Query 026604
Match_columns 236
No_of_seqs 121 out of 246
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 10:11:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026604.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026604hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4446 Uncharacterized protei 100.0 1.6E-38 3.4E-43 260.0 6.9 122 86-226 10-137 (141)
2 PF07386 DUF1499: Protein of u 100.0 1.1E-28 2.4E-33 197.0 12.9 107 103-226 2-118 (118)
3 COG0079 HisC Histidinol-phosph 31.4 59 0.0013 30.8 3.8 46 146-200 170-223 (356)
4 PF04468 PSP1: PSP1 C-terminal 29.2 1E+02 0.0022 23.6 4.1 35 178-228 46-82 (88)
5 PF09865 DUF2092: Predicted pe 29.0 1.4E+02 0.0031 26.6 5.6 60 165-232 51-110 (214)
6 COG1598 Predicted nuclease of 25.5 83 0.0018 23.2 3.0 31 101-146 14-44 (73)
7 PF10411 DsbC_N: Disulfide bon 22.1 76 0.0016 22.3 2.1 46 145-190 4-52 (57)
8 PF11396 DUF2874: Protein of u 21.8 2.7E+02 0.0058 18.9 5.8 41 144-186 14-56 (61)
9 TIGR03801 asp_4_decarbox aspar 20.0 1.9E+02 0.0042 29.1 5.2 90 136-235 259-359 (521)
10 PF12167 DUF3596: Domain of un 19.4 2.9E+02 0.0062 20.0 4.7 26 191-225 20-45 (64)
No 1
>COG4446 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=1.6e-38 Score=260.01 Aligned_cols=122 Identities=34% Similarity=0.568 Sum_probs=110.9
Q ss_pred CCCCCCCCCCCCcCCCCCcCCCCCCCCCeeecCCC-CCCCccCCcCCCCCHHHHHHHHHHHHHHHCCCcEEEEeecCCCC
Q 026604 86 TPFSQSKNLQLGLQEDGKIRPCPSTNPGCVSTNPK-SSSFAFPLRIPENSTENAIQKLQEAILKTQKNAKIGVVEDTPFG 164 (236)
Q Consensus 86 ~pfs~s~~~~lGl~~~G~L~pCP~~sPNCVSSq~~-~~~~~~P~~~~~~s~~~A~~~L~~AvL~s~~~~kIv~~e~~~~g 164 (236)
-+|+++ +-++|+ .+|+|+|||+ +|||||||.. .-|.++|+-| -.+++.|.++|+. |+..+||++|+++.+
T Consensus 10 a~f~~s-~~~lGV-~sgrlapCpn-~PNCVssQ~adt~h~iaPl~f-~~~~~~a~e~l~~-il~~lP~t~ive~~~---- 80 (141)
T COG4446 10 AAFSGS-PCNLGV-DSGRLAPCPN-SPNCVSSQDADTKHAIAPLNF-ILDPGVAIEQLER-ILLSLPGTVIVEKND---- 80 (141)
T ss_pred hhhccC-ccccCc-ccCcccCCCC-CCCeeecccccchhccccccc-ccCHHHHHHHHHH-HHhhCCCceEeecCc----
Confidence 358888 788999 9999999999 8999999997 5566778777 5899999999976 999999999999998
Q ss_pred CeEEEEEec---cccCccEEEEEcC--CEEEEEeeccccCcccCCcccCCChHHHHHHHHHHHHHhC
Q 026604 165 QYLQAEVDG---GFGRDVLEFLVKG--DVVAYRSVAKKVTYVYPFTTALGDSKGQEERMKQIIAELG 226 (236)
Q Consensus 165 ~YL~Ae~~S---gF~dDvvEFl~~~--~vV~vRSaSrRvGyvyP~~t~~SD~GvNRkRvE~IR~~Lg 226 (236)
+||||||+| ||+||+ |||+++ ++|+||||| |+|| |||||||+|+|+||.+||
T Consensus 81 nYl~ae~~Srlf~FVDDl-Efyl~~d~~vi~vRSaS-RiG~--------SDlGVNRrR~EqiR~kl~ 137 (141)
T COG4446 81 NYLRAECTSRLFGFVDDL-EFYLPQDHNVIWVRSAS-RIGY--------SDLGVNRRRAEQIRLKLG 137 (141)
T ss_pred hHHHHHHHHHHhhcccce-EEecCCCCceEEEeecc-cccc--------ccccccHHHHHHHHHHhh
Confidence 999999999 788776 999987 689999999 8999 999999999999999996
No 2
>PF07386 DUF1499: Protein of unknown function (DUF1499); InterPro: IPR010865 This family consists of several hypothetical bacterial and plant proteins of around 125 residues in length. The function of this family is unknown.
