Query 011198
Match_columns 491
No_of_seqs 171 out of 321
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 22:41:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011198.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011198hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2031 Tyrosyl-DNA phosphodie 100.0 6.7E-73 1.5E-77 586.2 20.0 386 63-484 3-398 (519)
2 PF06087 Tyr-DNA_phospho: Tyro 100.0 2.6E-73 5.6E-78 603.7 6.3 312 161-483 1-348 (443)
3 cd00060 FHA Forkhead associate 97.8 3.9E-05 8.6E-10 64.1 6.0 94 7-108 2-101 (102)
4 PF00498 FHA: FHA domain; Int 97.4 0.00024 5.3E-09 56.1 4.3 62 33-98 2-67 (68)
5 TIGR01663 PNK-3'Pase polynucle 97.1 0.00065 1.4E-08 74.8 5.7 97 3-109 11-109 (526)
6 PLN02927 antheraxanthin epoxid 93.1 0.27 5.9E-06 56.0 7.9 105 8-115 535-652 (668)
7 TIGR03354 VI_FHA type VI secre 92.8 0.22 4.9E-06 53.3 6.5 92 11-107 5-101 (396)
8 smart00240 FHA Forkhead associ 91.3 0.28 6.2E-06 36.2 3.8 39 37-75 10-49 (52)
9 COG1716 FOG: FHA domain [Signa 89.1 0.55 1.2E-05 44.0 4.6 67 31-103 90-159 (191)
10 PF00614 PLDc: Phospholipase D 85.3 0.75 1.6E-05 31.2 2.2 25 252-279 2-26 (28)
11 smart00155 PLDc Phospholipase 81.2 1.9 4.1E-05 28.6 2.9 25 252-279 2-26 (28)
12 cd00138 PLDc Phospholipase D. 76.4 3.3 7.1E-05 38.0 4.0 54 252-319 111-165 (176)
13 PF13091 PLDc_2: PLD-like doma 72.1 4.9 0.00011 34.6 3.8 37 253-292 73-110 (126)
14 PRK13912 nuclease NucT; Provis 61.5 7.4 0.00016 36.8 3.0 82 196-283 51-145 (177)
15 PF09565 RE_NgoFVII: NgoFVII r 43.3 21 0.00045 37.1 3.1 27 254-280 80-107 (296)
16 PF11740 KfrA_N: Plasmid repli 42.8 13 0.00029 32.4 1.3 44 434-490 19-62 (120)
17 TIGR02500 type_III_yscD type I 35.5 52 0.0011 35.4 4.7 37 24-60 14-54 (410)
18 PF10382 DUF2439: Protein of u 25.4 1.3E+02 0.0028 25.2 4.5 60 44-108 10-72 (83)
19 KOG3603 Predicted phospholipas 25.4 3.9E+02 0.0085 29.5 9.0 53 251-320 166-222 (456)
20 PLN02352 phospholipase D epsil 20.5 63 0.0014 37.8 2.2 23 256-281 609-631 (758)
No 1
>KOG2031 consensus Tyrosyl-DNA phosphodiesterase [Replication, recombination and repair]
Probab=100.00 E-value=6.7e-73 Score=586.22 Aligned_cols=386 Identities=33% Similarity=0.564 Sum_probs=306.8
Q ss_pred EEEecCCceEeecCC--cccccccccccccccCCcccccCCCccceeeeecccccccccCCCCccchhhhhhhhhcccCC
Q 011198 63 LVVDGTNPVVVKSGD--QRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGATNGELSSKKMRQQDEQDN 140 (491)
Q Consensus 63 ~~~~~~~~~~~~~~~--~~~k~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (491)
+++.++++..++|+. ++.+.-...+....+++.++..+++++.+.+.+... . .....
T Consensus 3 ~ss~~~~~~p~~s~~~~~~s~~~~~~~isa~~~~~~~~~~n~~~~~~~~l~g~-------~--------------~~~~t 61 (519)
T KOG2031|consen 3 LSSNFNGLKPERSDVAEEKSQRKKSSRISAENDNAAPVTENHHKDDCVILKGS-------R--------------DIKLT 61 (519)
T ss_pred cccCCCCcccccccccchhcccccCccccccCcccccccccccchhhhhcCCC-------c--------------ccccC
Confidence 567778888888754 455566678888899999999999999777766221 1 00111
Q ss_pred CCCCCCcccccccccCCCCCCCceEEEEecC--CCCCCCCCceeechhcc---ccHhhhhhhhcccCHhhhhccCCCCCC
Q 011198 141 ENGKNSEEALCNFHVSRDKLPSTFRLLRVQG--LPAWANTSCVSIRDVIQ---GDIIVAILSNYMVDIDWLLPACPVLAK 215 (491)
Q Consensus 141 ~~~~~~~~~~~~~~~~~~~~~s~FrLtrv~g--~p~~~n~~~Isl~DlL~---~~L~~allfnF~~Dl~WLl~~~p~~~~ 215 (491)
...+...|+....+ .|.-+.++.+.+ .|.......+++.+|+. |+++.++|||||+|++||+.+||....
