Query 040993
Match_columns 194
No_of_seqs 27 out of 29
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 02:47:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040993.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040993hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06345 Drf_DAD: DRF Autoregu 61.6 7.3 0.00016 21.8 1.7 11 177-187 2-12 (15)
2 PF09843 DUF2070: Predicted me 55.1 68 0.0015 26.2 7.1 65 79-144 8-81 (179)
3 cd04870 ACT_PSP_1 CT domains f 43.0 34 0.00073 23.5 3.1 25 81-105 44-68 (75)
4 PF13351 DUF4099: Protein of u 40.7 73 0.0016 23.5 4.8 41 101-142 27-72 (85)
5 COG2088 SpoVG Uncharacterized 34.8 1.2E+02 0.0026 24.1 5.3 55 133-191 13-78 (95)
6 KOG2067 Mitochondrial processi 32.1 45 0.00097 32.6 3.1 31 116-146 25-55 (472)
7 PF00076 RRM_1: RNA recognitio 29.2 73 0.0016 19.9 2.8 44 83-134 5-48 (70)
8 PF07717 OB_NTP_bind: Oligonuc 26.5 64 0.0014 23.4 2.5 27 24-51 78-104 (114)
9 PRK09890 cold shock protein Cs 26.3 82 0.0018 22.3 2.9 34 127-160 18-55 (70)
10 PRK09507 cspE cold shock prote 23.9 88 0.0019 22.2 2.7 35 127-161 17-55 (69)
11 PF14252 DUF4347: Domain of un 23.2 62 0.0013 26.7 2.1 37 73-110 58-94 (165)
12 PF00092 VWA: von Willebrand f 22.7 2.4E+02 0.0052 20.7 5.0 38 89-137 13-50 (178)
13 PRK14998 cold shock-like prote 22.6 2.1E+02 0.0046 20.6 4.5 34 127-160 15-52 (73)
14 PRK10354 RNA chaperone/anti-te 22.3 1E+02 0.0022 21.8 2.7 35 127-161 18-56 (70)
15 PF12105 SpoU_methylas_C: SpoU 21.5 83 0.0018 22.5 2.2 27 87-113 13-43 (57)
16 cd04869 ACT_GcvR_2 ACT domains 20.4 1.5E+02 0.0032 19.9 3.2 24 81-104 50-73 (81)
17 PRK09937 stationary phase/star 20.3 1.2E+02 0.0025 22.1 2.8 34 127-160 15-52 (74)
No 1
>PF06345 Drf_DAD: DRF Autoregulatory Domain; InterPro: IPR010465 This domain is found in Diaphanous-related formins (Drfs). It binds the N-terminal GTPase-binding domain; this link is broken when GTP-bound Rho binds to the GBD and activates the protein. The addition of diaphanous activating domains (DAD) to mammalian cells induces actin filament formation, stabilises microtubules, and activates serum-response mediated transcription [].; PDB: 3O4X_H 3OBV_E 2BAP_C 2F31_B.
Probab=61.64 E-value=7.3 Score=21.81 Aligned_cols=11 Identities=64% Similarity=0.854 Sum_probs=10.0
Q ss_pred HHHHHHHHHHH
Q 040993 177 IMRSLLQALQK 187 (194)
Q Consensus 177 IMqSllqAlkk 187 (194)
||.||++|||.
T Consensus 2 vmdsllealqt 12 (15)
T PF06345_consen 2 VMDSLLEALQT 12 (15)
T ss_dssp HHHHHHHHHHH
T ss_pred cHHHHHHHHHc
Confidence 79999999985
No 2
>PF09843 DUF2070: Predicted membrane protein (DUF2070); InterPro: IPR019204 This domain of unknown function is found in various bacterial and archael hypothetical proteins, as well as in prokaryotic polyketide synthase.
