Query 025962
Match_columns 245
No_of_seqs 94 out of 96
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 11:33:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025962.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025962hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13266 DUF4057: Protein of u 100.0 2.8E-85 6E-90 595.1 12.8 220 3-223 1-239 (302)
2 PF13266 DUF4057: Protein of u 100.0 6.4E-49 1.4E-53 357.6 8.7 163 33-212 100-302 (302)
3 PF15276 PP1_bind: Protein pho 14.9 81 0.0017 24.1 0.9 14 49-62 5-18 (64)
4 PF10313 DUF2415: Uncharacteri 13.7 62 0.0014 22.7 0.0 10 15-24 15-24 (43)
5 PF10465 Inhibitor_I24: PinA p 7.7 1.3E+02 0.0028 25.9 -0.1 35 141-175 28-65 (140)
6 PF06261 LktC: Actinobacillus 7.0 1.7E+02 0.0036 25.1 0.2 9 236-244 142-150 (150)
7 PF13474 SnoaL_3: SnoaL-like d 6.9 3.6E+02 0.0077 19.6 1.9 16 212-227 101-118 (121)
8 PF03544 TonB_C: Gram-negative 6.5 1.2E+02 0.0027 21.2 -0.7 43 136-178 4-46 (79)
9 PF15046 DUF4532: Protein of u 6.5 3.1E+02 0.0068 26.2 1.7 71 167-242 127-205 (279)
10 PRK14463 ribosomal RNA large s 6.2 3E+02 0.0066 26.2 1.5 9 201-209 339-347 (349)
No 1
>PF13266 DUF4057: Protein of unknown function (DUF4057)
Probab=100.00 E-value=2.8e-85 Score=595.06 Aligned_cols=220 Identities=70% Similarity=1.051 Sum_probs=202.4
Q ss_pred CCCCCCCCCCCccccccccCCCCCCCCCCCCCCCCCCC-CCCCCCcceeeeCCcCChHHHHhhhccCCCCccchhhccCC
Q 025962 3 RSTPVRKPHTSTADLLVWSETPPSDSPAQASSTRSSVR-GQPSDGISKVVFGGQVTDEEVESLNRRKPCSGYKMKEMTGS 81 (245)
Q Consensus 3 r~~pvr~~htstadLltWse~p~~~~~s~~~~~R~~vr-~Qp~~giS~IsFg~qvt~eEaesl~krK~~S~aK~KEmsGs 81 (245)
|+||||+|||||||||+|+|+|+++++..+++.|+..| |||++|||+|+||+|||+||||+|+|||+||++||||||||
T Consensus 1 r~~pvR~~HtsTadLltWse~~~~~~~~~~~~~~~a~RshQPs~giskv~fGgQvT~EEAEsL~KRKpCS~~K~KEmTGS 80 (302)
T PF13266_consen 1 RATPVRKPHTSTADLLTWSETPPPDSPAASSTSRPARRSHQPSDGISKVVFGGQVTEEEAESLNKRKPCSGYKMKEMTGS 80 (302)
T ss_pred CCCCccCCCcCchhhccccCCCCcccccccCCCCCCCCCCCCcccccccccCCcCCHHHHHHHhccCcCccccceecccc
Confidence 79999999999999999999998777633333334444 99999999999999999999999999999999999999999
Q ss_pred CCccCCCCCCcCCCCCCCCCCCCCCccceeccccCCcccccccCCCCCCCCCCCCchhhhhhhhccCCCCCchhhhhhhc
Q 025962 82 GIFAAGAENDESESGSANPTPNNKTGLRMYQQAIAGISHISFGEEDSISPKKPTTLPEVAKQRELSGTLESESEAKLKKQ 161 (245)
Q Consensus 82 gIFa~~~e~~~~~~~~a~~~~~~~tsvr~~qq~~~g~SqISFgee~svspKK~ts~~evaKqrELSGn~~~~~d~~~~Kq 161 (245)