T Consensus 62 ~~e~~~~~~~~~~~-----~p~~~~ft~v~~~s~~~~~s~~s~sl~~il~~i~g~~v~silfsfmvdid~Lv~~y~~~~~ 136 (519)
T KOG2031|consen 62 NQEKDDSERILTND-----NPKGAVFTTVKGDSVPRYDSMGSVSLMEILADIFGTPVNSILFSFMVDIDWLVGQYPPSVR 136 (519)
T ss_pred ccccccHHHHhccC-----CcccccccccccccccccCcccchHHHHHHHHhhCCchhheEEEEEeEHHHHHhhCcchhc
Confidence 11122223333333 334455555554 33333336677777764 589999999999999999999986445
Q ss_pred CCeEEEEeCCCCchhhhhhhcCCCceEEecCCCCCCCCCccceeEEEEeCCccEEEEeCCCCChhcccccCCeEEeeccC
Q 011198 216 IPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFP 295 (491)
Q Consensus 216 ~p~v~Vvhge~~~~~~~~~~~~~~n~~l~~ppmp~~fGtHHSKmmLL~Y~dglRVVI~TANLi~~DW~~~tQ~vWiqDfP 295 (491)
.+.|+++||+.++.........+.+++++.+.||++|||||+|||+|+|++|+|||||||||++.||+++||++|+++++
T Consensus 137 ~~~i~l~~G~~d~~~~~~~~K~~~l~~~~~~~LpipF~thHtKm~~l~y~~G~rvvv~taNl~~~Dw~~ktQ~~w~sp~~ 216 (519)
T KOG2031|consen 137 IKPITLVHGEPDEARLLAQTKAPILVTVKLASLPIPFGTHHTKMIILFYEEGCRVVVHTANLIHDDWNNKTQGFWCSPLL 216 (519)
T ss_pred cCceEEEecCCchHHHHhhhhccceeeeecccccccccccccceEEEeccCccEEEEecCCcceecccccccceeecCCc
Confidence 55688889988733222233456789999999999999999999999999999999999999999999999999999988
Q ss_pred CCCCCCCCCCCChHHHHHHHHHhCCCCccccCCCCCCCcccCccccccccccccceEEEEecCCCccCCCcchhcHHHHH
Q 011198 296 LKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLR 375 (491)
Q Consensus 296 ~~~~~s~~~~s~Fk~dL~~YL~ay~~p~~~~~~p~lg~~~i~~~~L~~yDFS~a~v~LVaSVPG~H~g~~~~~~Gh~rL~ 375 (491)
++.......++.|+.||++||++|++|.+. +|+++|++||||.++|+||+||||++.|+....|||+||+
T Consensus 217 ~~~~~~g~~~~~Fk~DLi~YL~~Y~~~~l~----------~~i~~lkk~DfS~i~v~fIgStPG~f~gs~~~~WGh~kL~ 286 (519)
T KOG2031|consen 217 KIGDKKGVSPTGFKQDLIEYLNSYRLPQLK----------EWIASLKKVDFSAINVRFIGSTPGKFQGSGLLSWGHNKLK 286 (519)
T ss_pred ccccCCCCCCCchHHHHHHHHHHhccchhH----------HHHHHHHhcchhhceEEEEeecCCcccCcccccccHHHHH
Confidence 877656788999999999999999987543 3478999999999999999999999888777779999999
Q ss_pred HHHHhccccCCCCccCEEEEecCCCcCChhHHHHHHHhccCCCCCCCCCCC--CCCCEEEcCChhhHhcCccCccCCccc
Q 011198 376 TVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLG--IGEPLIVWPTVEDVRCSLEGYAAGNAI 453 (491)
Q Consensus 376 ~vLk~~~~~~~~~~~~iv~Q~SSIGSl~~~WL~ef~~sl~~~~~~~~~~~~--~~~~~IIFPTveeVr~S~~G~~~GGsi 453 (491)
++|+++......++++++||+||+|||+..|...|...+.....++..+.+ .++++||||||||||+|.+||++||||
T Consensus 287 kiL~~~~~~~~~~r~~~v~q~sS~gsl~~~~~~~~~~~f~~~l~kdt~~~gk~~~~~yiIfPTveeVrtS~~G~~~Ggsi 366 (519)
T KOG2031|consen 287 KILKEHAASPYLERTPVVGQSSSIGSLGSLWSAWFIGDFVESLAKDTTPPGKLRPPFYIIFPTVEEVRTSLLGYAGGGSL 366 (519)
T ss_pred HHHHhhccCcccccCceeeeeeccccccchhhhhhhhhhccchhhccCCCCCCCCCeeEEcccHHHhhccccccccCcee
Confidence 999998765556889999999999999998887777777665555544443 356899999999999999999999999
Q ss_pred cCccccch-HHhHHHHhccccCCCcCCccCCc
Q 011198 454 PSPQKNVD-KDFLKKYWAKWKASHTGRRYNID 484 (491)
Q Consensus 454 p~~~~~~~-~~~l~~~l~kW~a~~~gR~~~~~ 484 (491)
||..++.+ |.||++|||||+|..+||+|+|-
T Consensus 367 py~~~~~~kq~~lk~y~~kW~A~~s~R~ramP 398 (519)
T KOG2031|consen 367 PYGKNTNEKQPWLKKYLCKWKAMDSRRSRAMP 398 (519)
T ss_pred cccchhhhhhHHHHHHHHhhhhhhhhccccCC
Confidence 99877765 57999999999999999999873
No 2
>PF06087 Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; InterPro: IPR010347 Covalent intermediates between topoisomerase I and DNA can become dead-end complexes that lead to cell death. Tyrosyl-DNA phosphodiesterase can hydrolyse the bond between topoisomerase I and DNA [].; GO: 0008081 phosphoric diester hydrolase activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3SQ8_A 3SQ5_B 3SQ3_A 1Q32_D 3SQ7_A 1QZQ_A 1RGU_B 1RG2_B 1MU9_B 1RFI_B ....
