Query 014956
Match_columns 415
No_of_seqs 246 out of 680
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 01:42:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014956.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014956hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00167 VPS9 Domain present 100.0 1.8E-33 3.9E-38 242.2 10.5 114 144-261 1-115 (117)
2 KOG2320 RAS effector RIN1 (con 100.0 5.2E-30 1.1E-34 264.2 21.5 336 16-368 252-633 (651)
3 PF02204 VPS9: Vacuolar sortin 99.9 2.1E-25 4.5E-30 187.0 10.3 103 145-250 1-103 (104)
4 KOG2319 Vacuolar assembly/sort 99.6 7.9E-17 1.7E-21 169.3 3.0 324 55-383 3-344 (477)
5 cd01776 Rin1_RA Ubiquitin doma 99.4 5.1E-14 1.1E-18 112.0 -0.5 68 277-365 6-87 (87)
6 KOG2319 Vacuolar assembly/sort 99.3 1.9E-11 4E-16 128.9 13.3 240 16-263 106-355 (477)
7 smart00314 RA Ras association 78.5 1.3 2.7E-05 35.9 1.6 42 282-334 13-54 (90)
8 cd01768 RA RA (Ras-associating 74.8 1.9 4.1E-05 34.5 1.8 44 282-336 10-53 (87)
9 PF00788 RA: Ras association ( 60.6 5.6 0.00012 31.7 1.8 40 281-331 13-52 (93)
10 TIGR02878 spore_ypjB sporulati 53.4 1.9E+02 0.004 28.2 10.9 92 112-219 122-218 (233)
11 PF05603 DUF775: Protein of un 30.4 1.6E+02 0.0035 27.8 6.6 53 16-76 146-201 (202)
12 cd01787 GRB7_RA RA (RAS-associ 30.3 38 0.00082 27.8 2.0 28 284-311 12-39 (85)
13 PF08678 Rsbr_N: Rsbr N termin 26.1 4.4E+02 0.0096 23.3 8.1 68 32-104 54-121 (129)
14 PF10757 YbaJ: Biofilm formati 24.1 4.5E+02 0.0097 23.0 7.5 43 32-74 49-91 (122)
15 PF14747 DUF4473: Domain of un 24.0 3.8E+02 0.0082 21.4 7.1 62 26-93 20-81 (82)
16 PF04878 Baculo_p48: Baculovir 20.3 57 0.0012 33.7 1.6 49 159-210 126-180 (374)
No 1
>smart00167 VPS9 Domain present in VPS9. Domain present in yeast vacuolar sorting protein 9 and other proteins.
Probab=100.00 E-value=1.8e-33 Score=242.24 Aligned_cols=114 Identities=32% Similarity=0.579 Sum_probs=105.4
Q ss_pred hHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhhhhhcccCcCCCCcchhHHHHHHHHHHcCCcchhhHHHHHHHhh
Q 014956 144 SWLLAEKELQKINALKAPREKVLCIMNCCRIINNLLLNASISENVELGGADDFLPVLIYIIIKANPPQLHSNIKFIQLYR 223 (415)
Q Consensus 144 ~~~~Ai~eL~ki~~~~sP~dKL~~ll~~~k~I~~~l~~~s~s~~~~~~~ADdfLPlLIYVvikan~~~L~Sni~YI~~F~ 223 (415)
+|+.|+.+|++|+.++||+|||.||++||+.|++.+... .+.++|||||||+||||||||+||+|+||++||++|+
T Consensus 1 ~~~~a~~eL~~i~~~~sP~dKL~~il~~~~~I~~~l~~~----~~~~~~ADdfLPilIYviika~~~~l~sn~~yI~~f~ 76 (117)
T smart00167 1 FVEIEQIELKFLQLYKSPSDKIKCLLRACKLIYTLLETQ----SGEVAGADDFLPVLIYVIIKCDPRDLLLNAEYMEEFL 76 (117)
