Query 020590
Match_columns 324
No_of_seqs 191 out of 1387
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 03:36:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020590.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020590hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3760 Uncharacterized conser 100.0 8.2E-34 1.8E-38 244.6 14.2 164 1-166 1-164 (164)
2 cd04335 PrdX_deacylase This CD 100.0 3.9E-33 8.5E-38 242.1 18.2 155 6-162 2-156 (156)
3 PRK10670 hypothetical protein; 100.0 1.3E-29 2.9E-34 222.5 17.0 149 7-166 3-157 (159)
4 TIGR00011 YbaK_EbsC ybaK/ebsC 100.0 1.5E-29 3.2E-34 218.8 16.9 148 7-165 2-152 (152)
5 cd04336 YeaK YeaK is an unchar 100.0 3.2E-29 7E-34 216.1 18.0 149 6-165 2-153 (153)
6 cd00002 YbaK_deacylase This CD 100.0 5.8E-28 1.3E-32 209.1 16.4 148 6-164 2-152 (152)
7 cd04333 ProX_deacylase This CD 100.0 2.7E-27 5.8E-32 203.9 17.4 140 6-153 2-142 (148)
8 PF04073 tRNA_edit: Aminoacyl- 99.9 9.2E-27 2E-31 194.1 14.4 122 24-151 1-123 (123)
9 COG2606 EbsC Uncharacterized c 99.9 1.8E-24 3.9E-29 190.0 15.5 141 8-154 4-147 (155)
10 cd04332 YbaK_like YbaK-like. 99.9 4.5E-24 9.7E-29 178.7 14.3 130 18-153 1-131 (136)
11 cd04939 PA2301 PA2301 is an un 99.9 2.9E-23 6.3E-28 179.3 14.1 128 21-154 4-136 (139)
12 cd04334 ProRS-INS INS is an am 99.9 5.3E-22 1.1E-26 173.2 12.7 118 17-141 25-143 (160)
13 PRK09194 prolyl-tRNA synthetas 99.7 9.2E-16 2E-20 158.4 13.5 114 21-141 252-365 (565)
14 TIGR00409 proS_fam_II prolyl-t 99.2 6.1E-11 1.3E-15 123.1 11.5 117 18-139 250-368 (568)
15 PRK09570 rpoH DNA-directed RNA 54.6 10 0.00022 30.3 2.2 44 3-48 18-61 (79)
16 PF01191 RNA_pol_Rpb5_C: RNA p 42.2 11 0.00025 29.6 0.7 44 3-48 15-58 (74)
17 KOG3857 Alcohol dehydrogenase, 42.1 97 0.0021 31.6 7.3 82 5-108 87-173 (465)
18 PRK13169 DNA replication intia 34.1 61 0.0013 27.3 3.9 14 294-312 72-85 (110)
19 PRK14563 ribosome modulation f 29.6 16 0.00034 27.3 -0.2 21 303-323 10-31 (55)
20 cd02977 ArsC_family Arsenate R 29.5 96 0.0021 24.7 4.3 35 5-39 12-47 (105)
21 COG2012 RPB5 DNA-directed RNA 28.7 58 0.0013 26.1 2.7 43 3-47 21-63 (80)
22 PF03960 ArsC: ArsC family; I 26.4 80 0.0017 25.6 3.4 40 5-44 9-52 (110)
23 cd03028 GRX_PICOT_like Glutare 25.9 94 0.002 24.2 3.6 47 121-167 2-48 (90)
24 COG2875 CobM Precorrin-4 methy 25.5 1.2E+02 0.0026 29.2 4.7 45 9-55 96-142 (254)
25 TIGR02190 GlrX-dom Glutaredoxi 25.4 1.5E+02 0.0033 22.3 4.6 22 5-26 21-42 (79)
26 TIGR02194 GlrX_NrdH Glutaredox 25.3 1.3E+02 0.0028 22.2 4.0 21 5-25 12-32 (72)
27 COG1393 ArsC Arsenate reductas 24.8 1.4E+02 0.003 25.2 4.5 33 5-37 14-47 (117)
28 PLN03111 DNA-directed RNA poly 24.8 60 0.0013 30.4 2.5 44 3-48 147-190 (206)
29 cd03035 ArsC_Yffb Arsenate Red 24.1 1.5E+02 0.0033 24.1 4.6 33 5-37 12-45 (105)
30 PF04957 RMF: Ribosome modulat 23.9 18 0.00039 27.0 -0.9 21 303-323 10-31 (55)
31 PTZ00061 DNA-directed RNA poly 23.2 65 0.0014 30.1 2.4 44 3-48 146-189 (205)
32 cd03029 GRX_hybridPRX5 Glutare 22.7 1.9E+02 0.0041 21.1 4.5 22 5-26 14-35 (72)
33 cd03033 ArsC_15kD Arsenate Red 22.3 1.6E+02 0.0034 24.4 4.4 33 5-37 13-46 (113)
34 cd03027 GRX_DEP Glutaredoxin ( 22.2 1E+02 0.0022 22.7 3.0 21 5-25 14-34 (73)
35 PRK10329 glutaredoxin-like pro 21.9 98 0.0021 23.9 2.9 21 5-25 14-34 (81)
36 TIGR01616 nitro_assoc nitrogen 21.9 1.7E+02 0.0037 24.8 4.6 33 5-37 14-47 (126)
37 cd03032 ArsC_Spx Arsenate Redu 20.3 1.8E+02 0.004 23.7 4.4 33 5-37 13-46 (115)
38 PF08671 SinI: Anti-repressor 20.1 84 0.0018 20.6 1.8 14 1-14 15-28 (30)
No 1
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=8.2e-34 Score=244.62 Aligned_cols=164 Identities=38% Similarity=0.634 Sum_probs=160.6
Q ss_pred CCCcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCC
Q 020590 1 MAYSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLG 80 (324)
Q Consensus 1 M~ms~~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~k 80 (324)
|.++.+.+.++|+++||++..++|||+.|++|...+.+..++..+|||||++++++|||+.+.++..+|++.+.+.+|.+
T Consensus 1 ~~kt~~el~~lL~eLgI~~~tveHppv~tveEs~~~~~eipgghtKnLfLkdkK~q~~lv~~~e~~~vDLk~ih~~IG~~ 80 (164)
T COG3760 1 MMKTEAELFALLDELGIDHTTVEHPPVFTVEESQALRDEIPGGHTKNLFLKDKKDQFFLVTVDEDAVVDLKSIHETIGAA 80 (164)
T ss_pred CCCCHHHHHHHHHHhCCCcccccCCCceehHHHHHHHhhcCCCccceeEeecCCCCEEEEEecccceecHHHHHHHhcee
Confidence 67889999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCccccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhhcCCCCE
Q 020590 81 KGGLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPA 160 (324)
Q Consensus 81 r~~Lr~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~ 160 (324)
+++|.++|.+++++|+.||+|++||+.||.+++|.+|+|+.++..+.|.|||.+|++|..|..+||.+|+++.||+|.
T Consensus 81 --RlsFg~~E~l~E~LGv~pG~VT~Fglindt~~rv~ivlD~~l~~~~~infHPl~N~aTt~ia~~dl~~fL~atGhep~ 158 (164)
T COG3760 81 --RLSFGSPERLMEYLGVIPGSVTVFGLINDTENRVKIVLDQALMDDDLINFHPLSNTATTSIASADLIRFLEATGHEPR 158 (164)
T ss_pred --eeecCCHHHHHHHhCCCcCceeEeeeecCccceEEEEEhHhhhhccccccccCCCccceeehHHHHHHHHHHcCCCce
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEccC
Q 020590 161 YVDLEA 166 (324)
Q Consensus 161 ~VD~s~ 166 (324)
++|+++
T Consensus 159 il~~~~ 164 (164)
T COG3760 159 ILDVSA 164 (164)
T ss_pred eeeccC
Confidence 999975
No 2
>cd04335 PrdX_deacylase This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the YbaK and ProX proteins, and the prolyl-tRNA synthetase-editing domain (ProRS-INS), specifically hydrolyzes Ala-tRNA(Pro). In this CD, many of the eukaryotic editing domains are N-terminal and cis-acting, expressed from a multidomain ProRS, however, similar to the bacterial PrdX, the mammalian, amphibian, and echinoderm PrdX-like proteins are trans-acting, single-domain proteins.