|||+++++++.++.+.+++ .+++|++|||||+.+|+|||||++|++|+||||++++|||||||||||+++++|.+++||
T Consensus 81 GIF~~~~e~~~se~~san~-~~~rt~vr~yQq~~~giSqISF~~eesvsPKKpts~~EVAKQRELSGTlese~D~k~kkq 159 (302)
T PF13266_consen 81 GIFSANGEDDASESGSANP-TPNRTGVRMYQQAINGISQISFSEEESVSPKKPTSLPEVAKQRELSGTLESEADSKMKKQ 159 (302)
T ss_pred cccccCCCCcccccccCCC-CccccccceecccccccceeeecCCCCcCCCCccchHHHHHHhhhcCccccchhhHHHhh
Confidence 9999999999999987773 357999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccCCCCCCCCCCCCCchHHHHH-hhhhccCCCCC------------CCCCCCccc-----eeeeeeeeEEEE
Q 025962 162 ISDAKSKELSGHDIFAPPPEILPRPAVRAL-ALKENFNLGDS------------APQDVQTSV-----GVLTVSDVWMHI 223 (245)
Q Consensus 162 lS~AK~KEmSGsdIFAdp~~~~pR~~~~~~-~~k~d~~~g~r------------~PpGG~SsI-----~lvkt~kk~~~~ 223 (245)
+|+||+||||||||||||+++.||+++++. |+||+.+.|.+ +|+||+|+| ++|||+|||.+-
T Consensus 160 ~S~AK~KELSGhdIFapp~~~~pr~~~~r~le~k~~~~~~e~~~~~~~ts~~~~n~a~~~s~~~~~~~~~~Ktakki~~~ 239 (302)
T PF13266_consen 160 ISNAKSKELSGHDIFAPPPEIKPRSLTARSLELKENKDRGEPAPRNVRTSVKVSNPAGGQSNIEFGEDSVVKTAKKISNQ 239 (302)
T ss_pred hhhhhhhhcccCcccCCCccCCCCcchhhhhhhcccccccCCCCCcccccccccCCcCcccccccccCcchhhhhhhhhh
Confidence 999999999999999999999999987555 99999998865 899999999 899999999654
No 2
>PF13266 DUF4057: Protein of unknown function (DUF4057)
Probab=100.00 E-value=6.4e-49 Score=357.60 Aligned_cols=163 Identities=32% Similarity=0.464 Sum_probs=145.8
Q ss_pred CCCCCCCC-CC-CCCCcceeeeCCc--CChH--------------------HHHhhhccCCCCccchhhccCCCCccCCC
Q 025962 33 SSTRSSVR-GQ-PSDGISKVVFGGQ--VTDE--------------------EVESLNRRKPCSGYKMKEMTGSGIFAAGA 88 (245)
Q Consensus 33 ~~~R~~vr-~Q-p~~giS~IsFg~q--vt~e--------------------Eaesl~krK~~S~aK~KEmsGsgIFa~~~ 88 (245)
.++|++|| || ..+|||||+|+++ |+++ |+|.++ +||+|++|+|||+|||||++|+
T Consensus 100 ~~~rt~vr~yQq~~~giSqISF~~eesvsPKKpts~~EVAKQRELSGTlese~D~k~-kkq~S~AK~KELSGhdIFapp~ 178 (302)
T PF13266_consen 100 TPNRTGVRMYQQAINGISQISFSEEESVSPKKPTSLPEVAKQRELSGTLESEADSKM-KKQISNAKSKELSGHDIFAPPP 178 (302)
T ss_pred CccccccceecccccccceeeecCCCCcCCCCccchHHHHHHhhhcCccccchhhHH-HhhhhhhhhhhcccCcccCCCc
Confidence 35799999 87 5589999999988 5542 788888 7899999999999999999999
Q ss_pred CCCcCCCC-----------CCCC-CCCCCCccceeccccCCcccccccCCCCC-CCCCCCCchhhhhhhhccCCCCCchh
Q 025962 89 ENDESESG-----------SANP-TPNNKTGLRMYQQAIAGISHISFGEEDSI-SPKKPTTLPEVAKQRELSGTLESESE 155 (245)
