Query 034270
Match_columns 99
No_of_seqs 107 out of 209
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 11:38:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034270.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034270hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4102 Uncharacterized conser 100.0 2.1E-32 4.5E-37 198.2 5.6 74 1-74 1-80 (121)
2 PF07491 PPI_Ypi1: Protein pho 100.0 2.4E-30 5.2E-35 168.6 4.2 48 27-74 1-54 (60)
3 COG2946 Putative phage replica 42.5 13 0.00027 32.1 1.1 42 30-71 195-240 (377)
4 PF02486 Rep_trans: Replicatio 36.9 19 0.00041 25.7 1.1 18 51-68 59-77 (182)
5 KOG0801 Predicted E3 ubiquitin 30.9 25 0.00055 27.9 1.1 30 36-65 163-205 (205)
6 cd04126 Rab20 Rab20 subfamily. 27.2 31 0.00068 25.9 1.0 17 43-59 204-220 (220)
7 TIGR03067 Planc_TIGR03067 Plan 22.3 2.6E+02 0.0057 19.1 4.8 33 26-63 52-84 (107)
8 COG5174 TFA2 Transcription ini 20.1 42 0.00092 27.9 0.5 36 15-50 175-216 (285)
9 KOG0861 SNARE protein YKT6, sy 18.5 44 0.00096 26.6 0.3 9 54-62 189-197 (198)
10 PF15396 FAM60A: Protein Famil 16.7 74 0.0016 25.5 1.1 24 44-71 173-198 (213)
No 1
>KOG4102 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=2.1e-32 Score=198.17 Aligned_cols=74 Identities=46% Similarity=0.783 Sum_probs=62.1
Q ss_pred CCCCCC--CCCCCcceeeEecCCCC----CceeEEEecCCCCCeeeecCCccccccCCCccCceeeEeccCCCCCCCCCC
Q 034270 1 MSTTNT--RPSSSVSNTITLQEPGS----SQQTLVLRLNPRKKKVTWKEGTVDNEFMGKKSSKKCCIFHKQKPFDEDNSD 74 (99)
Q Consensus 1 Ms~tat--~psss~stTvTv~~~~~----qq~~L~LR~~~~~~~V~W~edvVDNE~mnKKkSK~CCIyhK~r~f~Esssd 74 (99)
||.+.. .-++++|+|+.++++++ ++.+|+||..+++|+|+|.++||||||||||||||||||||||.|||||..
T Consensus 1 Ms~~~~~~~qt~~~T~T~~v~e~~a~~~~~~lvlrL~~~~~~r~V~W~~~vVDNEhMgrkKSKcCCIy~kpr~~~esSs~ 80 (121)
T KOG4102|consen 1 MSHTQMAEQQTSVGTTTVVVTEEPAQLEAEQLVLRLRPPPPERRVRWTEGVVDNEHMGRKKSKCCCIYHKPRAFDESSSD 80 (121)
T ss_pred CCcccccccccccceEEEEeecCcchhccccccccccCCCCCCceeeeccccccccccccccceeEEEeCccccCccccC
Confidence 676643 33567888888988876 345777777778889999999999999999999999999999999999885
No 2
>PF07491 PPI_Ypi1: Protein phosphatase inhibitor ; InterPro: IPR011107 These proteins include Ypi1, a novel Saccharomyces cerevisiae type 1 protein phosphatase inhibitor [] and ppp1r11/hcgv (O60927 from SWISSPROT), annotated as having protein phosphatase inhibitor activity [].
Probab=99.96 E-value=2.4e-30 Score=168.56 Aligned_cols=48 Identities=54% Similarity=0.999 Sum_probs=43.9
Q ss_pred eEEEecCC------CCCeeeecCCccccccCCCccCceeeEeccCCCCCCCCCC
Q 034270 27 TLVLRLNP------RKKKVTWKEGTVDNEFMGKKSSKKCCIFHKQKPFDEDNSD 74 (99)
Q Consensus 27 ~L~LR~~~------~~~~V~W~edvVDNE~mnKKkSK~CCIyhK~r~f~Esssd 74 (99)
||+||+.+ ++++|+|+++|||||||||||||||||||||+.|||||..
