Query 028914
Match_columns 202
No_of_seqs 148 out of 584
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 04:32:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028914.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028914hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3394 Protein OS-9 [General 100.0 1.2E-39 2.5E-44 297.8 15.0 174 3-183 85-267 (502)
2 PF13015 PRKCSH_1: Glucosidase 100.0 9.2E-29 2E-33 198.7 11.5 107 9-151 27-133 (154)
3 KOG2397 Protein kinase C subst 99.9 6.9E-22 1.5E-26 180.3 8.8 110 8-154 367-476 (480)
4 PF07915 PRKCSH: Glucosidase I 99.8 2.8E-20 6.1E-25 133.5 3.4 80 23-103 1-81 (81)
5 KOG3394 Protein OS-9 [General 99.0 1.2E-10 2.6E-15 107.7 0.3 138 11-150 333-478 (502)
6 PF02157 Man-6-P_recep: Mannos 97.6 0.00026 5.7E-09 61.9 8.0 111 16-148 51-182 (278)
7 PF00878 CIMR: Cation-independ 97.2 0.00049 1.1E-08 54.0 4.5 41 107-147 1-43 (145)
8 KOG4504 Cation-independent man 95.8 0.031 6.8E-07 49.7 7.0 59 91-149 164-227 (370)
9 PF09451 ATG27: Autophagy-rela 94.2 0.19 4.1E-06 43.8 7.2 54 91-147 117-172 (268)
10 KOG4504 Cation-independent man 33.9 67 0.0014 29.1 4.3 56 92-148 35-93 (370)
11 smart00041 CT C-terminal cysti 28.0 98 0.0021 21.7 3.7 38 97-135 39-76 (82)
No 1
>KOG3394 consensus Protein OS-9 [General function prediction only]
Probab=100.00 E-value=1.2e-39 Score=297.84 Aligned_cols=174 Identities=40% Similarity=0.699 Sum_probs=142.6
Q ss_pred cccccccCCCChHHHHHHhcCC--ceeeecCeEEEEEecCCeeEEeecCCCc----ccceEEEeeecchhhHhhhhcccC
Q 028914 3 VETQKRIKLKTPDELLEVLKDR--CFMRQEGWWSYEFCYQNKLRQLHLEDDK----VVQEFILGVYDAEATAAFNQNLSD 76 (202)
Q Consensus 3 ~~~~~~~~~~~~~~Ll~~L~~~--C~~~~~g~WtYe~C~g~~V~QfH~~~~~----~~~~~~LG~~~~~~~~~~~~~~~~ 76 (202)
.|+.+.++...+.+||.+|... |.++..+|||||||||++|||||.+..+ ..+++.||.|.+..+...++...
T Consensus 85 ~E~~~~~k~~~g~eLl~pl~~~~~C~~r~~~yWtYe~ChG~hVrQyH~E~~~~~~i~~qe~yLg~~~~~~~~~~ke~~~- 163 (502)
T KOG3394|consen 85 EEETKDLKEPQGDELLQPLYNDKLCLYRGEGYWTYEYCHGQHVRQYHEEPETKTGIVNQEFYLGNFLGKFTASLKEREA- 163 (502)
T ss_pred ccchhhhcCCChhhhhhhhhhcchheeeccceEEEEeeCCeeeeeeeccccccCcceeeeeeeeeccccchhhhhhhhh-
Confidence 4677889999999999999754 9999999999999999999999999773 34789999998765432221111
Q ss_pred ccccCCCCCCCCCCceEEEEeCCCcccCCCCCCcEEEEEEEcCC--CCceeEEeecCCceEEEEEEeccCCCCCCCCCCC
Q 028914 77 ISTLKDPRSKDASQRYHAHQYTNGTLCDLTNQPRETEVRFVCSE--PRAMISSITELSTCKYALTIQCPMLCKHPLFQEE 154 (202)
Q Consensus 77 ~~~~~~~~~~~~~~~y~~~~y~nG~~Cd~tg~~RsteV~~~C~~--~~~~I~sV~E~stC~Y~~~v~tP~lC~~~~f~~~ 154 (202)
.. ..+...+|+++.|+|||+||+||.||+|+|+|.|.. +.+.|.||+|+++|+|+|+|.+|.||+||+|++.