Q Consensus 89 e~~~~~~~-----------~a~~-~~~~~tsvr~~qq~~~g~SqISFgee~sv-spKK~ts~~evaKqrELSGn~~~~~d 155 (245)
++.++... ...+ +++.+|++++.+ +++|+|+|.|++|+++ +.||+++ +|++||+||+||++|
T Consensus 179 ~~~pr~~~~r~le~k~~~~~~e~~~~~~~ts~~~~n-~a~~~s~~~~~~~~~~Ktakki~~----~K~aeltGN~IFk~d 253 (302)
T PF13266_consen 179 EIKPRSLTARSLELKENKDRGEPAPRNVRTSVKVSN-PAGGQSNIEFGEDSVVKTAKKISN----QKFAELTGNNIFKGD 253 (302)
T ss_pred cCCCCcchhhhhhhcccccccCCCCCcccccccccC-CcCcccccccccCcchhhhhhhhh----hhhhhcccCcccCCC
Confidence 99999732 1122 678899999998 9999999999999999 8999988 899999999999986
Q ss_pred ---hhhhhcccccccccccCCCCCCCCCCCCCchHHHHHhhhhccCCCCCCCCCCCccce
Q 025962 156 ---AKLKKQISDAKSKELSGHDIFAPPPEILPRPAVRALALKENFNLGDSAPQDVQTSVG 212 (245)
Q Consensus 156 ---~~~~KqlS~AK~KEmSGsdIFAdp~~~~pR~~~~~~~~k~d~~~g~r~PpGG~SsI~ 212 (245)
.+++|+||.||+|||+||||||| +++..| ||+||+|+||||+|||+
T Consensus 254 ~p~~saek~lS~AKlrEmsGsdIFaD-gk~~~r----------d~~gg~rkPPGG~SSIa 302 (302)
T PF13266_consen 254 VPPASAEKPLSSAKLREMSGSDIFAD-GKAESR----------DYLGGVRKPPGGESSIA 302 (302)
T ss_pred CCCCCcccchhhhhHhhccccccccc-CCcccc----------hhcCCccCCCCCCCcCC
Confidence 67899999999999999999999 898999 89999999999999995
No 3
>PF15276 PP1_bind: Protein phosphatase 1 binding
Probab=14.94 E-value=81 Score=24.09 Aligned_cols=14 Identities=29% Similarity=0.603 Sum_probs=11.8
Q ss_pred eeeeCCcCChHHHH
Q 025962 49 KVVFGGQVTDEEVE 62 (245)
Q Consensus 49 ~IsFg~qvt~eEae 62 (245)
.|+||+++|+|-.|
T Consensus 5 RVsFG~~LSPElFD 18 (64)
T PF15276_consen 5 RVSFGEHLSPELFD 18 (64)
T ss_pred eeccCCCCCHHHhc
Confidence 59999999998654
No 4
>PF10313 DUF2415: Uncharacterised protein domain (DUF2415); InterPro: IPR019417 This entry represents a short (30 residues) domain of unknown function found in a family of fungal proteins. It contains a characteristic DLL sequence motif.
Probab=13.70 E-value=62 Score=22.68 Aligned_cols=10 Identities=50% Similarity=1.029 Sum_probs=8.1
Q ss_pred cccccccCCC
Q 025962 15 ADLLVWSETP 24 (245)
Q Consensus 15 adLltWse~p 24 (245)
-|||.|+|-.
T Consensus 15 ~DLL~~~E~~ 24 (43)
T PF10313_consen 15 NDLLAWAEHQ 24 (43)
T ss_pred ccEEEEEccC
Confidence 3999999953
No 5
>PF10465 Inhibitor_I24: PinA peptidase inhibitor ; InterPro: IPR019506 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. PinA inhibits the endopeptidase La. It binds to the La homotetramer but does not interfere with the ATP binding site or the active site of La.