T ss_pred CccHHHHHHHHccccCCHHHHHHHHHHHHHHHHHHHhcc----cCCCCChHHHHHHHHHHHhccChhhHHHHHHHHHHHC
Confidence 589999999999999999999999999999999988532 2457999999999999999999999999999999999
Q ss_pred chhccCCchhHHHHhHHHHHHHHHhcCcCCCCcc-hHHH
Q 014956 224 RQAMLVSEAAYYFTNLVSAKTFILDLNAKSLSME-ETEF 261 (415)
Q Consensus 224 ~~~~l~gE~gYylT~l~sAv~fI~~l~~~~Lsi~-~~ef 261 (415)
+++.+.||.|||||||++|++||++++.++|.+. +++|
T Consensus 77 ~~~~l~gE~gY~lT~l~aAv~fi~~l~~~~l~~~~~~~~ 115 (117)
T smart00167 77 EPSLLTGEGGYYLTSLSAALALIKGLTEAHALPLSPEQE 115 (117)
T ss_pred CccccccHHHHHHHHHHHHHHHHHHCCHHhCCccCHHHh
Confidence 9999999999999999999999999999999865 4554
No 2
>KOG2320 consensus RAS effector RIN1 (contains VPS domain) [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=5.2e-30 Score=264.15 Aligned_cols=336 Identities=16% Similarity=0.203 Sum_probs=237.7
Q ss_pred hHHHHHHHHH----------hcCCCchHHHHHHHHHHHHhhcC---CCCChhhHHHHHHHHHHHHHHHhcCcccccCCHH
Q 014956 16 AVTFYDFLDR----------MRNPASLDLVRSIKSFIVSFSFN---NANPENDGKRVQEFFTTMESAIKDHPLWANATIE 82 (415)
Q Consensus 16 ~~~f~~FL~~----------lk~p~a~~l~k~ik~Fi~~f~~~---~~~~ee~~~~Vq~F~~~i~~~l~~~~~~~~~~~~ 82 (415)
...|..|+.. |..+...-..-.++.||.-.... .-+..++-+-|+.|++.+.+.|..++--....+.
T Consensus 252 Ss~f~s~~~~e~q~~ke~a~L~qd~~tyfG~lvqD~vs~~~d~~~~~td~a~mL~~iRq~lt~~k~yL~qs~e~~~~v~~ 331 (651)
T KOG2320|consen 252 SSSFKSFLGPERQHYKESAELEQDKMTYFGSLVQDYVSDYEDVWHRPTDSASMLQSIRQALTRRKNYLSQSPELDTPVQP 331 (651)
T ss_pred hhhhHhhhhhHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhhhcCCCcHHHHHHHHHHHHHHhHHHHhhcCCCCCCccc
Confidence 4467777653 33444444555566666655553 2233455566777888888888776532211100
Q ss_pred HHHHHHHHHHHHHHHHhhHHhcCCCc--------cchHHHHHHH---HHHHHHhcCCCCCccccCCCCccchhHHHHHHH
Q 014956 83 AIESAMEGLEKYVMTKLFSRTFASTS--------EDVKIDQEIS---EKICLLQTFLRPEHLDIPTFLQNEASWLLAEKE 151 (415)
Q Consensus 83 ~ld~~~e~iEk~Im~~Ly~~lf~~~~--------~d~~~D~~L~---~kI~~Lq~~Itp~~L~I~~~~~~e~~~~~Ai~e 151 (415)
. ..-...+|..+-.-||+.+..+.. .....|-.++ +..... .--++..||+--.......++.....
T Consensus 332 ~-~~s~~~leavlEs~Lhk~vLkPlkp~l~~~l~~~h~~dGsl~~l~en~~vv-r~~~~~~lG~~~~~Ps~~~mEqvk~k 409 (651)
T KOG2320|consen 332 S-LLSETPLEAVLESALHKSVLKPLKPNLSAQLPPVHSKDGSLQQLKENQDVV-RAANPTALGVFLSTPSDVLMEQVKQK 409 (651)
T ss_pred c-ccCcchHHHHHHHHHHHhhccccchhHhhhcchhhhhccHHHHHhccccee-cccCccccceeccCCcHHHHHHHHHH
Confidence 0 000123444444556666665521 1112232221 111111 12356677874444444567778888
Q ss_pred HHhcccCCChHHHHHHHHHHHHHHHHHhhhhhcccCcCCCCcchhHHHHHHHHHHcCCcchhhHHHHHHHhhchhccCCc
