Query 021074
Match_columns 317
No_of_seqs 200 out of 1391
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 07:24:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021074.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021074hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04335 PrdX_deacylase This CD 100.0 2.3E-33 4.9E-38 242.6 18.2 155 6-162 2-156 (156)
2 COG3760 Uncharacterized conser 100.0 9.9E-34 2.1E-38 244.0 14.0 164 1-166 1-164 (164)
3 PRK10670 hypothetical protein; 100.0 1E-29 2.2E-34 222.5 17.1 149 7-166 3-157 (159)
4 cd04336 YeaK YeaK is an unchar 100.0 1.7E-29 3.7E-34 217.0 17.9 149 6-165 2-153 (153)
5 TIGR00011 YbaK_EbsC ybaK/ebsC 100.0 1.9E-29 4.2E-34 217.2 16.8 148 7-165 2-152 (152)
6 cd00002 YbaK_deacylase This CD 100.0 7.1E-28 1.5E-32 207.7 16.3 142 6-153 2-146 (152)
7 cd04333 ProX_deacylase This CD 100.0 1.7E-27 3.7E-32 204.3 17.3 140 6-153 2-142 (148)
8 PF04073 tRNA_edit: Aminoacyl- 99.9 5.8E-27 1.3E-31 194.5 14.3 122 24-151 1-123 (123)
9 COG2606 EbsC Uncharacterized c 99.9 4.4E-25 9.6E-30 193.3 15.4 141 8-154 4-147 (155)
10 cd04332 YbaK_like YbaK-like. 99.9 3.6E-24 7.9E-29 178.4 14.3 130 18-153 1-131 (136)
11 cd04939 PA2301 PA2301 is an un 99.9 1.2E-23 2.7E-28 181.1 14.1 128 21-154 4-136 (139)
12 cd04334 ProRS-INS INS is an am 99.9 2.9E-22 6.3E-27 174.2 12.6 118 17-141 25-143 (160)
13 PRK09194 prolyl-tRNA synthetas 99.7 5.2E-16 1.1E-20 159.6 13.7 114 21-141 252-365 (565)
14 TIGR00409 proS_fam_II prolyl-t 99.2 3.8E-11 8.2E-16 124.2 11.4 117 19-140 251-369 (568)
15 PRK09570 rpoH DNA-directed RNA 60.6 7 0.00015 31.1 2.2 44 3-48 18-61 (79)
16 PF01191 RNA_pol_Rpb5_C: RNA p 47.6 10 0.00023 29.7 1.3 45 3-49 15-59 (74)
17 KOG3857 Alcohol dehydrogenase, 40.2 1.3E+02 0.0028 30.8 7.8 89 5-120 87-180 (465)
18 COG2012 RPB5 DNA-directed RNA 33.3 44 0.00096 26.7 2.8 43 3-47 21-63 (80)
19 COG2875 CobM Precorrin-4 methy 31.1 90 0.002 30.0 4.9 48 7-56 94-143 (254)
20 PLN03111 DNA-directed RNA poly 28.9 53 0.0011 30.7 2.9 44 3-48 147-190 (206)
21 PTZ00061 DNA-directed RNA poly 28.4 46 0.00099 31.0 2.4 44 3-48 146-189 (205)
22 cd02977 ArsC_family Arsenate R 27.7 1.1E+02 0.0024 24.3 4.3 35 5-39 12-47 (105)
23 TIGR02194 GlrX_NrdH Glutaredox 26.5 1.2E+02 0.0025 22.3 4.0 22 5-26 12-33 (72)
24 cd03028 GRX_PICOT_like Glutare 25.5 93 0.002 24.2 3.5 46 121-166 2-47 (90)
25 TIGR02190 GlrX-dom Glutaredoxi 23.6 1.6E+02 0.0034 22.2 4.3 22 5-26 21-42 (79)
26 cd03035 ArsC_Yffb Arsenate Red 22.4 1.7E+02 0.0037 23.7 4.6 34 5-38 12-46 (105)
27 cd03029 GRX_hybridPRX5 Glutare 22.4 1.9E+02 0.0042 21.0 4.5 21 6-26 15-35 (72)
28 PF08671 SinI: Anti-repressor 22.3 71 0.0015 20.9 1.8 14 1-14 15-28 (30)
29 PRK10329 glutaredoxin-like pro 21.9 1.6E+02 0.0034 22.7 4.1 22 5-26 14-35 (81)
30 cd03418 GRX_GRXb_1_3_like Glut 21.6 1.9E+02 0.0041 20.8 4.3 22 5-26 13-34 (75)
31 COG1393 ArsC Arsenate reductas 20.8 1.8E+02 0.004 24.3 4.5 33 5-37 14-47 (117)
32 cd03027 GRX_DEP Glutaredoxin ( 20.2 1.2E+02 0.0026 22.2 3.0 21 5-25 14-34 (73)
33 cd03033 ArsC_15kD Arsenate Red 20.1 1.9E+02 0.0041 24.0 4.4 33 5-37 13-46 (113)
No 1
>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=2.3e-33 Score=242.61 Aligned_cols=155 Identities=49% Similarity=0.778 Sum_probs=148.2
