Query 039537
Match_columns 103
No_of_seqs 103 out of 389
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 10:42:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039537.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039537hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03202 protein argonaute; Pr 99.7 2.4E-17 5.1E-22 137.0 4.4 100 2-102 90-211 (900)
2 KOG1041 Translation initiation 98.9 5.7E-10 1.2E-14 93.1 2.0 91 5-103 103-195 (876)
3 KOG1042 Germ-line stem cell di 92.2 0.049 1.1E-06 45.1 0.4 66 10-98 136-201 (845)
4 KOG2870 NADH:ubiquinone oxidor 69.4 3.8 8.2E-05 31.8 2.1 65 27-99 386-450 (452)
5 PF07194 P2: P2 response regul 45.7 29 0.00063 20.8 2.8 22 56-77 1-22 (84)
6 COG0649 NuoD NADH:ubiquinone o 44.7 18 0.0004 28.5 2.2 46 53-98 350-395 (398)
7 PF00346 Complex1_49kDa: Respi 37.5 13 0.00029 27.6 0.4 44 54-97 225-268 (272)
8 PF07495 Y_Y_Y: Y_Y_Y domain; 36.1 77 0.0017 17.3 3.6 36 26-62 30-65 (66)
9 PF01819 Levi_coat: Levivirus 32.1 76 0.0017 21.1 3.3 41 21-66 27-67 (129)
10 PRK07415 NAD(P)H-quinone oxido 31.6 60 0.0013 25.5 3.2 45 54-98 347-391 (394)
11 PF12333 Ipi1_N: Rix1 complex 30.6 9.3 0.0002 24.0 -1.2 18 85-102 28-45 (102)
12 CHL00017 ndhH NADH dehydrogena 30.3 63 0.0014 25.3 3.1 45 54-98 346-390 (393)
13 TIGR01914 cas_Csa4 CRISPR-asso 25.4 35 0.00076 26.5 0.9 40 62-101 269-308 (354)
14 PRK12322 NADH dehydrogenase su 24.4 88 0.0019 24.2 3.0 45 54-98 319-363 (366)
15 PRK09398 sspN acid-soluble spo 24.3 46 0.00099 18.3 1.0 19 6-24 9-27 (47)
16 PF03627 PapG_N: PapG carbohyd 24.2 64 0.0014 23.2 2.0 46 17-68 129-179 (226)
17 PF08177 SspN: Small acid-solu 23.4 49 0.0011 18.1 1.0 19 6-24 9-27 (46)
18 PF14848 HU-DNA_bdg: DNA-bindi 22.0 48 0.001 21.5 1.0 42 53-94 14-56 (124)
19 cd00239 PapG_CBD PapG carbohyd 20.8 62 0.0013 22.8 1.4 57 17-80 107-168 (194)
20 PF13075 DUF3939: Protein of u 20.0 87 0.0019 21.2 1.9 28 56-83 30-57 (140)
No 1
>PLN03202 protein argonaute; Provisional
Probab=99.68 E-value=2.4e-17 Score=137.03 Aligned_cols=100 Identities=28% Similarity=0.500 Sum_probs=81.8
Q ss_pred hhHHhhhCCccccCccccccCCcceeecCccccccccceEEEeecC------------CCCc----------cceeeeee
Q 039537 2 KELLEKHGKTHFNGCLPAYDGRKGFYTAGALPFTSKDFNIKLIDRD------------ESGD----------IKREREFK 59 (103)
Q Consensus 2 ~~l~~~~~~~~f~~~~~a~Dg~k~l~s~~~Lp~~~~~~~V~l~~~~------------~~~~----------~~~~~~f~ 59 (103)
.++++++. ..|.+..+||||+++|||+++||++..++.|.+++++ +.++ .++.+.|+
T Consensus 90 ~~~~~~~~-~~~~~~~~~~Dg~~~l~s~~~L~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (900)
T PLN03202 90 DKVQETYS-SDLAGKDFAYDGEKSLFTVGALPQNKLEFTVVLEDVSSNRNNGNGSPVGNGSPNGGDRKRSRRPYQSKTFK 168 (900)
T ss_pred HHHHHhhH-HhhCCCceeecCccceEECccCCCCCceEEEEecccccccccccccccccCCccccccccccccCCCceEE
Confidence 45666664 4476778999999999999999986668889887631 1111 12468899
Q ss_pred EEEEeecccchHHHHHHhchhccCCCcchheeeeehhccCCCC
Q 039537 60 VSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRESPSK 102 (103)
Q Consensus 60 V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~~ps~ 102 (103)
|+|+++++|++++|.+||.|.....+.++||||||||||.|+.
