of CO2 assimilation used by a variety of autotrophic bacteria and archaea to fix carbon dioxide []. ATP citrate synthase is composed of two distinct subunits. In eukaryotes, ATP citrate synthase is a homotetramer of a single large polypeptide, and is used to produce cytosolic acetyl-CoA from mitochondrial produced citrate [].; GO: 0046912 transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer, 0044262 cellular carbohydrate metabolic process; PDB: 2C6X_D 3L96_B 1OWB_B 1NXG_A 1K3P_A 1OWC_B 3L97_B 1NXE_A 3L98_A 3L99_A ....
Probab=58.25 E-value=5.5 Score=34.79 Aligned_cols=23 Identities=26% Similarity=0.605 Sum_probs=20.1
Q ss_pred eEEecCCchHhhC-CChHHHHHHh
Q psy2143 56 FTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
-.|||++++||.+ -++||.+-||
T Consensus 22 L~YRGy~i~dL~~~~sfeeva~LL 45 (356)
T PF00285_consen 22 LRYRGYDIEDLAENASFEEVAYLL 45 (356)
T ss_dssp EEETTEEHHHHHHHSBHHHHHHHH
T ss_pred EEEcCeEHHHHHhcCCHHHHHHHH
Confidence 7899999999999 7789987775
No 38
>cd06112 citrate_synt_like_1_1 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, an
Probab=58.16 E-value=9.3 Score=33.98 Aligned_cols=25 Identities=24% Similarity=0.517 Sum_probs=20.3
Q ss_pred eeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 54 RKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 54 kkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
-...|||++++||.. .+.||++-|+
T Consensus 23 G~L~yRGy~i~dL~~~~~Feev~~LL 48 (373)
T cd06112 23 GILEYRGYDIEELAEYSSFEEVALLL 48 (373)
T ss_pred CEEEECCccHHHHhcCCCHHHHHHHH
Confidence 347899999999996 5788877664
No 39
>cd06114 EcCS_like Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers with both subunits participating in the active site. Type II CSs are unique to gram-negative bacteria and are homohexamers of identical subunits (approximated as a trimer of dimers). Some typ
Probab=56.11 E-value=10 Score=34.13 Aligned_cols=25 Identities=20% Similarity=0.371 Sum_probs=20.6
Q ss_pred eeeEEecCCchHhhC-CChHHHHHHh
Q psy2143 54 RKFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 54 kkFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
-...|||++++||.+ -++||.+-||
T Consensus 49 G~L~YRGy~i~dLa~~~sfEEva~LL 74 (400)
T cd06114 49 GILRYRGYPIEQLAEKSSFLEVCYLL 74 (400)
T ss_pred CEEEECCccHHHHHhcCCHHHHHHHH
Confidence 347899999999997 4789987774
No 40
>PRK14032 citrate synthase; Provisional
Probab=55.94 E-value=9.3 Score=35.02 Aligned_cols=24 Identities=29% Similarity=0.538 Sum_probs=19.7
Q ss_pred eeEEecCCchHhhCC-------ChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLDM-------PTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~M-------s~eel~~Ll 78 (149)
+..|||++++||.+- +++|.+-||
T Consensus 67 ~L~YRGy~I~dLa~~~~~~~~~~FeEv~~LL 97 (447)
T PRK14032 67 KLYYRGYDIKDLVNGFLKEKRFGFEEVAYLL 97 (447)
T ss_pred ceeECCccHHHHHhhcccccCCCHHHHHHHH
Confidence 388999999999977 788876553
No 41
>PRK05614 gltA type II citrate synthase; Reviewed
Probab=53.43 E-value=12 Score=34.06 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=20.1