Probab=7.71 E-value=1.3e+02 Score=25.93 Aligned_cols=35 Identities=29% Similarity=0.378 Sum_probs=28.2
Q ss_pred hhhhhccCCCCCch--h-hhhhhcccccccccccCCCC
Q 025962 141 AKQRELSGTLESES--E-AKLKKQISDAKSKELSGHDI 175 (245)
Q Consensus 141 aKqrELSGn~~~~~--d-~~~~KqlS~AK~KEmSGsdI 175 (245)
=|.+||++.-+.++ | .-.+=.||++|.-+++|.||
T Consensus 28 fKV~~l~k~~e~d~~~d~giiev~l~~g~~~~Iyd~~~ 65 (140)
T PF10465_consen 28 FKVRELSKECEDDGEPDTGIIEVELSTGKIINIYDKDI 65 (140)
T ss_pred EEeeehhccccccCCCccceEEEEecCCceeeecCCCc
Confidence 47899998887665 3 33456899999999999998
No 6
>PF06261 LktC: Actinobacillus actinomycetemcomitans leukotoxin activator LktC; InterPro: IPR009369 This family consists of several Actinobacillus actinomycetemcomitans leukotoxin activator (LktC) proteins. Actinobacillus actinomycetemcomitans is a Gram-negative bacterium that has been implicated in the etiology of several forms of periodontitis, especially localised juvenile periodontitis. LktC along with LktB and LktD are thought to be required for activation and localisation of the leukotoxin [].
Probab=7.04 E-value=1.7e+02 Score=25.06 Aligned_cols=9 Identities=67% Similarity=1.597 Sum_probs=6.3
Q ss_pred cCCCCCCCC
Q 025962 236 LPLLPLPWK 244 (245)
Q Consensus 236 ~~~~~~~~~ 244 (245)
+-||||||.
T Consensus 142 itllplpwg 150 (150)
T PF06261_consen 142 ITLLPLPWG 150 (150)
T ss_pred EEEecCCCC
Confidence 357888883
No 7
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=6.94 E-value=3.6e+02 Score=19.58 Aligned_cols=16 Identities=25% Similarity=0.030 Sum_probs=10.8
Q ss_pred eeeee--eeeEEEEEEee
Q 025962 212 GVLTV--SDVWMHIHISL 227 (245)
Q Consensus 212 ~lvkt--~kk~~~~~~~~ 227 (245)
-+.|+ .=||.|+|+|.
T Consensus 101 v~~k~~~~Wki~h~H~S~ 118 (121)
T PF13474_consen 101 VFRKEDGGWKIVHIHWSA 118 (121)
T ss_dssp EEEEETTEEEEEEEEEEE
T ss_pred EEEEECCEEEEEEEEecC
Confidence 45555 45788888873
No 8
>PF03544 TonB_C: Gram-negative bacterial TonB protein C-terminal; InterPro: IPR006260 The sequences in this set all contain a conserved C-terminal domain which is characteristic of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria []. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetitive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to span the periplasm. Iron is essential for growth in both bacteria and mammals. Controlling the amount of free iron in solution is often used as a tactic by hosts to limit invasion of pathogenic microbes; binding iron tightly within protein molecules can accomplish this. Some bacteria express surface receptors to capture eukaryotic iron-binding compounds, while others have evolved siderophores to scavenge iron from iron-binding host proteins []. The absence of free iron molecules in the surrounding environment triggers transcription of gene clusters that encode both siderophore-synthesis ezymes, and receptors that recognise iron-bound siderophores []. An example of the latter is Escherichia coli fepA, which resides in the outer envelope and captures iron-bound enterobactin []. To complete transport of bound iron across the inner membrane, a second receptor complex is needed. The major component of this is tonB, a 27kDa protein that facilitates energy transfer from the proton motive force to outer receptors. B-12 and colicin receptors also make use of the tonB system to drive active transport at the outer membrane.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016020 membrane, 0030288 outer membrane-bounded periplasmic space; PDB: 1U07_B 1IHR_A 2GRX_C 2GSK_B 1QXX_A 1XX3_A 2K9K_A.