T Consensus 1 vLrLR~~~~~~~~~~~~~V~W~edvVDNE~mgkkkSK~CCIyhk~~~~~esSs~ 54 (60)
T PF07491_consen 1 VLRLRGAPTQPKPKSRRRVQWSEDVVDNEHMGKKKSKCCCIYHKPRAFDESSSE 54 (60)
T ss_pred CeEecCCcCccccCCCCceeecCCceeccccccccCceeeeecCCCCCCCCccc
Confidence 58888865 5789999999999999999999999999999999999754
No 3
>COG2946 Putative phage replication protein RstA [DNA replication, recombination, and repair]
Probab=42.48 E-value=13 Score=32.10 Aligned_cols=42 Identities=24% Similarity=0.362 Sum_probs=29.3
Q ss_pred EecCCCCCeeeecCCccc-ccc--CC-CccCceeeEeccCCCCCCC
Q 034270 30 LRLNPRKKKVTWKEGTVD-NEF--MG-KKSSKKCCIFHKQKPFDED 71 (99)
Q Consensus 30 LR~~~~~~~V~W~edvVD-NE~--mn-KKkSK~CCIyhK~r~f~Es 71 (99)
++....-+.+.|-+|-+- ++- .| ||.++.||||.|-+.-|+-
T Consensus 195 ~~pkge~~gt~~~~d~g~gGkTfyvGsk~s~~y~riYeKgkQLGd~ 240 (377)
T COG2946 195 VAPKGECRGTAWLNDDGSGGKTFYVGSKKSSKYVRIYEKGKQLGDK 240 (377)
T ss_pred cCCCCCCCCcccccCCCCCCeEEEecccCcceeEEehhhhhhhcCC
Confidence 333334567999977766 543 23 5667889999999999853
No 4
>PF02486 Rep_trans: Replication initiation factor; InterPro: IPR003491 Plasmid replication is initiated by the replication initiation factor (REP). This family represents a probable topoisomerase that makes a sequence-specific single-stranded nick in the plasmid DNA at the origin of replication. Human proteins also belong to this family, including myelin transcription factor 2 and cerebrin-50 [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006270 DNA-dependent DNA replication initiation
Probab=36.91 E-value=19 Score=25.72 Aligned_cols=18 Identities=33% Similarity=0.464 Sum_probs=14.5
Q ss_pred CCCccC-ceeeEeccCCCC
Q 034270 51 MGKKSS-KKCCIFHKQKPF 68 (99)
Q Consensus 51 mnKKkS-K~CCIyhK~r~f 68 (99)
.|.++| +.+|||.|...-
T Consensus 59 ~Gsr~S~~~~RiYdK~~E~ 77 (182)
T PF02486_consen 59 FGSRKSEKYLRIYDKKKEQ 77 (182)
T ss_pred EecCCCceEEEEeccchhh
Confidence 466655 999999998877
No 5
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.91 E-value=25 Score=27.93 Aligned_cols=30 Identities=20% Similarity=0.506 Sum_probs=18.3
Q ss_pred CCeeeecCCccccc---------cCCC----ccCceeeEeccC
Q 034270 36 KKKVTWKEGTVDNE---------FMGK----KSSKKCCIFHKQ 65 (99)
Q Consensus 36 ~~~V~W~edvVDNE---------~mnK----KkSK~CCIyhK~ 65 (99)
++|+.+.+||+-.. .|-. -.--|-|||||.
T Consensus 163 kPrlsYNdDVL~ddkGECvICLEdL~~GdtIARLPCLCIYHK~ 205 (205)
T KOG0801|consen 163 KPRLSYNDDVLKDDKGECVICLEDLEAGDTIARLPCLCIYHKQ 205 (205)
T ss_pred ccccccccchhcccCCcEEEEhhhccCCCceeccceEEEeecC
Confidence 56788888886432 1111 123567999984
No 6
>cd04126 Rab20 Rab20 subfamily. Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo
Probab=27.20 E-value=31 Score=25.89 Aligned_cols=17 Identities=35% Similarity=0.458 Sum_probs=13.9
Q ss_pred CCccccccCCCccCcee
Q 034270 43 EGTVDNEFMGKKSSKKC 59 (99)
Q Consensus 43 edvVDNE~mnKKkSK~C 59 (99)
.++|---+|-|+|||||
T Consensus 204 ~~~~~~~~~~~~~~~~~ 220 (220)
T cd04126 204 QGTVNLPNPKRSKSKCC 220 (220)
T ss_pred hccccCCCcccCCCCCC
Confidence 56777777999999998
No 7
>TIGR03067 Planc_TIGR03067 Planctomycetes uncharacterized domain TIGR03067. This domain occurs in several species, mostly from the Planctomycetes division of the bacteria. It is expanded into a paralogous family of at least twenty-five members in Gemmata obscuriglobus UQM 2246. This family appears related to TIGR03066, which also is expanded into a large paralogous family in Gemmata obscuriglobus.
