Query 026683
Match_columns 235
No_of_seqs 110 out of 472
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 11:15:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026683.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026683hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05648 PEX11: Peroxisomal bi 100.0 5.8E-46 1.3E-50 310.0 22.3 213 11-226 1-223 (223)
2 KOG4186 Peroxisomal biogenesis 100.0 6.6E-43 1.4E-47 287.1 21.6 219 11-233 1-233 (233)
3 PRK11677 hypothetical protein; 48.6 1.1E+02 0.0023 23.6 6.9 17 129-145 5-21 (134)
4 PF14711 Nitr_red_bet_C: Respi 34.3 71 0.0015 22.4 3.7 33 31-63 32-64 (83)
5 PF14147 Spore_YhaL: Sporulati 23.1 2.1E+02 0.0046 18.2 5.5 27 129-155 3-29 (52)
6 cd00280 TRFH Telomeric Repeat 21.8 92 0.002 25.5 2.7 42 14-55 43-91 (200)
7 PRK10292 hypothetical protein; 21.8 2.6E+02 0.0056 18.7 4.9 44 179-227 9-53 (69)
8 PF06295 DUF1043: Protein of u 18.7 4.2E+02 0.0091 19.9 6.5 12 132-143 4-15 (128)
9 COG3105 Uncharacterized protei 17.2 4.8E+02 0.01 20.0 7.4 19 125-143 3-24 (138)
10 PRK00965 tetrahydromethanopter 16.9 37 0.00079 24.5 -0.5 22 16-37 59-80 (96)
No 1
>PF05648 PEX11: Peroxisomal biogenesis factor 11 (PEX11)
Probab=100.00 E-value=5.8e-46 Score=310.02 Aligned_cols=213 Identities=33% Similarity=0.476 Sum_probs=181.8
Q ss_pred HHHHHHHhcccchHHHHHHHHHHHHHHhccC------Cc---chHHhHHHhhhHHHHHHHhhhcHHHHHHhhcCCCCCCC
Q 026683 11 LALVVLYLNKAEARDKICRAIQYGSKFLSDG------QP---GTAQNVDKSTSLARKVFRLFKFVNDLHALISPVPQGTP 81 (235)
Q Consensus 11 l~~~~~~l~t~~GRDK~~r~iQY~~kll~~~------~~---~~~~~l~~~ls~aRk~~Rl~k~l~~~~~~~~~~~~~~~ 81 (235)
++++++|+++++||||++|++||+++++++. .+ ..++++++++|++||+||+|+++++++.+.+....+++
T Consensus 1 l~~~~~~l~~~~GrDK~~r~~qy~~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~aRk~~Rl~k~l~~l~~~~~~~~~~~~ 80 (223)
T PF05648_consen 1 LDHFVRFLSSTDGRDKLLRLLQYSSKFLAWYLARRGPSKELSKRLKALSSQLSDARKLFRLGKFLPMLQAARKYIKKKPS 80 (223)
T ss_pred CHHHHHHHccchhhHHHHHHHHHHHHHHHHHHHccCCChHHHHHHHHHHHHhhhHHHHHHHHccHHHHHHHHHhhccCCc
Confidence 5899999999999999999999999999872 11 24689999999999999999999999999988763334
Q ss_pred hhHH-HHHhhhhhHhHHHHHHHHHHHHHhhCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhh
Q 026683 82 LPLV-LLGKSKNALLSTFLFLDQVVWLGRSGIYKNKERAELLGRISLFCWMGSSVCSTLVELGELGRLSTSMKKLEKELK 160 (235)
Q Consensus 82 ~~~~-~l~~~~~~~~~~Y~~~D~v~wl~~~g~~~~~~~~~~~~~~s~~fW~~~l~~~~~~~~~~l~~l~~~~~~l~~~~~ 160 (235)
+.+. .+++++++++++|+++||++|++++|+++.+ ..+++.++|++||++++++++++++++++++..++++..++.+
T Consensus 81 d~~~~~l~~l~~~~~~~y~~~D~~~wl~~~gl~~~~-~~~~~~~~s~~~W~~~l~~~l~~~~~~l~~~~~~~~~~~~~~~ 159 (223)
