Query 035609
Match_columns 181
No_of_seqs 185 out of 1109
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 04:31:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035609.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035609hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02325 YGGT: YGGT family; I 99.7 9.2E-18 2E-22 119.8 7.6 68 108-177 2-74 (75)
2 COG0762 Predicted integral mem 99.7 6.5E-17 1.4E-21 121.6 8.7 73 107-180 14-91 (96)
3 PF10500 SR-25: Nuclear RNA-sp 32.2 28 0.00061 30.6 1.7 7 135-141 172-178 (225)
4 PHA03309 transcriptional regul 25.0 67 0.0014 34.3 3.1 11 156-166 1999-2009(2033)
5 PHA02845 hypothetical protein; 18.5 1.3E+02 0.0028 23.2 2.7 33 136-174 31-63 (91)
6 PF11928 DUF3446: Domain of un 18.2 1.7E+02 0.0036 22.1 3.3 18 23-40 59-76 (84)
7 PF10859 DUF2660: Protein of u 17.0 1.1E+02 0.0023 23.2 2.0 17 132-148 48-64 (86)
8 COG0600 TauC ABC-type nitrate/ 16.0 3.3E+02 0.0071 23.9 5.1 38 132-171 91-137 (258)
9 PHA03308 transcriptional regul 15.5 86 0.0019 32.8 1.5 18 1-18 1254-1271(1463)
10 PF14494 DUF4436: Domain of un 15.5 7.1E+02 0.015 22.0 7.1 75 100-175 169-248 (256)
No 1
>PF02325 YGGT: YGGT family; InterPro: IPR003425 This family represents Ycf19. It is associated with phototrophic organisms and may therefore play a role in photosynthesis, despite its wider association with bacteria outside of the cyanobacteria. ; GO: 0016020 membrane
Probab=99.73 E-value=9.2e-18 Score=119.79 Aligned_cols=68 Identities=40% Similarity=0.626 Sum_probs=60.7
Q ss_pred HHHHHHHhhh-----hhhcccCCCCCchHHHHHHHhhhHHHHHhhhhCCCCCCCcChHHHHHHHHHHHHHHHHhh
Q 035609 108 AKWLDIYSGV-----LLSWFPNIPWDRQPLSAIRDLCDPYLNLFRNIIPPVFDTLDVSPLLAFAVLGTLGSILNN 177 (181)
Q Consensus 108 ~~lI~LY~~v-----LLSW~p~~~~~npI~~~L~~LTEP~L~PfRRiIPpi~GgIDfSPLVa~llL~lL~~lL~~ 177 (181)
+.++++|.++ ++||++. +++||+.++++++|||+++|+||++|+. |++|+||+++++++++++.++.+
T Consensus 2 ~~~~~~~~~~i~~r~ilsw~~~-~~~~~~~~~i~~~TeP~l~p~r~~ip~~-g~iD~S~lv~~~~l~~l~~~l~~ 74 (75)
T PF02325_consen 2 NTLLSIYIWLIILRFILSWFPA-NPYNPFVQFIYRITEPILRPFRRIIPPI-GGIDFSPLVALIVLQFLKIILVG 74 (75)
T ss_pred HHHHHHHHHHHHHHHHHHhcCc-cccChHHHHHHHHhhHHHHHHHHHcCCC-CCccHHHHHHHHHHHHHHHHHhc
Confidence 4556666665 9999985 7789999999999999999999999998 89999999999999999998865
No 2
>COG0762 Predicted integral membrane protein [Function unknown]
Probab=99.70 E-value=6.5e-17 Score=121.57 Aligned_cols=73 Identities=32% Similarity=0.541 Sum_probs=64.3
Q ss_pred HHHHHHHHhhh-----hhhcccCCCCCchHHHHHHHhhhHHHHHhhhhCCCCCCCcChHHHHHHHHHHHHHHHHhhccC
Q 035609 107 MAKWLDIYSGV-----LLSWFPNIPWDRQPLSAIRDLCDPYLNLFRNIIPPVFDTLDVSPLLAFAVLGTLGSILNNSRG 180 (181)
Q Consensus 107 L~~lI~LY~~v-----LLSW~p~~~~~npI~~~L~~LTEP~L~PfRRiIPpi~GgIDfSPLVa~llL~lL~~lL~~~~g 180 (181)
+..+++.|.+. +++|+++.++++++.++++++|||+++|+||++|++ ||+|+||+++++++++++.++.+.+|
T Consensus 14 l~~~i~~~~~~~ii~~~lsw~~~~~~~~~i~~~l~~lteP~L~p~Rr~ip~l-ggiD~Spiv~iliL~~l~~~l~~~~~ 91 (96)
T COG0762 14 LLILIGVYIFLLLIRALLSWFPPAGETNPIGRLLAQLTEPLLRPFRRLIPPL-GGIDFSPIVALLILQFLQFFLIRLLG 91 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCcccCHHHHHHHHhhHhHHHHHHhCCCc-cCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566666554 999999888777999999999999999999999999 99999999999999999998887654
No 3
>PF10500 SR-25: Nuclear RNA-splicing-associated protein; InterPro: IPR019532 SR-25, otherwise known as ADP-ribosylation factor-like factor 6-interacting protein 4, is expressed in virtually all tissue types. At the N terminus there is a repeat of serine-arginine (SR repeat), and towards the middle of the protein there are clusters of both serines and of basic amino acids. The presence of many nuclear localisation signals strongly implies that this is a nuclear protein that may contribute to RNA splicing []. SR-25 is also implicated, along with heat-shock-protein-27, as a mediator in the Rac1 (GTPase ras-related C3 botulinum toxin substrate 1; also see IPR019093 from INTERPRO) signalling pathway [].