Q ss_pred HHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCccc
Q 021074 6 DQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLR 85 (317)
Q Consensus 6 e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~Lr 85 (317)
++++++|+++||+|+.++||++.|++++++++++++++++|||+|++++++++++++|||+++|++++++.+|.+ +++
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 cCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHHhcCCCCEEE
Q 021074 86 MAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYV 162 (317)
Q Consensus 86 ~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a~g~~p~~V 162 (317)
||++|++.+++|+.+|+|||||+.++..+++++|+|+++...+.+|+|+|+++.++.|+++||.+++.++|+.+.+|
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 99999999999999999999999876667899999999999999999999999999999999999999999998874
No 2
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=9.9e-34 Score=243.98 Aligned_cols=164 Identities=38% Similarity=0.634 Sum_probs=160.7
Q ss_pred CCCcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCC
Q 021074 1 MAYSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLG 80 (317)
Q Consensus 1 M~~s~e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~k 80 (317)
|.++.+++.++|+++||++..++||++.|++|.....+..+++.+||||++|+|++|||+.+.++..+|++.+.+.+|.+
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 77899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCccccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHHhcCCCCE
Q 021074 81 KGGLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPA 160 (317)
Q Consensus 81 r~~Lr~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a~g~~p~ 160 (317)
+++|+++|.+++++|+.||+|++||+.||.+++|.+|+|+.++..+.|.|||.+|+.|..|+.+||.+||+++||+|.
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 899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEccC
Q 021074 161 YVDLEA 166 (317)
Q Consensus 161 ~VD~sa 166 (317)
++|+++
T Consensus 159 il~~~~ 164 (164)
T COG3760 159 ILDVSA 164 (164)
T ss_pred eeeccC
Confidence 999875
No 3
>PRK10670 hypothetical protein; Provisional
Probab=99.97 E-value=1e-29 Score=222.50 Aligned_cols=149 Identities=17% Similarity=0.270 Sum_probs=137.3
Q ss_pred HHHHHHHhCCCCeEE--EEcCCCC--CHHHHHHHhCCCCCceeeEEEEEecCC--cEEEEEEecCCCCcHHHHHHHhCCC
Q 021074 7 QLLARLKDLQIEFSQ--YEHPAVM--TVEAQAKYVGNIGGGLSKNLFLKDKKH--RFYIVSALADTKVDMKVLSQRLGLG 80 (317)
Q Consensus 7 ~V~~~L~klgI~ye~--veHp~~~--TieeaAk~lg~~~~qivKtLvLkdkkg--~~vLVVl~gD~kVDlkKLak~LG~k 80 (317)
.+.++|++.+|+|+. ++|++.. +.+++|+++|+++++++|||+++++++ +++++++|||+++|++|+++.+|.+
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 7798765 449999999999999999999987542 4999999999999999999999986
Q ss_pred CCccccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHHhcCCCCE
Q 021074 81 KGGLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPA 160 (317)
Q Consensus 81 r~~Lr~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a~g~~p~ 160 (317)
+++||++|++.+++||.+|+|||||+.+ ++++|+|+++.+++.+|+++|.++.++.|+++||.++++ ..
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 7999999999999999999999999974 799999999999999999999999999999999999986 57
Q ss_pred EEEccC
Q 021074 161 YVDLEA 166 (317)
Q Consensus 161 ~VD~sa 166 (317)
|+||+.