Probab=22.33 E-value=2.6e+02 Score=19.08 Aligned_cols=33 Identities=15% Similarity=0.101 Sum_probs=21.2
Q ss_pred eeEEEecCCCCCeeeecCCccccccCCCccCceeeEec
Q 034270 26 QTLVLRLNPRKKKVTWKEGTVDNEFMGKKSSKKCCIFH 63 (99)
Q Consensus 26 ~~L~LR~~~~~~~V~W~edvVDNE~mnKKkSK~CCIyh 63 (99)
.++.|......+.+.|.. .++-. +.-++.|||.
T Consensus 52 ~~~~Ld~~~~Pk~id~~~----~~g~~-~g~~~~gIY~ 84 (107)
T TIGR03067 52 GTFKLDPAANPKTIDLTS----PDGPD-KGKTIKGIYK 84 (107)
T ss_pred EEEEECCCCCccEEEEEc----cCCCC-CCCEEEEEEE
Confidence 567776666778899963 22222 2237999996
No 8
>COG5174 TFA2 Transcription initiation factor IIE, beta subunit [Transcription]
Probab=20.08 E-value=42 Score=27.93 Aligned_cols=36 Identities=31% Similarity=0.484 Sum_probs=24.8
Q ss_pred eeEecCCCCCceeEEEecCC-CCCeeeecCCc-----ccccc
Q 034270 15 TITLQEPGSSQQTLVLRLNP-RKKKVTWKEGT-----VDNEF 50 (99)
Q Consensus 15 TvTv~~~~~qq~~L~LR~~~-~~~~V~W~edv-----VDNE~ 50 (99)
+++|++-..+.++|.||-.. .-++|.|..+. ||.|+
T Consensus 175 ~~~veeLek~~eIliLrt~kDg~p~~vW~n~~n~~c~vD~ef 216 (285)
T COG5174 175 VPFVEELEKSNEILILRTDKDGSPVVVWNNTQNLECPVDPEF 216 (285)
T ss_pred cHHHHHHhhcCcEEEEeecCCCCceEEEeCCCCcCCCCCHHH
Confidence 34455555567899999654 34689998776 77774
No 9
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=18.47 E-value=44 Score=26.62 Aligned_cols=9 Identities=44% Similarity=1.246 Sum_probs=6.0
Q ss_pred ccCceeeEe
Q 034270 54 KSSKKCCIF 62 (99)
Q Consensus 54 KkSK~CCIy 62 (99)
||.+.||||
T Consensus 189 KK~NsCC~i 197 (198)
T KOG0861|consen 189 KKTNSCCII 197 (198)
T ss_pred hhcCCceec
Confidence 566677765
No 10
>PF15396 FAM60A: Protein Family FAM60A
Probab=16.70 E-value=74 Score=25.53 Aligned_cols=24 Identities=38% Similarity=0.704 Sum_probs=18.1
Q ss_pred CccccccCCCccCceee--EeccCCCCCCC
Q 034270 44 GTVDNEFMGKKSSKKCC--IFHKQKPFDED 71 (99)
Q Consensus 44 dvVDNE~mnKKkSK~CC--IyhK~r~f~Es 71 (99)
+-+|-... |.-|+|| ||.- .|||-
T Consensus 173 sFlD~syw--kRekICCGiIFkG--~~GEV 198 (213)
T PF15396_consen 173 SFLDLSYW--KREKICCGIIFKG--RFGEV 198 (213)
T ss_pred cccCHHHH--hhhheeeeeEEec--CCCCE
Confidence 36666654 8889999 7776 88886
Done!