Q ss_pred eeEEecCCchHhhC-CChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLLD-MPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~~-Ms~eel~~Ll 78 (149)
...|||++++||.+ -+++|.+-||
T Consensus 68 ~L~YRGy~i~dLa~~~~feEva~LL 92 (419)
T PRK05614 68 ILLYRGYPIEQLAEKSDFLEVCYLL 92 (419)
T ss_pred EEEECCccHHHHHhcCCHHHHHHHH
Confidence 47899999999998 4788887775
No 42
>PRK06224 citrate synthase; Provisional
Probab=52.69 E-value=13 Score=31.21 Aligned_cols=42 Identities=19% Similarity=0.246 Sum_probs=26.8
Q ss_pred eeEEecCCchHh-hCCChHHHHHHhhhhhhhhhcCCCCcchhHHHHHHH
Q psy2143 55 KFTFRGVDLDQL-LDMPTEQLMELMHCRARRRFARGIKRKPMALVKKLR 102 (149)
Q Consensus 55 kFtYRG~~leeL-~~Ms~eel~~LlpaR~RRsl~RGl~~k~~~LLkKlr 102 (149)
+..|||++++|| .++|++|..=|+=- -+-+...+.++++.+-
T Consensus 20 ~l~yrG~~~~dL~~~~sf~e~~~lll~------G~lP~~~e~r~f~a~L 62 (263)
T PRK06224 20 EIYVRGYDLEDLIGKLSFTDMIFLLLR------GRLPTPNEARLLDAVL 62 (263)
T ss_pred eeEECCccHHHHhhcCCHHHHHHHHHc------CCCCCHHHHHHHHHHH
Confidence 389999999999 57889886544321 1124445555555543
No 43
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=45.79 E-value=39 Score=26.12 Aligned_cols=68 Identities=21% Similarity=0.271 Sum_probs=48.7
Q ss_pred ceeeeEEecCCchHhhCCChHH----HHHHhhhhhhhhhcCCCCcchhHHHHHHHHHhhcCCCCCCCceEEec
Q psy2143 52 TFRKFTFRGVDLDQLLDMPTEQ----LMELMHCRARRRFARGIKRKPMALVKKLRKAKKEAPPNEKPEVVKTH 120 (149)
Q Consensus 52 tfkkFtYRG~~leeL~~Ms~ee----l~~LlpaR~RRsl~RGl~~k~~~LLkKlrkakk~~~~geKp~~IKTh 120 (149)
.|--..|||++.|+-+..+.+| ..++++--+++-.-=|--.+ ...+++|.+.-++...+++-..|.|-
T Consensus 30 GFfl~eYrGvsPd~wkgf~~~EDpE~aik~i~D~s~~AVlI~tVV~-Ee~vekie~~~~Ekla~eryTIi~ip 101 (110)
T COG4075 30 GFFLHEYRGVSPDKWKGFSKEEDPESAIKAIRDLSDKAVLIGTVVK-EEKVEKIEELLKEKLANERYTIIEIP 101 (110)
T ss_pred eEEEEEecCcChhHhcCcccccCHHHHHHHHHHhhhceEEEEEecC-HHHHHHHHHHHHHHhcCCceEEEEee
Confidence 5777899999999999998865 67777777888777776655 56677777766554445554445543
No 44
>cd06105 ScCit1-2_like Saccharomyces cerevisiae (Sc) citrate synthases Cit1-2_like. Citrate synthases (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS proteins function as 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-neg
Probab=45.33 E-value=15 Score=33.54 Aligned_cols=23 Identities=26% Similarity=0.492 Sum_probs=18.0
Q ss_pred eEEecCCchHhhCCC----------hHHHHHHh
Q psy2143 56 FTFRGVDLDQLLDMP----------TEQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~Ms----------~eel~~Ll 78 (149)
-.|||++++||.+-+ .||++-||
T Consensus 59 l~YRGy~I~dLa~~~~~~~~~~~~~fEev~yLL 91 (427)
T cd06105 59 IRFRGLSIPECQKLLPKAPGGEEPLPEGLFWLL 91 (427)
T ss_pred eEECCccHHHHHhhCcccccccccCHHHHHHHH
Confidence 369999999998754 67876664
No 45
>PRK00635 excinuclease ABC subunit A; Provisional
Probab=45.22 E-value=16 Score=39.11 Aligned_cols=27 Identities=26% Similarity=0.521 Sum_probs=24.6
Q ss_pred eeeEEecCCchHhhCCChHHHHHHhhh
Q psy2143 54 RKFTFRGVDLDQLLDMPTEQLMELMHC 80 (149)
Q Consensus 54 kkFtYRG~~leeL~~Ms~eel~~Llpa 80 (149)
-+.+|+|+++.|+++|+.+|.+++|..