T Consensus 152 ~~di~~ 157 (159)
T PRK10670 152 FADIAR 157 (159)
T ss_pred EEEEEe
Confidence 999874
No 4
>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=1.7e-29 Score=216.96 Aligned_cols=149 Identities=26% Similarity=0.337 Sum_probs=139.5
Q ss_pred HHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCC--cEEEEEEecCCCCcHHHHHHHhCCCCCc
Q 021074 6 DQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKH--RFYIVSALADTKVDMKVLSQRLGLGKGG 83 (317)
Q Consensus 6 e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtLvLkdkkg--~~vLVVl~gD~kVDlkKLak~LG~kr~~ 83 (317)
++++++|+++||+|+.++||+..|++++++.+|+++++++|+++|+++++ +++++++|+|+++|++++++.+|.+ +
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 7999999999999999999999975 6
Q ss_pred cccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEeccccc-CCeEEeecCCCcceEEecHHHHHHHHHhcCCCCEEE
Q 021074 84 LRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKA-QERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYV 162 (317)
Q Consensus 84 Lr~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~-~~~I~~h~G~n~~tI~Is~~DL~kll~a~g~~p~~V 162 (317)
++||+++++.+++|+.+|+++|||+.+ ++++|+|.++.. .+.||+|+|+++.++.|+++||.+++. +.++
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 889999999999999999999999987 4466
Q ss_pred Ecc
Q 021074 163 DLE 165 (317)
Q Consensus 163 D~s 165 (317)
+|+
T Consensus 151 ~~~ 153 (153)
T cd04336 151 QFT 153 (153)
T ss_pred ccC
Confidence 654
No 5
>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=1.9e-29 Score=217.24 Aligned_cols=148 Identities=19% Similarity=0.246 Sum_probs=138.1
Q ss_pred HHHHHHHhCCCCeEEEEcCCC---CCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCc
Q 021074 7 QLLARLKDLQIEFSQYEHPAV---MTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGG 83 (317)
Q Consensus 7 ~V~~~L~klgI~ye~veHp~~---~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~ 83 (317)
.+.++|++++|+|++++|++. .|++++++.+|+++++++|+++|++++++++++++|||+++|++++++++|.+ +
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 578999999999999999975 58899999999999999999999997667999999999999999999999975 6
Q ss_pred cccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHHhcCCCCEEEE
Q 021074 84 LRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYVD 163 (317)
Q Consensus 84 Lr~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a~g~~p~~VD 163 (317)
++||+++++.+++|+.+|+|+|||+. .++++|+|+++...+.+|+|+|+++.++.|+++||.+++. +.++|
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 99999999999999999999999987 3799999999999999999999999999999999999986 66777
Q ss_pred cc
Q 021074 164 LE 165 (317)
Q Consensus 164 ~s 165 (317)
+|
T Consensus 151 i~ 152 (152)
T TIGR00011 151 IA 152 (152)
T ss_pred cC
Confidence 75
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=7.1e-28 Score=207.72 Aligned_cols=142 Identities=18% Similarity=0.243 Sum_probs=133.3
Q ss_pred HHHHHHHHhCCCCeEEEEcCCC---CCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCC
Q 021074 6 DQLLARLKDLQIEFSQYEHPAV---MTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKG 82 (317)
Q Consensus 6 e~V~~~L~klgI~ye~veHp~~---~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~ 82 (317)
+.++++|+++||+|++++|+.. .|++|+++.+|+++++++|+++++.++++++++++|+|+++|++++++.+|.+
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 ccccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHH
Q 021074 83 GLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLK 153 (317)
Q Consensus 83 ~Lr~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~ 153 (317)
+++||+++++.+++|+.+|+|+|||+. .++++|+|.++...+.+++|+|+++.++.|+.+||.+++.
T Consensus 80 ~l~~a~~ee~~~~~g~~~G~v~P~~l~----~~v~~liD~~l~~~~~~~~~ag~~~~~l~i~~~~l~~~~~ 146 (152)
T cd00002 80 KVEMAPPKDAERLTGYIRGGISPLGQK----KRLPTVIDESALDLDTIYVSAGKRGLQIELAPQDLAKLTG 146 (152)
T ss_pred CcccCCHHHHHHhcCCcccccCccCcC----CCccEEEehHHhcCCEEEEeCCCCCcEEEECHHHHHHHhC
Confidence 799999999999999999999999997 3799999999999999999999999999999999999987
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=1.7e-27 Score=204.26 Aligned_cols=140 Identities=21% Similarity=0.346 Sum_probs=133.5
Q ss_pred HHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCcc
Q 021074 6 DQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGL 84 (317)
Q Consensus 6 e~V~~~L~klgI~ye~veHp-~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~L 84 (317)
+++.++|++++|.|+.++|| +..|++|+++++|.++++++|++++++++ +++++++|+|+++|++++++.+|. ++
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 68999999999999999999999999965 699999999999999999999996 59
Q ss_pred ccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHH
Q 021074 85 RMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLK 153 (317)
Q Consensus 85 r~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~ 153 (317)
+||+++++.+++||.+|+++|||+.. ++++|+|+++...+.+++++|+++.++.|+++||.+++.