Probab=100.00 E-value=3.9e-33 Score=242.06 Aligned_cols=155 Identities=49% Similarity=0.778 Sum_probs=148.3
Q ss_pred HHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCccc
Q 020590 6 DQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLR 85 (324)
Q Consensus 6 ~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~Lr 85 (324)
++++++|+++||+|+.++||++.|++++++++++++++++|||+|++++++++++++|||+++|+++|++.+|.+ +++
T Consensus 2 ~~~~~~L~~~~i~~~~~~~~~~~t~e~~a~~~~~~~~~~~Ktlv~~~~~~~~vlv~~~gd~~vn~~kl~~~lg~~--~l~ 79 (156)
T cd04335 2 DELLALLDELGIAYETVEHPPVFTVEEADEVLGELPGAHTKNLFLKDKKGRLYLVTALHDKKVDLKALSKQLGAS--RLS 79 (156)
T ss_pred hHHHHHHHHCCCceEEEecCCcCCHHHHHHhhccCCCceEEEEEEEcCCCCEEEEEEcCCcccCHHHHHHHhCCC--Ccc
Confidence 679999999999999999999999999999999999999999999987668999999999999999999999986 799
Q ss_pred cCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhhcCCCCEEE
Q 020590 86 MAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYV 162 (324)
Q Consensus 86 ~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~~V 162 (324)
||++|++.+++|+.+|+|+|||+.++..+++++|+|+++...+.+|||||+++.++.|+++||.+++++.|+.+.+|
T Consensus 80 ~a~~ee~~~~~g~~~G~v~P~gl~~~~~~~v~i~iD~~l~~~~~v~~~~G~~~~~~~i~~~dl~~~~~~~~~~~~~~ 156 (156)
T cd04335 80 FASEERLEEKLGVTPGSVTPFALINDKENDVQVVLDKDLLEEERVGFHPLTNTATVGISTEDLLKFLEATGHEPTVV 156 (156)
T ss_pred cCCHHHHHHHHCCCCceeCcceeccCCCCceEEEEChHHhcCCeEEEeCCCCceEEEEcHHHHHHHHHHcCCCceEC
Confidence 99999999999999999999999877667899999999999999999999999999999999999999999998875
No 3
>PRK10670 hypothetical protein; Provisional
Probab=99.97 E-value=1.3e-29 Score=222.50 Aligned_cols=149 Identities=17% Similarity=0.281 Sum_probs=137.8
Q ss_pred HHHHHHHhCCCCeEE--EEcCCCCC--HHHHHHHhCCCCCceeeEEEEEecCC--cEEEEEEcCCCCCCHHHHHHHhCCC
Q 020590 7 QLLARLKDLQIEFSQ--YEHPAVMT--VEAQAKYVGNIGGGLSKNLFLKDKKH--RFYIVSALADTKVDMKVLSQRLGLG 80 (324)
Q Consensus 7 ~v~~~L~~lgI~ye~--veHp~~~T--ieeaAk~lg~~~~~i~KtLvLk~kkg--~~vLVvv~gD~kVDlkKL~k~LG~k 80 (324)
.+.++|++.+|+|+. ++|++..| .+++|+++|+++.+++|||+++.+++ +++++++|||+++|++|+++.+|.+
T Consensus 3 ~~~~~L~~~~i~y~~~~~~h~~~~~~~~~~~a~~lgv~~~~i~Ktlv~~~~~~~~~~vl~v~~gd~~ld~~kl~~~lg~~ 82 (159)
T PRK10670 3 PAVKLLEKNKISFTLHTYEHDPAETNFGDEVVRKLGLNADQVYKTLLVAVNGDMKHLAVAVTPVAGQLDLKKVAKALGAK 82 (159)
T ss_pred HHHHHHHHCCCCeEEEeeccCCcccchHHHHHHHhCCCHHHeEEEEEEEecCCCceEEEEEEECCceeCHHHHHHHhCCC
Confidence 589999999999998 77987764 49999999999999999999987542 4999999999999999999999986
Q ss_pred CCccccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhhcCCCCE
Q 020590 81 KGGLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPA 160 (324)
Q Consensus 81 r~~Lr~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~ 160 (324)
+++||++|++.+++||.+|+|||||+.+ ++++|+|+++..++.+|+++|.++.++.|+++||.++++ ..
T Consensus 83 --~~~~a~~eev~~~tG~~~G~v~P~Gl~~----~v~v~vD~~l~~~~~i~~~aG~~~~~~~i~~~dl~~l~~-----~~ 151 (159)
T PRK10670 83 --KVEMADPMVAQRSTGYLVGGISPLGQKK----RLPTVIDAPAQEFATIYVSGGKRGLDIELAAGDLAKLLD-----AK 151 (159)
T ss_pred --CcccCCHHHHHHhhCCccceECccCCCC----CCeEEEehHHhcCCEEEEcCCCCCcEEEECHHHHHHHhC-----CE
Confidence 7999999999999999999999999873 699999999999999999999999999999999999987 67
Q ss_pred EEEccC
Q 020590 161 YVDLEA 166 (324)
Q Consensus 161 ~VD~s~ 166 (324)
|+||+.
T Consensus 152 ~~di~~ 157 (159)
T PRK10670 152 FADIAR 157 (159)
T ss_pred EEEEEe
Confidence 999974
No 4
>TIGR00011 YbaK_EbsC ybaK/ebsC protein. This model represents the YbaK family, bacterial proteins whose full length sequence is homologous to an insertion domain in proline--tRNA ligases. The domain deacylates mischarged tRNAs. The YbaK protein of Haemophilus influenzae (HI1434), although still considered undefined in its role in vivo, likewise deacylates Ala-tRNA(Pro), but not the correctly charged Pro-tRNA(Pro). A crystallographic study of HI1434 suggests a nucleotide binding function. Previously, a member of this family was described as EbsC and was thought to be involved in cell wall metabolism.
Probab=99.97 E-value=1.5e-29 Score=218.82 Aligned_cols=148 Identities=19% Similarity=0.246 Sum_probs=138.4
Q ss_pred HHHHHHHhCCCCeEEEEcCCC---CCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCc
Q 020590 7 QLLARLKDLQIEFSQYEHPAV---MTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGG 83 (324)
Q Consensus 7 ~v~~~L~~lgI~ye~veHp~~---~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~ 83 (324)
.+.++|+++||+|++++|++. .|++++++.+|+++++++|+|+|++++++++++++|+|+++|++++++++|.+ +
T Consensus 2 ~~~~~L~~~~i~~~~~~~~~~~~~~t~~e~a~~~g~~~~~~~Ktlv~~~~~~~~~lv~~~gd~~ld~~kl~~~lg~~--~ 79 (152)
T TIGR00011 2 NAIRLLDKAKIEYEVHEYEVDPDHLDGESAAEKLGVDPHRVFKTLVAEGDKKGPVVAVIPGDEELDLKKLAKASGGK--K 79 (152)
T ss_pred HHHHHHHHcCCCcEEEEecCCCCcccHHHHHHHhCCCHHHeEEEEEEEcCCCcEEEEEEECCceeCHHHHHHHhCCC--C
Confidence 588999999999999999975 48899999999999999999999997668999999999999999999999976 6
Q ss_pred cccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhhcCCCCEEEE
Q 020590 84 LRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYVD 163 (324)
Q Consensus 84 Lr~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~~VD 163 (324)
++||+++++.+++|+.+|+|+|||+. .++++|+|+++.+.+.+|+|+|+++.++.|+++||.++++ +.|+|
T Consensus 80 ~~~a~~ee~~~~~g~~~G~v~P~g~~----~~~~vivD~~l~~~~~~~~~~g~~~~~~~i~~~dl~~~~~-----~~~~~ 150 (152)
T TIGR00011 80 AEMADPKDAEKVTGYIRGGISPIGQK----KKFPTYIDESAKQLETIYVSGGKRGLQIELAPDDLIRLLD-----GTFAD 150 (152)
T ss_pred cccCCHHHHHHhcCCcccccCCCCcC----CCccEEEehHHhcCCEEEEecCCCCcEEEECHHHHHHHhC-----CEEEe
Confidence 99999999999999999999999986 4699999999999999999999999999999999999987 77887
Q ss_pred cc
Q 020590 164 LE 165 (324)
Q Consensus 164 ~s 165 (324)
+|
T Consensus 151 i~ 152 (152)
T TIGR00011 151 IA 152 (152)
T ss_pred cC
Confidence 75
No 5
>cd04336 YeaK YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.