T Consensus 1646 L~v~~~gk~I~dvL~mtv~ea~~~F~~ 1672 (1809)
T PRK00635 1646 QEVVYEGKHFGQLLQTPIEEVAETFPF 1672 (1809)
T ss_pred HhheeCCCCHHHHhcCCHHHHHHHhhc
Confidence 458999999999999999999999955
No 46
>cd06103 ScCS-like Saccharomyces cerevisiae (Sc) citrate synthase (CS)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS proteins function as 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homo
Probab=44.96 E-value=15 Score=33.46 Aligned_cols=22 Identities=27% Similarity=0.472 Sum_probs=18.0
Q ss_pred EEecCCchHhhCCC----------hHHHHHHh
Q psy2143 57 TFRGVDLDQLLDMP----------TEQLMELM 78 (149)
Q Consensus 57 tYRG~~leeL~~Ms----------~eel~~Ll 78 (149)
.|||++++||.+-+ .||++-||
T Consensus 60 ~YRGy~I~dLa~~~~~~~~~~~~~fEev~yLL 91 (426)
T cd06103 60 RFRGKTIPECQELLPKADGGGEPLPEGLFWLL 91 (426)
T ss_pred EECCccHHHHHhhCccccccCcCcHHHHHHHH
Confidence 69999999999863 78877664
No 47
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=43.34 E-value=24 Score=22.63 Aligned_cols=23 Identities=39% Similarity=0.638 Sum_probs=19.3
Q ss_pred eeEEecCCc-hHhhCCChHHHHHH
Q psy2143 55 KFTFRGVDL-DQLLDMPTEQLMEL 77 (149)
Q Consensus 55 kFtYRG~~l-eeL~~Ms~eel~~L 77 (149)
.|...|++- +.|..|+.++|.++
T Consensus 24 ~f~~~~i~g~~~L~~l~~~~L~~l 47 (66)
T PF07647_consen 24 NFRENGIDGLEDLLQLTEEDLKEL 47 (66)
T ss_dssp HHHHTTCSHHHHHTTSCHHHHHHT
T ss_pred HHHHcCCcHHHHHhhCCHHHHHHc
Confidence 467788888 99999999998665
No 48
>cd06106 ScCit3_like Saccharomyces cerevisiae (Sc) 2-methylcitrate synthase Cit3-like. 2-methylcitrate synthase (2MCS) catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxaloacetate (OAA) to form 2-methylcitrate and CoA. Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) with OAA to form citrate and CoA, the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers with both subunits participating in the a
Probab=40.96 E-value=18 Score=33.04 Aligned_cols=23 Identities=17% Similarity=0.339 Sum_probs=17.5
Q ss_pred eEEecCCchHhhCC--------Ch--HHHHHHh
Q psy2143 56 FTFRGVDLDQLLDM--------PT--EQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~M--------s~--eel~~Ll 78 (149)
-.|||++++||.+- +. ||.+-||
T Consensus 59 l~YRGy~I~dLa~~~~~~~~~~~f~~Eev~yLL 91 (428)
T cd06106 59 IRFHGKTIPECQKELPKAPIGGEMLPESMLWLL 91 (428)
T ss_pred eeECCCcHHHHHhhCccccccCCccHHHHHHHH
Confidence 36999999999885 44 7766664
No 49
>PF13543 KSR1-SAM: SAM like domain present in kinase suppressor RAS 1
Probab=40.09 E-value=21 Score=27.99 Aligned_cols=21 Identities=33% Similarity=0.580 Sum_probs=18.7
Q ss_pred cCCchHhhCCChHHHHHHhhh
Q psy2143 60 GVDLDQLLDMPTEQLMELMHC 80 (149)
Q Consensus 60 G~~leeL~~Ms~eel~~Llpa 80 (149)
..+||+|++||-+|+-++|..
T Consensus 90 ~~tLe~Llemsd~el~~~l~~ 110 (129)
T PF13543_consen 90 VLTLEALLEMSDEELKEILNR 110 (129)
T ss_pred hcCHHHHHhCCHHHHHHHHHH
Confidence 559999999999999998875
No 50
>cd06102 citrate_synt_like_2 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and
Probab=38.37 E-value=30 Score=29.90 Aligned_cols=24 Identities=25% Similarity=0.463 Sum_probs=20.8
Q ss_pred eeEEecCCchHhh-CCChHHHHHHh
Q psy2143 55 KFTFRGVDLDQLL-DMPTEQLMELM 78 (149)
Q Consensus 55 kFtYRG~~leeL~-~Ms~eel~~Ll 78 (149)
+..|||+++.||. +.++||.+.|+
T Consensus 32 ~~~yRG~da~~L~~~~~~e~va~LL 56 (282)
T cd06102 32 RLFYRGRDAVELAETATLEEVAALL 56 (282)
T ss_pred eeEEcCccHHHHHhcCCHHHHHHHH
Confidence 4789999999997 78899988875
No 51
>PF12936 Kri1_C: KRI1-like family C-terminal; InterPro: IPR024626 The yeast member of the Kri1-like family (Kri1p) is found to be required for 40S ribosome biogenesis in the nucleolus []. This entry represents the C-terminal domain of this protein family.