Probab=100.00 E-value=2.6e-73 Score=603.66 Aligned_cols=312 Identities=39% Similarity=0.671 Sum_probs=227.7
Q ss_pred CCceEEEEecCCCCC--CCCCceeechhccc-cHhhhhhhhcccCHhhhhccCCCC-CCCCeEEEEeCCCCc-hhhhhhh
Q 011198 161 PSTFRLLRVQGLPAW--ANTSCVSIRDVIQG-DIIVAILSNYMVDIDWLLPACPVL-AKIPHVLVIHGESDG-TLEHMKR 235 (491)
Q Consensus 161 ~s~FrLtrv~g~p~~--~n~~~Isl~DlL~~-~L~~allfnF~~Dl~WLl~~~p~~-~~~p~v~Vvhge~~~-~~~~~~~ 235 (491)
|++|.++++.+.++. .|.++|||+|||++ +|++|++||||+|++|||++|+.. +....|++++|+... ....+..
T Consensus 1 P~~~~~~~i~~~~~~~~~~~~~itl~dil~~~~l~~~~~~nf~~D~~wll~~~~~~~~~~~~i~~v~g~~~~~~~~~~~~ 80 (443)
T PF06087_consen 1 PFKLYLTTIYDLPPRSNNNPDTITLEDILGDPDLEEALLFNFMIDLDWLLSQFPPSTRKNIPITIVHGTKDPPDKREIRQ 80 (443)
T ss_dssp SCEEEEBTTTTS-GG--GTTTEE-HHHHCSGTTEEEEEEE-SSEEHHHHHCCS-CCGTTCEEEEEECTSEEHHHHHHHHH
T ss_pred CcceEEeeecCCCccccCCCCcEeHHHHcCCccHHHHHhhhheeeHHHHHHhCCHhhcccceEEEEeCCCcchhhhhhhh
Confidence 567888899998876 68999999999997 899999999999999999999853 333368888885432 2222322
Q ss_pred --cCCCceEEecCCCCCCCCCccceeEEEEeCCc-cEEEEeCCCCChhcccccCCeEEeecc-CCCCC---CCCCCCCCh
Q 011198 236 --NKPANWILHKPPLPISFGTHHSKAMLLIYPRG-VRIIVHTANLIHVDWNNKSQGLWMQDF-PLKDQ---NNLSEECGF 308 (491)
Q Consensus 236 --~~~~n~~l~~ppmp~~fGtHHSKmmLL~Y~dg-lRVVI~TANLi~~DW~~~tQ~vWiqDf-P~~~~---~s~~~~s~F 308 (491)
...+|+++|.|+||.+|||||||||||+|+|| ||||||||||+++||+++||+||+||| |++.+ ...+.+++|
T Consensus 81 ~~~~~~nv~~~~~~mp~~~g~hHsKm~ll~y~~~~lRVvI~TaNl~~~Dw~~~~q~vw~~d~lP~~~~~~~~~~~~~~~F 160 (443)
T PF06087_consen 81 QAAIYPNVKLIFPPMPIPFGTHHSKMMLLFYEDGSLRVVIPTANLTPYDWNNKTQGVWIQDFLPRLPSSKSSSEESGSRF 160 (443)
T ss_dssp HHCCHTTEEEEEE---STT--B--EEEEEEETTCEEEEEEESS-BSHHHHCSSB-EEEE---E-B-ECTS-S--SSTTHH
T ss_pred hcccCCCeEEEccCCCcccccccceeEEEEeCCccEEEEEECCCCCHHHHCCcceeEEEecccCcccccccccCCCCCch
Confidence 35689999999999999999999999999999 999999999999999999999999998 98764 234678999
Q ss_pred HHHHHHHHHhCCCCccccCCCCCCCcccCccccccccccccceEEEEecCCCccCCCcchhcHHHHHHHHHhccccC---
Q 011198 309 ENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEK--- 385 (491)
Q Consensus 309 k~dL~~YL~ay~~p~~~~~~p~lg~~~i~~~~L~~yDFS~a~v~LVaSVPG~H~g~~~~~~Gh~rL~~vLk~~~~~~--- 385 (491)
++||++||++|+.+.... +++.|++||||.++|+||+||||+|. .+..+|||++|+++|+++++..