Probab=32.20 E-value=28 Score=30.60 Aligned_cols=7 Identities=57% Similarity=1.070 Sum_probs=2.6
Q ss_pred HHHhhhH
Q 035609 135 IRDLCDP 141 (181)
Q Consensus 135 L~~LTEP 141 (181)
|.++.||
T Consensus 172 IRrVvDp 178 (225)
T PF10500_consen 172 IRRVVDP 178 (225)
T ss_pred heeeecC
Confidence 3333333
No 4
>PHA03309 transcriptional regulator ICP4; Provisional
Probab=25.04 E-value=67 Score=34.29 Aligned_cols=11 Identities=45% Similarity=0.389 Sum_probs=5.5
Q ss_pred CcChHHHHHHH
Q 035609 156 TLDVSPLLAFA 166 (181)
Q Consensus 156 gIDfSPLVa~l 166 (181)
--|.|.--+|+
T Consensus 1999 htdvsaasaff 2009 (2033)
T PHA03309 1999 HTDVSAASAFF 2009 (2033)
T ss_pred Ccchhhhhhhh
Confidence 45555544443
No 5
>PHA02845 hypothetical protein; Provisional
Probab=18.51 E-value=1.3e+02 Score=23.20 Aligned_cols=33 Identities=9% Similarity=0.165 Sum_probs=20.8
Q ss_pred HHhhhHHHHHhhhhCCCCCCCcChHHHHHHHHHHHHHHH
Q 035609 136 RDLCDPYLNLFRNIIPPVFDTLDVSPLLAFAVLGTLGSI 174 (181)
Q Consensus 136 ~~LTEP~L~PfRRiIPpi~GgIDfSPLVa~llL~lL~~l 174 (181)
..=..|+++|++|++ +|+.-.+..+....++.+
T Consensus 31 E~~~~~llRP~~RLl------fDl~i~viVi~~~~iRlv 63 (91)
T PHA02845 31 ENNHHYLFRPFIRLT------IDLILLIIVMIFLMIRIL 63 (91)
T ss_pred HhcccHHHHHHHHHH------HHHHHHHHHHHHHHHHHH
Confidence 333558999999985 777665555444444433
No 6
>PF11928 DUF3446: Domain of unknown function (DUF3446); InterPro: IPR021849 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 80 to 99 amino acids in length. This domain is found associated with PF00096 from PFAM. This domain has a single completely conserved residue P that may be functionally important.
Probab=18.21 E-value=1.7e+02 Score=22.12 Aligned_cols=18 Identities=11% Similarity=0.285 Sum_probs=11.7
Q ss_pred ccccCCCCCcCCCCCCCC
Q 035609 23 TLPFKPSKMVTPTPLLAD 40 (181)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~ 40 (181)
+-+.++..+.++.|+.+.
T Consensus 59 ~~~s~~~~iYsa~P~YSs 76 (84)
T PF11928_consen 59 MQQSEPNHIYSAPPPYSS 76 (84)
T ss_pred cccCCcCcCcCCCCCCCC
Confidence 346677777777766654
No 7
>PF10859 DUF2660: Protein of unknown function (DUF2660); InterPro: IPR022589 This is a bacterial group of proteins with unknown function found in Rickettsiales.