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=5.8e-27 Score=194.55 Aligned_cols=122 Identities=31% Similarity=0.483 Sum_probs=113.2
Q ss_pred cCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCccccCCHHHHHHhcCCCceec
Q 021074 24 HPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEILKVPLGSV 103 (317)
Q Consensus 24 Hp~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~Lr~AseEeL~e~lG~~pG~V 103 (317)
||++.|++|+++++|+++++++||++|++++++++++++++|+++|++++++.+|.+ +++||++|++.++||+.+|+|
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 899999999999999999999999999998788999999999999999999999975 899999999999999999999
Q ss_pred CCCcc-cCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHH
Q 021074 104 TPFAL-VNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKF 151 (317)
Q Consensus 104 sPfGL-~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kl 151 (317)
+|||+ . .++++|+|+++.+.+.+++|+|+++.++.++.+||.+|
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=99.93 E-value=4.4e-25 Score=193.33 Aligned_cols=141 Identities=22% Similarity=0.319 Sum_probs=130.4
Q ss_pred HHHHHHhCCCCeEE--EEc-CCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCcc
Q 021074 8 LLARLKDLQIEFSQ--YEH-PAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGL 84 (317)
Q Consensus 8 V~~~L~klgI~ye~--veH-p~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~L 84 (317)
..+.|+.++|.|+. +++ +...|.+++|+.+|+++++++|||++++++++++++|+|+++++|+++|++.+|.+ ++
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 56788888999876 333 45677999999999999999999999998778999999999999999999999987 79
Q ss_pred ccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHHh
Q 021074 85 RMAPEETMLEILKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKS 154 (317)
Q Consensus 85 r~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a 154 (317)
.|++++++++.|||..|+|+|||+.. .+|+|+|+++.++++||+++|.++..|.|+++||.+++.+
T Consensus 82 ~ma~~~~v~~~TGy~vGGv~P~G~~~----~~p~~iD~s~~~~~~I~~~aG~rg~~v~lap~dl~~l~~~ 147 (155)
T COG2606 82 EMADPEEVQRLTGYVVGGVSPFGQKK----RLPTYIDESALRFDTIYVSAGKRGLLVELAPQDLAELLGA 147 (155)
T ss_pred ccCCHHHHHHHhCCcccCcCCCCcCC----CCCEEEehhhhcCCeEEecCCCcCceEEECHHHHHHhhcc
Confidence 99999999999999999999999984 8999999999999999999999999999999999999873
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=3.6e-24 Score=178.45 Aligned_cols=130 Identities=31% Similarity=0.476 Sum_probs=122.6
Q ss_pred CeEEEEcCCC-CCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCccccCCHHHHHHhc
Q 021074 18 EFSQYEHPAV-MTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEIL 96 (317)
Q Consensus 18 ~ye~veHp~~-~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~Lr~AseEeL~e~l 96 (317)
+|..+.|++. .|++++++.++.++++++|+++|++++++++++++|+|+++|++++++.+|.+ +++||+++++.+++
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 3677888877 99999999999999999999999998767999999999999999999999986 79999999999999
Q ss_pred CCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHH
Q 021074 97 KVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLK 153 (317)
Q Consensus 97 G~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~ 153 (317)
|+.+|+|+|||+.. ++++|+|+++...+.+++|+|+++.++.|+.+||.+++.
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 99999999999984 799999999999999999999999999999999999876
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=99.91 E-value=1.2e-23 Score=181.14 Aligned_cols=128 Identities=19% Similarity=0.242 Sum_probs=114.3
Q ss_pred EEEcCC-CCCHHHHHHHhCCCCCceeeEEEEEecC---CcEEEEEEecCCCCcHHH-HHHHhCCCCCccccCCHHHHHHh
Q 021074 21 QYEHPA-VMTVEAQAKYVGNIGGGLSKNLFLKDKK---HRFYIVSALADTKVDMKV-LSQRLGLGKGGLRMAPEETMLEI 95 (317)
Q Consensus 21 ~veHp~-~~TieeaAk~lg~~~~qivKtLvLkdkk---g~~vLVVl~gD~kVDlkK-Lak~LG~kr~~Lr~AseEeL~e~ 95 (317)
.|+|.+ ..+..++|+.+|+++++++|||+++.+. .+++++++++|+++|+++ +++.+|.+ +++|++++++.+.