T Consensus 161 ~~dL~~yL~~y~~~~~~~----------~~~~l~~yDFS~~~v~lV~SvPG~h~-~~~~~~G~~~L~~~L~~~~~~~~~~ 229 (443)
T PF06087_consen 161 KKDLVAYLNSYGKSPLDK----------LIERLRKYDFSSARVHLVASVPGKHK-EDKDKWGHMRLRKVLKRLGLPSNKD 229 (443)
T ss_dssp HHHHHHHHHTT--HHHHH----------CHHHHHTEE-CCGTSEEEEE-SECCC-GGGGGSHHHHHHHHHHHCCTT---T
T ss_pred HHHHHHHHHHhCCcchhH----------HHHHHHhcCCccCceEEEeccCcccc-CCCcchhHHHHHHHHHhccccccCC
Confidence 999999999998543211 15889999999999999999999999 4556899999999999988754
Q ss_pred CCCccCEEEEecCCCcCC---hhHHH-HHHHhccCCCCC---C--------CCCCCCCCCEEEcCChhhHhcCccCccCC
Q 011198 386 GFKKSPLVYQFSSLGSLD---EKWMA-ELSSSMSSGFSE---D--------KTPLGIGEPLIVWPTVEDVRCSLEGYAAG 450 (491)
Q Consensus 386 ~~~~~~iv~Q~SSIGSl~---~~WL~-ef~~sl~~~~~~---~--------~~~~~~~~~~IIFPTveeVr~S~~G~~~G 450 (491)
.....+|+||+||||+++ .+||. +|+.+|++.... . ......++++|||||+||||+|.+||.+|
T Consensus 230 ~~~~~~~~~Q~SSIGs~~~~~~~Wl~~~f~~sl~~~~~~~~~~~~~~~~~~~~~~~~~~~~IvfPT~e~Vr~S~~G~~~g 309 (443)
T PF06087_consen 230 KDKESDIVCQFSSIGSLGSSPKDWLTSEFLTSLYPASFSSPSTPSSKSSSSQQENNRPPLKIVFPTVEEVRNSPEGYNGG 309 (443)
T ss_dssp TCCCCEEEEE-SBB---SSSTTTTTTTHHHHHCCHHCCT------HHHHHHHCCHHTEEEEEE--BCHHHCTSTTGGGGG
T ss_pred cCCCCeEEEEcccccccCcchhhhHHHHHHHHHhhccccccccccccccccccccCCCCceEECCCHHHHhhCccCCcCc
Confidence 346789999999999994 45984 798888765430 0 01112457899999999999999999999
Q ss_pred ccccCccc----cchHHhHHHHhccccCC--CcCCccCC
Q 011198 451 NAIPSPQK----NVDKDFLKKYWAKWKAS--HTGRRYNI 483 (491)
Q Consensus 451 Gsip~~~~----~~~~~~l~~~l~kW~a~--~~gR~~~~ 483 (491)
||||++.+ +..++||+++||+|.+. ..||.+++
T Consensus 310 gsi~~~~~~~~~~~~~~~l~~~~~~w~~~~~~~~R~~~~ 348 (443)
T PF06087_consen 310 GSIPFKYKWWEPNFPQEWLRPYFHKWYASDDPSGRSRAP 348 (443)
T ss_dssp GGSB--HC--GHHCCHHHHHHCCE-EEEC-TGCTTTTS-
T ss_pred eeEEecchhccccchHHHHHHHHhhhccccccCCCCCcC
Confidence 99999866 34478999999999888 77777653
No 3
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=97.82 E-value=3.9e-05 Score=64.07 Aligned_cols=94 Identities=29% Similarity=0.426 Sum_probs=76.7
Q ss_pred eeeeeCCCCccCCCCCCcccCCC-CCccccCC----CccccccccccceeEEEecC-CccEEEEEecCCceEeecCCccc
Q 011198 7 GYLVPLDNNLREDNSLPKLPLSQ-GPNVIGRT----NIPVSDKRLSRKHITLTASA-DGSASLVVDGTNPVVVKSGDQRK 80 (491)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~----~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 80 (491)
.+|.+++.+ .....++|.. +.-+|||+ ++.+.|+.+||+|.+|.... ++..-+...+.|++.|+. +
T Consensus 2 ~~L~~~~~~----~~~~~~~l~~~~~~~iGr~~~~~~i~l~~~~iS~~H~~i~~~~~~~~~~~~~~s~~g~~vn~----~ 73 (102)
T cd00060 2 PRLVVLSGD----ASGRRYYLDPGGTYTIGRDSDNCDIVLDDPSVSRRHAVIRYDGDGGVVLIDLGSTNGTFVNG----Q 73 (102)
T ss_pred eEEEEecCC----CceeEEEECCCCeEEECcCCCcCCEEcCCCCeeCcceEEEEcCCCCEEEEECCCCCCeEECC----E
Confidence 356666554 3477889999 99999998 88899999999999999998 888888999999999965 3
Q ss_pred ccccccccccccCCcccccCCCccceee
Q 011198 81 KLSSNEHVSIADGDIIELIPGHHFFKYV 108 (491)
Q Consensus 81 k~~~~~~~~i~~~~~~~~~~~~~~~~~~ 108 (491)
++.......+.+||++++-++.+.|+++
T Consensus 74 ~~~~~~~~~l~~gd~i~ig~~~~~~~~~ 101 (102)
T cd00060 74 RVSPGEPVRLRDGDVIRLGNTSISFRFE 101 (102)
T ss_pred ECCCCCcEECCCCCEEEECCeEEEEEEe
Confidence 4444567779999999999877777664
No 4
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=97.35 E-value=0.00024 Score=56.07 Aligned_cols=62 Identities=34% Similarity=0.552 Sum_probs=51.5
Q ss_pred cccCC---CccccccccccceeEEEecCCccEEEEEe-cCCceEeecCCcccccccccccccccCCcccc
Q 011198 33 VIGRT---NIPVSDKRLSRKHITLTASADGSASLVVD-GTNPVVVKSGDQRKKLSSNEHVSIADGDIIEL 98 (491)
Q Consensus 33 ~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~k~~~~~~~~i~~~~~~~~ 98 (491)
+|||+ +|++.|+.+||.|..|.-..++.+.|.-- ++|.+.|+. +++.+.+...+.+||++++
T Consensus 2 ~iGR~~~~di~l~~~~iSr~Ha~i~~~~~~~~~i~d~~s~ngt~vng----~~l~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 2 TIGRSPDCDIVLPDPSISRRHARISFDDDGQFYIEDLGSTNGTFVNG----QRLGPGEPVPLKDGDIIRF 67 (68)
T ss_dssp EEESSTTSSEEETSTTSSTTSEEEEEETTEEEEEEESSSSS-EEETT----EEESSTSEEEE-TTEEEEE
T ss_pred EEcCCCCCCEEECCHheeeeeeEEEEeceeeEEEEeCCCCCcEEECC----EEcCCCCEEECCCCCEEEc
Confidence 46776 79999999999999999999988888885 599999843 7788888899999999875
No 5
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=97.10 E-value=0.00065 Score=74.82 Aligned_cols=97 Identities=24% Similarity=0.382 Sum_probs=82.0
Q ss_pred ccceeeeeeCCCCccCCCCCCcccCCCCCccccCC-CccccccccccceeEEEecCC-ccEEEEEecCCceEeecCCccc
Q 011198 3 ATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRT-NIPVSDKRLSRKHITLTASAD-GSASLVVDGTNPVVVKSGDQRK 80 (491)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 80 (491)
..+|.+|+|.. ++-|.|+|..|.++|||. .--+.|++-||+.+.|.|..+ |.+.+.+-|.||-+|+. .