Probab=35.54 E-value=38 Score=25.09 Aligned_cols=29 Identities=17% Similarity=0.436 Sum_probs=23.8
Q ss_pred eeeeEEe-------cCCchHhhCCChHHHHHHhhhh
Q psy2143 53 FRKFTFR-------GVDLDQLLDMPTEQLMELMHCR 81 (149)
Q Consensus 53 fkkFtYR-------G~~leeL~~Ms~eel~~LlpaR 81 (149)
-..|.|| |.+.+|++.++-.||-+.+|=.
T Consensus 26 p~RFkYr~V~p~~fGLt~~eIL~adDkeLNq~vsLK 61 (93)
T PF12936_consen 26 PTRFKYREVPPNSFGLTTEEILMADDKELNQWVSLK 61 (93)
T ss_pred CCceeeeecCcccCCCCHHHHHhCCHHHHHHHhhHH
Confidence 3458998 7799999999999988887753
No 52
>PF14454 Prok_Ub: Prokaryotic Ubiquitin
Probab=31.10 E-value=36 Score=23.82 Aligned_cols=28 Identities=18% Similarity=0.418 Sum_probs=22.0
Q ss_pred eeeeEEecCCchH-hhCCChHHHHHHhhh
Q psy2143 53 FRKFTFRGVDLDQ-LLDMPTEQLMELMHC 80 (149)
Q Consensus 53 fkkFtYRG~~lee-L~~Ms~eel~~Llpa 80 (149)
-|.|.|-|++|.+ =-.||.||+..++.+
T Consensus 7 ~R~F~~~g~~L~DP~p~~spe~V~~~ya~ 35 (65)
T PF14454_consen 7 TRVFRYNGITLPDPNPSLSPEEVRDFYAA 35 (65)
T ss_pred EEEEEECCEECCCCCCCCCHHHHHHHHhh
Confidence 3678899998877 457999998887754
No 53
>TIGR00630 uvra excinuclease ABC, A subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.71 E-value=40 Score=33.71 Aligned_cols=28 Identities=21% Similarity=0.503 Sum_probs=24.1
Q ss_pred eeeeEEecCCchHhhCCChHHHHHHhhh
Q psy2143 53 FRKFTFRGVDLDQLLDMPTEQLMELMHC 80 (149)
Q Consensus 53 fkkFtYRG~~leeL~~Ms~eel~~Llpa 80 (149)
--+.+|+|+++.|+++|+.+|..+++..
T Consensus 774 ~l~v~~~g~~i~dvl~~tv~e~~~f~~~ 801 (924)
T TIGR00630 774 TLEVKYKGKNIADVLDMTVEEAYEFFEA 801 (924)
T ss_pred HHhceeCCCCHHHHhCCcHHHHHHHHHh
Confidence 3458999999999999999998888743
No 54
>PF06528 Phage_P2_GpE: Phage P2 GpE; InterPro: IPR009493 This entry is represented by Burkholderia phage phiE202, Gp27. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins which are closely related to the GpE tail protein from Phage P2.