T Consensus 164 -~~-----~~~~~~~Y~s~ty~nGT~CDltg~PR~~~VrYvC~~~~~~~~I~sV~EvssC~Ye~~I~tp~LC~hP~~~~~ 237 (502)
T KOG3394|consen 164 -EA-----STDDRKPYHSETYGNGTMCDLTGRPRMVEVRYVCDESSGKHYITSVTEVSSCVYEATILTPTLCSHPLFQPE 237 (502)
T ss_pred -hh-----hhccccceeEEEecCCCccccCCCCceEEEEEEeCCCCCcceEEEEeeccceeEEEEEecccccCccccccc
Confidence 00 113457999999999999999999999999999995 4689999999999999999999999999999987
Q ss_pred C-CcceeeEEEeCCCCccccccchhhhhce
Q 028914 155 R-PVWHTIDCNVLPNDYKATKVEEDKVESK 183 (202)
Q Consensus 155 ~-~~~~~I~C~~~~~~~~~~~~~~~~~~~~ 183 (202)
. .+++.|.|+++.+....+-.-+.+.+.+
T Consensus 238 e~~~~~~I~C~~l~~~~~~~~~~r~~e~qe 267 (502)
T KOG3394|consen 238 EDKNSHKILCQNLAKIPERSLSIRQLESQE 267 (502)
T ss_pred ccCCCcceeeccCCCCcccchhhHHHHhhc
Confidence 6 6789999999776666666555555444
No 2
>PF13015 PRKCSH_1: Glucosidase II beta subunit-like protein
Probab=99.96 E-value=9.2e-29 Score=198.69 Aligned_cols=107 Identities=28% Similarity=0.562 Sum_probs=97.5
Q ss_pred cCCCChHHHHHHhcCCceeeecCeEEEEEecCCeeEEeecCCCcccceEEEeeecchhhHhhhhcccCccccCCCCCCCC
Q 028914 9 IKLKTPDELLEVLKDRCFMRQEGWWSYEFCYQNKLRQLHLEDDKVVQEFILGVYDAEATAAFNQNLSDISTLKDPRSKDA 88 (202)
Q Consensus 9 ~~~~~~~~Ll~~L~~~C~~~~~g~WtYe~C~g~~V~QfH~~~~~~~~~~~LG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (202)
-.++|++++|++|.++|+....|.|+|++|++++|+| ..+.||+|..+.
T Consensus 27 ~~dyG~d~~f~~l~~~c~~~~~~~Y~Y~~c~f~~v~Q---------~~~~lG~~~~~~---------------------- 75 (154)
T PF13015_consen 27 NKDYGPDDEFRALKGQCFEKKIGEYTYELCPFGNVTQ---------DSTSLGSFKGWE---------------------- 75 (154)
T ss_pred hcccCcHHHHHHhCCeEEEeecCcEEEEEEECCCeee---------ccccceeeccce----------------------
Confidence 3789999999999999999999999999999999999 356899998752
Q ss_pred CCceEEEEeCCCcccCCCCCCcEEEEEEEcCCCCceeEEeecCCceEEEEEEeccCCCCCCCC
Q 028914 89 SQRYHAHQYTNGTLCDLTNQPRETEVRFVCSEPRAMISSITELSTCKYALTIQCPMLCKHPLF 151 (202)
Q Consensus 89 ~~~y~~~~y~nG~~Cd~tg~~RsteV~~~C~~~~~~I~sV~E~stC~Y~~~v~tP~lC~~~~f 151 (202)
+..|.|.||+.| |||++|+|+|.+.|+.. ..|++|.||++|+|.|++.||++|.....