T Consensus 169 v~i~~~~~i~~~~L~~~l~~~~~~~~~~~iq~lnivlr~~~~~ 211 (900)
T PLN03202 169 VEISFAAKIPMQAIANALRGQESENSQDALRVLDIILRQHAAK 211 (900)
T ss_pred EEEEEccccCHHHHHHHHcCCCCCCcHHHHHHHHHHHhhhhhh
Confidence 9999999999999999999998888899999999999999874
No 2
>KOG1041 consensus Translation initiation factor 2C (eIF-2C) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=98.89 E-value=5.7e-10 Score=93.13 Aligned_cols=91 Identities=35% Similarity=0.502 Sum_probs=70.6
Q ss_pred HhhhCCccccCccccccCCcceeecCcccc--ccccceEEEeecCCCCccceeeeeeEEEEeecccchHHHHHHhchhcc
Q 039537 5 LEKHGKTHFNGCLPAYDGRKGFYTAGALPF--TSKDFNIKLIDRDESGDIKREREFKVSVKLASRADINHLRQFLQCKSR 82 (103)
Q Consensus 5 ~~~~~~~~f~~~~~a~Dg~k~l~s~~~Lp~--~~~~~~V~l~~~~~~~~~~~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~ 82 (103)
+..+....|+...++|||+++|||..+||. ....|.+....+. .. |+|+|++++.+.+..+..++.++..
T Consensus 103 ~~~~~~~~~~~~~~~YDg~~~lyt~~~~~~~~~~~~~~~~~~~~~-----~~---~~~~ik~~~~~~~~~~~~~~~~~~~ 174 (876)
T KOG1041|consen 103 VKNPELFELKSGGPAYDGQKTLYTKLELPEGVVTLDFDVISPKEW-----KK---FKVSIKKVSEVVLTKLNGFIYTRGE 174 (876)
T ss_pred HhccccccccCCcccccCCceeEeccccccccceEEEEecCCCCC-----cc---eEEEEEecccccccCccccccCccc
Confidence 344444557777888999999999877874 2233444433321 11 9999999999999999999999988
Q ss_pred CCCcchheeeeehhccCCCCC
Q 039537 83 EAPHDIIQVLDVVLRESPSKK 103 (103)
Q Consensus 83 ~~~~~aiqaLdivLR~~ps~~ 103 (103)
..+.+++|+||++||+.|+.+
T Consensus 175 ~~~~~~~~~ld~~~~~~~s~~ 195 (876)
T KOG1041|consen 175 NAPRDANQTLDVVLREIATSQ 195 (876)
T ss_pred cCchhHHHHHHHHHHhhhchh
Confidence 899999999999999999853
No 3
>KOG1042 consensus Germ-line stem cell division protein Hiwi/Piwi; negative developmental regulator [Cell cycle control, cell division, chromosome partitioning]
Probab=92.16 E-value=0.049 Score=45.11 Aligned_cols=66 Identities=21% Similarity=0.345 Sum_probs=44.5
Q ss_pred CccccCccccccCCcceeecCccccccccceEEEeecCCCCccceeeeeeEEEEeecccchHHHHHHhchhccCCCcchh
Q 039537 10 KTHFNGCLPAYDGRKGFYTAGALPFTSKDFNIKLIDRDESGDIKREREFKVSVKLASRADINHLRQFLQCKSREAPHDII 89 (103)
Q Consensus 10 ~~~f~~~~~a~Dg~k~l~s~~~Lp~~~~~~~V~l~~~~~~~~~~~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~ai 89 (103)
+..+-|...||||.- ||+..++... . .+-. . .++....++++|++++++.- ..| ++|