Probab=28.92 E-value=74 Score=20.33 Aligned_cols=21 Identities=14% Similarity=0.118 Sum_probs=16.6
Q ss_pred ecCCchHhhCCChHHHHHHhh
Q psy2143 59 RGVDLDQLLDMPTEQLMELMH 79 (149)
Q Consensus 59 RG~~leeL~~Ms~eel~~Llp 79 (149)
-|-+.+++..|+++||+.-.-
T Consensus 8 FhW~Pse~~~m~l~El~~Wre 28 (39)
T PF06528_consen 8 FHWPPSEMDAMSLDELMDWRE 28 (39)
T ss_pred cCCCHHHHhcCCHHHHHHHHH
Confidence 356789999999999876544
No 55
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=27.22 E-value=52 Score=33.41 Aligned_cols=31 Identities=23% Similarity=0.510 Sum_probs=26.4
Q ss_pred cceeeeEEecCCchHhhCCChHHHHHHhhhh
Q psy2143 51 RTFRKFTFRGVDLDQLLDMPTEQLMELMHCR 81 (149)
Q Consensus 51 rtfkkFtYRG~~leeL~~Ms~eel~~LlpaR 81 (149)
+.-=+.+|+|+++.+.++|+.+|-.+.|-+-
T Consensus 766 ~EtLev~ykGK~IadVL~MTveEA~~FF~~~ 796 (935)
T COG0178 766 RETLEVKYKGKNIADVLDMTVEEALEFFEAI 796 (935)
T ss_pred cceEEEEECCccHHHHHhccHHHHHHHHhcc
Confidence 4455699999999999999999988888764
No 56
>KOG3265|consensus
Probab=26.65 E-value=46 Score=29.00 Aligned_cols=22 Identities=36% Similarity=0.548 Sum_probs=18.2
Q ss_pred eeccCcccceEE----EeeCCceeeE
Q psy2143 125 IIVPEMVGSVVG----VYNGKTFNQV 146 (149)
Q Consensus 125 iIlPemVG~tv~----VyNGK~Fv~V 146 (149)
|=++++||.||- =|+|+.||.|
T Consensus 84 IP~~d~vGVTviLltC~Y~gQEFIRv 109 (250)
T KOG3265|consen 84 IPEDDIVGVTVILLTCSYRGQEFIRV 109 (250)
T ss_pred CcccceeeeEEEEEEEEEcCceeEEE
Confidence 347889999875 4999999987
No 57
>TIGR01793 cit_synth_euk citrate (Si)-synthase, eukaryotic. This model includes both mitochondrial and peroxisomal forms of citrate synthase. Citrate synthase is the entry point to the TCA cycle from acetyl-CoA. Peroxisomal forms, such as SP:P08679 from yeast (recognized by the C-terminal targeting motif SKL) act in the glyoxylate cycle. Eukaryotic homologs excluded by the high trusted cutoff of this model include a Tetrahymena thermophila citrate synthase that doubles as a filament protein, a putative citrate synthase from Plasmodium falciparum (no TCA cycle), and a methylcitrate synthase from Aspergillus nidulans.
Probab=26.33 E-value=50 Score=30.28 Aligned_cols=23 Identities=26% Similarity=0.484 Sum_probs=16.4
Q ss_pred eEEecCCchHhhC----CC------hHHHHHHh
Q psy2143 56 FTFRGVDLDQLLD----MP------TEQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~----Ms------~eel~~Ll 78 (149)
-.|||++++||++ -+ .||++-||
T Consensus 62 l~yRGy~I~dl~~~~~~~~~~~~~~fEev~~LL 94 (427)
T TIGR01793 62 IRFRGLSIPECQKLLPKAKGGEEPLPEGLLWLL 94 (427)
T ss_pred eEECCeeHHHHHHHhccCCccccCCHHHHHHHH
Confidence 4699999999843 23 57766654
No 58
>PF09447 Cnl2_NKP2: Cnl2/NKP2 family protein; InterPro: IPR018565 This entry includes the Cnl2 kinetochore protein [].
Probab=25.16 E-value=28 Score=24.51 Aligned_cols=34 Identities=26% Similarity=0.441 Sum_probs=22.5
Q ss_pred CChHHHHHHhhhhhh-----hhhcCCCCcchhHHHHHHH
Q psy2143 69 MPTEQLMELMHCRAR-----RRFARGIKRKPMALVKKLR 102 (149)
Q Consensus 69 Ms~eel~~LlpaR~R-----Rsl~RGl~~k~~~LLkKlr 102 (149)
+|+++|.+|||.+.| |.|.|-|.......+.+++
T Consensus 20 isl~qF~~LFPr~~~~~P~ir~LYr~Lq~qR~~~~d~V~ 58 (67)
T PF09447_consen 20 ISLEQFRKLFPRRLRSHPQIRSLYRDLQAQREQVLDKVR 58 (67)
T ss_pred cCHHHHHHHccccCCCChHHHHHHHHHHHHHHHHHHHHH
Confidence 688999999998764 4455555544455555554
No 59
>COG0372 GltA Citrate synthase [Energy production and conversion]
Probab=24.95 E-value=54 Score=29.80 Aligned_cols=23 Identities=26% Similarity=0.595 Sum_probs=18.0
Q ss_pred eEEecCCchHhhCCC-hHHHHHHh
Q psy2143 56 FTFRGVDLDQLLDMP-TEQLMELM 78 (149)
Q Consensus 56 FtYRG~~leeL~~Ms-~eel~~Ll 78 (149)
-+|||+++++|.+-+ .+|+.-||
T Consensus 40 L~yrGy~i~dla~~~~feev~~LL 63 (390)
T COG0372 40 LRYRGYDIEDLAEKSSFEEVAYLL 63 (390)
T ss_pred EEECCccHHHHHhhcCHHHHHHHH
Confidence 789999999999884 66655553
No 60
>PF10109 FluMu_gp41: Mu-like prophage FluMu protein gp41; InterPro: IPR019289 Members of this family of prokaryotic proteins include various Gp41 proteins and related sequences [].