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 356653 4666778889999999999999998642 258999999999999875 77999976 7999999999999
Q ss_pred cCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceEEecHHHHHHHHHh
Q 021074 96 LKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKS 154 (317)
Q Consensus 96 lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a 154 (317)
|||.+|+|||||+. +.+++|+|+++++++.||+++|.++.++.|+++||.+++.+
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=2.9e-22 Score=174.16 Aligned_cols=118 Identities=20% Similarity=0.295 Sum_probs=111.4
Q ss_pred CCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecC-CcEEEEEEecCCCCcHHHHHHHhCCCCCccccCCHHHHHHh
Q 021074 17 IEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKK-HRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEI 95 (317)
Q Consensus 17 I~ye~veHp~~~TieeaAk~lg~~~~qivKtLvLkdkk-g~~vLVVl~gD~kVDlkKLak~LG~kr~~Lr~AseEeL~e~ 95 (317)
.+|+.++||++.|++++++.+|++.++++|+|+|++++ ++++++++|+|+++|+++|++++|.+ +++||+++++.++
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 cCCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceE
Q 021074 96 LKVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSI 141 (317)
Q Consensus 96 lG~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI 141 (317)
+|+.+|+|+|||+. ++++|+|+++...+.+++++|.++..+
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 599999999999999999999888755
No 13
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=99.67 E-value=5.2e-16 Score=159.55 Aligned_cols=114 Identities=21% Similarity=0.293 Sum_probs=105.9
Q ss_pred EEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCCcEEEEEEecCCCCcHHHHHHHhCCCCCccccCCHHHHHHhcCCCc
Q 021074 21 QYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEILKVPL 100 (317)
Q Consensus 21 ~veHp~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~vLVVl~gD~kVDlkKLak~LG~kr~~Lr~AseEeL~e~lG~~p 100 (317)
.++||+..|++++++.+|+++++++|||++++++ +++++++|+|+++|+++|++.+|.. +++||+++++.+++|+.+
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 eecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcceE
Q 021074 101 GSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMSI 141 (317)
Q Consensus 101 G~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~tI 141 (317)
|+++|||+.+ ++++|+|.++...+.+++++|.++..+
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 799999999999999999998887655
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=99.24 E-value=3.8e-11 Score=124.18 Aligned_cols=117 Identities=15% Similarity=0.201 Sum_probs=103.9
Q ss_pred eEEEEcCCCCCHHHHHHHhCCCCCceeeEEEEEecCC--cEEEEEEecCCCCcHHHHHHHhCCCCCccccCCHHHHHHhc
Q 021074 19 FSQYEHPAVMTVEAQAKYVGNIGGGLSKNLFLKDKKH--RFYIVSALADTKVDMKVLSQRLGLGKGGLRMAPEETMLEIL 96 (317)
Q Consensus 19 ye~veHp~~~TieeaAk~lg~~~~qivKtLvLkdkkg--~~vLVVl~gD~kVDlkKLak~LG~kr~~Lr~AseEeL~e~l 96 (317)
.+.+++|.+.|+++.+.++++++.+.+|+++++..++ +++++++|||++||+.|+.+.+|... .+++|+++++...+
T Consensus 251 ~~~~~tp~~~ti~~~~~~~~~~~~~~~k~~~~~~~~~~~~~v~v~~rgd~~vn~~k~~~~~g~~~-~~~~a~~~~~~~~~ 329 (568)
T TIGR00409 251 LDKVDTPNTKTIAELVECFNLPAEKVVKTLLVKAVDKSEPLVALLVRGDHELNEVKAPNLLLVAQ-VLELATEEEIFQKI 329 (568)
T ss_pred ceeecCCCCCcHHHHHHHhCCCHhHeeeEEEEEecCCccceEEEEecCcchhhHHHHHHHhccCc-ccccCCHHHHHHhh
Confidence 4678899999999999999999999999999987432 59999999999999999999985321 48999999999999
Q ss_pred CCCceecCCCcccCCCCCCeEEEEecccccCCeEEeecCCCcce
Q 021074 97 KVPLGSVTPFALVNESARDVALLLDKGFKAQERCFFHPLSNDMS 140 (317)
Q Consensus 97 G~~pG~VsPfGL~nd~~~~V~ViID~sL~~~~~I~~h~G~n~~t 140 (317)
|..+|+++|+|+. ..+++++|.++.....+.+++|..+.-
T Consensus 330 g~~~g~~gpv~~~----~~~~i~~D~~~~~~~~~~~gan~~~~h 369 (568)
T TIGR00409 330 ASGPGSLGPVNIN----GGIPVLIDQTVALMSDFAAGANADDKH 369 (568)
T ss_pred CCCCCccCccccc----cCceEEechhhhcccccccccCCCCce
Confidence 9999999999987 368999999999999999998887553
No 15
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=60.64 E-value=7 Score=31.14 Aligned_cols=44 Identities=20% Similarity=0.289 Sum_probs=37.7
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 021074 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (317)
Q Consensus 3 ~s~e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtL 48 (317)
++.++..++|++.+|..+ +-|.+...+-+++++|..+++++|-.