T Consensus 136 h~~lig~~~~FDG~i-Lfl~~k~eq~--~-tel~-~-----ks~~ge~i~I~ik~~~~~~~------------t~p-~~i 192 (845)
T KOG1042|consen 136 HTDLIGKGYAFDGTI-LFLKEKFEQK--Q-TELV-S-----KSRDGELIKITIKLTNELPS------------TDP-QCI 192 (845)
T ss_pred hHhhhccceeeccee-ehhhHHHhhh--h-heee-c-----ccCCCceEEEEEEEeccccC------------CCh-hHH
Confidence 345556789999974 6888887531 1 1111 1 12455679999999998752 233 589
Q ss_pred eeeeehhcc
Q 039537 90 QVLDVVLRE 98 (103)
Q Consensus 90 qaLdivLR~ 98 (103)
|++|+|||.
T Consensus 193 qv~NlI~RR 201 (845)
T KOG1042|consen 193 QVFNLILRR 201 (845)
T ss_pred HHHHHHHHH
Confidence 999999985
No 4
>KOG2870 consensus NADH:ubiquinone oxidoreductase, NDUFS2/49 kDa subunit [Energy production and conversion]
Probab=69.40 E-value=3.8 Score=31.82 Aligned_cols=65 Identities=23% Similarity=0.357 Sum_probs=44.4
Q ss_pred eecCccccccccceEEEeecCCCCccceeeeeeEEEEeecccchHHHHHHhchhccCCCcchheeeeehhccC
Q 039537 27 YTAGALPFTSKDFNIKLIDRDESGDIKREREFKVSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRES 99 (103)
Q Consensus 27 ~s~~~Lp~~~~~~~V~l~~~~~~~~~~~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~~ 99 (103)
|++-.-| +.+|-|-|-.+ +..+.|+..|+..+-++|+.|.+....---.....+|--+|||+.+-
T Consensus 386 Y~avEaP--KGEfGvfLisd------gS~rPyRckIrapgfahla~l~~m~k~h~lADvvaIiGt~DIvfGEv 450 (452)
T KOG2870|consen 386 YVAVEAP--KGEFGVFLISD------GSGRPYRCKIRAPGFAHLAALDKMSKRHMLADVVAIIGTLDIVFGEV 450 (452)
T ss_pred eEEeecC--CCceeEEEEec------CCCCceeeeecCCchHHHHHHHHHHHhhhHHHHHHhhccceeeeecc
Confidence 4444333 23455555443 35677999999999999999888665544445566888899998763
No 5
>PF07194 P2: P2 response regulator binding domain; InterPro: IPR010808 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. The response regulators for CheA bind to the P2 domain, which is found between IPR008207 from INTERPRO and IPR004105 from INTERPRO as either one or two copies. Highly flexible linkers connect P2 to the rest of CheA and impart remarkable mobility to the P2 domain. This feature is thought to enhance the inter CheA dimer phosphotransfer reactions within the signalling complex, thereby amplifying the phosphorylation signal [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0006928 cellular component movement; PDB: 1U0S_A.