Probab=55.07 E-value=68 Score=26.19 Aligned_cols=65 Identities=25% Similarity=0.305 Sum_probs=47.3
Q ss_pred eeeeccCCCCCHHHHHHHHHHHHHhhcccCCcCcccceeecc--------C-CCceEEEEEEeCCCceeeeEEEE
Q 040993 79 LGTLKLPGNTDLQRFESLLFQWANSLCQGANLPLPVPLKVDK--------I-PGGARLGFITVGDGETKVLVYID 144 (194)
Q Consensus 79 LGT~KLP~n~D~arf~~lLfQWAnsL~qganLPLPlPlkVDk--------v-~~G~RLaFI~~~DG~~e~lV~Id 144 (194)
.|+..+|.+-|...+..++..+.+.+-+-.+.||++=.-.+. + ++|++..++.+ +|..-.++++|
T Consensus 8 ~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~lg~~gi~~~~v~~-~g~~~~lv~~D 81 (179)
T PF09843_consen 8 FGGEVVPGSEDGFLLDPALKLALEALGFKEEYPLEVGYAEAEPFLGEHEGLGIGGISALVVEV-GGQRSALVLAD 81 (179)
T ss_pred CCCccCCCCCcHHHHHHHHHHHHHhhcCccccccccceEeccCCCCCCCCcCccccEEEEEEe-CCcEEEEEEEE
Confidence 455689999999999999999999987767777776544444 2 57888777775 34444555555
No 3
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=43.01 E-value=34 Score=23.50 Aligned_cols=25 Identities=20% Similarity=0.251 Sum_probs=22.3
Q ss_pred eeccCCCCCHHHHHHHHHHHHHhhc
Q 040993 81 TLKLPGNTDLQRFESLLFQWANSLC 105 (194)
Q Consensus 81 T~KLP~n~D~arf~~lLfQWAnsL~ 105 (194)
++.+|.+++.+++++.|..++..+.
T Consensus 44 ~v~~p~~~~~~~l~~~l~~l~~~l~ 68 (75)
T cd04870 44 LVQIPDSADSEALLKDLLFKAHELG 68 (75)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 6779999999999999999998764
No 4
>PF13351 DUF4099: Protein of unknown function (DUF4099)
Probab=40.66 E-value=73 Score=23.55 Aligned_cols=41 Identities=27% Similarity=0.526 Sum_probs=30.1
Q ss_pred HHhhcccCCcCcccceeec-----cCCCceEEEEEEeCCCceeeeEE
Q 040993 101 ANSLCQGANLPLPVPLKVD-----KIPGGARLGFITVGDGETKVLVY 142 (194)
Q Consensus 101 AnsL~qganLPLPlPlkVD-----kv~~G~RLaFI~~~DG~~e~lV~ 142 (194)
=..|++|-.-| -+|+++. .+..-+||+|++-.||.....+|
T Consensus 27 Le~ll~G~kT~-l~~i~~~~~~~~~~~~~arlsl~~~~dG~v~l~i~ 72 (85)
T PF13351_consen 27 LEALLNGYKTP-LLPISVNFGGGKTIETDARLSLVRDEDGNVDLMIH 72 (85)
T ss_pred HHHHhCCCccC-CEEEEEecCCceEEecceEEEEEECCCCCEEEEEe
Confidence 34567888778 7787764 34556899999999997766555
No 5
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=34.79 E-value=1.2e+02 Score=24.13 Aligned_cols=55 Identities=24% Similarity=0.400 Sum_probs=34.7
Q ss_pred CCCceeeeEEE---EEEee---ccCCCCccee-----eeeecCCCCcCCCCChhhHHHHHHHHHHHhhhh
Q 040993 133 GDGETKVLVYI---DCLVF---PATGGSGPIF-----RAIRNGPLKEKSPPGEPRIMRSLLQALQKSVEI 191 (194)
Q Consensus 133 ~DG~~e~lV~I---d~lv~---~st~~s~~~F-----~a~R~G~lkd~~pPGEpRIMqSllqAlkksv~i 191 (194)
+||...+.|.| +|+|. -.-+|+.-+| +-++.|.++|..-| |=+.+.+.||+||.-
T Consensus 13 ~dgrmkA~vsvT~D~efVvhdirVi~G~~GlfVAMPSrrt~dgEFrDI~HP----I~~~~R~kIq~aVl~ 78 (95)
T COG2088 13 TDGRMKAYVSVTLDNEFVVHDIRVIEGNNGLFVAMPSRRTPDGEFRDIAHP----INSDTREKIQDAVLK 78 (95)
T ss_pred CCCcEEEEEEEEecceEEEeccEEEeCCcceEEEccCccCCCcchhhccCc----CCHHHHHHHHHHHHH
Confidence 36766665333 25553 1223566667 45778888887555 667888888888864
No 6
>KOG2067 consensus Mitochondrial processing peptidase, alpha subunit [Posttranslational modification, protein turnover, chaperones]
Probab=32.15 E-value=45 Score=32.63 Aligned_cols=31 Identities=26% Similarity=0.300 Sum_probs=19.5
Q ss_pred eeeccCCCceEEEEEEeCCCceeeeEEEEEE
Q 040993 116 LKVDKIPGGARLGFITVGDGETKVLVYIDCL 146 (194)
Q Consensus 116 lkVDkv~~G~RLaFI~~~DG~~e~lV~Id~l 146 (194)
+||.++|||+|++==....---.+++||||.