T Consensus 11 ~~~~c~l~~~~------~~~~~~~~~~~~~~~gr~pet~i~d~~cs~~qv~l~a~~~~~~v~~k~lg~np~~~~~----~ 80 (526)
T TIGR01663 11 AARICTLKPGE------AEHHFIHLDAGALFLGRGPETGIRDRKCSKRQIELQADLEKATVALKQLGVNPCGTGG----L 80 (526)
T ss_pred ceeeeEecCCC------CCCCeeccCCCceEEccCcccccchhhhchhhheeeecccCceEEEEEccCCCcccCc----e
Confidence 35788898864 445999999999999998 456889999999999999865 78889999999998865 4
Q ss_pred ccccccccccccCCcccccCCCccceeee
Q 011198 81 KLSSNEHVSIADGDIIELIPGHHFFKYVT 109 (491)
Q Consensus 81 k~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 109 (491)
.|..+...+..+||++||.+|-|.|..+-
T Consensus 81 ~~~~~~~~~l~~g~~l~~v~~~~~~~~~f 109 (526)
T TIGR01663 81 ELKPGGEGELGHGDLLEIVNGLHPLTLQF 109 (526)
T ss_pred EecCCCeeeecCCCEEEEeccccceeEEe
Confidence 67788889999999999999999764444
No 6
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=93.05 E-value=0.27 Score=56.02 Aligned_cols=105 Identities=18% Similarity=0.296 Sum_probs=76.7
Q ss_pred eeeeCCCCccCCCCCCcccC---CCCCccccCCC--------ccccccccccceeEEEecCCccEEEEEecCCceEe-ec
Q 011198 8 YLVPLDNNLREDNSLPKLPL---SQGPNVIGRTN--------IPVSDKRLSRKHITLTASADGSASLVVDGTNPVVV-KS 75 (491)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ 75 (491)
||+|..... .....|+| -..|=+|||+. |++.|..+|+.|.+++-..+.-.---..-||--.| +.
T Consensus 535 ~l~~~~~~~---~~~~~~~l~~~~~~p~~iG~~~~~~~~~~~i~i~~~~vS~~Ha~i~~~~~~~~~~Dl~S~nGT~v~~~ 611 (668)
T PLN02927 535 YLIPHGDDC---CVSETLCLTKDEDQPCIVGSEPDQDFPGMRIVIPSSQVSKMHARVIYKDGAFFLMDLRSEHGTYVTDN 611 (668)
T ss_pred EEEecCCCC---cccceeeeecCCCCCeEecCCCCcCCCCceEEecCCccChhHeEEEEECCEEEEEECCCCCccEEeCC
Confidence 788864433 33566888 78888999963 38899999999999999844433333446786666 44
Q ss_pred CCcccccccccccccccCCcccccCCCcc-ceeeeeccccc
Q 011198 76 GDQRKKLSSNEHVSIADGDIIELIPGHHF-FKYVTLSRSQK 115 (491)
Q Consensus 76 ~~~~~k~~~~~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~ 115 (491)
+++|=++.++..+.+.++|+|++=...+. |+.-.+...++
T Consensus 612 ~~~r~~~~p~~~~~l~~~d~I~~g~~~~~~fr~~~~~~~~~ 652 (668)
T PLN02927 612 EGRRYRATPNFPARFRSSDIIEFGSDKKAAFRVKVIRKTPK 652 (668)
T ss_pred CCceEecCCCCceEeCCCCEEEeCCCcceeEEEEeecCCCc
Confidence 66677889999999999999999887765 66444433333
No 7
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=92.82 E-value=0.22 Score=53.29 Aligned_cols=92 Identities=21% Similarity=0.284 Sum_probs=69.2
Q ss_pred eCCCCccCCCCCCcccCCCCCccccC---CCccccccc--cccceeEEEecCCccEEEEEecCCceEeecCCcccccccc
Q 011198 11 PLDNNLREDNSLPKLPLSQGPNVIGR---TNIPVSDKR--LSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSN 85 (491)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~ 85 (491)
=+|...-+.+....+++..+..+||| +++++.|.. +||.|.+|+-. +|...|.--.+|.+.|+..+.| +..+
T Consensus 5 v~n~~~l~~g~~~~~~f~~~~~~IGR~~~~d~~l~d~~~~VS~~Ha~I~~~-~g~~~l~DlStNGT~VN~sg~~--l~~~ 81 (396)
T TIGR03354 5 VLNAHQLTPGIAAQKTFGTNGGTIGRSEDCDWVLPDPERHVSGRHARIRYR-DGAYLLTDLSTNGVFLNGSGSP--LGRG 81 (396)
T ss_pred EeccccCCCCcceEEEECCCCEEEecCCCCCEEeCCCCCCcchhhcEEEEE-CCEEEEEECCCCCeEECCCCCC--CCCC
Confidence 34455556777789999999999999 578888887 99999999987 5666677668899999854443 4455
Q ss_pred cccccccCCcccccCCCcccee
Q 011198 86 EHVSIADGDIIELIPGHHFFKY 107 (491)
Q Consensus 86 ~~~~i~~~~~~~~~~~~~~~~~ 107 (491)
..+.+.+||+|.+ |.+-.++
T Consensus 82 ~~~~L~~GD~I~i--G~~~lrv 101 (396)
T TIGR03354 82 NPVRLEQGDRLRL--GDYEIRV 101 (396)
T ss_pred CceEcCCCCEEEE--CCEEEEE
Confidence 5677999998887 4444443
No 8
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=91.33 E-value=0.28 Score=36.17 Aligned_cols=39 Identities=26% Similarity=0.382 Sum_probs=32.2
Q ss_pred CCccccccccccceeEEEecCCccEEEEEec-CCceEeec
Q 011198 37 TNIPVSDKRLSRKHITLTASADGSASLVVDG-TNPVVVKS 75 (491)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 75 (491)
.++.+.|..+||+|..|....++.+.|.--+ +|.+.|+.