T Consensus 76 ---~~~m~y~~G~~C-wnGp~Rst~V~l~Cg~~-~~l~sV~Ep~~C~Y~~~~~TP~aC~~~~~ 133 (154)
T PF13015_consen 76 ---GSKMKYENGDKC-WNGPQRSTTVHLECGEE-NKLVSVSEPSKCEYVMEFETPAACDPSYL 133 (154)
T ss_pred ---eeEEEECCCccc-CCCCCcCEEEEEECCCc-ceEEEecCCCceEEEEEEeeCcccCChhh
Confidence 468899999999 99999999999999995 67999999999999999999999976544
No 3
>KOG2397 consensus Protein kinase C substrate, 80 KD protein, heavy chain [Signal transduction mechanisms]
Probab=99.86 E-value=6.9e-22 Score=180.33 Aligned_cols=110 Identities=25% Similarity=0.419 Sum_probs=95.7
Q ss_pred ccCCCChHHHHHHhcCCceeeecCeEEEEEecCCeeEEeecCCCcccceEEEeeecchhhHhhhhcccCccccCCCCCCC
Q 028914 8 RIKLKTPDELLEVLKDRCFMRQEGWWSYEFCYQNKLRQLHLEDDKVVQEFILGVYDAEATAAFNQNLSDISTLKDPRSKD 87 (202)
Q Consensus 8 ~~~~~~~~~Ll~~L~~~C~~~~~g~WtYe~C~g~~V~QfH~~~~~~~~~~~LG~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (202)
...++| ...|..++++|+.+..|-|||.+|+++.|+|. ....|.|....
T Consensus 367 ~~~~~g-~~e~~~~~~~c~~~~~~~Y~Y~~c~~~~~tq~---------~~~~~~w~~~e--------------------- 415 (480)
T KOG2397|consen 367 LNGDFG-LLEFAALKGQCFDRELGEYTYTVCPFKPVTQK---------SIYGGSWSGPE--------------------- 415 (480)
T ss_pred hhcccc-HHHHHHHhcceeeeccCcEEEEEccccccccc---------ccccccccCCc---------------------
Confidence 346788 89999999999999999999999999999993 34566654421
Q ss_pred CCCceEEEEeCCCcccCCCCCCcEEEEEEEcCCCCceeEEeecCCceEEEEEEeccCCCCCCCCCCC
Q 028914 88 ASQRYHAHQYTNGTLCDLTNQPRETEVRFVCSEPRAMISSITELSTCKYALTIQCPMLCKHPLFQEE 154 (202)
Q Consensus 88 ~~~~y~~~~y~nG~~Cd~tg~~RsteV~~~C~~~~~~I~sV~E~stC~Y~~~v~tP~lC~~~~f~~~ 154 (202)
. .+|.|+||+.| ||||.||++|++.|+.. ++|++|.||++|+|.|.+.||+.|..+.++..
T Consensus 416 --~--~~m~y~nG~~C-WnGP~RSa~v~v~Cg~e-~~i~sv~Ep~kCeY~~~~~tPaaC~~~~~~~~ 476 (480)
T KOG2397|consen 416 --G--SVMKYENGQQC-WNGPNRSATVTVRCGLE-NEIVSVTEPSKCEYLFELVTPAACNEDFLKEP 476 (480)
T ss_pred --c--ceeeecCcccc-ccCCCcceeEEEEeccc-ceeeeccccccceeeeEecccccCCcchhhcc
Confidence 1 58999999999 99999999999999985 78999999999999999999999998876643
No 4
>PF07915 PRKCSH: Glucosidase II beta subunit-like protein; InterPro: IPR012913 The sequences found in this family are similar to a region found in the beta-subunit of glucosidase II (P14314 from SWISSPROT), which is also known as protein kinase C substrate 80K-H (PRKCSH). The enzyme catalyses the sequential removal of two alpha-1,3-linked glucose residues in the second step of N-linked oligosaccharide processing []. The beta subunit is required for the solubility and stability of the heterodimeric enzyme, and is involved in retaining the enzyme within the endoplasmic reticulum []. Mutations in the gene coding for PRKCSH have been found to be involved in the development of autosomal dominant polycystic liver disease (ADPLD), but the precise role the protein has in the pathogenesis of this disease is unknown []. ; PDB: 3AIH_A.