Q 014956 152 LQKINALKAPREKVLCIMNCCRIINNLLLNASISENVELGGADDFLPVLIYIIIKANPPQLHSNIKFIQLYRRQAMLVSE 231 (415)
Q Consensus 152 L~ki~~~~sP~dKL~~ll~~~k~I~~~l~~~s~s~~~~~~~ADdfLPlLIYVvikan~~~L~Sni~YI~~F~~~~~l~gE 231 (415)
+.+|.+.++|..||..++++||.|+..+.+ ...+.+.|||||||+|.||+.|++.+.+..+++|||+|++|+.+.||
T Consensus 410 ~~~m~r~YSP~kkl~~Llk~ckLly~~~~~---~~~g~~~gaDdflP~lsyvla~s~~~e~~~e~eYM~ELLdP~l~~ge 486 (651)
T KOG2320|consen 410 FTAMQRRYSPSKKLHALLKACKLLYAGMGG---DNEGLAYGADDFLPVLSYVLARSDLQELLTEAEYMMELLDPDLLSGE 486 (651)
T ss_pred HHHHHHhhChHHHHHHHHHHHHHHHHHhcc---CCCCCCCCchhhHHHHHHHHHhcchhcchHHHHHHHHhcChhhhcCc
Confidence 999999999999999999999999998853 23456899999999999999999999999999999999999999999
Q ss_pred hhHHHHhHHHHHHHHHhcCcC-----CCCcchHHHHHHHHHhhhhcc------------cccccccCCCCCcccccCCCC
Q 014956 232 AAYYFTNLVSAKTFILDLNAK-----SLSMEETEFEKSMQAARLANK------------VTLIEESTTSNGIKTLGEQGH 294 (415)
Q Consensus 232 ~gYylT~l~sAv~fI~~l~~~-----~Lsi~~~ef~~~~~~~~~~~~------------~~~~~~~~~~~~~ktl~~~~~ 294 (415)
+|||||++.+|+++|+++... .++.+..+..+.|+++|+.++ ....+|..++|+.||++++|.
T Consensus 487 ggYYLTs~~~al~~iks~~~~~ra~r~l~~e~r~Slhqw~~rRl~~~~l~~~~c~q~~l~aa~qe~~~g~~~aT~~~~p~ 566 (651)
T KOG2320|consen 487 GGYYLTSLYGALEHIKSLGRITRAPRGLSVERRDSLHQWERRRLPNRTLPAVRCVQPPLRAAYQEPVSGCTKATLASRPS 566 (651)
T ss_pred cchhHHHHHHHHHHHhccccccccccccchhhhHHHHHHHhccCccccccchhhccchhheeccccccccccccccCCCc
Confidence 999999999999999999764 467788999999999998853 223778889999999999999
Q ss_pred CChhhhHHHHHhhccCCchhhHHHhhcCCCccccccccccCCCCCcccccccccCCCc-----hhHHHHHHHHHHHHHH
Q 014956 295 PERHDVTRIEASAMSNDRKSLEEQRRVGPSQRIYGNNTITSGGYGYPFMEAEASRLTT-----GDVEKLLSVYKDVVRK 368 (415)
Q Consensus 295 ~~~~~~~~~~a~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~~-----~~v~~ll~~Yk~l~~~ 368 (415)
.++..+|++||+||+++ +|+-+|+|-..+++..=+-..+++.++.- -+.+.|+|+||++..+
T Consensus 567 ~~t~~lc~lCa~kf~v~------------~p~~~~Lfl~~e~~~s~L~~~~lPh~i~t~~~~~~~~~~~~fayk~~d~~ 633 (651)
T KOG2320|consen 567 AQTQILCRLCAEKFGVT------------SPQEHGLFLFVEGWDSQLADDALPHDIKTILSLTIHKSKFHFAYKRDDTI 633 (651)
T ss_pred cchhhhhHhhHHhhcCC------------CccccCeEEEecCccccCCccccceecchhhccccccccccccccccccc
Confidence 99999999999999999 89999988555554443444444444441 3668899999998653
No 3
>PF02204 VPS9: Vacuolar sorting protein 9 (VPS9) domain; InterPro: IPR003123 This domain is present in yeast vacuolar sorting protein 9 and other proteins.; PDB: 1TXU_A 2OT3_A 2EFD_A 2EFE_C 2EFC_C 2EFH_A.