T Consensus 10 ~~i~~~~~~vs~~H~~i~~~~~~~~~i~d~~s~~gt~vng 49 (52)
T smart00240 10 CDIQLPGPSISRRHAEIVYDGGGRFYLIDLGSTNGTFVNG 49 (52)
T ss_pred CCEEeCCCCcchhHcEEEECCCCeEEEEECCCCCCeeECC
Confidence 4599999999999999999999867676655 88887753
No 9
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=89.12 E-value=0.55 Score=43.98 Aligned_cols=67 Identities=28% Similarity=0.360 Sum_probs=53.7
Q ss_pred CccccC---CCccccccccccceeEEEecCCccEEEEEecCCceEeecCCcccccccccccccccCCcccccCCCc
Q 011198 31 PNVIGR---TNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHH 103 (491)
Q Consensus 31 ~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~i~~~~~~~~~~~~~ 103 (491)
...||| +++.+.|+.+||+|..|+...+...-.-+..+|-+.|+...-+. +..+.+||++.|....-
T Consensus 90 ~~tigr~~~~~i~~~~~~vSR~Ha~l~~~~~~~~~~d~~S~nGt~vn~~~v~~------~~~l~~gd~i~i~~~~~ 159 (191)
T COG1716 90 VTTIGRDPDNDIVLDDDVVSRRHAELRREGNEVFLEDLGSTNGTYVNGEKVRQ------RVLLQDGDVIRLGGTLA 159 (191)
T ss_pred eEEeccCCCCCEEcCCCccccceEEEEEeCCceEEEECCCCcceEECCeEccC------cEEcCCCCEEEECccce
Confidence 678999 67899999999999999999888887778888988887644333 56688888888865544
No 10
>PF00614 PLDc: Phospholipase D Active site motif; InterPro: IPR001736 Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, and/or asparagine residues which may contribute to the active site aspartic acid. An Escherichia coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs [, , , ].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3HSI_C.
Probab=85.34 E-value=0.75 Score=31.18 Aligned_cols=25 Identities=32% Similarity=0.369 Sum_probs=15.1
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCCh
Q 011198 252 FGTHHSKAMLLIYPRGVRIIVHTANLIH 279 (491)
Q Consensus 252 fGtHHSKmmLL~Y~dglRVVI~TANLi~ 279 (491)
.++||+|++++ |+-+.+|.++||..
T Consensus 2 ~~~~H~K~~vv---D~~~a~vGg~nl~~ 26 (28)
T PF00614_consen 2 GGSHHQKFVVV---DDRVAFVGGANLCD 26 (28)
T ss_dssp TBEE---EEEE---TTTEEEEE---SSH
T ss_pred CcceeeEEEEE---cCCEEEECceecCC
Confidence 57899999998 55588999999864
No 11
>smart00155 PLDc Phospholipase D. Active site motifs. Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not be
Probab=81.22 E-value=1.9 Score=28.62 Aligned_cols=25 Identities=28% Similarity=0.279 Sum_probs=20.5
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCCh
Q 011198 252 FGTHHSKAMLLIYPRGVRIIVHTANLIH 279 (491)
Q Consensus 252 fGtHHSKmmLL~Y~dglRVVI~TANLi~ 279 (491)
.+.+|+|+|+. |+-.++|.|+||..