Probab=99.80 E-value=2.8e-20 Score=133.47 Aligned_cols=80 Identities=45% Similarity=0.914 Sum_probs=43.8
Q ss_pred CCceeeecCeEEEEEecCCeeEEeec-CCCcccceEEEeeecchhhHhhhhcccCccccCCCCCCCCCCceEEEEeCCCc
Q 028914 23 DRCFMRQEGWWSYEFCYQNKLRQLHL-EDDKVVQEFILGVYDAEATAAFNQNLSDISTLKDPRSKDASQRYHAHQYTNGT 101 (202)
Q Consensus 23 ~~C~~~~~g~WtYe~C~g~~V~QfH~-~~~~~~~~~~LG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~y~nG~ 101 (202)
+.|+++..||||||||||++|||||. ..+....+++||+|+......+......... ..........+|+++.|+|||
T Consensus 1 ~~C~~~~~g~WtYe~C~g~~v~QfH~~~~~~~~~~~~LG~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~y~~~~y~~Gt 79 (81)
T PF07915_consen 1 GQCLYRSEGWWTYEFCYGKHVRQFHEEEKDKPGQEYSLGRFDNESHFSWRDSNVDSSP-PTRKSEDGSQRYISQVYSNGT 79 (81)
T ss_dssp --EEEEEETTEEEEEETTTEEEEE-EETTEE-S--EEEEEE--EEEEEEE-----------S-------EEEEEEEEE-S
T ss_pred CcceecCCCEEEEEECCCCcEEEecccCCCCCcceEEeeeEecccchhhhccccccCc-cccccccCCccEEEEEeCCCc
Confidence 57999999999999999999999999 4445567899999965332222211111000 000112345789999999999
Q ss_pred cc
Q 028914 102 LC 103 (202)
Q Consensus 102 ~C 103 (202)
+|
T Consensus 80 ~C 81 (81)
T PF07915_consen 80 IC 81 (81)
T ss_dssp B-
T ss_pred CC
Confidence 99
No 5
>KOG3394 consensus Protein OS-9 [General function prediction only]
Probab=98.96 E-value=1.2e-10 Score=107.72 Aligned_cols=138 Identities=23% Similarity=0.324 Sum_probs=101.9
Q ss_pred CCChHHHHHHhcC--CceeeecCeEEEEEecCC-eeEEeecCCCcccceEEEeeecchhhHhhhhcc-cCccccCCCCCC
Q 028914 11 LKTPDELLEVLKD--RCFMRQEGWWSYEFCYQN-KLRQLHLEDDKVVQEFILGVYDAEATAAFNQNL-SDISTLKDPRSK 86 (202)
Q Consensus 11 ~~~~~~Ll~~L~~--~C~~~~~g~WtYe~C~g~-~V~QfH~~~~~~~~~~~LG~~~~~~~~~~~~~~-~~~~~~~~~~~~ 86 (202)
++...++++-+.+ .|+..+.|||.|+||+|. ++.|||.+.+....+.+||.|......+|.+.. ....++.+..
T Consensus 333 ~~~l~~~~~~~~~~~~~l~~g~~~~~~ef~~~~~~~~qyhe~~ds~~~e~~i~~~~~e~~~el~~~~s~~~~a~~~~~-- 410 (502)
T KOG3394|consen 333 PYTLGEVIEDVEGGTTCLKGGIGWRKYEFCYGEDHVNQYHEEIDSEEAEIIIQEYLIELDIELLKKNSKRIAAAKALG-- 410 (502)
T ss_pred ceeccchHHHHhccceeccCCcceeccceeeccchhheeeeeccccchhhhhhhhhhcccHHHHhccChhHHHHHHhh--
Confidence 4566666666653 699999999999999998 999999987754567889999887666554322 2221111110
Q ss_pred CCCCceEEEEeCCCcccCCCCCCcEEEEEEEcCCCC----ceeEEeecCCceEEEEEEeccCCCCCCC
Q 028914 87 DASQRYHAHQYTNGTLCDLTNQPRETEVRFVCSEPR----AMISSITELSTCKYALTIQCPMLCKHPL 150 (202)
Q Consensus 87 ~~~~~y~~~~y~nG~~Cd~tg~~RsteV~~~C~~~~----~~I~sV~E~stC~Y~~~v~tP~lC~~~~ 150 (202)
....+-+.|.+.+|++|.-.+.+|++.|.+.|-++. +.-+---|+-+|.|.+.+.+|.+|.+..