T PF05648_consen 81 DQVLRILEILSNLFMFLYYLLDNLVWLSKLGLLPNK-SKKKWSRWSNRFWFASLVLSLVRDLRELRRLRQKERSLKKQLK 159 (223)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 5655 4789999999999999999999999999986 3459999999999999999999999999988877766654332
Q ss_pred hcccccHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhcccCCCCCCCccchhhhhHHHHHHHHHHhC
Q 026683 161 DSDKHKNEQYQAKLKKSNERSLALVKSAMDIVVAVGLLQLAPKKVTPRVTGAFGFVTSLISCYQLL 226 (235)
Q Consensus 161 ~~~~~~~e~~~~~~~~~~~~~l~lv~~~~D~~i~~~~l~~~~~~~~~~~vg~~G~iSsli~~y~~w 226 (235)
++++.+++++.+..+++.+..+++++|+||+++|++++|+. .++|++||++|++||++|+|++|
T Consensus 160 ~~~~~~~~~l~~~~~~~~~~~l~lv~~~~D~~~~~~~l~~~--~~~~~~vg~~G~iSs~i~~~~~W 223 (223)
T PF05648_consen 160 EKDENEEEKLKKLRKERRALLLDLVKNLCDLIIAVHWLGWL--KVSDGVVGLLGLISSLIGLYQLW 223 (223)
T ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCe--eCChhhHHHHHHHHHHHHHHHhC
Confidence 23322233344566677888999999999999999999885 59999999999999999999999
No 2
>KOG4186 consensus Peroxisomal biogenesis protein (peroxin) [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.6e-43 Score=287.09 Aligned_cols=219 Identities=36% Similarity=0.486 Sum_probs=177.1
Q ss_pred HHHHHHHhcccchHHHHHHHHHHHHHHhcc----CCcch---HHhHHHhhhHHHHHHHhhhcHHHHHHhhcCC--CCCCC
Q 026683 11 LALVVLYLNKAEARDKICRAIQYGSKFLSD----GQPGT---AQNVDKSTSLARKVFRLFKFVNDLHALISPV--PQGTP 81 (235)
Q Consensus 11 l~~~~~~l~t~~GRDK~~r~iQY~~kll~~----~~~~~---~~~l~~~ls~aRk~~Rl~k~l~~~~~~~~~~--~~~~~ 81 (235)
++++++|+++++||||++|.+||+|+++++ ++|+. ++++++++|.+||+||+||++++++.+.++. +.+++
T Consensus 1 ~d~lv~~ln~~~gRDKl~RalQY~akll~~~l~~~~p~~a~~~~kles~~S~~RK~~Rl~k~l~~~~~~~~~~~~~~~~~ 80 (233)
T KOG4186|consen 1 LDHLVRFLNSAAGRDKLCRALQYVAKLLSWHLEAGSPELAKRLKKLESQLSLARKVLRLGKDLNMFQAALQYGLVPLGTD 80 (233)
T ss_pred CcHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhccCChHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccCCCCCc
Confidence 478999999999999999999999999999 67764 5688899999999999999999999999983 33332
Q ss_pred hhHHHHHhhhhhHhHHHHHHHHHHHHHhhCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH---HH
Q 026683 82 LPLVLLGKSKNALLSTFLFLDQVVWLGRSGIYKNKERAELLGRISLFCWMGSSVCSTLVELGELGRLSTSMKKLE---KE 158 (235)
Q Consensus 82 ~~~~~l~~~~~~~~~~Y~~~D~v~wl~~~g~~~~~~~~~~~~~~s~~fW~~~l~~~~~~~~~~l~~l~~~~~~l~---~~ 158 (235)
..+..+++++|+.+.+|+++|||.|++++|+++.+ ..+|...+...|.+++.++++++++.+..+.+...+.. ++
T Consensus 81 ~~lr~~~~l~n~~~~~Y~~~D~v~Wl~~~gi~~~~--~~~~~~~~~~~w~~sl~l~~~r~~~~~~~~~r~~~~~k~~~~~ 158 (233)
T KOG4186|consen 81 NVLRLLGVLKNLAFALYLFLDHVLWLARTGIIPVK--SERWKISRISLWLLSLGLNLCRDMYEVFELQRLSSSIKKKTKS 158 (233)
T ss_pred chhhHHHHHhHHHHHHHHHHHHHHHHHHhCCcccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccC
Confidence 33445799999999999999999999999999987 38999999999999999999999988655443222211 11
Q ss_pred hhhcccccHHHHHHHHHH--hhHHHHHHHHHHHHHHHHhhcccCCCCCCCccchhhhhHHHHHHHHHHhCCCCccCC
Q 026683 159 LKDSDKHKNEQYQAKLKK--SNERSLALVKSAMDIVVAVGLLQLAPKKVTPRVTGAFGFVTSLISCYQLLPAPVKAK 233 (235)
Q Consensus 159 ~~~~~~~~~e~~~~~~~~--~~~~~l~lv~~~~D~~i~~~~l~~~~~~~~~~~vg~~G~iSsli~~y~~w~~~~k~~ 233 (235)
+.++++.+.+..++.... ++...++...+.||.++|...+++ ++++|++||++|++||++|+|++|++++|+|
T Consensus 159 ~~~~~e~~~~~l~~~~~~~~~~~l~l~~~~~~~~~~ipl~~L~~--~k~~p~~vGl~G~vSSilg~y~~~~~~~~~k 233 (233)
T KOG4186|consen 159 ISSGDEEDREKLQAQQLDQNHRLLLLSADFNAADSALPLGQLGP--GKLNPRQVGLFGLVSSILGMYQLWPPRPKLK 233 (233)
T ss_pred CCCccHHHHHHHHHHHHHccchHHHHHHHHHHHHHhhhhhccCc--CcCChhHhhHHHHHHHHHHHHHHccccccCC
Confidence 111112222223332222 455688999999999999999987 5699999999999999999999999999876
No 3
>PRK11677 hypothetical protein; Provisional
Probab=48.56 E-value=1.1e+02 Score=23.56 Aligned_cols=17 Identities=6% Similarity=-0.015 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 026683 129 CWMGSSVCSTLVELGEL 145 (235)
Q Consensus 129 fW~~~l~~~~~~~~~~l 145 (235)
.|+++++++++.+....
T Consensus 5 ~a~i~livG~iiG~~~~ 21 (134)
T PRK11677 5 YALIGLVVGIIIGAVAM 21 (134)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34555666666655443
No 4
>PF14711 Nitr_red_bet_C: Respiratory nitrate reductase beta C-terminal; PDB: 3IR7_B 1Y5N_B 1R27_D 3EGW_B 1Y5I_B 1Q16_B 1Y4Z_B 1Y5L_B 3IR6_B 3IR5_B ....
Probab=34.26 E-value=71 Score=22.42 Aligned_cols=33 Identities=18% Similarity=0.241 Sum_probs=22.6
Q ss_pred HHHHHHHhccCCcchHHhHHHhhhHHHHHHHhh
Q 026683 31 IQYGSKFLSDGQPGTAQNVDKSTSLARKVFRLF 63 (235)
Q Consensus 31 iQY~~kll~~~~~~~~~~l~~~ls~aRk~~Rl~ 63 (235)
++|.+.++..++.+..+..=..+-.-|.++|--
T Consensus 32 i~YLAnLftAGd~~~V~~~L~rL~AmR~ymR~~ 64 (83)
T PF14711_consen 32 IEYLANLFTAGDEEPVRRALKRLLAMRSYMRAK 64 (83)
T ss_dssp HHHHHHHHSTT-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccCChHHHHHHHHHHHHHHHHHHHH
Confidence 799999999998665654444555667777743
No 5
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=23.08 E-value=2.1e+02 Score=18.17 Aligned_cols=27 Identities=4% Similarity=0.078 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHH
Q 026683 129 CWMGSSVCSTLVELGELGRLSTSMKKL 155 (235)
Q Consensus 129 fW~~~l~~~~~~~~~~l~~l~~~~~~l 155 (235)
.|.+.++.+++-+.+-..+...++++.
T Consensus 3 wWvY~vi~gI~~S~ym~v~t~~eE~~~ 29 (52)
T PF14147_consen 3 WWVYFVIAGIIFSGYMAVKTAKEEREI 29 (52)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 588888888888877665554444443
No 6
>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH. Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.