Probab=99.97 E-value=3.2e-29 Score=216.14 Aligned_cols=149 Identities=26% Similarity=0.337 Sum_probs=139.6
Q ss_pred HHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCC--cEEEEEEcCCCCCCHHHHHHHhCCCCCc
Q 020590 6 DQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKH--RFYIVSALADTKVDMKVLSQRLGLGKGG 83 (324)
Q Consensus 6 ~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtLvLk~kkg--~~vLVvv~gD~kVDlkKL~k~LG~kr~~ 83 (324)
++++++|+++||+|+.++||+..|++++++.+|+++++++|+++|+++++ +++++++|+|+++|++++++.+|.+ +
T Consensus 2 ~~v~~~L~~~~i~y~~~~~~~~~t~~~~a~~~~~~~~~~~Ktll~~~~~~~~~~vlvv~~~~~~v~~~kl~~~~g~~--~ 79 (153)
T cd04336 2 ERLQELLNTNGARFRVLDHPPEGTSEEVAAIRGTELGQGAKALLCKVKDGSRRFVLAVLPADKKLDLKAVAAAVGGK--K 79 (153)
T ss_pred HHHHHHHHHCCCCEEEEecCCCCCHHHHHHHhCCCcccceEEEEEEecCCCceEEEEEEeCccccCHHHHHHHhCCC--c
Confidence 57999999999999999999999999999999999999999999999765 7999999999999999999999976 6
Q ss_pred cccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEeccccc-CCeEEEecCCCcceEEecHHHHHHHHhhcCCCCEEE
Q 020590 84 LRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKA-QERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYV 162 (324)
Q Consensus 84 Lr~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~-~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~~V 162 (324)
+++|+++++++++|+.+|+|+|||+.+ ++++|+|.++.+ .+.||+|+|+++.++.|+++||.++++ +.++
T Consensus 80 l~~a~~~~l~~~~g~~~G~v~P~gl~~----~v~~~iD~~l~~~~~~v~~~~G~~~~~l~i~~~dl~~~~~-----~~~~ 150 (153)
T cd04336 80 ADLASPEEAEELTGCVIGAVPPFSFDP----KLKLIADPSLLDRGDEIAFNAGRLDASVVLDTADYLRIAR-----PLVL 150 (153)
T ss_pred cccCCHHHHHHHhCCccccCCCCCCCC----CceEEEChHHhccCCEEEEcCCCCCcEEEECHHHHHHHhC-----CEEe
Confidence 999999999999999999999999973 799999999999 889999999999999999999999997 4466
Q ss_pred Ecc
Q 020590 163 DLE 165 (324)
Q Consensus 163 D~s 165 (324)
+|+
T Consensus 151 ~~~ 153 (153)
T cd04336 151 QFT 153 (153)
T ss_pred ccC
Confidence 653
No 6
>cd00002 YbaK_deacylase This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS) inserted (INS) editing domain. The bacterial amino acid trans-editing enzyme YbaK is a deacylase that hydrolyzes cysteinyl-tRNA(Pro)'s mischarged by prolyl-tRNA synthetase. YbaK also hydrolyzes glycyl-tRNA's, alanyl-tRNA's, seryl-tRNA's, and prolyl-tRNA's. YbaK is homologous to the INS domain of prolyl-tRNA synthetase (ProRS) as well as the trans-editing enzyme ProX of Aeropyrum pernix which hydrolyzes alanyl-tRNA's and glycyl-tRNA's.
Probab=99.96 E-value=5.8e-28 Score=209.07 Aligned_cols=148 Identities=18% Similarity=0.261 Sum_probs=136.6
Q ss_pred HHHHHHHHhCCCCeEEEEcCCC---CCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCC
Q 020590 6 DQLLARLKDLQIEFSQYEHPAV---MTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKG 82 (324)
Q Consensus 6 ~~v~~~L~~lgI~ye~veHp~~---~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~ 82 (324)
+.+.++|+++||+|++++|+.. .|++|+++.+|+++++++|+++|+.++++++++++|+|+++|++++++.+|.+
T Consensus 2 ~~~~~~L~~~~i~~~~~~h~~~~~~~t~~e~~~~~~~~~~~~~K~li~~~d~~~~vlv~~~gd~~ld~~kl~~~lg~~-- 79 (152)
T cd00002 2 TPAIRLLDKAKIPYELHEYEHDEDASDGLEAAEKLGLDPEQVFKTLVVEGDKKGLVVAVVPVDEELDLKKLAKALGAK-- 79 (152)
T ss_pred CHHHHHHHHcCCCeEEEeecCCCCcCCHHHHHHHhCCCHHHeEEEEEEEcCCCcEEEEEEECCceeCHHHHHHHhCCC--
Confidence 4689999999999999999743 59999999999999999999999997668999999999999999999999976
Q ss_pred ccccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhhcCCCCEEE
Q 020590 83 GLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYV 162 (324)
Q Consensus 83 ~Lr~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~~V 162 (324)
++++++++++.+++|+.+|+|+|||+. .++++|+|.++.+.+.+|+|+|+++.++.|+++||.++++ ..|+
T Consensus 80 ~l~~a~~ee~~~~~g~~~G~v~P~~l~----~~v~~liD~~l~~~~~~~~~ag~~~~~l~i~~~~l~~~~~-----~~~~ 150 (152)
T cd00002 80 KVEMAPPKDAERLTGYIRGGISPLGQK----KRLPTVIDESALDLDTIYVSAGKRGLQIELAPQDLAKLTG-----AKFA 150 (152)
T ss_pred CcccCCHHHHHHhcCCcccccCccCcC----CCccEEEehHHhcCCEEEEeCCCCCcEEEECHHHHHHHhC-----CEEe
Confidence 799999999999999999999999996 3799999999999999999999999999999999999987 4566
Q ss_pred Ec
Q 020590 163 DL 164 (324)
Q Consensus 163 D~ 164 (324)
|+
T Consensus 151 ~~ 152 (152)
T cd00002 151 DI 152 (152)
T ss_pred cC
Confidence 53
No 7
>cd04333 ProX_deacylase This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro) deacylase and also the cis-acting prolyl-tRNA synthetase-editing domain (ProRS-INS). While ProX and ProRS-INS hydrolyze misacylated Ala-tRNA(Pro), the E. coli YbaK hydrolyzes misacylated Cys-tRNA(Pro). A few CD members are N-terminal, YbaK-ProX-like domains of an uncharacterized protein with a C-terminal, predicted Fe-S protein domain.