Probab=6.50 E-value=1.2e+02 Score=21.18 Aligned_cols=43 Identities=28% Similarity=0.399 Sum_probs=30.6
Q ss_pred CchhhhhhhhccCCCCCchhhhhhhcccccccccccCCCCCCC
Q 025962 136 TLPEVAKQRELSGTLESESEAKLKKQISDAKSKELSGHDIFAP 178 (245)
Q Consensus 136 s~~evaKqrELSGn~~~~~d~~~~KqlS~AK~KEmSGsdIFAd 178 (245)
.+|+.|+.+.+.|+..-.-.-..+=.+++.++.+=+|+++|..
T Consensus 4 ~YP~~a~~~~~~G~v~v~~~I~~~G~v~~~~v~~s~~~~~l~~ 46 (79)
T PF03544_consen 4 VYPEEARRRGIEGTVVVEFTIDPDGRVSDVRVIQSSGPPILDE 46 (79)
T ss_dssp ---CHHHHHTEEEEEEEEEEEETTTEEEEEEEEEESSSSCSHH
T ss_pred CCCHHHHHCCCeEEEEEEEEEeCCCCEEEEEEEEccCHHHHHH
Confidence 4567789999999986443334455688899999999888875
No 9
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=6.49 E-value=3.1e+02 Score=26.20 Aligned_cols=71 Identities=30% Similarity=0.265 Sum_probs=47.6
Q ss_pred cccccCCCCCCCCCCCCCchHH-HHH--hhhhccCCC----CCC-CCCCCccceeeeeeeeEEEEEEeeeeeccccccCC
Q 025962 167 SKELSGHDIFAPPPEILPRPAV-RAL--ALKENFNLG----DSA-PQDVQTSVGVLTVSDVWMHIHISLFSFSVPLALPL 238 (245)
Q Consensus 167 ~KEmSGsdIFAdp~~~~pR~~~-~~~--~~k~d~~~g----~r~-PpGG~SsI~lvkt~kk~~~~~~~~~~~~~~~~~~~ 238 (245)
++=++-++||-| ++ -|... .++ |++|....- .|. |-..+.||.=-+.-||. -|||.-.--.|-.|.|
T Consensus 127 l~FI~~~pif~D-~~--rK~qvI~rt~KELkE~~kLKLRSe~RvPPlD~~GNIlPP~nFkky--~h~saggr~~p~glql 201 (279)
T PF15046_consen 127 LKFISCTPIFVD-PN--RKNQVILRTVKELKEFEKLKLRSEARVPPLDAQGNILPPENFKKY--RHISAGGRFEPQGLQL 201 (279)
T ss_pred hhhhhcccceec-hh--hhhHHHHHHHHHHhhhHhhhhhhhccCCCcCCCCCCcCchhhccc--ccccCCceecCCcccc
Confidence 455677899998 33 23332 333 888765543 344 44667799777777776 6777777778999999
Q ss_pred CCCC
Q 025962 239 LPLP 242 (245)
Q Consensus 239 ~~~~ 242 (245)
+|-|
T Consensus 202 ~pnp 205 (279)
T PF15046_consen 202 MPNP 205 (279)
T ss_pred CCCC
Confidence 8765
No 10
>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=6.17 E-value=3e+02 Score=26.23 Aligned_cols=9 Identities=33% Similarity=0.542 Sum_probs=7.2
Q ss_pred CCCCCCCCc
Q 025962 201 DSAPQDVQT 209 (245)
Q Consensus 201 ~r~PpGG~S 209 (245)
++.||||+|
T Consensus 339 ~~~~~~~~~ 347 (349)
T PRK14463 339 DKAPPGGES 347 (349)
T ss_pred cCCCCCCCC
Confidence 458999997
Done!