T Consensus 411 ~~~~~~i~~~~~k~~~~~~~~~~~~v~v~lk~~~s~~~~~~v~~y~l~~~~~~~il~~~~~~i~~~~~ 478 (502)
T KOG3394|consen 411 NTTVSSIEHEEEKENHELQPNVDREVAVKLKLKPSLNSDNAVPQYNLEPMSCQYILGVESRDICELGS 478 (502)
T ss_pred ccccccHHHHhhcCChhccCCCCceeeeeccCCCCCCCcccchhhhcccccceeeecccCCchhhhhc
Confidence 111244678999999999999999999999997642 2223457999999999999999998743
No 6
>PF02157 Man-6-P_recep: Mannose-6-phosphate receptor; PDB: 2RLB_A 3K42_A 2RL9_A 3K43_A 1C39_A 1M6P_A 3CY4_A 1KEO_B 2RL7_D 2RL8_B ....
Probab=97.60 E-value=0.00026 Score=61.91 Aligned_cols=111 Identities=18% Similarity=0.392 Sum_probs=67.4
Q ss_pred HHHHHhcCCceee--ec--CeEEEE--Eec--CC-----eeEEeecCCCcccceEEEeeecchhhHhhhhcccCccccCC
Q 028914 16 ELLEVLKDRCFMR--QE--GWWSYE--FCY--QN-----KLRQLHLEDDKVVQEFILGVYDAEATAAFNQNLSDISTLKD 82 (202)
Q Consensus 16 ~Ll~~L~~~C~~~--~~--g~WtYe--~C~--g~-----~V~QfH~~~~~~~~~~~LG~~~~~~~~~~~~~~~~~~~~~~ 82 (202)
..|++|.++=|.. .. .-|+|. +|- ++ -+.|+....+ ..++||++...-.
T Consensus 51 ~~l~pl~~~~f~~~~~~g~d~ytY~f~vC~~v~~~ss~~G~vq~d~~t~---K~~vIG~~n~T~v--------------- 112 (278)
T PF02157_consen 51 KRLEPLFNKSFESTVGQGSDNYTYIFRVCRDVGNNSSGAGLVQIDKKTG---KYTVIGRYNSTPV--------------- 112 (278)
T ss_dssp HHTGGGTT-EEEEEESSTTSEEEEEEESSS--SSSSSTEEEEEEETTTT---EEEEEEEEEEEEE---------------
T ss_pred HhcccccCCceEeeecccCcceEEEEEEeccCCCCCCcceEEEecCCCC---ceEEEEeeeeeEE---------------
Confidence 4456666765543 22 345554 565 22 5777765543 3579999976321
Q ss_pred CCCCCCCCceEEEEeCCCcccCCC--CCCcEEEEEEEcCCCC--ceeEEee----cCCceEEEEEEeccCCCCC
Q 028914 83 PRSKDASQRYHAHQYTNGTLCDLT--NQPRETEVRFVCSEPR--AMISSIT----ELSTCKYALTIQCPMLCKH 148 (202)
Q Consensus 83 ~~~~~~~~~y~~~~y~nG~~Cd~t--g~~RsteV~~~C~~~~--~~I~sV~----E~stC~Y~~~v~tP~lC~~ 148 (202)
-.....+...|.+|+.+|-. ...|++.|.|.|..+. ..+..|. .+.-|.|.+++.|+.+|..