Probab=45.73 E-value=29 Score=20.79 Aligned_cols=22 Identities=14% Similarity=0.551 Sum_probs=16.6
Q ss_pred eeeeEEEEeecccchHHHHHHh
Q 039537 56 REFKVSVKLASRADINHLRQFL 77 (103)
Q Consensus 56 ~~f~V~Ik~~~~i~l~~L~~~l 77 (103)
+.|.|+|++.....|..++.|+
T Consensus 1 k~y~i~v~~~~~c~Mk~vRa~~ 22 (84)
T PF07194_consen 1 KVYHIKVEFDEDCPMKNVRAFM 22 (84)
T ss_dssp EEEEEEEE--TT-SSHHHHHHH
T ss_pred CEEEEEEEECCCCCchhccHHH
Confidence 4799999999989999998877
No 6
>COG0649 NuoD NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]
Probab=44.71 E-value=18 Score=28.46 Aligned_cols=46 Identities=20% Similarity=0.364 Sum_probs=37.6
Q ss_pred ceeeeeeEEEEeecccchHHHHHHhchhccCCCcchheeeeehhcc
Q 039537 53 KREREFKVSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRE 98 (103)
Q Consensus 53 ~~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~ 98 (103)
+..+.|+|+|+-.+-.+|+.|...+.|..-.....++--+|+++.+
T Consensus 350 G~~kPYR~kiR~Psf~~L~~~~~~~~G~~~AD~~ailGS~D~v~gE 395 (398)
T COG0649 350 GSNKPYRVKIRAPSFAHLQALPELLKGHRLADLIAILGSIDIVMGE 395 (398)
T ss_pred CCCCceeEEecCCChhHHHHHHHHhCCCchHHHHHHHhccCccCCC
Confidence 3566899999999999999999999998765555677778888754
No 7
>PF00346 Complex1_49kDa: Respiratory-chain NADH dehydrogenase, 49 Kd subunit; InterPro: IPR001135 This entry represents subunit D (NuoD) of NADH-quinone oxidoreductase (1.6.99.5 from EC), and subunit H (NdhH) of NAD(P)H-quinone oxidoreductase (1.6.5.- from EC). NADH-quinone (Q) oxidoreductase is a large and complex redox proton pump, which utilises the free energy derived from oxidation of NADH with lipophilic electron/proton carrier Q to translocate protons across the membrane to generate an electrochemical proton gradient []. Subunit D (NuoD) is a 49kDa polypeptide that appears to be evolutionarily important in determining the physiological function of complex I/NDH-1 [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0048038 quinone binding, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 2FUG_V 3M9S_4 3I9V_4 3IAS_4 3IAM_4 2YBB_4.
Probab=37.47 E-value=13 Score=27.59 Aligned_cols=44 Identities=20% Similarity=0.321 Sum_probs=31.0
Q ss_pred eeeeeeEEEEeecccchHHHHHHhchhccCCCcchheeeeehhc
Q 039537 54 REREFKVSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLR 97 (103)
Q Consensus 54 ~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR 97 (103)
..+.|+++|+-.+-.|++.|...+.|..-....-++--||+++.
T Consensus 225 ~~~p~R~kiR~psf~n~~~l~~~~~G~~laD~~~i~~Sld~~~~ 268 (272)
T PF00346_consen 225 SGKPYRVKIRTPSFANLQALPEMLRGNRLADVVAIIGSLDPCMG 268 (272)
T ss_dssp SSS-SEEEEE-HHHHTTTTHTTTTTTS-SGGGTHHHHTT---HH
T ss_pred CCcceEEEEeCccHhHHHHHHHHcCCCChhHHHHHHhccCcccC
Confidence 45779999999999999999999999775555557777887764
No 8
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=36.11 E-value=77 Score=17.35 Aligned_cols=36 Identities=11% Similarity=0.220 Sum_probs=19.9
Q ss_pred eeecCccccccccceEEEeecCCCCccceeeeeeEEE
Q 039537 26 FYTAGALPFTSKDFNIKLIDRDESGDIKREREFKVSV 62 (103)