Probab=21.84 E-value=92 Score=25.51 Aligned_cols=42 Identities=14% Similarity=0.127 Sum_probs=29.8
Q ss_pred HHHHhcccchHHHHHHHHHHHHHHhccCC-------cchHHhHHHhhhH
Q 026683 14 VVLYLNKAEARDKICRAIQYGSKFLSDGQ-------PGTAQNVDKSTSL 55 (235)
Q Consensus 14 ~~~~l~t~~GRDK~~r~iQY~~kll~~~~-------~~~~~~l~~~ls~ 55 (235)
++..++.+.-++|.+|+.|+.+|+-.+.+ ++.+.-|+|.++.
T Consensus 43 l~~~~~~~a~~~k~l~i~QfLsRI~eG~~LD~~Fd~~~~~TPLESAl~v 91 (200)
T cd00280 43 LVGPLKLTATQLKTLRIMQFLSRIAEGKNLDCQFENDEELTPLESALMV 91 (200)
T ss_pred HhccccccccchhHhHHHHHHHHHHcCCCCCCccCCCCCcChHHHHHHH
Confidence 34566777789999999999999987643 2234556666654
No 7
>PRK10292 hypothetical protein; Provisional
Probab=21.83 E-value=2.6e+02 Score=18.69 Aligned_cols=44 Identities=16% Similarity=0.098 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCccchhhhhHH-HHHHHHHHhCC
Q 026683 179 ERSLALVKSAMDIVVAVGLLQLAPKKVTPRVTGAFGFV-TSLISCYQLLP 227 (235)
Q Consensus 179 ~~~l~lv~~~~D~~i~~~~l~~~~~~~~~~~vg~~G~i-Ssli~~y~~w~ 227 (235)
.++..+++-+.|..+.+..+|. .+..+.++|++ +++-.-...|.
T Consensus 9 ~lY~EmCRVVGdvVl~m~~lG~-----e~k~i~Ia~vlrTa~a~~r~~rs 53 (69)
T PRK10292 9 ELYREMCRVVGKVVLEMRDLGQ-----EPKHIVIAGVLRTALANKRIQRS 53 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHcCC-----CcchhhHHHHHHHHHHhcccccC
Confidence 3577889999999999999875 55788899999 55555444443
No 8
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=18.68 E-value=4.2e+02 Score=19.90 Aligned_cols=12 Identities=8% Similarity=-0.025 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHH
Q 026683 132 GSSVCSTLVELG 143 (235)
Q Consensus 132 ~~l~~~~~~~~~ 143 (235)
++++++++.+..
T Consensus 4 i~lvvG~iiG~~ 15 (128)
T PF06295_consen 4 IGLVVGLIIGFL 15 (128)
T ss_pred HHHHHHHHHHHH
Confidence 344444444443
No 9
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=17.20 E-value=4.8e+02 Score=19.99 Aligned_cols=19 Identities=11% Similarity=0.225 Sum_probs=11.2
Q ss_pred HHHHHHHHH---HHHHHHHHHH
Q 026683 125 ISLFCWMGS---SVCSTLVELG 143 (235)
Q Consensus 125 ~s~~fW~~~---l~~~~~~~~~ 143 (235)
|+...|.++ +|.+++.+..
T Consensus 3 wt~~~W~~a~igLvvGi~IG~l 24 (138)
T COG3105 3 WTFMTWEYALIGLVVGIIIGAL 24 (138)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 566778775 4555555543
No 10
>PRK00965 tetrahydromethanopterin S-methyltransferase subunit B; Provisional
Probab=16.92 E-value=37 Score=24.55 Aligned_cols=22 Identities=14% Similarity=-0.011 Sum_probs=17.7
Q ss_pred HHhcccchHHHHHHHHHHHHHH
Q 026683 16 LYLNKAEARDKICRAIQYGSKF 37 (235)
Q Consensus 16 ~~l~t~~GRDK~~r~iQY~~kl 37 (235)
.+++++.|||+++.+..+..-+
T Consensus 59 ~~l~S~PgREg~~~~AG~~tn~ 80 (96)
T PRK00965 59 PPLNSYPGREGTYYIAGIFTNM 80 (96)
T ss_pred ChhhcCCCCcceeeehhhhhHH
Confidence 4789999999999887776544
Done!