T Consensus 113 ----f~G~kwvmltY~gGd~yd~~~~~~~Rka~i~~tCdrd~~~~~~~~vse~~g~~~~C~Y~FEv~S~~AC~~ 182 (278)
T PF02157_consen 113 ----FRGSKWVMLTYKGGDKYDSHCGKERRKAIIMFTCDRDTLAGNFTVVSEFVGKPNDCFYFFEVRSSHACPP 182 (278)
T ss_dssp ----EEESSEEEEEEEEEEB-SSSGGG-BEEEEEEEEE-TT-SSEEEEEEEEEETSSSEEEEEEEEEEGGG---
T ss_pred ----ecCceEEEEEcCCCCccCCccccccceeEEEEEEcCCCCccccceeeeecCCccceEEEEEecchhcCcC
Confidence 01123456789999988754 5679999999999753 2233344 4889999999999999964
No 7
>PF00878 CIMR: Cation-independent mannose-6-phosphate receptor repeat; InterPro: IPR000479 The cation-independent mannose-6-phosphate receptor is a type I membrane protein responsible for transport of phosphorylated lysosomal enzymes from the golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelysosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds insulin growth factor. It contains 15 copies of a repeat.; GO: 0005215 transporter activity, 0006810 transport, 0005737 cytoplasm, 0016021 integral to membrane; PDB: 1SYO_A 1SZ0_A 1Q25_A 2KVB_A 2KVA_A 2L2G_A 2V5O_A 1GP0_A 1GP3_A 1E6F_B ....
Probab=97.20 E-value=0.00049 Score=54.02 Aligned_cols=41 Identities=24% Similarity=0.532 Sum_probs=34.2
Q ss_pred CCCcEEEEEEEcCCCC--ceeEEeecCCceEEEEEEeccCCCC
Q 028914 107 NQPRETEVRFVCSEPR--AMISSITELSTCKYALTIQCPMLCK 147 (202)
Q Consensus 107 g~~RsteV~~~C~~~~--~~I~sV~E~stC~Y~~~v~tP~lC~ 147 (202)
|..|+|.|.|.|.... .....+.|...|+|.|...||++|.
T Consensus 1 ~~~rst~I~F~C~~~~~~~~P~~~~~~~~C~y~f~W~T~~AC~ 43 (145)
T PF00878_consen 1 GYKRSTTIIFVCDPGAGSGSPVFVSEDDSCTYVFEWRTPLACP 43 (145)
T ss_dssp SBEEEEEEEEEE-SSSSTTEEEEEEEETTTEEEEEEEEGGGSS
T ss_pred CceEEEEEEEEeCCCCCCCCCEEEEecCCeEEEEEEEehhcCc
Confidence 5689999999998753 4566777887999999999999998
No 8
>KOG4504 consensus Cation-independent mannose-6-phosphate receptor CI-MPR [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=95.83 E-value=0.031 Score=49.66 Aligned_cols=59 Identities=22% Similarity=0.348 Sum_probs=49.3
Q ss_pred ceEEEEeCCCcccCCCCCCc-EEEEEEEcCCC---Cc-eeEEeecCCceEEEEEEeccCCCCCC
Q 028914 91 RYHAHQYTNGTLCDLTNQPR-ETEVRFVCSEP---RA-MISSITELSTCKYALTIQCPMLCKHP 149 (202)
Q Consensus 91 ~y~~~~y~nG~~Cd~tg~~R-steV~~~C~~~---~~-~I~sV~E~stC~Y~~~v~tP~lC~~~ 149 (202)
.-+.++|.||..|.-..--| +|-+-|+|... ++ .|+.+---.+|.|-+.++|+.+|..-
T Consensus 164 k~L~l~y~nGS~CP~~~~~~~~TlisFvC~~e~~~~~~~i~y~gnl~~Ct~FFew~tihACpt~ 227 (370)
T KOG4504|consen 164 KRLQLVYKNGSPCPSKSGLSYKTLISFVCRPEAGPTNRPILYSGNLQTCTLFFEWHTIHACPTA 227 (370)
T ss_pred ceEEEEecCCCcCCCCCCccceeeEEEEecCCCCCCCccEEEeccccceEEEEEecccccCccc
Confidence 34899999999996544455 89999999854 33 68899999999999999999999753
No 9
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=94.17 E-value=0.19 Score=43.76 Aligned_cols=54 Identities=11% Similarity=0.146 Sum_probs=42.9
Q ss_pred ceEEEEeCCCcccCCCCCCcEEEEEEEcCCCC--ceeEEeecCCceEEEEEEeccCCCC
Q 028914 91 RYHAHQYTNGTLCDLTNQPRETEVRFVCSEPR--AMISSITELSTCKYALTIQCPMLCK 147 (202)
Q Consensus 91 ~y~~~~y~nG~~Cd~tg~~RsteV~~~C~~~~--~~I~sV~E~stC~Y~~~v~tP~lC~ 147 (202)
.-+...|.+ .+ |.+.+|++.|.|.|.++. ..+....+...|.|.+.+.||.+|.
