old.robetta.org

Features and Secondary Structure
	1 . 10 . 20 . 30 . 40 . 50 . 60 . 70 . 80 . 90 . 100 . 110 . 120 . 130 . 140 . 150 . 160 . 170 . 180 . 190 . 200 . 210 . 220 . 230 . 240 . 250 . 260 . 270 . 280 . 290 . 300 . 310 . 320 . 330 . 340 . 350 . 360 . 370 . 380 . 390 . 400 . 410 . 420 . 430 . 440 . 450 . 460 . 470 . 480 . 490 . 500 . 510 . 520 . 530 . 540 . 550 . 560 . 570 . 580 . 590 . 600 . 610 . 620 . 630 . 640 . 650 . 660 . 670 . 680 . 690 . 700 . 710 . 720 . 730 . 740 . 750 . 760 . 770 . 780 . 790 . 800 . 810 . 820 . 830 . 840 . 850 . 860 . 870 . 880 . 890 . 900 . 910 . 920 . 930 . 940 . 950 . 960 . 970 . 980 . 990 . 1000 . 1010 . 1020 . 1030 . 1040 . 1050 . 1060 . 1070 . 1080 . 1090
	MSGGLPRAGPSPELIAVADLVQTTGEIAVVFPSLSIGDLEAITDETQRRQLRIAGIPRGGYTLLPAIPLEDDELLRLCEEYCACGEADKAVIRGSLYTRHYPLFDRRRGDARPLYHPAEYINRIIQFCNYYAQVPSSELPALGEQCPFLHISPVKEICFYLRCNSLDATDFSLQEDEKTSLSLLRLHAREDVERVMGGASPTSPSPLPDGSALLPGEAVGTAAEPELLFQTGAVEDAGDDARERRDDLTGEETVDAVHGAVSEYVSIEGLNLVTKTSIFYDREGDGQRVVAVYIRGGLPTDVCEAAATVLEPAATKKNLRAATNGGVPPDTGIVGYYDYFTNPTPHKCRETEFSRRNWSSFSRCEPFLRQLDKLYSRMAPMHHHLQKVAIPTQYQLCDTVFSTITVNRNFRTAVHTDKGDFRSGLGVLAVINGKFEGCHLAIKKINKAFELKTGDVLLFDTSLEHGNTEVTSAADDWYRTSVVCYLRTGLMSSVCEMERRKHLNRLIVQQLQSAAVREATVNINGADSSLPPLFVPTRLASQLAPVQLSALGFIVERAEKQSGCVVAMTMGLGKTLVALTVCFSRLHLAPQSDILILTPKPIISHWVDEKNKWGAYGLHFSHFVASDGLNNLEFEQQLLEYDRQRTNKRPRTGHVFVINSELLSGFLRRFRHFTPSLIIVDEGHRVASKGNKMTESLERLRCNLRVVLSGTPLQNDASELYRVVGWVNRGVAKVLPPRRFQELANEVNHFIQGDDGAFQSAVVALEYIQDWMRGFVFREMENDLPPLHDYLLVCGSSDVQKEYEAKIGLTDGATASLKATEHRPHHLSTHPACYLAFVSDSYQSMLVGPAARERESAANSRVTSLDEVDTTRLERYAQMVETDHLDSFIDVSGKMRVLVDIVRRVQAKREKLIVFSLYVGSQDLIHRTLTALRVCTFTVRGRDSQDRRRRAMHEFSNNENLMVLVASTKVAAYGLDFTAANHVVLFDSWWNPQVDAQAIARAYRRNQKKPVTVYRLISATENKSVLRLQTRKIALFRCILHERPSRAATVDEIEDCAATEKDEERRAFWLRLKSSPLSGGFPALVNVYRYQESVRESV
tmhmm (0)	------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
low complexity (6%)	--------------------------------------------------------------------XXXXXXXXXXXX-------------------------------------------------------------------------------------------------------------------------------------------------------XXXXXXXXXXXXXXXX---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------XXXXXXXXXXXX-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------XXXXXXXXXXXX------------------------------------------------------------------------------XXXXXXXXXXX----------------------------------------------------------------------------------------------------------------------------------------------------