Probab=99.95 E-value=2.7e-27 Score=203.87 Aligned_cols=140 Identities=21% Similarity=0.346 Sum_probs=133.5
Q ss_pred HHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCcc
Q 020590 6 DQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGL 84 (324)
Q Consensus 6 ~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~L 84 (324)
+++.++|++++|.|+.++|| +..|++++++++|.++++++|+++|++++ +++++++|+|+++|++++++.+|. ++
T Consensus 2 ~~~~~~L~~~~i~~~~~~~~~~~~t~~e~a~~~~~~~~~~~K~l~~~~~~-~~~~v~~~~~~~ld~~kl~~~lg~---~l 77 (148)
T cd04333 2 ERVRAFLAARGLDLEVIELPESTRTAALAAEALGCEPGQIAKSLVFRVDD-EPVLVVTSGDARVDNKKFKALFGE---KL 77 (148)
T ss_pred HHHHHHHHHCCCCCeEEECCCCcchHHHHHHHcCCChhHEEEEEEEEECC-cEEEEEEeCCcccCHHHHHHHhCC---Cc
Confidence 57999999999999999999 58999999999999999999999999965 799999999999999999999996 59
Q ss_pred ccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHh
Q 020590 85 RMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLK 153 (324)
Q Consensus 85 r~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~ 153 (324)
++|+++++.+++|+.+|+|+|||+.. ++++|+|+++...+.+|+++|+++.++.|+++||.+++.
T Consensus 78 ~~a~~~~~~~~~g~~~G~v~P~gl~~----~v~v~vD~~l~~~~~i~~~~g~~~~~~~i~~~dl~~~~~ 142 (148)
T cd04333 78 KMADAEEVRELTGFAIGGVCPFGHPE----PLPVYLDESLKRFDEVWAAAGTPNAAFRLTPDELERLTG 142 (148)
T ss_pred eeCCHHHHHHHHCCCCCcCCCCCCCC----CCeEEEehhHhhCCeEEEcCCCCCcEEEECHHHHHHHhC
Confidence 99999999999999999999999973 699999999999999999999999999999999999987
No 8
>PF04073 tRNA_edit: Aminoacyl-tRNA editing domain; InterPro: IPR007214 This domain of unknown function is found in numerous prokaryote organisms. The structure of YbaK shows a novel fold. This domain also occurs in a number of prolyl-tRNA synthetases (proRS) from prokaryotes. Thus, the domain is thought to be involved in oligonucleotide binding, with possible roles in recognition/discrimination or editing of prolyl-tRNA [].; PDB: 3MEM_A 2J3L_A 2J3M_A 1WDV_B 2Z0X_A 2Z0K_A 2CX5_C 1DBX_B 1DBU_A 1VJF_A ....
Probab=99.95 E-value=9.2e-27 Score=194.08 Aligned_cols=122 Identities=31% Similarity=0.483 Sum_probs=113.2
Q ss_pred cCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCccccCCHHHHHHhcCCCcccc
Q 020590 24 HPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEILKVPLGSV 103 (324)
Q Consensus 24 Hp~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~Lr~AseEeL~e~lG~~pG~V 103 (324)
||++.|++++++++|+++.+++||++|++++++++++++++|+++|+++|++++|.+ +++||++|++.++||+.+|+|
T Consensus 1 h~~~~t~~~~a~~~~~~~~~~~Ktlv~~~~~~~~~lv~~~~d~~ld~~kl~~~~g~~--~l~~a~~e~~~~~~g~~~G~v 78 (123)
T PF04073_consen 1 HPPTRTIEDAAKALGVPPEQIVKTLVLKDKKGRPVLVVLPGDHRLDLKKLAKALGAR--RLRLASPEELEELTGYEPGGV 78 (123)
T ss_dssp ETTTSSHHHHHHHHTCSGGGEEEEEEEEETTTEEEEEEEETTSEB-HHHHHHHHT-S--SEEE-HHHHHHHHHSSTTTS-
T ss_pred CcCCCcHHHHHHHcCCCHHHEEEEEEEEECCCCEEEEEECCCCEecHHHHhcccccc--chhhccHHHhhhccCCCccee
Confidence 899999999999999999999999999997788999999999999999999999986 799999999999999999999
Q ss_pred CCCcc-cCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHH
Q 020590 104 TPFAL-VNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKF 151 (324)
Q Consensus 104 sPfGL-~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~ 151 (324)
+|||+ . .++++|+|+++.+.+.+|+|+|.++.++.|+.+||++|
T Consensus 79 ~P~g~~~----~~~~vvvD~~l~~~~~v~~~~g~~~~~l~~~~~dl~~l 123 (123)
T PF04073_consen 79 SPFGLPP----KGVPVVVDESLLELDNVYFGAGEPGSHLEISNEDLRKL 123 (123)
T ss_dssp -SSGGGS----TTEEEEEEGGGGGSSEEEEECSSTTEEEEEEHHHHHHH
T ss_pred ccccccc----CccEEEEEHHHcCCCcEEEeCCCCCeEEEEChHHhccC
Confidence 99999 6 48999999999999999999999999999999999986
No 9
>COG2606 EbsC Uncharacterized conserved protein [Function unknown]
Probab=99.92 E-value=1.8e-24 Score=189.97 Aligned_cols=141 Identities=22% Similarity=0.323 Sum_probs=130.1
Q ss_pred HHHHHHhCCCCeEE--EEc-CCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCcc
Q 020590 8 LLARLKDLQIEFSQ--YEH-PAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGL 84 (324)
Q Consensus 8 v~~~L~~lgI~ye~--veH-p~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~L 84 (324)
..+.|..++|.|+. |++ +...|.+++++.+|+++++++|||+++.++++++++|+|+++++|+++|++.+|.+ ++
T Consensus 4 a~~~l~~~~~~~~~~~~~~~~~~~~~~~aae~~g~~~~~i~KTLvl~~~~~~~~~~V~p~~~~Ldlkkla~~~G~k--k~ 81 (155)
T COG2606 4 AVRLLDKAKIAFEVHVYELDPSALTGAEAAEALGVDPAQVAKTLVLAVDKGGPALAVVPGDQRLDLKKLAKALGAK--KA 81 (155)
T ss_pred HHHHHHHhcCCCceeEEEecCCcccHHHHHHHhCCCHHHeeEEEEEEcCCCCEEEEEEeCcCccCHHHHHHHhCCc--cc
Confidence 56778888888877 334 35567999999999999999999999998778999999999999999999999997 79
Q ss_pred ccCCHHHHHHhcCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhh
Q 020590 85 RMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKS 154 (324)
Q Consensus 85 r~AseEeL~e~lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s 154 (324)
.|++++++++.|||..|+|||||+. +.+++|+|++++++++|++++|.++..|.|+++||.+++.+
T Consensus 82 ~ma~~~~v~~~TGy~vGGv~P~G~~----~~~p~~iD~s~~~~~~I~~~aG~rg~~v~lap~dl~~l~~~ 147 (155)
T COG2606 82 EMADPEEVQRLTGYVVGGVSPFGQK----KRLPTYIDESALRFDTIYVSAGKRGLLVELAPQDLAELLGA 147 (155)
T ss_pred ccCCHHHHHHHhCCcccCcCCCCcC----CCCCEEEehhhhcCCeEEecCCCcCceEEECHHHHHHhhcc
Confidence 9999999999999999999999998 48999999999999999999999999999999999999873
No 10
>cd04332 YbaK_like YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express an INS homolog in trans (e.g. YbaK, ProX, or PrdX).
Probab=99.92 E-value=4.5e-24 Score=178.73 Aligned_cols=130 Identities=31% Similarity=0.476 Sum_probs=122.8
Q ss_pred CeEEEEcCCC-CCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCccccCCHHHHHHhc
Q 020590 18 EFSQYEHPAV-MTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEIL 96 (324)
Q Consensus 18 ~ye~veHp~~-~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~Lr~AseEeL~e~l 96 (324)
+|.++.|++. .|++++++.++.++++++|+++|++++++++++++|+|+++|+++|++.+|.+ ++++|+++++.+++
T Consensus 1 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~K~l~l~~~~~~~v~v~~~~d~~~d~~~l~~~~g~~--~l~~a~~~~~~~~~ 78 (136)
T cd04332 1 EYLEYEHTPGAKTIEEAAEALGVPPGQIAKTLVLKDDKGGLVLVVVPGDHELDLKKLAKALGAK--KLRLASEEELEELT 78 (136)
T ss_pred CcEEEecCCCCCCHHHHHHHcCCCHHHeEEEEEEEcCCCcEEEEEEecccccCHHHHHHHhCCC--CeeeCCHHHHHHHh
Confidence 4678889877 99999999999999999999999997667999999999999999999999986 79999999999999
Q ss_pred CCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHh
Q 020590 97 KVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLK 153 (324)
Q Consensus 97 G~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~ 153 (324)
|+.+|+|+|||+.. ++++|+|+++...+.+++|+|.++.++.|+.+||.+++.