Probab=99.96 E-value=1.1e-28 Score=196.97 Aligned_cols=107 Identities=29% Similarity=0.429 Sum_probs=94.6
Q ss_pred CcCCCCCCCCCeeecCCC----CCCCccCCcCCCCCHHHHHHHHHHHHHHHCCCcEEE-EeecCCCCCeEEEEEec---c
Q 026604 103 KIRPCPSTNPGCVSTNPK----SSSFAFPLRIPENSTENAIQKLQEAILKTQKNAKIG-VVEDTPFGQYLQAEVDG---G 174 (236)
Q Consensus 103 ~L~pCP~~sPNCVSSq~~----~~~~~~P~~~~~~s~~~A~~~L~~AvL~s~~~~kIv-~~e~~~~g~YL~Ae~~S---g 174 (236)
.|.+||+ +||||||+.. ..+++.||.+ .+++++++++|+. +++.+++.+|+ ..+ ++||+|+++| |
T Consensus 2 dl~~~~~-~P~~~ss~~~~~~~~~~~i~P~~~-~~~~~~~~~~l~~-~~~~~~~~~v~~~~~----~~~l~a~~~s~~~g 74 (118)
T PF07386_consen 2 DLSTCPS-SPNCVSSAADAPRDAYPDIAPLTY-PGSPEEAFAALEA-AVEALPWTVVVDDQS----DGYLEAVARSPLFG 74 (118)
T ss_pred CCCCCCC-CCCeeeeccccccccCCCCCCEec-CCCHHHHHHHHHH-HHHHCCCcEEeccCC----CCEEEEEEEecccC
Confidence 5899999 8999999864 6889999998 6899999999976 89999998887 333 5899999999 6
Q ss_pred ccCccEEEEEcC--CEEEEEeeccccCcccCCcccCCChHHHHHHHHHHHHHhC
Q 026604 175 FGRDVLEFLVKG--DVVAYRSVAKKVTYVYPFTTALGDSKGQEERMKQIIAELG 226 (236)
Q Consensus 175 F~dDvvEFl~~~--~vV~vRSaSrRvGyvyP~~t~~SD~GvNRkRvE~IR~~Lg 226 (236)
|.||+ ||++.+ +.|++||+| |+|| +|||+||+|||+|+++|.