T Consensus 2 ~~~~H~K~~v~---D~~~~~iGs~N~~~ 26 (28)
T smart00155 2 DGVLHTKLMIV---DDEIAYIGSANLDG 26 (28)
T ss_pred CCcEEeEEEEE---cCCEEEEeCccCCC
Confidence 46799999987 55589999999864
No 12
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=76.37 E-value=3.3 Score=37.97 Aligned_cols=54 Identities=22% Similarity=0.217 Sum_probs=37.2
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCChhccc-ccCCeEEeeccCCCCCCCCCCCCChHHHHHHHHHhC
Q 011198 252 FGTHHSKAMLLIYPRGVRIIVHTANLIHVDWN-NKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTL 319 (491)
Q Consensus 252 fGtHHSKmmLL~Y~dglRVVI~TANLi~~DW~-~~tQ~vWiqDfP~~~~~s~~~~s~Fk~dL~~YL~ay 319 (491)
.+.+|+|+||. |+=.++|.|+|+....|. +.+-++.+.+-. .+..++.+++..+
T Consensus 111 ~~~~H~K~~ii---D~~~~~vGS~N~~~~~~~~~~e~~~~~~~~~-----------~~~~~~~~~f~~~ 165 (176)
T cd00138 111 GGVLHTKLVIV---DDETAYIGSANLDGRSLTLNSEVGVVIYDPA-----------SLAADLKASLERD 165 (176)
T ss_pred ccceeeeEEEE---cCCEEEEECCcCChhhhhhhcceEEEEeChH-----------HHHHHHHHHHHHH
Confidence 58999999999 566899999999998884 334444444211 2556666666554
No 13
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=72.08 E-value=4.9 Score=34.61 Aligned_cols=37 Identities=19% Similarity=0.332 Sum_probs=23.4
Q ss_pred CCccceeEEEEeCCccEEEEeCCCCChhccccc-CCeEEee
Q 011198 253 GTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNK-SQGLWMQ 292 (491)
Q Consensus 253 GtHHSKmmLL~Y~dglRVVI~TANLi~~DW~~~-tQ~vWiq 292 (491)
+.+|.|+++. |+=.++|.|+|++...|..- +.++.+.
T Consensus 73 ~~~H~K~~i~---d~~~~iiGS~N~t~~~~~~n~E~~~~~~ 110 (126)
T PF13091_consen 73 NRLHAKFYII---DDKVAIIGSANLTSSSFRRNYELGVIID 110 (126)
T ss_dssp S-B--EEEEE---TTTEEEEES--CSCCCSCTSEEEEEEEE
T ss_pred cCCCcceEEe---cCccEEEcCCCCCcchhcCCcceEEEEE
Confidence 7899999999 34499999999999998654 3344333
No 14
>PRK13912 nuclease NucT; Provisional
Probab=61.48 E-value=7.4 Score=36.79 Aligned_cols=82 Identities=15% Similarity=0.145 Sum_probs=47.1
Q ss_pred hhhcccCHhhhhccCCC--CCCCCeEEEEe-CCCCch-----hhhhhhcCCCceEEec--C---CCCCCCCCccceeEEE
Q 011198 196 LSNYMVDIDWLLPACPV--LAKIPHVLVIH-GESDGT-----LEHMKRNKPANWILHK--P---PLPISFGTHHSKAMLL 262 (491)
Q Consensus 196 lfnF~~Dl~WLl~~~p~--~~~~p~v~Vvh-ge~~~~-----~~~~~~~~~~n~~l~~--p---pmp~~fGtHHSKmmLL 262 (491)
+..|.+.-+.+.+.+-. -|.+ .|-|+. +..... ...+. ..+++.++. + .....++.+|.|+|++
T Consensus 51 i~~Y~~~~~~i~~aL~~Aa~RGV-~VrIlld~~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~H~K~~vi 127 (177)
T PRK13912 51 IAIYSFTHKDIAKALKSAAKRGV-KISIIYDYESNHNNDQSTIGYLD--KYPNIKVCLLKGLKAKNGKYYGIMHQKVAII 127 (177)
T ss_pred EEEEEEchHHHHHHHHHHHHCCC-EEEEEEeCccccCcchhHHHHHH--hCCCceEEEecCccccCcccccccceeEEEE
Confidence 45688888888888632 2344 455543 322111 11111 122333221 1 1123568899999998
Q ss_pred EeCCccEEEEeCCCCChhccc
Q 011198 263 IYPRGVRIIVHTANLIHVDWN 283 (491)
Q Consensus 263 ~Y~dglRVVI~TANLi~~DW~ 283 (491)
|+-.+++.|+|+...-+.
T Consensus 128 ---D~~~~~iGS~N~t~~s~~ 145 (177)
T PRK13912 128 ---DDKIVVLGSANWSKNAFE 145 (177)
T ss_pred ---cCCEEEEeCCCCChhHhc
Confidence 777799999999876554
No 15
>PF09565 RE_NgoFVII: NgoFVII restriction endonuclease; InterPro: IPR019065 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This domain is found in NgoFVII restriction endonuclease, which recognises GCSGC but cleavage site is unknown. It is also found as the C-terminal domain of the res subunit of some type III restriction endonucleases.
Probab=43.29 E-value=21 Score=37.10 Aligned_cols=27 Identities=19% Similarity=0.263 Sum_probs=23.3
Q ss_pred CccceeEEEEeCCc-cEEEEeCCCCChh
Q 011198 254 THHSKAMLLIYPRG-VRIIVHTANLIHV 280 (491)
Q Consensus 254 tHHSKmmLL~Y~dg-lRVVI~TANLi~~ 280 (491)
.-|+||.+....++ .+.+|.||||+..
T Consensus 80 ~~HgKlY~f~k~g~~~~a~IGSANfS~~ 107 (296)
T PF09565_consen 80 PYHGKLYIFSKNGKPFRAYIGSANFSQI 107 (296)
T ss_pred CcccEEEEEecCCCceEEEEeecccccc
Confidence 36999998877766 9999999999885
No 16
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=42.79 E-value=13 Score=32.43 Aligned_cols=44 Identities=25% Similarity=0.402 Sum_probs=35.8
Q ss_pred cCChhhHhcCccCccCCccccCccccchHHhHHHHhccccCCCcCCccCCccCCCCC
Q 011198 434 WPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRRYNIDLYLPPP 490 (491)
Q Consensus 434 FPTveeVr~S~~G~~~GGsip~~~~~~~~~~l~~~l~kW~a~~~gR~~~~~~~~~~~ 490 (491)
.||+..||.-++ +||. .-+.++|..|......+.....|.||+.