T Consensus 79 g~~~G~v~P~~~~~----~v~~~iD~~l~~~~~~~~~~g~~~~~~~i~~~~l~~~~~ 131 (136)
T cd04332 79 GCEPGGVGPFGLKK----GVPVVVDESLLELEDVYVGAGERGADLHLSPADLLRLLG 131 (136)
T ss_pred CCCcCccCccccCC----CCcEEEehHHhhCCeEEEcCCCcCcEEEECHHHHHHHhc
Confidence 99999999999973 799999999999999999999999999999999999886
No 11
>cd04939 PA2301 PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.
Probab=99.90 E-value=2.9e-23 Score=179.31 Aligned_cols=128 Identities=19% Similarity=0.242 Sum_probs=114.3
Q ss_pred EEEcCC-CCCHHHHHHHhCCCCCceeeEEEEEecC---CcEEEEEEcCCCCCCHHH-HHHHhCCCCCccccCCHHHHHHh
Q 020590 21 QYEHPA-VMTVEAQAKYVGNIGGGLSKNLFLKDKK---HRFYIVSALADTKVDMKV-LSQRLGLGKGGLRMAPEETMLEI 95 (324)
Q Consensus 21 ~veHp~-~~TieeaAk~lg~~~~~i~KtLvLk~kk---g~~vLVvv~gD~kVDlkK-L~k~LG~kr~~Lr~AseEeL~e~ 95 (324)
.|+|.+ .....++|+.+|+++++++|||+++.+. .+++++++++|+++|+++ +++.+|.+ +++|++++++++.
T Consensus 4 ~y~~~~~~~~~~~~A~~lG~~~~~i~KTLv~~~~~~~~~~~~v~vv~gd~~ldlkk~~~~~~g~k--k~~ma~~~ev~~~ 81 (139)
T cd04939 4 VFAIDPELADTAAFCARYGFGLEDSANCVVVAGKRGGEERYAACVVLATTRADVNGVVKRRLGAR--KASFAPMETAVEL 81 (139)
T ss_pred EEecCCCcccHHHHHHHhCCCHHHeEEEEEEEeecCCCccEEEEEEECccccCHHHHHHHHhCCC--CcccCCHHHHHHh
Confidence 466764 3456777889999999999999998642 268999999999999875 77999987 6999999999999
Q ss_pred cCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceEEecHHHHHHHHhh
Q 020590 96 LKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKS 154 (324)
Q Consensus 96 lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s 154 (324)
|||.+|+|||||+. +.+++|+|+++++++.||+++|..+.++.|+++||.+++++
T Consensus 82 TGy~~GGvsP~G~~----~~~pv~iD~sl~~~~~v~~saG~~~~~~~l~p~~L~~~~~a 136 (139)
T cd04939 82 TGMEYGGITPVGLP----AGWPILVDSAVAERPAVVIGSGVRRSKLLLPGAALAELPGA 136 (139)
T ss_pred hCCCCccCCcCCcC----CCCCEEEehHHhcCCEEEECCCCCCcEEEECHHHHHHHhCC
Confidence 99999999999998 47999999999999999999999999999999999999864
No 12
>cd04334 ProRS-INS INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-celled parasites. ProRS catalyzes the attachment of proline to tRNA(Pro); proline is first activated by ATP, and then transferred to the acceptor end of tRNA(Pro). ProRS can inadvertently process noncognate amino acids such as alanine and cysteine, and to avoid such errors, in post-transfer editing, the INS domain deacylates mischarged Ala-tRNA(Pro), thus ensuring the fidelity of translation. Misacylated Cys-tRNA(Pro) is not edited by ProRS. In addition to the INS editing domain, the prokaryote-like ProRS protein contains catalytic and anticodon-binding domains which form a dimeric interface.
Probab=99.88 E-value=5.3e-22 Score=173.18 Aligned_cols=118 Identities=20% Similarity=0.295 Sum_probs=111.4
Q ss_pred CCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecC-CcEEEEEEcCCCCCCHHHHHHHhCCCCCccccCCHHHHHHh
Q 020590 17 IEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKK-HRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEI 95 (324)
Q Consensus 17 I~ye~veHp~~~TieeaAk~lg~~~~~i~KtLvLk~kk-g~~vLVvv~gD~kVDlkKL~k~LG~kr~~Lr~AseEeL~e~ 95 (324)
..|+.++||++.|++++++.+|++.++++|+|+|++++ ++++++++|+|+++|+++|++++|.+ +++||+++++.+.
T Consensus 25 ~~~~~v~hp~~~t~~~~a~~~~~~~~~~~K~l~~~~~~~~~~~l~~~~~d~~vd~~kl~~~~g~~--~l~~a~~eel~~~ 102 (160)
T cd04334 25 KELEKVATPGQKTIEELAEFLGVPPSQTVKTLLVKADGEEELVAVLLRGDHELNEVKLENLLGAA--PLELASEEEIEAA 102 (160)
T ss_pred cCCeEEcCcCCCCHHHHHHHhCcCHHHeEEEEEEEECCCCCEEEEEecCCchhCHHHHHHhcCCC--cceeCCHHHHHHh
Confidence 78999999999999999999999999999999999875 57999999999999999999999986 7999999999999
Q ss_pred cCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceE
Q 020590 96 LKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSI 141 (324)
Q Consensus 96 lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl 141 (324)
+|+.+|+|+|||+. ++++|+|+++...+.+++++|..+..+
T Consensus 103 ~g~~~G~v~P~gl~-----~v~~~iD~~l~~~~~~~~ga~~~~~~~ 143 (160)
T cd04334 103 TGAPPGFIGPVGLK-----KIPIIADRSVADLKNFVCGANEDDYHY 143 (160)
T ss_pred hCCCCCEECCcCCC-----CCeEEEehHHhcCCCEEEcCCCCCcEE
Confidence 99999999999996 599999999999999999999888765
No 13
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=99.65 E-value=9.2e-16 Score=158.36 Aligned_cols=114 Identities=21% Similarity=0.293 Sum_probs=105.6
Q ss_pred EEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEcCCCCCCHHHHHHHhCCCCCccccCCHHHHHHhcCCCc
Q 020590 21 QYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEILKVPL 100 (324)
Q Consensus 21 ~veHp~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~vLVvv~gD~kVDlkKL~k~LG~kr~~Lr~AseEeL~e~lG~~p 100 (324)
.++||+..|++++++.+|.++++++|||++++++ +++++++|+|++||+++|++.+|.. ++++++++++.+.+|+.+
T Consensus 252 ~v~~p~~~t~~e~a~~lg~~~~~~~KtLi~~~~~-~~~lvvvp~d~~vn~~kl~~~lg~~--~l~~a~~eel~~~~g~~~ 328 (565)
T PRK09194 252 KVDTPNAKTIEELAEFLNVPAEKTVKTLLVKADG-ELVAVLVRGDHELNEVKLENLLGAA--PLELATEEEIRAALGAVP 328 (565)
T ss_pred eecCCCCCcHHHHHHHhCCCHHHeeEEEEEEeCC-eEEEEEeecchhhhHHHHHhhcCCc--ccccCCHHHHHHhhCCCC
Confidence 4578889999999999999999999999999864 7999999999999999999999986 799999999999999999
Q ss_pred cccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcceE
Q 020590 101 GSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSI 141 (324)
Q Consensus 101 G~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~tl 141 (324)
|+|+|||+.+ ++++|+|.++...+.+++++|.++..+
T Consensus 329 G~v~P~Gl~~----~v~viiD~sl~~~~~~~~gan~~g~h~ 365 (565)
T PRK09194 329 GFLGPVGLPK----DVPIIADRSVADMSNFVVGANEDDYHY 365 (565)
T ss_pred CccCcccCCC----CceEEEeccccccccccccCCCCCcee
Confidence 9999999985 799999999999999999988777655
No 14
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=99.22 E-value=6.1e-11 Score=123.08 Aligned_cols=117 Identities=15% Similarity=0.211 Sum_probs=103.6
Q ss_pred CeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCC--cEEEEEEcCCCCCCHHHHHHHhCCCCCccccCCHHHHHHh
Q 020590 18 EFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKH--RFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEI 95 (324)
Q Consensus 18 ~ye~veHp~~~TieeaAk~lg~~~~~i~KtLvLk~kkg--~~vLVvv~gD~kVDlkKL~k~LG~kr~~Lr~AseEeL~e~ 95 (324)
..+.+++|.+.|+++++.++++++.+.+|+++++..++ +++++++|||++||+.|+++.+|... .+++|+++++...