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 678999999999999654 36788888889999999999999854
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=47.61 E-value=10 Score=29.73 Aligned_cols=45 Identities=22% Similarity=0.380 Sum_probs=33.4
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEEE
Q 021074 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNLF 49 (317)
Q Consensus 3 ~s~e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtLv 49 (317)
++.++..++|++++|.-+ .-|.+...+-+++++|..+++++|-.=
T Consensus 15 ls~eE~~~lL~~y~i~~~--qLP~I~~~DPv~r~~g~k~GdVvkI~R 59 (74)
T PF01191_consen 15 LSEEEKKELLKKYNIKPE--QLPKILSSDPVARYLGAKPGDVVKIIR 59 (74)
T ss_dssp E-HHHHHHHHHHTT--TT--CSSEEETTSHHHHHTT--TTSEEEEEE
T ss_pred cCHHHHHHHHHHhCCChh--hCCcccccChhhhhcCCCCCCEEEEEe
Confidence 578999999999999543 467778888899999999999998643
No 17
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=40.16 E-value=1.3e+02 Score=30.81 Aligned_cols=89 Identities=20% Similarity=0.262 Sum_probs=59.2
Q ss_pred HHHHHHHHHhCCCCeEEEEc----CCCCCHHHHHHHhCCCCCceeeEEEEEecCCcE-EEEEEecCCCCcHHHHHHHhCC
Q 021074 5 KDQLLARLKDLQIEFSQYEH----PAVMTVEAQAKYVGNIGGGLSKNLFLKDKKHRF-YIVSALADTKVDMKVLSQRLGL 79 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veH----p~~~TieeaAk~lg~~~~qivKtLvLkdkkg~~-vLVVl~gD~kVDlkKLak~LG~ 79 (317)
.+.+++.|++.+|+|++|+- |...++-++.++.. ++++ .+|.+-|..-.|..|..+++..
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 36789999999999999874 44566666666541 2222 5566778888898888877765
Q ss_pred CCCccccCCHHHHHHhcCCCceecCCCcccCCCCCCeEEEE
Q 021074 80 GKGGLRMAPEETMLEILKVPLGSVTPFALVNESARDVALLL 120 (317)
Q Consensus 80 kr~~Lr~AseEeL~e~lG~~pG~VsPfGL~nd~~~~V~ViI 120 (317)
. .+.++..+-|++.|-+-+...+ -+|+|.
T Consensus 152 n-------~~~eflDyvg~pigk~~~~s~p-----~lPLiA 180 (465)
T KOG3857|consen 152 N-------GEGEFLDYVGPPIGKVKQSSKP-----LLPLIA 180 (465)
T ss_pred C-------CCccchhccCCccccccccccc-----ccceEe
Confidence 3 1345666777777776665443 355553
No 18
>COG2012 RPB5 DNA-directed RNA polymerase, subunit H, RpoH/RPB5 [Transcription]
Probab=33.25 E-value=44 Score=26.73 Aligned_cols=43 Identities=28% Similarity=0.327 Sum_probs=35.9
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeE
Q 021074 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKN 47 (317)
Q Consensus 3 ~s~e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKt 47 (317)
++.++..+.|++++|.- .+-|.+...+=+|+.+|.-++.++|-
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 46788999999999954 44678888888999999999998874
No 19
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=31.13 E-value=90 Score=29.97 Aligned_cols=48 Identities=25% Similarity=0.338 Sum_probs=37.1
Q ss_pred HHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCC--CceeeEEEEEecCCc
Q 021074 7 QLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIG--GGLSKNLFLKDKKHR 56 (317)
Q Consensus 7 ~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~--~qivKtLvLkdkkg~ 56 (317)
+-.+.|+++||+|+. .|.+.+...+|..+|+.. -.+..++++.--.++
T Consensus 94 EQm~~L~~~gI~yev--vPGVss~~AAAA~L~~ELT~P~vsQtvilTR~sgr 143 (254)
T COG2875 94 EQMRELEALGIPYEV--VPGVSSFAAAAAALGIELTVPGVSQTVILTRPSGR 143 (254)
T ss_pred HHHHHHHHcCCCeEE--eCCchHHHHHHHHhCceeecCCcceeEEEEccccC
Confidence 346789999999998 579999999999998854 357788888654333
No 20
>PLN03111 DNA-directed RNA polymerase II subunit family protein; Provisional
Probab=28.88 E-value=53 Score=30.67 Aligned_cols=44 Identities=18% Similarity=0.281 Sum_probs=37.5
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 021074 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (317)
Q Consensus 3 ~s~e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtL 48 (317)
++.++..++|++.+|.. ..-|.+...+-.|+++|..+++++|-.
T Consensus 147 ls~eEk~~lL~~y~i~~--~qLPrI~~~DPvary~g~k~G~vvkI~ 190 (206)
T PLN03111 147 LTDEEKKTLLKRYTVKE--TQLPRIQVSDPIARYYGLKRGQVVKII 190 (206)
T ss_pred cCHHHHHHHHHHcCCCH--HHCCcccccChhhHhcCCCCCCEEEEE
Confidence 57899999999999864 346788888889999999999999854
No 21
>PTZ00061 DNA-directed RNA polymerase; Provisional
Probab=28.36 E-value=46 Score=31.05 Aligned_cols=44 Identities=20% Similarity=0.367 Sum_probs=37.5
Q ss_pred CcHHHHHHHHHhCCCCeEEEEcCCCCCHHHHHHHhCCCCCceeeEE
Q 021074 3 YSKDQLLARLKDLQIEFSQYEHPAVMTVEAQAKYVGNIGGGLSKNL 48 (317)
Q Consensus 3 ~s~e~V~~~L~klgI~ye~veHp~~~TieeaAk~lg~~~~qivKtL 48 (317)
++.++..++|++.++.- ..-|.+...+-+|+++|..+++++|-.