coiled-coils (0%)	------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
disordered (20%)	XXXXXXXXXX-----------------------------------------------------------------------------------------------------------------------------------------------------------------XXXXXXXXXXXXX---------XXXXXXXXXXXXXXXXXXXXXXXX------------XXXXXX---------------------------------------------------------------------------------------X-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX------------------------------------------------------------------------------------------------------XXXXXXXXXXX--------------------------------------------------------------------------------------------XXXXXXXXXXXXXXXXXXXXXXXXX----------------------------------------------XXXXXXXXXXXXXXXXX--------------------XXXXXXXXXXXXXXXXXXXX-------------------XXXXXXX---------------------------------------------------------------------------------------------------------------------------------------------------XXXXXXXXXXXXXXXXX--XXXXXXXXXXXXXXXXXXXXXXXXXXX------XXX-XXX
psipred	----------HHHHHHHHHHHHH----EEEE------HHHHHHHHHHH---EEE------EEE--------HHHHHHHHHHH----HHHHHHHHHHHH------------------HHHHHHHHHHHHHHH----HHHHHHHHH--------HHHHHHHHH---------HHHH-----------------HHHH-----------------------------------------HHH--HHH-----HHHHHHHHHHHHHHH------HH------EE---------EEEE-------HHHHHHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHH--EEE-HHHHH------EEEE------EEE----HHH------EE--HHH--HHH-HHHHHHHHH-----EEE---HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHH-----EE--------HHHHHHHHHHHHHH-----EEEE--HHHHHHHHHHHHHH----EEEEEE---HHHHHHHHHHHHHHHHHHHHH-------EEE--HHHHHHHHHHHH-----EEEEE-HHH---HHHHHHHHHHH----EEEE---------HHHHHHHHHHH---------HHHHHHHH-HHHH-----HHHHHHHHHHHHHHHHHH--HHHHHHH--------EEEEE---HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH--------------HHHHHHHHHHHHHH--HHHHH-------HHH----------HHH-----HHHHHHHHHHHHHHH----EEEEE-HHHHHHHHHHHHHH----EEEE-----HHHHHHHHHHH-------EEEEE--------------EEEE------HHHHHHHHHHHHH------EEEEE-----HHHHHHHHHHHHHHHHHHHH---------HHHHHHHHH----HHHHHHHHH----------HHHHHHHH--HHHH---