T Consensus 250 ~~~~~~tp~~~ti~~~~~~~~~~~~~~~k~~~~~~~~~~~~~v~v~~rgd~~vn~~k~~~~~g~~~-~~~~a~~~~~~~~ 328 (568)
T TIGR00409 250 ELDKVDTPNTKTIAELVECFNLPAEKVVKTLLVKAVDKSEPLVALLVRGDHELNEVKAPNLLLVAQ-VLELATEEEIFQK 328 (568)
T ss_pred cceeecCCCCCcHHHHHHHhCCCHhHeeeEEEEEecCCccceEEEEecCcchhhHHHHHHHhccCc-ccccCCHHHHHHh
Confidence 34678899999999999999999999999999987432 59999999999999999999985321 4899999999999
Q ss_pred cCCCccccCCCcccCCCCCCeEEEEecccccCCeEEEecCCCcc
Q 020590 96 LKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDM 139 (324)
Q Consensus 96 lG~~pG~VsPfGL~~d~~~~V~VvID~sL~~~~~I~~haG~n~~ 139 (324)
+|..+|+++|+|+. ..+++++|.++.....+.++++..+.
T Consensus 329 ~g~~~g~~gpv~~~----~~~~i~~D~~~~~~~~~~~gan~~~~ 368 (568)
T TIGR00409 329 IASGPGSLGPVNIN----GGIPVLIDQTVALMSDFAAGANADDK 368 (568)
T ss_pred hCCCCCccCccccc----cCceEEechhhhcccccccccCCCCc
Confidence 99999999999987 36899999999999999988887754
No 15
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=54.58 E-value=10 Score=30.27 Aligned_cols=44 Identities=20% Similarity=0.289 Sum_probs=36.9
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 020590 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (324)
Q Consensus 3 ms~~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtL 48 (324)
|+.++..++|++.+|... +-|.+...+-+++++|..+++++|-.
T Consensus 18 Ls~eE~~~lL~~y~i~~~--qLP~I~~~DPv~r~~g~k~GdVvkI~ 61 (79)
T PRK09570 18 LSEEEAKKLLKEYGIKPE--QLPKIKASDPVVKAIGAKPGDVIKIV 61 (79)
T ss_pred CCHHHHHHHHHHcCCCHH--HCCceeccChhhhhcCCCCCCEEEEE
Confidence 578999999999998543 46777888889999999999999854
No 16
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=42.21 E-value=11 Score=29.56 Aligned_cols=44 Identities=23% Similarity=0.418 Sum_probs=32.5
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 020590 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (324)
Q Consensus 3 ms~~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtL 48 (324)
|+.++..++|++++|. ...-|.+...+-+++++|..+|+++|-.
T Consensus 15 ls~eE~~~lL~~y~i~--~~qLP~I~~~DPv~r~~g~k~GdVvkI~ 58 (74)
T PF01191_consen 15 LSEEEKKELLKKYNIK--PEQLPKILSSDPVARYLGAKPGDVVKII 58 (74)
T ss_dssp E-HHHHHHHHHHTT----TTCSSEEETTSHHHHHTT--TTSEEEEE
T ss_pred cCHHHHHHHHHHhCCC--hhhCCcccccChhhhhcCCCCCCEEEEE
Confidence 5688999999999984 3345777777889999999999999954
No 17
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=42.13 E-value=97 Score=31.64 Aligned_cols=82 Identities=21% Similarity=0.276 Sum_probs=54.8
Q ss_pred HHHHHHHHHhCCCCeEEEEc----CCCCCHHHHHHHhCCCCCceeeEEEEEecCCcE-EEEEEcCCCCCCHHHHHHHhCC
Q 020590 5 KDQLLARLKDLQIEFSQYEH----PAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRF-YIVSALADTKVDMKVLSQRLGL 79 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veH----p~~~TieeaAk~lg~~~~~i~KtLvLk~kkg~~-vLVvv~gD~kVDlkKL~k~LG~ 79 (324)
.+.+++.|++.||+|+.|+- |...++-++.+++. +++| .+|.+-|..-.|..|-..++..
T Consensus 87 ~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~~alefak---------------~~~fDs~vaiGGGSa~DtaKaaaL~As 151 (465)
T KOG3857|consen 87 VKVAQDSLEENGINVEVYDKVQPEPTVGSVTAALEFAK---------------KKNFDSFVAIGGGSAHDTAKAAALLAS 151 (465)
T ss_pred HHHHHHHHHHcCCceEEecCccCCCchhhHHHHHHHHH---------------hcccceEEEEcCcchhhhHHHHHHhhc
Confidence 46789999999999999884 33455666666541 2222 5566777788888888877754
Q ss_pred CCCccccCCHHHHHHhcCCCccccCCCcc
Q 020590 80 GKGGLRMAPEETMLEILKVPLGSVTPFAL 108 (324)
Q Consensus 80 kr~~Lr~AseEeL~e~lG~~pG~VsPfGL 108 (324)
. .+-++..+-|++.|-+-+...
T Consensus 152 n-------~~~eflDyvg~pigk~~~~s~ 173 (465)
T KOG3857|consen 152 N-------GEGEFLDYVGPPIGKVKQSSK 173 (465)
T ss_pred C-------CCccchhccCCcccccccccc
Confidence 3 223556666777776665443
No 18
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=34.08 E-value=61 Score=27.33 Aligned_cols=14 Identities=50% Similarity=0.940 Sum_probs=10.3
Q ss_pred hhhHHHHhhcccccccccc
Q 020590 294 LKNLATIFKNTAYTQGFHA 312 (324)
Q Consensus 294 ~~~~~~~~~~~~~~~~~~~ 312 (324)
..||+++ |-+|||-
T Consensus 72 ~~NL~~L-----Y~EGFHI 85 (110)
T PRK13169 72 KDNLARL-----YQEGFHI 85 (110)
T ss_pred HHHHHHH-----HHcCcee
Confidence 3577766 7899984
No 19
>PRK14563 ribosome modulation factor; Provisional
Probab=29.63 E-value=16 Score=27.29 Aligned_cols=21 Identities=38% Similarity=0.785 Sum_probs=16.3
Q ss_pred ccccccccccccc-cccccCCC
Q 020590 303 NTAYTQGFHAGKA-SSLTQCPR 323 (324)
Q Consensus 303 ~~~~~~~~~~~~~-~~~~~~~~ 323 (324)
+.||..||.||.. .....||-
T Consensus 10 ~RA~~rGYqAGv~GrSke~CPy 31 (55)
T PRK14563 10 ERAFSRGYQAGIAGRSKEMCPY 31 (55)
T ss_pred HHHHHHHHhhhccCCCcccCCC
Confidence 4689999999975 45677884
No 20
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=29.53 E-value=96 Score=24.71 Aligned_cols=35 Identities=20% Similarity=0.194 Sum_probs=25.8
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHhCC
Q 020590 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYVGN 39 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~lg~ 39 (324)
..++.++|+++||+|+.++-- ...+.+++.+.++.