T Consensus 146 Ls~eEk~~lL~~y~i~~--~qLPrI~~~DPvary~g~k~G~vvkI~ 189 (205)
T PTZ00061 146 LTDDEKLNLLQRYKVKE--SQLPRIQSADPVARYFGLSKGQVVKII 189 (205)
T ss_pred cCHHHHHHHHHHhCCCH--HHCCcccccChhhHhcCCCCCCEEEEE
Confidence 57899999999999964 346788888889999999999999854
No 22
>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=27.65 E-value=1.1e+02 Score=24.32 Aligned_cols=35 Identities=20% Similarity=0.210 Sum_probs=25.9
Q ss_pred HHHHHHHHHhCCCCeEEEEc-CCCCCHHHHHHHhCC
Q 021074 5 KDQLLARLKDLQIEFSQYEH-PAVMTVEAQAKYVGN 39 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veH-p~~~TieeaAk~lg~ 39 (317)
..++.++|+++||+|+.++- ..-.+.++..+.++.
T Consensus 12 c~ka~~~L~~~~i~~~~idi~~~~~~~~~l~~~~~~ 47 (105)
T cd02977 12 SRKALAWLEEHGIEYEFIDYLKEPPTKEELKELLAK 47 (105)
T ss_pred HHHHHHHHHHcCCCcEEEeeccCCCCHHHHHHHHHh
Confidence 46789999999999998775 334566676666543
No 23
>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=26.55 E-value=1.2e+02 Score=22.31 Aligned_cols=22 Identities=14% Similarity=0.116 Sum_probs=18.2
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC
Q 021074 5 KDQLLARLKDLQIEFSQYEHPA 26 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp~ 26 (317)
...++++|+++||+|+.++-..
T Consensus 12 C~~ak~~L~~~~i~~~~~di~~ 33 (72)
T TIGR02194 12 CKMTKKALEEHGIAFEEINIDE 33 (72)
T ss_pred HHHHHHHHHHCCCceEEEECCC
Confidence 4678999999999999877543
No 24
>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=25.54 E-value=93 Score=24.20 Aligned_cols=46 Identities=15% Similarity=0.123 Sum_probs=35.3
Q ss_pred ecccccCCeEEeecCCCcceEEecHHHHHHHHHhcCCCCEEEEccC
Q 021074 121 DKGFKAQERCFFHPLSNDMSISLNTNDLDKFLKSIGRDPAYVDLEA 166 (317)
Q Consensus 121 D~sL~~~~~I~~h~G~n~~tI~Is~~DL~kll~a~g~~p~~VD~sa 166 (317)
++.+.+.+.+.|.-|..+..-.--.....++|+..+..+.++|+..
T Consensus 2 ~~~i~~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~ 47 (90)
T cd03028 2 KKLIKENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILE 47 (90)
T ss_pred hhhhccCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCC
Confidence 4455666777777666666666667788899999999999999864
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=23.63 E-value=1.6e+02 Score=22.16 Aligned_cols=22 Identities=18% Similarity=0.154 Sum_probs=18.2
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC
Q 021074 5 KDQLLARLKDLQIEFSQYEHPA 26 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp~ 26 (317)
..++.++|+++||+|+.++-..
T Consensus 21 C~~ak~~L~~~gi~y~~idi~~ 42 (79)
T TIGR02190 21 CAKAKATLKEKGYDFEEIPLGN 42 (79)
T ss_pred HHHHHHHHHHcCCCcEEEECCC
Confidence 3679999999999999877543
No 26
>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=22.43 E-value=1.7e+02 Score=23.73 Aligned_cols=34 Identities=3% Similarity=0.086 Sum_probs=24.9
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHhC
Q 021074 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYVG 38 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp-~~~TieeaAk~lg 38 (317)
..++.++|+++||+|+.++.- ...|.++....+.