T Consensus 25 ~kvttL~NGlkvase~~pg~f~~vGlyIdsG 55 (472)
T KOG2067|consen 25 TKVTTLPNGLKVASENTPGQFCTVGLYIDSG 55 (472)
T ss_pred ceeeecCCccEEeccCCCCCceEEEEEEecC
Confidence 6777999999986322112222335888875
No 7
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=29.19 E-value=73 Score=19.95 Aligned_cols=44 Identities=9% Similarity=0.210 Sum_probs=29.4
Q ss_pred ccCCCCCHHHHHHHHHHHHHhhcccCCcCcccceeeccCCCceEEEEEEeCC
Q 040993 83 KLPGNTDLQRFESLLFQWANSLCQGANLPLPVPLKVDKIPGGARLGFITVGD 134 (194)
Q Consensus 83 KLP~n~D~arf~~lLfQWAnsL~qganLPLPlPlkVDkv~~G~RLaFI~~~D 134 (194)
-||.+++.+.+.+++.+++.-.. +-+..|.-...=+.|||++.+
T Consensus 5 nlp~~~t~~~l~~~f~~~g~i~~--------~~~~~~~~~~~~~~a~V~F~~ 48 (70)
T PF00076_consen 5 NLPPDVTEEELRDFFSQFGKIES--------IKVMRNSSGKSKGYAFVEFES 48 (70)
T ss_dssp SETTTSSHHHHHHHHHTTSTEEE--------EEEEEETTSSEEEEEEEEESS
T ss_pred CCCCcCCHHHHHHHHHHhhhccc--------ccccccccccccceEEEEEcC
Confidence 48999999999888888665422 222233445566788888864
No 8
>PF07717 OB_NTP_bind: Oligonucleotide/oligosaccharide-binding (OB)-fold; InterPro: IPR011709 This domain is found towards the C terminus of the DEAD-box helicases (IPR011545 from INTERPRO). In these helicases it appears to be always found in association with IPR007502 from INTERPRO. ; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=26.51 E-value=64 Score=23.40 Aligned_cols=27 Identities=33% Similarity=0.449 Sum_probs=18.4
Q ss_pred CCCceEEEeecccccccccccccccccc
Q 040993 24 AVPRTVVFNFNKRQNSKRYIRHSSEFSG 51 (194)
Q Consensus 24 ~~~~~~~~~~~~~~~s~~~~~~~~~~~~ 51 (194)
.-|..++|+.-.. .+|.|+++++++..
T Consensus 78 ~~p~~vvy~e~~~-t~k~y~~~~t~I~~ 104 (114)
T PF07717_consen 78 KPPKWVVYHELVR-TSKPYMRDVTAISP 104 (114)
T ss_dssp TT-SEEEEEEEEE-SSSEEEEEEEE--H
T ss_pred cccccchhhhhee-cCCcEEEECcCCCH
Confidence 3456888876664 78999999998753
No 9
>PRK09890 cold shock protein CspG; Provisional
Probab=26.34 E-value=82 Score=22.35 Aligned_cols=34 Identities=26% Similarity=0.383 Sum_probs=25.1
Q ss_pred EEEEEeCCCceeeeEEEEEEeecc----CCCCcceeee
Q 040993 127 LGFITVGDGETKVLVYIDCLVFPA----TGGSGPIFRA 160 (194)
Q Consensus 127 LaFI~~~DG~~e~lV~Id~lv~~s----t~~s~~~F~a 160 (194)
.|||+.+||..+.++++..+.... .+++.--|++
T Consensus 18 fGFI~~~~g~~dvFvH~s~l~~~~~~~l~~G~~V~f~~ 55 (70)
T PRK09890 18 FGFITPDDGSKDVFVHFTAIQSNEFRTLNENQKVEFSI 55 (70)
T ss_pred cEEEecCCCCceEEEEEeeeccCCCCCCCCCCEEEEEE
Confidence 489999999999999999998432 3345555544
No 10
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=23.90 E-value=88 Score=22.16 Aligned_cols=35 Identities=29% Similarity=0.423 Sum_probs=25.4
Q ss_pred EEEEEeCCCceeeeEEEEEEeec----cCCCCcceeeee
Q 040993 127 LGFITVGDGETKVLVYIDCLVFP----ATGGSGPIFRAI 161 (194)
Q Consensus 127 LaFI~~~DG~~e~lV~Id~lv~~----st~~s~~~F~a~ 161 (194)
.|||+.+||..+.++++..+... ..+++.--|.+.