T Consensus 12 c~ka~~~L~~~~i~~~~idi~~~~~~~~~l~~~~~~ 47 (105)
T cd02977 12 SRKALAWLEEHGIEYEFIDYLKEPPTKEELKELLAK 47 (105)
T ss_pred HHHHHHHHHHcCCCcEEEeeccCCCCHHHHHHHHHh
Confidence 468899999999999998753 34566666665543
No 21
>COG2012 RPB5 DNA-directed RNA polymerase, subunit H, RpoH/RPB5 [Transcription]
Probab=28.70 E-value=58 Score=26.07 Aligned_cols=43 Identities=28% Similarity=0.327 Sum_probs=34.9
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeE
Q 020590 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKN 47 (324)
Q Consensus 3 ms~~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~Kt 47 (324)
.+.++..+.|++++|.- .+-|.+...+=+|+++|..+|.++|-
T Consensus 21 ls~eE~~~vLk~l~i~~--~qLPkI~~~DPva~~lgak~GdvVkI 63 (80)
T COG2012 21 LSEEEAKEVLKELGIEP--EQLPKIKASDPVAKALGAKPGDVVKI 63 (80)
T ss_pred cCHHHHHHHHHHhCCCH--HHCCcccccChhHHHccCCCCcEEEE
Confidence 45788899999999943 44677777788899999999998874
No 22
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=26.45 E-value=80 Score=25.55 Aligned_cols=40 Identities=18% Similarity=0.157 Sum_probs=24.2
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC-CCCH---HHHHHHhCCCCCce
Q 020590 5 KDQLLARLKDLQIEFSQYEHPA-VMTV---EAQAKYVGNIGGGL 44 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp~-~~Ti---eeaAk~lg~~~~~i 44 (324)
..++.++|+++||+|+.++.-. -.|. .++.+.+|.....+
T Consensus 9 ~rka~~~L~~~gi~~~~~d~~k~p~s~~el~~~l~~~~~~~~~l 52 (110)
T PF03960_consen 9 CRKALKWLEENGIEYEFIDYKKEPLSREELRELLSKLGNGPDDL 52 (110)
T ss_dssp HHHHHHHHHHTT--EEEEETTTS---HHHHHHHHHHHTSSGGGG
T ss_pred HHHHHHHHHHcCCCeEeehhhhCCCCHHHHHHHHHHhcccHHHH
Confidence 4689999999999999988632 2344 44566666544433
No 23
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=25.88 E-value=94 Score=24.23 Aligned_cols=47 Identities=15% Similarity=0.136 Sum_probs=36.6
Q ss_pred ecccccCCeEEEecCCCcceEEecHHHHHHHHhhcCCCCEEEEccCC
Q 020590 121 DKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYVDLEAN 167 (324)
Q Consensus 121 D~sL~~~~~I~~haG~n~~tl~Is~~DL~k~l~s~g~~~~~VD~s~~ 167 (324)
++.+.+.+-+.|.-+..+..-+--.....++|...+..+.++|+...
T Consensus 2 ~~~i~~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~ 48 (90)
T cd03028 2 KKLIKENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILED 48 (90)
T ss_pred hhhhccCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCC
Confidence 44556667777777777777777778889999999999999998653
No 24
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=25.48 E-value=1.2e+02 Score=29.23 Aligned_cols=45 Identities=24% Similarity=0.332 Sum_probs=34.9
Q ss_pred HHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCC--CceeeEEEEEecCC
Q 020590 9 LARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIG--GGLSKNLFLKDKKH 55 (324)
Q Consensus 9 ~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~--~~i~KtLvLk~kkg 55 (324)
.+.|+++||+|+.+ |.+.+...+|..++... -.+..++++.--.+
T Consensus 96 m~~L~~~gI~yevv--PGVss~~AAAA~L~~ELT~P~vsQtvilTR~sg 142 (254)
T COG2875 96 MRELEALGIPYEVV--PGVSSFAAAAAALGIELTVPGVSQTVILTRPSG 142 (254)
T ss_pred HHHHHHcCCCeEEe--CCchHHHHHHHHhCceeecCCcceeEEEEcccc
Confidence 46799999999994 68888899999998853 35778888765333
No 25
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=25.45 E-value=1.5e+02 Score=22.30 Aligned_cols=22 Identities=18% Similarity=0.154 Sum_probs=18.4
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC
Q 020590 5 KDQLLARLKDLQIEFSQYEHPA 26 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp~ 26 (324)
..++.++|+++||+|+.++-..
T Consensus 21 C~~ak~~L~~~gi~y~~idi~~ 42 (79)
T TIGR02190 21 CAKAKATLKEKGYDFEEIPLGN 42 (79)
T ss_pred HHHHHHHHHHcCCCcEEEECCC
Confidence 3679999999999999987543
No 26
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=25.25 E-value=1.3e+02 Score=22.17 Aligned_cols=21 Identities=14% Similarity=0.121 Sum_probs=18.0
Q ss_pred HHHHHHHHHhCCCCeEEEEcC
Q 020590 5 KDQLLARLKDLQIEFSQYEHP 25 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp 25 (324)
...++++|+++||+|+.++-.
T Consensus 12 C~~ak~~L~~~~i~~~~~di~ 32 (72)
T TIGR02194 12 CKMTKKALEEHGIAFEEINID 32 (72)
T ss_pred HHHHHHHHHHCCCceEEEECC
Confidence 467999999999999998754
No 27
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=24.82 E-value=1.4e+02 Score=25.15 Aligned_cols=33 Identities=21% Similarity=0.183 Sum_probs=23.8
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 020590 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~l 37 (324)
..++.+.|+++||+|+.++.- .-.|.++..+.+
T Consensus 14 ~rka~~~L~~~gi~~~~~~y~~~~~s~~eL~~~l 47 (117)
T COG1393 14 CRKALAWLEEHGIEYTFIDYLKTPPSREELKKIL 47 (117)
T ss_pred HHHHHHHHHHcCCCcEEEEeecCCCCHHHHHHHH
Confidence 468999999999999987653 234556655544
No 28
>PLN03111 DNA-directed RNA polymerase II subunit family protein; Provisional
Probab=24.78 E-value=60 Score=30.36 Aligned_cols=44 Identities=18% Similarity=0.323 Sum_probs=36.8
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 020590 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (324)
Q Consensus 3 ms~~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtL 48 (324)
++.++..++|++.+|. ...-|.+...+-+|+++|..+|+++|-.
T Consensus 147 ls~eEk~~lL~~y~i~--~~qLPrI~~~DPvary~g~k~G~vvkI~ 190 (206)
T PLN03111 147 LTDEEKKTLLKRYTVK--ETQLPRIQVSDPIARYYGLKRGQVVKII 190 (206)
T ss_pred cCHHHHHHHHHHcCCC--HHHCCcccccChhhHhcCCCCCCEEEEE
Confidence 5788999999999985 3446778888889999999999999854
No 29
>cd03035 ArsC_Yffb Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine suggest that it is likely to function as a glutathione (GSH)-dependent thiol reductase. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from GSH via glutaredoxin, through a single catalytic cysteine.
Probab=24.13 E-value=1.5e+02 Score=24.11 Aligned_cols=33 Identities=3% Similarity=0.083 Sum_probs=24.3
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 020590 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~l 37 (324)
..++.++|+++||+|+.++.- ...|.++..+.+
T Consensus 12 crka~~~L~~~~i~~~~~di~~~p~s~~eL~~~l 45 (105)
T cd03035 12 VKKARKWLEARGVAYTFHDYRKDGLDAATLERWL 45 (105)
T ss_pred HHHHHHHHHHcCCCeEEEecccCCCCHHHHHHHH
Confidence 467899999999999997753 235666665554
No 30
>PF04957 RMF: Ribosome modulation factor; InterPro: IPR007040 This entry contains ribosome modulation factors (RMF). They associate with 70s ribosomes and converts them to a dimeric form (100S ribosomes) which appear during the transition from the exponential growth phase to the stationary phase of Escherichia colicells [, ]. It has been proposed that RMF mediates the formation of a 'storage ribosome', the 100S particle, in stationary phase by inactivating excess ribosomes to protect them from degradation and to maintain the required balance between the concentrations of ribosomes and protein synthesis factors in order to maintain translational elongation efficiency [, ]. ; PDB: 2JRM_A 3V24_V 3V22_V.