# SignalP-4.0 euk predictions
# Measure  Position  Value  Cutoff  signal peptide?
  max. C    42	    0.148
  max. Y     2	    0.174
  max. S     1	    0.292
  mean S     1-1    0.292
       D     1-1    0.238    0.450  NO
Name=tmp_signalp_seq	SP='NO' D=0.238 D-cutoff=0.450 Networks=SignalP-noTM

Domain Repeats Prediction
Boundary	STD (+/-)	Consensus
--	--	--

Ginzu Domain Prediction 1
Domain	Span	Source	Reference Parent	Parent Span	Confidence	Annotations
	1-239	alignment	2o5cA_201	1-634	0.046000	ISOMERASE/DNA
	240-490	alignment	5cg8A_301	1-266	0.732100	--
	491-1098	alignment	1z3iX_302	1-644	0.495100	Recombination/DNA binding

Ginzu Domain Prediction 2
Domain	Span	Source	Reference Parent	Parent Span	Confidence	Annotations
	1-239	msa	2o5cA_201	1-634	0.046000	--
	240-490	alignment	5cg8A_301	1-266	0.732100	--
	491-1098	alignment	1z3iX_302	1-644	0.495100	Recombination/DNA binding

PSI-BLAST Sequence Hits (Top 20 by Identity)   ALL DATA
TaxID	Species	Alignments	PSI-Blast Data (alignment with lowest E value)
			E value	Query Span	Sbjct Span	Bit Score	Identity	HSP Length	Accession	Description
5689	Leishmania tarentolae	1 (0.03%)	0.0	1-1097	1-1097	1031	73	1098	sp|B6EU02.1|JBP2_LEITA	RecName: Full=Bifunctional helicase and thymine dioxygenase ...
0	UNIDENTIFIED	32 (0.8%)	0.0	1-1097	1-1097	1029	73	1098	sp|Q4QFY1.2|JBP2_LEIMA	RecName: Full=Bifunctional helicase and thymine dioxygenase ...
420245	Leishmania braziliensis MHOM/BR/75/M2904	6 (0.15%)	0.0	1-1097	1-1097	1027	73	1098	ref|XP_001562198.1|	putative j-binding protein [Leishmania braziliensis MHOM/BR/...
347515	Leishmania major strain Friedlin	8 (0.2%)	0.0	77-1097	1-1021	915	73	1022	ref|XP_001687603.1|	putative j-binding protein [Leishmania major strain Friedlin...
929439	Leishmania mexicana MHOM/GT/2001/U1103	2 (0.05%)	0.0	77-1097	1-1021	913	73	1022	ref|XP_003873375.1|	putative j-binding protein [Leishmania mexicana MHOM/GT/2001...
435258	Leishmania infantum JPCM5	6 (0.15%)	0.0	77-1097	1-1021	906	73	1022	ref|XP_001464187.1|	putative j-binding protein [Leishmania infantum JPCM5] emb|C...
5661	Leishmania donovani	2 (0.05%)	0.0	77-1097	1-1021	906	73	1022	ref|XP_003859376.1|	j-binding protein, putative [Leishmania donovani] emb|CBZ326...
28005	Strigomonas culicis	4 (0.1%)	0.0	6-1097	1-1076	937	52	1096	gb|EPY21080.1|	DNA repair and recombination protein RAD54B [Strigomonas cul...
134006	Phytomonas sp. isolate EM1	1 (0.03%)	0.0	1-1097	1-1077	916	51	1105	emb|CCW64034.1|	unnamed protein product [Phytomonas sp. isolate EM1]
134013	Phytomonas sp. isolate Hart1	1 (0.03%)	0.0	8-1097	6-1079	919	50	1092	emb|CCW69781.1|	unnamed protein product [Phytomonas sp. isolate Hart1]
85056	Trypanosoma cruzi marinkellei	1 (0.03%)	0.0	10-1095	7-1080	918	48	1098	gb|EKF28363.1|	SNF2 DNA repair protein, putative [Trypanosoma cruzi marinke...
59799	Angomonas deanei	1 (0.03%)	1E-140	319-1089	1-771	507	48	778	gb|EPY28945.1|	DNA repair and recombination protein RAD54B [Angomonas deane...
5693	Trypanosoma cruzi	3 (0.07%)	0.0	5-1095	3-1081	946	47	1103	gb|EKF98730.1|	SNF2 DNA repair protein, putative [Trypanosoma cruzi]
679716	Trypanosoma brucei gambiense DAL972	1 (0.03%)	0.0	9-1095	7-1072	867	42	1092	emb|CBH12615.1|	SNF2 DNA repair protein, putative [Trypanosoma brucei gambie...
999953	Trypanosoma brucei brucei strain 927/4 GUTat10.1	4 (0.1%)	0.0	9-1095	7-1072	866	42	1092	ref|XP_846088.1|	SNF2 DNA repair protein [Trypanosoma brucei brucei strain 92...
1055687	Trypanosoma vivax Y486	2 (0.05%)	1E-150	1-609	1-592	538	40	627	emb|CCC49143.1|	putative SNF2 DNA repair protein, fragment [Trypanosoma viva...
287	Pseudomonas aeruginosa	1 (0.03%)	6E-97	531-1052	290-759	363	23	528	ref|WP_009875983.1|	helicase [Pseudomonas aeruginosa] gb|ERU69143.1| helicase [P...
1163396	Pseudomonas aeruginosa CI27	1 (0.03%)	1E-96	531-1052	180-649	362	23	528	ref|YP_792483.1|	helicase [Pseudomonas aeruginosa UCBPP-PA14] ref|WP_00314091...
350704	Pseudomonas aeruginosa C3719	1 (0.03%)	1E-96	531-1052	180-649	362	23	528	ref|WP_004348251.1|	helicase [Pseudomonas aeruginosa] gb|EAZ56599.1| hypothetica...
568076	Metarhizium robertsii	3 (0.07%)	1E-120	473-1069	139-745	441	22	634	gb|EFY99534.1|	recombinational repair protein [Metarhizium anisopliae ARSEF...