Probab=17.01 E-value=1.1e+02 Score=23.22 Aligned_cols=17 Identities=24% Similarity=0.403 Sum_probs=14.6
Q ss_pred HHHHHHhhhHHHHHhhh
Q 035609 132 LSAIRDLCDPYLNLFRN 148 (181)
Q Consensus 132 ~~~L~~LTEP~L~PfRR 148 (181)
++|+|.+||-+|+-|.|
T Consensus 48 WkFLYDiTe~ILnkFsk 64 (86)
T PF10859_consen 48 WKFLYDITETILNKFSK 64 (86)
T ss_pred HHHHHHHHHHHHHhhcH
Confidence 46999999999998865
No 8
>COG0600 TauC ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]
Probab=15.97 E-value=3.3e+02 Score=23.93 Aligned_cols=38 Identities=32% Similarity=0.657 Sum_probs=25.5
Q ss_pred HHHHHHhhhHHHHHhhhhCCCC---------CCCcChHHHHHHHHHHHH
Q 035609 132 LSAIRDLCDPYLNLFRNIIPPV---------FDTLDVSPLLAFAVLGTL 171 (181)
Q Consensus 132 ~~~L~~LTEP~L~PfRRiIPpi---------~GgIDfSPLVa~llL~lL 171 (181)
.+.+++..||++.-+|- +|++ + |+|-.+.+++.++..+
T Consensus 91 ~~~~~~~l~P~i~~l~~-iP~lA~~Pl~ilwf-G~g~~s~i~i~~~~~f 137 (258)
T COG0600 91 SRLLERLLDPLVQVLRP-IPPLALAPLAILWF-GIGETSKIVIAVLGAF 137 (258)
T ss_pred HHHHHHHHhHHHHHHhc-CCHHHHHHHHHHHH-hCCcchHHHHHHHHHH
Confidence 34788999999999985 5653 2 5666666666663333
No 9
>PHA03308 transcriptional regulator ICP4; Provisional
Probab=15.54 E-value=86 Score=32.84 Aligned_cols=18 Identities=83% Similarity=0.571 Sum_probs=0.0
Q ss_pred CCCCCCCCCCccccCCCc
Q 035609 1 SSSSSSSSSSSFSSSSSS 18 (181)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (181)
||||||||-+|.||||+|
T Consensus 1254 sssssssscsssssss~s 1271 (1463)
T PHA03308 1254 SSSSSSSSCSSSSSSSDS 1271 (1463)
T ss_pred ccccccccccccCCCCCc
No 10
>PF14494 DUF4436: Domain of unknown function (DUF4436)
Probab=15.48 E-value=7.1e+02 Score=22.04 Aligned_cols=75 Identities=15% Similarity=0.099 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhh--hhhcccCCCCCchHHHHHHHhhhHHHHHhhhhC---CCCCCCcChHHHHHHHHHHHHHHH
Q 035609 100 LTVVAAGMAKWLDIYSGV--LLSWFPNIPWDRQPLSAIRDLCDPYLNLFRNII---PPVFDTLDVSPLLAFAVLGTLGSI 174 (181)
Q Consensus 100 l~~I~~lL~~lI~LY~~v--LLSW~p~~~~~npI~~~L~~LTEP~L~PfRRiI---Ppi~GgIDfSPLVa~llL~lL~~l 174 (181)
+.+++.++.+.+....+. +.-+..+-.+ .+..-..+.-+=..+-|+|+++ ||++.-+|+.-++..+++..+-.+
T Consensus 169 F~~~i~~vm~~L~~~al~~ai~~~~~rr~~-~~~~l~w~aA~LFAlp~lRN~lPGaPP~G~~iD~~~vlW~~i~l~~~m~ 247 (256)
T PF14494_consen 169 FALFICLVMWALATLALFVAIQVLRRRRKF-EPPMLTWMAAMLFALPPLRNILPGAPPIGSWIDFAGVLWVLIALVASMV 247 (256)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCcccc-ccchHHHHHHHHHhhhhHhccCCCCCCCcceEeeeehHHHHHHHHHHHH
Q ss_pred H
Q 035609 175 L 175 (181)
Q Consensus 175 L 175 (181)
+
T Consensus 248 ~ 248 (256)
T PF14494_consen 248 L 248 (256)
T ss_pred H
Done!