T Consensus 75 F~DDv-~i~~~~~~~~v~vRS~S-R~G~--------~DlG~Nr~Ri~~~~~~L~ 118 (118)
T PF07386_consen 75 FPDDV-EIRVRPEEGRVDVRSAS-RVGY--------SDLGVNRRRIEALRAALE 118 (118)
T ss_pred CCcEE-EEEEeCCCCEEEEEEec-cCCC--------CccchhHHHHHHHHHHhC
Confidence 77666 999976 599999999 8999 999999999999999984
No 3
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=31.35 E-value=59 Score=30.76 Aligned_cols=46 Identities=22% Similarity=0.472 Sum_probs=27.3
Q ss_pred HHHHCCCcEEEEeecCCCCCeEEEEEeccccCccEEEEEc-CCEEEEEeecc-------ccCc
Q 026604 146 ILKTQKNAKIGVVEDTPFGQYLQAEVDGGFGRDVLEFLVK-GDVVAYRSVAK-------KVTY 200 (236)
Q Consensus 146 vL~s~~~~kIv~~e~~~~g~YL~Ae~~SgF~dDvvEFl~~-~~vV~vRSaSr-------RvGy 200 (236)
+++..++..++..++ -|+...- .+.+++... +++|.+||.|+ |+||
T Consensus 170 l~~~~~~~~~vVvDE----AY~eF~~-----~~~~~l~~~~~nlivlRTfSKa~gLAGlRlGy 223 (356)
T COG0079 170 LLEALPEGGLVVIDE----AYIEFSP-----ESSLELLKYPPNLIVLRTFSKAFGLAGLRVGY 223 (356)
T ss_pred HHHhCCCCcEEEEeC----chhhcCC-----chhhhhccCCCCEEEEEecHHhhhcchhceee
Confidence 666666643444443 4654332 344444432 36999999997 8998
No 4
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=29.22 E-value=1e+02 Score=23.57 Aligned_cols=35 Identities=26% Similarity=0.423 Sum_probs=25.0
Q ss_pred ccEEEEEcCC--EEEEEeeccccCcccCCcccCCChHHHHHHHHHHHHHhCCC
Q 026604 178 DVLEFLVKGD--VVAYRSVAKKVTYVYPFTTALGDSKGQEERMKQIIAELGWY 228 (236)
Q Consensus 178 DvvEFl~~~~--vV~vRSaSrRvGyvyP~~t~~SD~GvNRkRvE~IR~~LgW~ 228 (236)
|+ ||.++++ ++.|.+.. || || |.=++.|...|++.
T Consensus 46 d~-e~~~D~~k~~fyy~a~~-rv-----------DF---R~Lvr~L~~~f~~R 82 (88)
T PF04468_consen 46 DV-EYQFDGSKLTFYYTAES-RV-----------DF---RELVRDLAREFKTR 82 (88)
T ss_pred EE-EEEcCCCEEEEEEEeCC-cC-----------cH---HHHHHHHHHHhCce
Confidence 54 8888874 56666666 55 44 88899999888764
No 5
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=29.05 E-value=1.4e+02 Score=26.64 Aligned_cols=60 Identities=18% Similarity=0.236 Sum_probs=37.7
Q ss_pred CeEEEEEeccccCccEEEEEcCCEEEEEeeccccCcccCCcccCCChHHHHHHHHHHHHHhCCCCCCC
Q 026604 165 QYLQAEVDGGFGRDVLEFLVKGDVVAYRSVAKKVTYVYPFTTALGDSKGQEERMKQIIAELGWYAPSF 232 (236)
Q Consensus 165 ~YL~Ae~~SgF~dDvvEFl~~~~vV~vRSaSrRvGyvyP~~t~~SD~GvNRkRvE~IR~~LgW~~~~~ 232 (236)
+-||++.++++. |. ||+++|..+.+-... +--| -=...-+.+ .+=++.|++++|-+.|..
