# HISTORY
07 Mar 2017: Saved by krc using Paint v2.29 on 07 Mar 2017 using PANTHER version UPL 11.0
22 Jan 2017: Saved by krc using Paint v2.29 on 22 Jan 2017 using PANTHER version UPL 11.0
21 Jan 2017: Saved by krc using Paint v2.29 on 21 Jan 2017 using PANTHER version UPL 11.0
22 Jan 2017: Saved by krc using Paint v2.29 on 22 Jan 2017 using PANTHER version

# molecular_function
20170121: root_PTN000743491 has function dynein intermediate chain binding (GO:0045505) 
20170121: root_PTN000743491 has function dynein light chain binding (GO:0045503) 
20170121: root_PTN000743491 has function ATP-dependent microtubule motor activity, minus-end-directed (GO:0008569) 
20170307: root_PTN000743491 has function dynein light intermediate chain binding (GO:0051959) 

# cellular_component
20170121: root_PTN000743491 is found in dynein complex (GO:0030286) 
20170121: Eukaryota_PTN000072732 is found in cytoplasmic dynein complex (GO:0005868) 
20170121: Eukaryota_PTN000072879 is found in axonemal dynein complex (GO:0005858) 
20170121: Opisthokonta_PTN000840538 is found in outer dynein arm (GO:0036157) 
20170121: Opisthokonta_PTN001321402 is found in inner dynein arm (GO:0036156) 
20170121: Viridiplantae_PTN000840053 is found in inner dynein arm (GO:0036156) 
20170121: Opisthokonta_PTN000840159 is found in axoneme (GO:0005930) 
20170121: Opisthokonta_PTN000840159 is found in motile cilium (GO:0031514) 
20170122: Opisthokonta_PTN000840371 is found in motile cilium (GO:0031514) 
20170122: Eumetazoa_PTN000840472 is found in motile cilium (GO:0031514) 
20170122: Eumetazoa_PTN000840076 is found in cilium (GO:0005929) 
20170307: Eumetazoa_PTN000840472 is found in cytoplasmic dynein complex (GO:0005868) 
20170307: Eumetazoa_PTN000840472 is found in axoneme (GO:0005930) 

# biological_process
20170121: root_PTN000743491 participates in microtubule-based movement (GO:0007018) 
20170121: Eukaryota_PTN000072732 participates in minus-end-directed vesicle transport along microtubule (GO:0072382) 
20170121: Eukaryota_PTN000072732 participates in cytoplasmic microtubule organization (GO:0031122) 
20170121: Eukaryota_PTN000072879 participates in cilium movement (GO:0003341) 
20170121: Opisthokonta_PTN000840538 participates in outer dynein arm assembly (GO:0036158) 
20170121: Opisthokonta_PTN001321402 participates in inner dynein arm assembly (GO:0036159) 
20170121: Viridiplantae_PTN000840053 participates in inner dynein arm assembly (GO:0036159) 
20170121: Opisthokonta_PTN000840159 participates in cilium movement (GO:0003341) 
20170122: Eumetazoa_PTN000840472 participates in intraciliary retrograde transport (GO:0035721) 
20170122: Eumetazoa_PTN000840472 participates in cilium assembly (GO:0060271) 
20170122: Eumetazoa_PTN000840076 participates in cilium assembly (GO:0060271) 
20170307: Viridiplantae_PTN000840053 participates in cilium movement involved in cell motility (GO:0060294) 