Probab=24.50 E-value=77 Score=21.04 Aligned_cols=20 Identities=15% Similarity=0.260 Sum_probs=16.7
Q ss_pred cCCchHhhCCChHHHHHHhh
Q psy2143 60 GVDLDQLLDMPTEQLMELMH 79 (149)
Q Consensus 60 G~~leeL~~Ms~eel~~Llp 79 (149)
|++.++|.+|+..++.++..
T Consensus 56 gl~~~~l~~L~~~D~~~l~~ 75 (82)
T PF10109_consen 56 GLPPEDLDQLDARDYNRLQE 75 (82)
T ss_pred CCCHHHHHcCCHHHHHHHHH
Confidence 68899999999999887754
No 61
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=22.76 E-value=61 Score=24.76 Aligned_cols=22 Identities=9% Similarity=0.261 Sum_probs=18.8
Q ss_pred ecCCchHhhCCChHHHHHHhhh
Q psy2143 59 RGVDLDQLLDMPTEQLMELMHC 80 (149)
Q Consensus 59 RG~~leeL~~Ms~eel~~Llpa 80 (149)
|++..+++.+||.+|+-+|+..
T Consensus 100 ~~ir~~~~~~~~~~~~~~~~~~ 121 (126)
T TIGR01689 100 RAIRPSEFSSLTYDEINTLTKI 121 (126)
T ss_pred hhhCHHHHHhcCHHHHHHHHhh
Confidence 5667899999999999988854
No 62
>PF05361 PP1_inhibitor: PKC-activated protein phosphatase-1 inhibitor; InterPro: IPR008025 Contractility of vascular smooth muscle depends on phosphorylation of myosin light chains, and is modulated by hormonal control of myosin phosphatase activity. Signaling pathways activate kinases such as PKC or Rho-dependent kinases that phosphorylate the myosin phosphatase inhibitor protein called CPI-17. Phosphorylation of CPI-17 at Thr-38 enhances its inhibitory potency 1000-fold, creating a molecular switch for regulating contraction [].; GO: 0042325 regulation of phosphorylation, 0005737 cytoplasm; PDB: 2RLT_A 1J2M_A 1K5O_A 1J2N_A.
Probab=21.56 E-value=28 Score=28.04 Aligned_cols=14 Identities=36% Similarity=0.883 Sum_probs=10.5
Q ss_pred cCCchHhhCCChHH
Q psy2143 60 GVDLDQLLDMPTEQ 73 (149)
Q Consensus 60 G~~leeL~~Ms~ee 73 (149)
-+|+|+|++|+.||
T Consensus 73 EIDIDeLLDl~sde 86 (144)
T PF05361_consen 73 EIDIDELLDLESDE 86 (144)
T ss_dssp SSHHHHHHCTSSTT
T ss_pred cccHHHHhcCCchH
Confidence 35788888888776
No 63
>cd00166 SAM Sterile alpha motif.; Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerization.
Probab=21.39 E-value=63 Score=19.79 Aligned_cols=19 Identities=47% Similarity=0.613 Sum_probs=15.0
Q ss_pred ecCCchHhhCCChHHHHHH
Q psy2143 59 RGVDLDQLLDMPTEQLMEL 77 (149)
Q Consensus 59 RG~~leeL~~Ms~eel~~L 77 (149)
.|++.+.|+.|+.++|.++
T Consensus 26 ~~i~g~~L~~l~~~dL~~l 44 (63)
T cd00166 26 NGIDGDLLLLLTEEDLKEL 44 (63)
T ss_pred cCCCHHHHhHCCHHHHHHc
Confidence 3678899999999887644
Done!