T Consensus 17 yGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~ 55 (69)
T PRK09507 17 FGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEIT 55 (69)
T ss_pred cEEEecCCCCeeEEEEeecccccCCCCCCCCCEEEEEEE
Confidence 48999999988899999999843 233455555443
No 11
>PF14252 DUF4347: Domain of unknown function (DUF4347)
Probab=23.17 E-value=62 Score=26.72 Aligned_cols=37 Identities=22% Similarity=0.514 Sum_probs=27.5
Q ss_pred CCCCceeeeeccCCCCCHHHHHHHHHHHHHhhcccCCc
Q 040993 73 NEDGVSLGTLKLPGNTDLQRFESLLFQWANSLCQGANL 110 (194)
Q Consensus 73 d~dgVsLGT~KLP~n~D~arf~~lLfQWAnsL~qganL 110 (194)
+...++||.-.|-.+ ++....+.|.+|+..|+.++++
T Consensus 58 ~~G~l~LG~~~l~~~-~L~~~~~~l~~w~~~L~~~~~I 94 (165)
T PF14252_consen 58 SPGALQLGNTWLSAE-TLEQYADELAQWGQALADDGDI 94 (165)
T ss_pred CcceEEECCceeCHH-HHHHHHHHHHHHHHHhCCCCcE
Confidence 355678888766544 5666778899999999877665
No 12
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=22.73 E-value=2.4e+02 Score=20.66 Aligned_cols=38 Identities=24% Similarity=0.365 Sum_probs=29.1
Q ss_pred CHHHHHHHHHHHHHhhcccCCcCcccceeeccCCCceEEEEEEeCCCce
Q 040993 89 DLQRFESLLFQWANSLCQGANLPLPVPLKVDKIPGGARLGFITVGDGET 137 (194)
Q Consensus 89 D~arf~~lLfQWAnsL~qganLPLPlPlkVDkv~~G~RLaFI~~~DG~~ 137 (194)
....|.. +++|.+++...-+ ..+.+.|++++++++...
T Consensus 13 ~~~~~~~-~~~~v~~~i~~~~----------~~~~~~rv~iv~f~~~~~ 50 (178)
T PF00092_consen 13 SGDNFEK-AKQFVKSIISRLS----------ISNNGTRVGIVTFSDSAR 50 (178)
T ss_dssp CHHHHHH-HHHHHHHHHHHST----------BSTTSEEEEEEEESSSEE
T ss_pred chHHHHH-HHHHHHHHHHhhh----------ccccccccceeeeecccc
Confidence 3456766 8999999986322 778999999999986554
No 13
>PRK14998 cold shock-like protein CspD; Provisional
Probab=22.57 E-value=2.1e+02 Score=20.65 Aligned_cols=34 Identities=18% Similarity=0.359 Sum_probs=25.0
Q ss_pred EEEEEeCCCceeeeEEEEEEeec----cCCCCcceeee
Q 040993 127 LGFITVGDGETKVLVYIDCLVFP----ATGGSGPIFRA 160 (194)
Q Consensus 127 LaFI~~~DG~~e~lV~Id~lv~~----st~~s~~~F~a 160 (194)
.|||+.+||..+++|++..+... ..+++.--|+.