# WARNINGS - THE FOLLOWING HAVE BEEN REMOVED FOR THE REASONS NOTED

# NOTES
This tree contains dynein heavy chains, both cytoplasmic dyneins and the many axonemal dyneins, both inner arm and outer arm dyneins. Unfortunately, the tree doesn't seem to have placed the Chlamydomonas sequences very well to help annotating mammalian sequences, not all of which are experimentally characterized as to whether they are inner or outer arm dyneins, though there are clear sequence differences between those two types.
.
In some places, where the tree allows, I have used the phylogeny in Kollmar et al. 2016 to judge how far up I thought I could go in order to propagate certain terms.
- PMID:27880711 - Kollmar M. Fine-Tuning Motile Cilia and Flagella: Evolution of the Dynein Motor Proteins from Plants to Humans at High Resolution. Mol Biol Evol. 2016 Dec;33(12):3249-3267.
.
General structure of the tree (to help navigate and understand how far up I could propagate terms)
------------------------------------------------------------------------------
9ZZZZ:PTN000743491 (duplication node at root)
.
-9EUKA:PTN000072732
-- 9EUKA:PTN000072733
--- 9EUKA:PTN000072734
---- 9ZZZZ:PTN002241714
----- PTN000840228
------ 9BILA:PTN000072735
------- PTN000072736: DYNC1H1 (cytoplasmic dynein 1 heavy chain 1)
------- PTN000072774: Cel dhc-1, Dmel Dhc64C (dynein heavy chain 64C)
---- 9FUNG:PTN000840271: Sc DYN1 (cytoplasmic heavy chain dynein)
--- 9EUKA:PTN000072733: Dicty dhc! (cytoplasmic dynein heavy chain)
.
- 9EUKA:PTN000072879
-- 9ZZZZ:PTN001641416
--- PTN000840538:
----- PTN001641419: DNAH5 (axonemal heavy chain 5; EXP for outer dynein arm)
----- 9CHOR:PTN001641432: DNAH8 (axonemal heavy chain 8)
----- Dmel kl-3
--- PTN001321402
---- 9ZZZZ:PTN002241768 (dup node)
----- PTN000839965: DNAH12 (axonemal heavy chain 12; no EXP)
----- PTN002241791: 1 fish, 2 insect, other; no EXP)
----- PTN000839934
------- 9BILA:PTN000073205
-------- PTN000839944
--------- 9ZZZZ:PTN002241800
---------- 9EUTE:PTN000072998: DNAH1 (axonemal heavy chain 1; EXP: inner arm dynein)
---------- 9EUTE:PTN000073253
----------- 9EUTE:PTN000840008: DNAH7 (axonemal heavy chain 7; EXP: inner arm dynein)
----------- 9EUTH:PTN000072982: DNHD1 (Dynein HC domain containing protein 1; LONG branch length; no EXP)
------------ 9EUTH:PTN000073257: DNAH3 (axonemal heavy chain 3)
-------- PTN000840505: Dmel genes: btv, Dhc26B, Dnah3
-- 9UEKA:PTN000840341
-- PTN000840341
-- VIRI:PTN000840053: Chlamy DHC5 (dynein heavy chain 5; EXP: inner arm dynein) &  DHC9 (dynein heavy chain 9; EXP: inner arm dynein)
.
- 9EUKA:PTN000073047
-- 9ZZZZ:PTN001641356 (dup node)
--- PTN000840159 - [*** NO EXP FOR OUTER DYNEIN ARM *** => PMID:26909801]
---- 9CHOR:PTN001321505
----- 9ZZZZ:PTN000073053
------ 9EUTE:PTN000743499: DNAH11 (axonemal dynein heavy chain 11) & Drer dnah9l (axonemal dynein heavy chain 9 like)
------ 9EUTE:PTN000073051
------- 9TETR:PTN000073052
-------- 9ZZZZ:PTN001641314
--------- 9AMIO:PTN001321522: DNAH17 (axonemal dynein heavy chain 17; no EXP)
--------- 9AMIO:PTN000073075: DNAH9 (axonemal dynein heavy chain 9; axoneme, but check TAS's)
------- 9TELE:PTN002241912: Drer dnah9 (axonemal dynein heavy chain 9)
--- PTN000840058
---- 9ZZZZ:PTN002241920
----- PTN0008840371: DNAH2 (axonemal dynein heavy chain 2; little EXP)
----- PTN000840059
------ 9ZZZZ:PTN001641380
------- PTN000840472: DYNC2H1 (cytoplasmic dynein 2 heavy chain 1)
------- PTN000840413: DNAH10 (axonemal dynein heavy chain 10; no EXP)
------- PTN000840076
-------- 9BILA:PTN000072795
--------- 9ZZZZ:PTN001641350
----------- 9CHOR:PTN002241952
------------ 9ZZZZ:PTN002241953
-------------- 9ZZZZ:PTN002241957
--------------- 9EUTH:PTN000073210: DNAH14 (axonemal dynein heavy chain 14; no EXP)
--------------- 9EUTH:PTN000072841: DNAH6 (axonemal dynein heavy chain 6; no EXP)
---- 9FUNG:PTN001641299: SP dhc1 (dynein heavy chain)
-- 9EUKA:PTN000840128 (lots of Plasmodium, Tetrahymena, & Phytophthora)
-- PTN000840135 (lots of Leishmania, Trypanosoma, & Giardia)
-- 9VIRI:PTN000840461: Chlamy DHC1B (cytoplasmic dynein 2 heavy chain 1); DHC7 (dynein heavy chain 7)

# REFERENCE
Annotation inferences using phylogenetic trees
The goal of the GO Reference Genome Project, described in PMID 19578431, is to provide accurate, complete and consistent GO annotations for all genes in twelve model organism genomes. To this end, GO curators are annotating evolutionary trees from the PANTHER database with GO terms describing molecular function, biological process and cellular component. GO terms based on experimental data from the scientific literature are used to annotate ancestral genes in the phylogenetic tree by sequence similarity (ISS), and unannotated descendants of these ancestral genes are inferred to have inherited these same GO annotations by descent. The annotations are done using a tool called PAINT (Phylogenetic Annotation and INference Tool).