Q Consensus 26 l~s~~~Lp~~~~~~~V~l~~~~~~~~~~~~~~f~V~I 62 (103)
-++-..||-+..+|.|...+.++... ...+.+.|+|
T Consensus 30 ~~~~~~L~~G~Y~l~V~a~~~~~~~~-~~~~~l~i~I 65 (66)
T PF07495_consen 30 SISYTNLPPGKYTLEVRAKDNNGKWS-SDEKSLTITI 65 (66)
T ss_dssp EEEEES--SEEEEEEEEEEETTS-B--SS-EEEEEEE
T ss_pred EEEEEeCCCEEEEEEEEEECCCCCcC-cccEEEEEEE
Confidence 55556677778888888877654321 1225566655
No 9
>PF01819 Levi_coat: Levivirus coat protein; InterPro: IPR002703 This entry represents the coat proteins of the leviviruses (phage MS2) and alloleviruses (phage Qbeta and phage F1). The Levivirus coat protein forms the bacteriophage coat that encapsidates the viral RNA. 180 copies of this protein form the virion shell. The Bacteriophage MS2 coat protein controls two distinct processes: sequence-specific RNA encapsidation and repression of replicase translation-by binding to an RNA stem-loop structure of 19 nucleotides containing the initiation codon of the replicase gene. The binding of a coat protein dimer to this hairpin shuts off synthesis of the viral replicase, switching the viral replication cycle to virion assembly rather than continued replication [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2VF9_A 6MSF_A 2MS2_A 1ZDI_B 2BS1_C 1MST_C 2C4Y_A 1ZDK_B 1ZDJ_A 1ZSE_B ....
Probab=32.11 E-value=76 Score=21.12 Aligned_cols=41 Identities=17% Similarity=0.357 Sum_probs=27.0
Q ss_pred cCCcceeecCccccccccceEEEeecCCCCccceeeeeeEEEEeec
Q 039537 21 DGRKGFYTAGALPFTSKDFNIKLIDRDESGDIKREREFKVSVKLAS 66 (103)
Q Consensus 21 Dg~k~l~s~~~Lp~~~~~~~V~l~~~~~~~~~~~~~~f~V~Ik~~~ 66 (103)
||-..+.+++-.|.....|.+.+... ++..+.|+|.|+...
T Consensus 27 ngVae~~es~~vp~~e~rvT~Svrq~-----s~~r~kytvkv~vp~ 67 (129)
T PF01819_consen 27 NGVAEWSESGNVPSQEYRVTISVRQS-----SANRRKYTVKVEVPK 67 (129)
T ss_dssp GGEEEEEESTSSGGGSEEEEEEEEEE-----TTTEEEEEEEEEEEE
T ss_pred cchHhHHhcCCCccceeEEEEEEEcc-----cCCCcceEEEEEccc
Confidence 45555566666676667777777665 356677888877543
No 10
>PRK07415 NAD(P)H-quinone oxidoreductase subunit H; Validated
Probab=31.58 E-value=60 Score=25.46 Aligned_cols=45 Identities=13% Similarity=0.240 Sum_probs=34.9
Q ss_pred eeeeeeEEEEeecccchHHHHHHhchhccCCCcchheeeeehhcc
Q 039537 54 REREFKVSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRE 98 (103)
Q Consensus 54 ~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~ 98 (103)
..+.|+++|+-.+-.|+..|...+.|..-....-++--+|+++.+
T Consensus 347 ~~~p~R~kiR~PSf~n~~~l~~~~~G~~iaD~~~i~~S~D~~~~~ 391 (394)
T PRK07415 347 DVTPWRWKIRAADFNNLQILPHLLKGAKVADIMAILGSIDVIMGS 391 (394)
T ss_pred CCcEEEEEEeCCChhHHHHHHHHHCCCeechHHHHhcCcCCCcCC
Confidence 457899999999999999999999998644444466667776643
No 11
>PF12333 Ipi1_N: Rix1 complex component involved in 60S ribosome maturation; InterPro: IPR024679 This domain is found in IPI1, which is a component of the Rix1 complex involved in pre-rRNA-processing [, ]. It is also found in testis-expressed sequence 10 protein, a nuclear membrane protein, which is a component of the MLL1/MLL complex [].