T Consensus 12 crka~~~L~~~~i~~~~~di~~~p~s~~eL~~~l~ 46 (105)
T cd03035 12 VKKARKWLEARGVAYTFHDYRKDGLDAATLERWLA 46 (105)
T ss_pred HHHHHHHHHHcCCCeEEEecccCCCCHHHHHHHHH
Confidence 357899999999999987653 3456677666553
No 27
>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=22.38 E-value=1.9e+02 Score=20.95 Aligned_cols=21 Identities=14% Similarity=0.161 Sum_probs=17.9
Q ss_pred HHHHHHHHhCCCCeEEEEcCC
Q 021074 6 DQLLARLKDLQIEFSQYEHPA 26 (317)
Q Consensus 6 e~V~~~L~klgI~ye~veHp~ 26 (317)
.++.++|+++||+|+.++...
T Consensus 15 ~~ak~~L~~~~i~~~~~~v~~ 35 (72)
T cd03029 15 ARAKAALQENGISYEEIPLGK 35 (72)
T ss_pred HHHHHHHHHcCCCcEEEECCC
Confidence 678999999999999887653
No 28
>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=22.30 E-value=71 Score=20.94 Aligned_cols=14 Identities=21% Similarity=0.169 Sum_probs=10.6
Q ss_pred CCCcHHHHHHHHHh
Q 021074 1 MAYSKDQLLARLKD 14 (317)
Q Consensus 1 M~~s~e~V~~~L~k 14 (317)
||+|++++++||+.
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
No 29
>PRK10329 glutaredoxin-like protein; Provisional
Probab=21.93 E-value=1.6e+02 Score=22.69 Aligned_cols=22 Identities=5% Similarity=0.016 Sum_probs=18.2
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC
Q 021074 5 KDQLLARLKDLQIEFSQYEHPA 26 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp~ 26 (317)
..++.++|+++||+|+.++-..
T Consensus 14 C~~ak~~L~~~gI~~~~idi~~ 35 (81)
T PRK10329 14 CHATKRAMESRGFDFEMINVDR 35 (81)
T ss_pred HHHHHHHHHHCCCceEEEECCC
Confidence 3679999999999999887543
No 30
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=21.57 E-value=1.9e+02 Score=20.81 Aligned_cols=22 Identities=9% Similarity=0.111 Sum_probs=18.3
Q ss_pred HHHHHHHHHhCCCCeEEEEcCC
Q 021074 5 KDQLLARLKDLQIEFSQYEHPA 26 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp~ 26 (317)
..++.++|++++|+|+.++-..
T Consensus 13 C~~ak~~L~~~~i~~~~i~i~~ 34 (75)
T cd03418 13 CVRAKALLDKKGVDYEEIDVDG 34 (75)
T ss_pred HHHHHHHHHHCCCcEEEEECCC
Confidence 3678999999999999877553
No 31
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=20.76 E-value=1.8e+02 Score=24.34 Aligned_cols=33 Identities=21% Similarity=0.183 Sum_probs=23.8
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 021074 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp-~~~TieeaAk~l 37 (317)
...+++.|+++||+|+.++.- .-.|.++..+.+
T Consensus 14 ~rka~~~L~~~gi~~~~~~y~~~~~s~~eL~~~l 47 (117)
T COG1393 14 CRKALAWLEEHGIEYTFIDYLKTPPSREELKKIL 47 (117)
T ss_pred HHHHHHHHHHcCCCcEEEEeecCCCCHHHHHHHH
Confidence 467899999999999976653 335666665554
No 32
>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=20.22 E-value=1.2e+02 Score=22.22 Aligned_cols=21 Identities=5% Similarity=0.064 Sum_probs=17.9
Q ss_pred HHHHHHHHHhCCCCeEEEEcC
Q 021074 5 KDQLLARLKDLQIEFSQYEHP 25 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp 25 (317)
...+.++|+++||+|+.++-.
T Consensus 14 C~ka~~~L~~~gi~~~~~di~ 34 (73)
T cd03027 14 CTAVRLFLREKGLPYVEINID 34 (73)
T ss_pred HHHHHHHHHHCCCceEEEECC
Confidence 468999999999999987654
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=20.14 E-value=1.9e+02 Score=23.95 Aligned_cols=33 Identities=15% Similarity=0.048 Sum_probs=24.1
Q ss_pred HHHHHHHHHhCCCCeEEEEcC-CCCCHHHHHHHh
Q 021074 5 KDQLLARLKDLQIEFSQYEHP-AVMTVEAQAKYV 37 (317)
Q Consensus 5 ~e~V~~~L~klgI~ye~veHp-~~~TieeaAk~l 37 (317)
...+.++|+++||+|+.++.- .-.|.++....+
T Consensus 13 crkA~~~L~~~gi~~~~~d~~~~p~s~~eL~~~l 46 (113)
T cd03033 13 NARQKALLEAAGHEVEVRDLLTEPWTAETLRPFF 46 (113)
T ss_pred HHHHHHHHHHcCCCcEEeehhcCCCCHHHHHHHH
Confidence 357889999999999987753 335666666554
Done!