T Consensus 15 fGFI~~~~g~~dVFvH~s~l~~~g~~~l~~G~~V~f~~ 52 (73)
T PRK14998 15 FGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVRFDV 52 (73)
T ss_pred eEEEecCCCCccEEEEeeeecccCCCCCCCCCEEEEEE
Confidence 48999999999999999999743 23345555644
No 14
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=22.32 E-value=1e+02 Score=21.79 Aligned_cols=35 Identities=29% Similarity=0.401 Sum_probs=25.6
Q ss_pred EEEEEeCCCceeeeEEEEEEeec----cCCCCcceeeee
Q 040993 127 LGFITVGDGETKVLVYIDCLVFP----ATGGSGPIFRAI 161 (194)
Q Consensus 127 LaFI~~~DG~~e~lV~Id~lv~~----st~~s~~~F~a~ 161 (194)
.|||+.+||..+.++++..+... -.+++.--|+..
T Consensus 18 fGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~ 56 (70)
T PRK10354 18 FGFITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIE 56 (70)
T ss_pred cEEEecCCCCccEEEEEeeccccCCCCCCCCCEEEEEEE
Confidence 48999999989999999999843 233455556543
No 15
>PF12105 SpoU_methylas_C: SpoU, rRNA methylase, C-terminal; InterPro: IPR022724 This domain is found in bacteria and is about 60 amino acids in length. It is found in association with PF00588 from PFAM. This domain has a conserved LFE sequence motif. Some members of the Pfam family SpoU_methylase, PF00588 from PFAM, carry this very distinctive sequence at their extreme C terminus. The exact function of this domain is not known. ; GO: 0009020 tRNA (guanosine-2'-O-)-methyltransferase activity; PDB: 1ZJR_A.
Probab=21.53 E-value=83 Score=22.53 Aligned_cols=27 Identities=30% Similarity=0.815 Sum_probs=12.9
Q ss_pred CCCHHHHHHHHHHHHH----hhcccCCcCcc
Q 040993 87 NTDLQRFESLLFQWAN----SLCQGANLPLP 113 (194)
Q Consensus 87 n~D~arf~~lLfQWAn----sL~qganLPLP 113 (194)
..+.+....+||+||- ..|.-.++|.|
T Consensus 13 ~L~~e~~~~lLFEw~yP~lA~~cr~kg~pYP 43 (57)
T PF12105_consen 13 RLSEEEYQRLLFEWGYPVLAKWCRRKGLPYP 43 (57)
T ss_dssp SS-HHHHHHHHHHHHHHHH------------
T ss_pred CcCHHHHHHHHHcccCHHHHhhccccccccc
Confidence 5678889999999995 56677777776
No 16
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=20.42 E-value=1.5e+02 Score=19.94 Aligned_cols=24 Identities=38% Similarity=0.531 Sum_probs=20.0
Q ss_pred eeccCCCCCHHHHHHHHHHHHHhh
Q 040993 81 TLKLPGNTDLQRFESLLFQWANSL 104 (194)
Q Consensus 81 T~KLP~n~D~arf~~lLfQWAnsL 104 (194)
++.+|.++|.++|++.|..=+..|
T Consensus 50 ~v~~p~~~~~~~l~~~l~~l~~~~ 73 (81)
T cd04869 50 TLALPAGTDLDALREELEELCDDL 73 (81)
T ss_pred EEecCCCCCHHHHHHHHHHHHHHh
Confidence 567899999999999998877654
No 17
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=20.27 E-value=1.2e+02 Score=22.08 Aligned_cols=34 Identities=18% Similarity=0.364 Sum_probs=24.7
Q ss_pred EEEEEeCCCceeeeEEEEEEeec----cCCCCcceeee
Q 040993 127 LGFITVGDGETKVLVYIDCLVFP----ATGGSGPIFRA 160 (194)
Q Consensus 127 LaFI~~~DG~~e~lV~Id~lv~~----st~~s~~~F~a 160 (194)
.|||+.+||..+++|++..+... -.+++.--|++
T Consensus 15 fGFI~~~~gg~dVFvH~s~i~~~g~~~l~~G~~V~f~~ 52 (74)
T PRK09937 15 FGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVQFDV 52 (74)
T ss_pred eEEEeeCCCCccEEEEEeeccccCCCCCCCCCEEEEEE
Confidence 48999999999999999999743 22345555544
Done!