T Consensus 19 ~pT~~~Vr~~lG----~GS~---------~ti~~~l~~w~~~~~~~~~~~~~~lP~~ 62 (120)
T PF11740_consen 19 KPTVRAVRERLG----GGSM---------STISKHLKEWREEREAQVSEAAPDLPEA 62 (120)
T ss_pred CCCHHHHHHHHC----CCCH---------HHHHHHHHHHHHhhhccccccccCCChh
Confidence 789999998776 6765 4588999999988887777777888864
No 17
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=35.50 E-value=52 Score=35.41 Aligned_cols=37 Identities=32% Similarity=0.618 Sum_probs=32.4
Q ss_pred cccCCCCCcccc-CC---CccccccccccceeEEEecCCcc
Q 011198 24 KLPLSQGPNVIG-RT---NIPVSDKRLSRKHITLTASADGS 60 (491)
Q Consensus 24 ~~~~~~~~~~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~ 60 (491)
.++|..|.-+|| ++ +|+..|..++|.|++|+...+|.
T Consensus 14 ~~~L~~g~~~iG~~~~~~di~L~d~~~~~~h~~l~v~~~~~ 54 (410)
T TIGR02500 14 ELPLPEGNLVLGTDAADCDIVLSDGGIAAVHVSLHVRLEGV 54 (410)
T ss_pred EEECCCCceEeccCCCCcEEEeCCCCccchheEEEEcCceE
Confidence 468889999999 65 78999999999999999998774
No 18
>PF10382 DUF2439: Protein of unknown function (DUF2439); InterPro: IPR018838 This domain is found at the N-terminal of proteins implicated in telomere maintenance in Saccharomyces cerevisiae (Baker's yeast) [] and in meiotic chromosome segregation in Schizosaccharomyces pombe (Fission yeast) [].
Probab=25.39 E-value=1.3e+02 Score=25.21 Aligned_cols=60 Identities=17% Similarity=0.213 Sum_probs=39.3
Q ss_pred cccccceeEEEecCCccEEEEEecCCceEeecCCcccccccc-ccc--ccccCCcccccCCCccceee
Q 011198 44 KRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSN-EHV--SIADGDIIELIPGHHFFKYV 108 (491)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~-~~~--~i~~~~~~~~~~~~~~~~~~ 108 (491)
+++.+||++-+ ||.+.+. ++.|-|++-.+ +..++... .++ .+..|+.+|++-|.+..-..
T Consensus 10 ~q~~kK~K~W~---DG~l~~~-~~~~kv~Lyde-~~~~i~~~~~~~~~~~~~g~e~~l~~~~~LV~i~ 72 (83)
T PF10382_consen 10 HQKTKKRKKWH---DGFLKYH-SFNKKVMLYDE-DGNLIGSDFLKNSEELEEGDELELPKGGYLVQIE 72 (83)
T ss_pred ccccccceeeE---CCEEEEE-eCCCEEEEEcC-CCCEEeEEEEecCCCCCCCCEEEEcCCCEEEEEe
Confidence 56788999885 9999998 55565655444 33444322 222 37778999998877774443
No 19
>KOG3603 consensus Predicted phospholipase D [General function prediction only]
Probab=25.36 E-value=3.9e+02 Score=29.49 Aligned_cols=53 Identities=21% Similarity=0.277 Sum_probs=39.3
Q ss_pred CCCCccceeEEEEeCCccEEEEeCCCCChhcccccCCeE----EeeccCCCCCCCCCCCCChHHHHHHHHHhCC
Q 011198 251 SFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGL----WMQDFPLKDQNNLSEECGFENDLIDYLSTLK 320 (491)
Q Consensus 251 ~fGtHHSKmmLL~Y~dglRVVI~TANLi~~DW~~~tQ~v----WiqDfP~~~~~s~~~~s~Fk~dL~~YL~ay~ 320 (491)
+-|..|||+++. |+=...+-|||| ||.-.||.. =+++.|.+ .+||.+-+..|-
T Consensus 166 g~GvlHtKf~vv---D~khfylGSaNf---DWrSlTqvkElGv~v~NCpcl-----------akDL~kiFe~yW 222 (456)
T KOG3603|consen 166 GGGVLHTKFWVV---DIKHFYLGSANF---DWRSLTQVKELGVVVRNCPCL-----------AKDLKKIFERYW 222 (456)
T ss_pred cCceEEEEEEEE---ecceEEEecccc---chhhccceeEeeeEEecChhH-----------HHHHHHHHHHHh
Confidence 489999999886 556778999997 899888754 44455543 477877777764
No 20
>PLN02352 phospholipase D epsilon
Probab=20.53 E-value=63 Score=37.79 Aligned_cols=23 Identities=30% Similarity=0.465 Sum_probs=18.4
Q ss_pred cceeEEEEeCCccEEEEeCCCCChhc
Q 011198 256 HSKAMLLIYPRGVRIIVHTANLIHVD 281 (491)
Q Consensus 256 HSKmmLL~Y~dglRVVI~TANLi~~D 281 (491)
||||||. |.--|+|-|||+...-
T Consensus 609 HSKlMIV---DD~~viIGSANIN~RS 631 (758)
T PLN02352 609 HSKLMIV---DDTYILIGSANVNQRS 631 (758)
T ss_pred eeeEEEE---cCcEEEEccccccccc
Confidence 8888886 5667899999986553
Done!