T Consensus 117 ~Gl~l~l~G--~~-~~~~~~~a~i~f~Cd~~~~~~~~~~~~~~~~~~l~l~~~t~~aC~ 172 (268)
T PF09451_consen 117 EGLRLKLKG--GK-WGSNNQSAVIEFQCDKNASGPEGTSKVDWDGCVLRLEWKTKYACI 172 (268)
T ss_pred CCEEEEEeC--CC-CCCceEEEEEEEEcCCCCCCCceeeeecCCCcEEEEEEecccccc
Confidence 456777777 44 889999999999998752 3344447788899999999999994
No 10
>KOG4504 consensus Cation-independent mannose-6-phosphate receptor CI-MPR [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.90 E-value=67 Score=29.06 Aligned_cols=56 Identities=20% Similarity=0.446 Sum_probs=41.4
Q ss_pred eEEEEeCCCcccCCCCCCcEEEEEEEcCCC---CceeEEeecCCceEEEEEEeccCCCCC
Q 028914 92 YHAHQYTNGTLCDLTNQPRETEVRFVCSEP---RAMISSITELSTCKYALTIQCPMLCKH 148 (202)
Q Consensus 92 y~~~~y~nG~~Cd~tg~~RsteV~~~C~~~---~~~I~sV~E~stC~Y~~~v~tP~lC~~ 148 (202)
..+..|.+|+.|.-.-+..+++++|.|+.. +...... -.+.|.|.+.-.+-.+|..
T Consensus 35 ~~v~~~~~~~l~~d~~pk~~~~~~~fCA~s~pnTg~yfdl-~~~~~~nt~~~g~~t~~g~ 93 (370)
T KOG4504|consen 35 IIVLKYVDGDLCPDGIPKKSTTIRFFCAESQPNTGPYFDL-AVEDCENTFAWGTATACGM 93 (370)
T ss_pred eEEEEecccccCCCCCCCcccccceeeeccCCCCcceEEe-eecccCCccccCceeccCc
Confidence 457789999999666677899999999853 2222222 5567888888888888865
No 11
>smart00041 CT C-terminal cystine knot-like domain (CTCK). The structures of transforming growth factor-beta (TGFbeta), nerve growth factor (NGF), platelet-derived growth factor (PDGF) and gonadotropin all form 2 highly twisted antiparallel pairs of beta-strands and contain three disulphide bonds. The domain is non-globular and little is conserved among these presumed homologues except for their cysteine residues. CT domains are predicted to form homodimers.
Probab=27.98 E-value=98 Score=21.75 Aligned_cols=38 Identities=13% Similarity=0.462 Sum_probs=26.7
Q ss_pred eCCCcccCCCCCCcEEEEEEEcCCCCceeEEeecCCceE
Q 028914 97 YTNGTLCDLTNQPRETEVRFVCSEPRAMISSITELSTCK 135 (202)
Q Consensus 97 y~nG~~Cd~tg~~RsteV~~~C~~~~~~I~sV~E~stC~ 135 (202)
+..+.-| ---.-|...|.|.|.+.......|..+..|.
T Consensus 39 ~~~c~CC-~p~~~~~~~v~l~C~dg~~~~~~v~~i~~C~ 76 (82)
T smart00041 39 QHSCSCC-QPHKTKTRQVRLRCPDGSTVKKTVMHIEECG 76 (82)
T ss_pred ccCCCcc-CCceeEEEEEEEECCCCCEEEEEEEEEEecc
Confidence 3446677 4456788999999987655566777777553
Done!