Probab=30.64 E-value=9.3 Score=24.03 Aligned_cols=18 Identities=28% Similarity=0.636 Sum_probs=15.5
Q ss_pred CcchheeeeehhccCCCC
Q 039537 85 PHDIIQVLDVVLRESPSK 102 (103)
Q Consensus 85 ~~~aiqaLdivLR~~ps~ 102 (103)
-.+++.+||++|.++|..
T Consensus 28 r~dsl~~L~~lL~~~p~~ 45 (102)
T PF12333_consen 28 REDSLKFLDLLLEHAPDE 45 (102)
T ss_pred HHhHHHHHHHHHHHCChH
Confidence 368999999999999963
No 12
>CHL00017 ndhH NADH dehydrogenase subunit 7
Probab=30.26 E-value=63 Score=25.33 Aligned_cols=45 Identities=11% Similarity=0.200 Sum_probs=35.1
Q ss_pred eeeeeeEEEEeecccchHHHHHHhchhccCCCcchheeeeehhcc
Q 039537 54 REREFKVSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRE 98 (103)
Q Consensus 54 ~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~ 98 (103)
..+.|+++|+-.+-.|+..|...+.|..-....-++--+|+++.+
T Consensus 346 ~~~p~R~kiR~Psf~n~~~l~~~~~G~~iaD~~~i~~S~D~~~~e 390 (393)
T CHL00017 346 SVFPWRWKIRPPGFINLQILPQLVKRMKLADIMTILGSIDIIMGE 390 (393)
T ss_pred CCcEEEEEEeCCChhHHHHHHHHHCCCeechHHHHhhCcCCCcCC
Confidence 467899999999999999999999998654444456667776643
No 13
>TIGR01914 cas_Csa4 CRISPR-associated protein, Csa4 family. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein that tends to be found near CRISPR repeats. The species range for this species, so far, is exclusively archaeal. It is found so far in only four different species, and includes two tandem genes in Pyrococcus furiosus DSM 3638. This subfamily is found in a CRISPR/Cas locus we designate APERN, so the family is designated Csa4, for CRISPR/Cas Subtype Protein 4.
Probab=25.40 E-value=35 Score=26.47 Aligned_cols=40 Identities=18% Similarity=0.230 Sum_probs=31.7
Q ss_pred EEeecccchHHHHHHhchhccCCCcchheeeeehhccCCC
Q 039537 62 VKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRESPS 101 (103)
Q Consensus 62 Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~~ps 101 (103)
|+-.++.+++.|++|+.--.......++++.|+++|..|.
T Consensus 269 ir~~~~~~l~~LmdfI~~lK~r~~y~~~kfvd~L~r~d~e 308 (354)
T TIGR01914 269 VRDFGELDLGVLMDFIAYLKARDFYSWPKFVDFLARRDPE 308 (354)
T ss_pred EEEeeeechhHHHHHHHHHhhhhhcchHHHHHHHhccChH
Confidence 7778899999999998765543445589999999988763
No 14
>PRK12322 NADH dehydrogenase subunit D; Provisional
Probab=24.37 E-value=88 Score=24.24 Aligned_cols=45 Identities=18% Similarity=0.350 Sum_probs=35.1
Q ss_pred eeeeeeEEEEeecccchHHHHHHhchhccCCCcchheeeeehhcc
Q 039537 54 REREFKVSVKLASRADINHLRQFLQCKSREAPHDIIQVLDVVLRE 98 (103)
Q Consensus 54 ~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~~~~~aiqaLdivLR~ 98 (103)
..+.|+++|+-.+-.|+..|...+.|..-....-++--+|+++.+
T Consensus 319 ~~~p~R~kiR~PSf~n~~~l~~~~~G~~iaD~~~i~~S~d~~~~e 363 (366)
T PRK12322 319 KKKPYRLKFRRPSFYNLQILPKLLKGENIANLIAILGSIDIVLGE 363 (366)
T ss_pred CCcEEEEEEeCCCHHHHHHHHHHHCCCeechHHHHhhCcCCCCCc
Confidence 356799999999999999999999998655444466667776543
No 15
>PRK09398 sspN acid-soluble spore protein N; Provisional