T Consensus 51 dklr~~~~gd~~-~~-~~~yDGkt~Tl~~~~-~n~Y--a~~~aP~ti---d~~i~~l~~~~gi~~P~a 110 (214)
T PF09865_consen 51 DKLRIDRRGDGA-DR-EFYYDGKTFTLYDPN-QNVY--AQADAPGTI---DAAIDYLRDKYGIELPLA 110 (214)
T ss_pred CeEEEEEEcCCc-ce-EEEECCCEEEEEcCc-CCeE--EeccCCCCH---HHHHHHHHHhhCCCccHH
Confidence 345555554322 44 999999888888887 3334 112222333 455899999998887753
No 6
>COG1598 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]
Probab=25.50 E-value=83 Score=23.16 Aligned_cols=31 Identities=39% Similarity=0.678 Sum_probs=22.7
Q ss_pred CCCcCCCCCCCCCeeecCCCCCCCccCCcCCCCCHHHHHHHHHHHH
Q 026604 101 DGKIRPCPSTNPGCVSTNPKSSSFAFPLRIPENSTENAIQKLQEAI 146 (236)
Q Consensus 101 ~G~L~pCP~~sPNCVSSq~~~~~~~~P~~~~~~s~~~A~~~L~~Av 146 (236)
+|=..-+|+ -|+|++ | ..+.++|++.+++|+
T Consensus 14 g~y~~~~Pd-lpgc~s-~-------------G~T~eea~~n~~eai 44 (73)
T COG1598 14 GGYVASVPD-LPGCHS-Q-------------GETLEEALQNAKEAI 44 (73)
T ss_pred CCEEEEeCC-CCCccc-c-------------CCCHHHHHHHHHHHH
Confidence 344567888 599988 2 357789999998853
No 7
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=22.13 E-value=76 Score=22.31 Aligned_cols=46 Identities=17% Similarity=0.299 Sum_probs=25.4
Q ss_pred HHHHHCCCcEEEEeecCCCCCeEEEEEec---cccCccEEEEEcCCEEE
Q 026604 145 AILKTQKNAKIGVVEDTPFGQYLQAEVDG---GFGRDVLEFLVKGDVVA 190 (236)
Q Consensus 145 AvL~s~~~~kIv~~e~~~~g~YL~Ae~~S---gF~dDvvEFl~~~~vV~ 190 (236)
++-+..|+++|...+++|-.+.-.+...+ -|.+++-++++.+++++
T Consensus 4 ~l~~~~p~~~v~~v~~spi~GlyeV~~~~~~i~Y~~~dg~yli~G~l~d 52 (57)
T PF10411_consen 4 ALKKAFPGLKVESVSPSPIPGLYEVVLKGGGILYVDEDGRYLIQGQLYD 52 (57)
T ss_dssp HHHCT--T-TCEEEEE-SSTTEEEEEE-TTEEEEEETTSSEEEES-EEE
T ss_pred HHHhhcCCCceeEEEcCCCCCeEEEEECCCeEEEEcCCCCEEEEeEEEe
Confidence 34445678999888888866666666634 24554446666665554
No 8
>PF11396 DUF2874: Protein of unknown function (DUF2874); InterPro: IPR021533 This bacterial family of proteins are probable periplasmic proteins with unknown function. There are between one and four copies of this domain per sequence. ; PDB: 3DUE_A 3U1W_B 3DB7_A 4DSD_A 3ELG_A.
Probab=21.76 E-value=2.7e+02 Score=18.87 Aligned_cols=41 Identities=34% Similarity=0.462 Sum_probs=25.8
Q ss_pred HHHHHHCCCcEEEEeec--CCCCCeEEEEEeccccCccEEEEEcC
Q 026604 144 EAILKTQKNAKIGVVED--TPFGQYLQAEVDGGFGRDVLEFLVKG 186 (236)
Q Consensus 144 ~AvL~s~~~~kIv~~e~--~~~g~YL~Ae~~SgF~dDvvEFl~~~ 186 (236)
.++...+||.+|.+.+- .+++.|-.++++- ..+..+++|+.
T Consensus 14 ~~i~~~yp~~~i~~v~~~~~~~~~~Y~v~l~~--~~~~~~v~fd~ 56 (61)
T PF11396_consen 14 NAIKKNYPGAKIKEVEKETDPGGKYYEVELKK--GGNEYEVYFDA 56 (61)
T ss_dssp HHHHHHSTTSEEEEEEEEEETTEEEEEEEETE--TTTSEEEEEET
T ss_pred HHHHHHCCCCeEEEEEEEEcCCCCEEEEEEEE--eCCeEEEEEcC
Confidence 45777899998877653 2334566677762 23445777764
No 9
>TIGR03801 asp_4_decarbox aspartate 4-decarboxylase. This enzyme, aspartate 4-decarboxylase (EC 4.1.1.12), removes the side-chain carboxylate from L-aspartate, converting it to L-alanine plus carbon dioxide. It is a PLP-dependent enzyme, homologous to aspartate aminotransferase (EC 2.6.1.1).