Probab=23.92 E-value=18 Score=26.99 Aligned_cols=21 Identities=38% Similarity=0.798 Sum_probs=14.7
Q ss_pred ccccccccccccc-cccccCCC
Q 020590 303 NTAYTQGFHAGKA-SSLTQCPR 323 (324)
Q Consensus 303 ~~~~~~~~~~~~~-~~~~~~~~ 323 (324)
+.||..||.||.. .....||-
T Consensus 10 ~RA~~~GYqAG~~Grske~CPy 31 (55)
T PF04957_consen 10 ERAYSRGYQAGLSGRSKELCPY 31 (55)
T ss_dssp HHHHHHHHHHHCTTTSGCC--S
T ss_pred HHHHHHHHHhhccCCCcccCCC
Confidence 4689999999964 45678885
No 31
>PTZ00061 DNA-directed RNA polymerase; Provisional
Probab=23.17 E-value=65 Score=30.12 Aligned_cols=44 Identities=20% Similarity=0.409 Sum_probs=36.7
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 020590 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (324)
Q Consensus 3 ms~~~v~~~L~~lgI~ye~veHp~~~TieeaAk~lg~~~~~i~KtL 48 (324)
++.++..++|++.++. ...-|.+...+-+|+++|...|+++|-.
T Consensus 146 Ls~eEk~~lL~~y~i~--~~qLPrI~~~DPvary~g~k~G~vvkI~ 189 (205)
T PTZ00061 146 LTDDEKLNLLQRYKVK--ESQLPRIQSADPVARYFGLSKGQVVKII 189 (205)
T ss_pred cCHHHHHHHHHHhCCC--HHHCCcccccChhhHhcCCCCCCEEEEE
Confidence 5788999999999885 3446778888889999999999999954
No 32
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=22.71 E-value=1.9e+02 Score=21.07 Aligned_cols=22 Identities=14% Similarity=0.111 Sum_probs=18.5
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC
Q 020590 5 KDQLLARLKDLQIEFSQYEHPA 26 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp~ 26 (324)
..+++++|+++||+|+.++-..
T Consensus 14 C~~ak~~L~~~~i~~~~~~v~~ 35 (72)
T cd03029 14 CARAKAALQENGISYEEIPLGK 35 (72)
T ss_pred HHHHHHHHHHcCCCcEEEECCC
Confidence 3678999999999999987653
No 33
>cd03033 ArsC_15kD Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also encodes dinitrogenase reductase ADP-ribosyltransferase (DRAT) and dinitrogenase reductase activating glycohydrolase (DRAG). ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via glutaredoxin, through a single catalytic cysteine.
Probab=22.26 E-value=1.6e+02 Score=24.43 Aligned_cols=33 Identities=15% Similarity=0.048 Sum_probs=23.9
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 020590 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~l 37 (324)
..+..++|+++||+|+.++.- ...|.++....+
T Consensus 13 crkA~~~L~~~gi~~~~~d~~~~p~s~~eL~~~l 46 (113)
T cd03033 13 NARQKALLEAAGHEVEVRDLLTEPWTAETLRPFF 46 (113)
T ss_pred HHHHHHHHHHcCCCcEEeehhcCCCCHHHHHHHH
Confidence 467899999999999997752 234666655554
No 34
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=22.20 E-value=1e+02 Score=22.65 Aligned_cols=21 Identities=5% Similarity=0.064 Sum_probs=18.2
Q ss_pred HHHHHHHHHhCCCCeEEEEcC
Q 020590 5 KDQLLARLKDLQIEFSQYEHP 25 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp 25 (324)
..+++++|+++||+|+.++-.
T Consensus 14 C~ka~~~L~~~gi~~~~~di~ 34 (73)
T cd03027 14 CTAVRLFLREKGLPYVEINID 34 (73)
T ss_pred HHHHHHHHHHCCCceEEEECC
Confidence 468999999999999998754
No 35
>PRK10329 glutaredoxin-like protein; Provisional
Probab=21.94 E-value=98 Score=23.92 Aligned_cols=21 Identities=5% Similarity=0.026 Sum_probs=18.0
Q ss_pred HHHHHHHHHhCCCCeEEEEcC
Q 020590 5 KDQLLARLKDLQIEFSQYEHP 25 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp 25 (324)
...++++|+++||+|+.++-.
T Consensus 14 C~~ak~~L~~~gI~~~~idi~ 34 (81)
T PRK10329 14 CHATKRAMESRGFDFEMINVD 34 (81)
T ss_pred HHHHHHHHHHCCCceEEEECC
Confidence 367999999999999998754
No 36
>TIGR01616 nitro_assoc nitrogenase-associated protein. This model describes a small family of uncharacterized proteins found so far in alpha and gamma proteobacteria and in Nostoc sp. PCC 7120, a cyanobacterium. The gene for this protein is associated with nitrogenase genes. This family shows sequence similarity to TIGR00014, a glutaredoxin-dependent arsenate reductase that converts arsentate to arsenite for disposal. This family is one of several included in Pfam model pfam03960.
Probab=21.86 E-value=1.7e+02 Score=24.84 Aligned_cols=33 Identities=12% Similarity=0.054 Sum_probs=24.6
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 020590 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~l 37 (324)
..+..+.|+++||+|+.++.- ...|.++....+
T Consensus 14 ~RKA~~~L~~~gi~~~~~d~~~~p~t~~eL~~~l 47 (126)
T TIGR01616 14 NARQKAALKASGHDVEVQDILKEPWHADTLRPYF 47 (126)
T ss_pred HHHHHHHHHHCCCCcEEEeccCCCcCHHHHHHHH
Confidence 467899999999999997752 335666666554
No 37
>cd03032 ArsC_Spx Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex formation between RNAP and certain transcriptional activator proteins like ResD and ComA. In response to oxidative stress, Spx can also activate transcription, making it a general regulator that exerts both positive and negative control over transcription initiation. Spx has been shown to exert redox-sensitive transcriptional control over genes like trxA (TRX) and trxB (TRX reductase), genes that function in thiol homeostasis. This redox-sensitive activity is dependent on the presence of a CXXC motif, present in some members of the Spx subfamily, that acts as a thiol/disulfide switch. Spx has also been shown to repress genes in a sulfate-dependent manner independent of the presence of the CXXC motif.
Probab=20.26 E-value=1.8e+02 Score=23.69 Aligned_cols=33 Identities=18% Similarity=0.136 Sum_probs=23.5
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 020590 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (324)
Q Consensus 5 ~~~v~~~L~~lgI~ye~veHp-~~~TieeaAk~l 37 (324)
..++.++|+++||+|+.++.- ...|.+++.+.+
T Consensus 13 c~ka~~~L~~~gi~~~~idi~~~~~~~~el~~~~ 46 (115)
T cd03032 13 CRKAKQWLEEHQIPFEERNLFKQPLTKEELKEIL 46 (115)
T ss_pred HHHHHHHHHHCCCceEEEecCCCcchHHHHHHHH
Confidence 468999999999999998753 234555554444
No 38
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=20.09 E-value=84 Score=20.59 Aligned_cols=14 Identities=21% Similarity=0.169 Sum_probs=10.6
Q ss_pred CCCcHHHHHHHHHh
Q 020590 1 MAYSKDQLLARLKD 14 (324)
Q Consensus 1 M~ms~~~v~~~L~~ 14 (324)
||++++++++||+.
T Consensus 15 ~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 15 SGLSKEEIREFLEF 28 (30)
T ss_dssp TT--HHHHHHHHHH
T ss_pred cCCCHHHHHHHHHh
Confidence 78999999999975
Done!