Probab=24.30 E-value=46 Score=18.29 Aligned_cols=19 Identities=16% Similarity=0.218 Sum_probs=15.4
Q ss_pred hhhCCccccCccccccCCc
Q 039537 6 EKHGKTHFNGCLPAYDGRK 24 (103)
Q Consensus 6 ~~~~~~~f~~~~~a~Dg~k 24 (103)
.+|.++++|.....|+|.|
T Consensus 9 ~~f~P~HlGTqPr~~~~NK 27 (47)
T PRK09398 9 KQFAPNHLGTQPRKAGGNK 27 (47)
T ss_pred CccCcccccccccccCCcc
Confidence 5678889988888888876
No 16
>PF03627 PapG_N: PapG carbohydrate binding domain; InterPro: IPR005310 PapG, the adhesin of the P-pili, is situated at the tip and is only a minor component of the whole pilus structure. A two-domain structure has been postulated for PapG; a carbohydrate binding N terminus (this domain) and chaperone binding C terminus. The carbohydrate-binding domain interacts with the receptor glycan [, ].; GO: 0030246 carbohydrate binding, 0007155 cell adhesion; PDB: 2WMP_B 3ME0_B 1J8S_A 1J8R_A.
Probab=24.19 E-value=64 Score=23.18 Aligned_cols=46 Identities=15% Similarity=0.183 Sum_probs=24.8
Q ss_pred cccccCCcceeecCccc-----cccccceEEEeecCCCCccceeeeeeEEEEeeccc
Q 039537 17 LPAYDGRKGFYTAGALP-----FTSKDFNIKLIDRDESGDIKREREFKVSVKLASRA 68 (103)
Q Consensus 17 ~~a~Dg~k~l~s~~~Lp-----~~~~~~~V~l~~~~~~~~~~~~~~f~V~Ik~~~~i 68 (103)
.++.||.+.|+-++... |++..|.+-|+.+ -....|.|.|++.+-|
T Consensus 129 ~wt~~~g~~C~~~G~~~~L~~kF~dl~f~~~LP~D------LPkG~Y~~pi~yirGi 179 (226)
T PF03627_consen 129 TWTNDGGRICFYPGNTKQLNNKFNDLIFRVFLPVD------LPKGDYSFPIKYIRGI 179 (226)
T ss_dssp EEE---EESS--TT-EEEE------EEEEEE--TT--------SEEEEEEEEEEEEE
T ss_pred ccccCCcceecCcchhhhhhhhhCcEEEEEEcccc------CCCCceeeechhhhcc
Confidence 57889999999887653 3567788888665 2335699999988644
No 17
>PF08177 SspN: Small acid-soluble spore protein N family; InterPro: IPR012612 This family consists of the small acid-soluble spore protein (SASP) N type (sspN). SspN is a 48 residues protein that is expressed only in the forespore compartment of sporulating Bacillus subtilis. The sspN gene is recognised equally by both sigma-G and sigma-F. The role of SspN is still not well-defined [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=23.38 E-value=49 Score=18.10 Aligned_cols=19 Identities=16% Similarity=0.151 Sum_probs=15.0
Q ss_pred hhhCCccccCccccccCCc
Q 039537 6 EKHGKTHFNGCLPAYDGRK 24 (103)
Q Consensus 6 ~~~~~~~f~~~~~a~Dg~k 24 (103)
.+|.++++|.....|+|.|
T Consensus 9 ~~f~P~HlGTqpr~~~~NK 27 (46)
T PF08177_consen 9 KQFVPNHLGTQPRKAGGNK 27 (46)
T ss_pred cccCcccccccccccCCcc
Confidence 4677888888888888876
No 18
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=22.00 E-value=48 Score=21.46 Aligned_cols=42 Identities=12% Similarity=0.209 Sum_probs=29.9
Q ss_pred ceeeeeeEEEEeecccchHHHHHHhchhccC-CCcchheeeee
Q 039537 53 KREREFKVSVKLASRADINHLRQFLQCKSRE-APHDIIQVLDV 94 (103)
Q Consensus 53 ~~~~~f~V~Ik~~~~i~l~~L~~~l~g~~~~-~~~~aiqaLdi 94 (103)
.++..|...+...+++++.+|.+-+.+..+. ...++..+|+.