Probab=19.96 E-value=1.9e+02 Score=29.08 Aligned_cols=90 Identities=13% Similarity=0.144 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHC-CCcEEEEeecCCCCCeEEEEEeccccCccEEEEEcCCEEEEEeecc-------ccCcccCCccc
Q 026604 136 ENAIQKLQEAILKTQ-KNAKIGVVEDTPFGQYLQAEVDGGFGRDVLEFLVKGDVVAYRSVAK-------KVTYVYPFTTA 207 (236)
Q Consensus 136 ~~A~~~L~~AvL~s~-~~~kIv~~e~~~~g~YL~Ae~~SgF~dDvvEFl~~~~vV~vRSaSr-------RvGyvyP~~t~ 207 (236)
++-+++|.+ +++.. ++.-|+.++- |-. |...|. ..++. .++++|.++|.|+ |+||+.--...
T Consensus 259 ~e~l~~I~~-ia~~~~~~l~II~DEv-----Y~~--f~~~~~-sl~~~-~~~~vI~v~SfSK~fg~~G~RlG~i~~~~~~ 328 (521)
T TIGR03801 259 DESIEKIVD-IVANDRPDLMILTDDV-----YGT--FVDDFR-SLFAE-LPYNTIGVYSFSKYFGATGWRLGTIALHKDN 328 (521)
T ss_pred HHHHHHHHH-HHHhcCCCeEEEECCC-----chh--hccccc-chhhh-CCCCEEEEEcchhhccCchhhhhhhhcCchH
Confidence 455777754 56553 5766776652 322 111221 22222 2347899999996 67773100000
Q ss_pred CCChHH---HHHHHHHHHHHhCCCCCCCCCC
Q 026604 208 LGDSKG---QEERMKQIIAELGWYAPSFDSM 235 (236)
Q Consensus 208 ~SD~Gv---NRkRvE~IR~~LgW~~~~~~~~ 235 (236)
+-|--. -+++++++++++++-..+.+.|
T Consensus 329 v~d~li~~lp~~~~~~l~~ry~~~~~~p~~~ 359 (521)
T TIGR03801 329 IFDKLIAELPEEKKKELDKRYSSLTTEPRKL 359 (521)
T ss_pred HHHHHHHhccHHHHHHHhhhhccccCChhhh
Confidence 000000 1445677777777655555443
No 10
>PF12167 DUF3596: Domain of unknown function (DUF3596); InterPro: IPR022000 This N-terminal domain is found in Bacteriophage P27p02, it is functionally uncharacterised, though it is considered to be an integrase. Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. This domain is found in related proteins in other bacteriophage, and prophage regions of bacterial genomes. The domain is approximately 90 amino acids in length and is found is associated with the C-terminal domain characterised by PF00589 from PFAM.
Probab=19.43 E-value=2.9e+02 Score=19.97 Aligned_cols=26 Identities=15% Similarity=0.286 Sum_probs=21.1
Q ss_pred EEeeccccCcccCCcccCCChHHHHHHHHHHHHHh
Q 026604 191 YRSVAKKVTYVYPFTTALGDSKGQEERMKQIIAEL 225 (236)
Q Consensus 191 vRSaSrRvGyvyP~~t~~SD~GvNRkRvE~IR~~L 225 (236)
.|.-- ++|+ .|=..||++.++++.+.
T Consensus 20 ~R~re-~l~l--------~dT~~N~k~a~~~~~~I 45 (64)
T PF12167_consen 20 KRCRE-SLGL--------PDTPANRKKAERLRAEI 45 (64)
T ss_pred EEEEE-eCCC--------CCCHHHHHHHHHHHHHH
Confidence 45555 4788 89999999999999875
Done!