T Consensus 14 ~~~~~y~a~~~~~~~~tl~~Ia~~i~~~~s~~t~~di~~vl~~ 56 (124)
T PF14848_consen 14 DAKDDYYAQVVSSGTLTLEDIAEEIAKEGSTLTRADIEAVLNA 56 (124)
T ss_pred CCCCceEEEEEecCccCHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 4567799999999999999999888765333 34444444443
No 19
>cd00239 PapG_CBD PapG carbohydrate / receptor binding domain (CBD); PapG, the adhesin of the P-pili, is situated at the tip, mediating the attachment of uropathogenic Escherichia coli to the uroepithelium of the human kidney; PapG has a two-domain architecture: a carbohydrate binding N-terminus (this domain) and chaperone binding C-terminus (C-terminal pilin region). The carbohydrate-binding domain interacts with the receptor glycan. There are 3 PapG alleles, class I-III, which bind to different receptor isotypes, GbO3, GbO4, and GbO5, respectively.
Probab=20.80 E-value=62 Score=22.78 Aligned_cols=57 Identities=18% Similarity=0.293 Sum_probs=38.2
Q ss_pred cccccCCcceeecCccc-----cccccceEEEeecCCCCccceeeeeeEEEEeecccchHHHHHHhchh
Q 039537 17 LPAYDGRKGFYTAGALP-----FTSKDFNIKLIDRDESGDIKREREFKVSVKLASRADINHLRQFLQCK 80 (103)
Q Consensus 17 ~~a~Dg~k~l~s~~~Lp-----~~~~~~~V~l~~~~~~~~~~~~~~f~V~Ik~~~~i~l~~L~~~l~g~ 80 (103)
.+++||.+.|+-++... |++..|.+.|+.+= ....|.+.|++.+-|.- .--+|+.|+
T Consensus 107 e~~~~~gr~Cf~~Ge~k~L~~kFndl~f~~~lPvDL------PkG~Y~fpvkyirGIQ~-h~yd~~~~~ 168 (194)
T cd00239 107 EWTFDGGRTCFNPGEKKQLANKFNDLTFNVLLPVDL------PKGDYTFPVKYIRGIQR-HYYDYWGGR 168 (194)
T ss_pred eeecCCcceecCcchhhhhhhhhCcEEEEEEccccC------CCCceeeeehhhhhhhh-hhhhhhccc
Confidence 67889999999887653 35677887776642 23469999998876642 223445554
No 20
>PF13075 DUF3939: Protein of unknown function (DUF3939)
Probab=20.02 E-value=87 Score=21.20 Aligned_cols=28 Identities=14% Similarity=0.141 Sum_probs=23.6
Q ss_pred eeeeEEEEeecccchHHHHHHhchhccC
Q 039537 56 REFKVSVKLASRADINHLRQFLQCKSRE 83 (103)
Q Consensus 56 ~~f~V~Ik~~~~i~l~~L~~~l~g~~~~ 83 (103)
-..+|-|..-.+||++.|..||.|..+.
T Consensus 30 i~rt~lv~~d~~iD~~~L~~yL~g~p~q 57 (140)
T PF13075_consen 30 INRTILVNDDQSIDFERLAPYLGGIPDQ 57 (140)
T ss_pred CceEEEEcCCceecHHHHhhhcCCCCCc
Confidence 3477888899999999999999997643
Done!