Probab=99.92 E-value=2.1e-25 Score=186.99 Aligned_cols=103 Identities=41% Similarity=0.716 Sum_probs=88.0
Q ss_pred HHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhhhhhcccCcCCCCcchhHHHHHHHHHHcCCcchhhHHHHHHHhhc
Q 014956 145 WLLAEKELQKINALKAPREKVLCIMNCCRIINNLLLNASISENVELGGADDFLPVLIYIIIKANPPQLHSNIKFIQLYRR 224 (415)
Q Consensus 145 ~~~Ai~eL~ki~~~~sP~dKL~~ll~~~k~I~~~l~~~s~s~~~~~~~ADdfLPlLIYVvikan~~~L~Sni~YI~~F~~ 224 (415)
|++|+++|++|+..+||.+|+.||.+|++.|.+.+.. ...+..+||||+||+|+|||+||+++++++++.||++|+.
T Consensus 1 ~~~a~~~L~~i~~~~sP~~Kl~~l~~~~~~I~~~~~~---~~~~~~~~aDdllpiliyvli~s~~~~l~s~i~~i~~f~~ 77 (104)
T PF02204_consen 1 WEKAIEELKKINSVKSPLEKLKCLVKAFKEIQNAIKT---SKSPSEISADDLLPILIYVLIKSNPPNLYSNIKYIEDFID 77 (104)
T ss_dssp -HHHHHHHHHGGG--SHHHHHHHHHHHHHHHHHHHHH---HCCTS-B-HHHHHHHHHHHHHHH--TTHHHHHHHHHHHSC
T ss_pred CHHHHHHHHHccccCCHHHHHHHHHHHHHHHHHHHhc---ccccCCCCHHHHHHHHHHHHHhcCcccHHHHHHHHHHHcc
Confidence 7899999999999999999999999999999998822 2345689999999999999999999999999999999999
Q ss_pred hhccCCchhHHHHhHHHHHHHHHhcC
Q 014956 225 QAMLVSEAAYYFTNLVSAKTFILDLN 250 (415)
Q Consensus 225 ~~~l~gE~gYylT~l~sAv~fI~~l~ 250 (415)
++.+.||.|||||||++|++||++++
T Consensus 78 ~~~~~~e~~y~ltt~~aA~~~i~~~~ 103 (104)
T PF02204_consen 78 SSLLSGEEGYYLTTFEAAVEYIQNLE 103 (104)
T ss_dssp CCTTSCHHHHHHHHHHHHHHHHHC--
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHcc
Confidence 88899999999999999999999876
No 4
>KOG2319 consensus Vacuolar assembly/sorting protein VPS9 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.63 E-value=7.9e-17 Score=169.31 Aligned_cols=324 Identities=27% Similarity=0.344 Sum_probs=240.3
Q ss_pred hHHHHHHHHHHHHHHHhcCcccccCCHHHHHHHHHHHHHHHHHHhhHHhcCCCccchHHHHHHHHHHHHHhcCCCCCccc
Q 014956 55 DGKRVQEFFTTMESAIKDHPLWANATIEAIESAMEGLEKYVMTKLFSRTFASTSEDVKIDQEISEKICLLQTFLRPEHLD 134 (415)
Q Consensus 55 ~~~~Vq~F~~~i~~~l~~~~~~~~~~~~~ld~~~e~iEk~Im~~Ly~~lf~~~~~d~~~D~~L~~kI~~Lq~~Itp~~L~ 134 (415)
....+++++..+......++.|+..++++.+....+.++++|+...+.+|....++...|.....+....+..+++...+
T Consensus 3 ~~~~~~~~~~~~~s~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~ 82 (477)
T KOG2319|consen 3 DPDLVQSTVAKYSSVFLNHPLWKISTDEELDEARDGLEKYVMTALFQRVFASDVEEVDADVLNEIDDSSLQTIISPEASG 82 (477)
T ss_pred ccccccccccchhhhhccccccccchhhhhhhccccccchhcccccccCcchhhhhhhhHhhhccccchhhhhcCHhhcc
Confidence 34578888889999999999999999999999999999999999999999854455566666666666676778888888
Q ss_pred cCCCCccchhHHHHHHHHHhcccCCChHHHHHHHHHHHHHHHHHhhhhhcccCcCCCCcchhHHHHHHHHHHcCCcchhh
Q 014956 135 IPTFLQNEASWLLAEKELQKINALKAPREKVLCIMNCCRIINNLLLNASISENVELGGADDFLPVLIYIIIKANPPQLHS 214 (415)
Q Consensus 135 I~~~~~~e~~~~~Ai~eL~ki~~~~sP~dKL~~ll~~~k~I~~~l~~~s~s~~~~~~~ADdfLPlLIYVvikan~~~L~S 214 (415)
..+.......|..|+.++..++..++|.+|+.|++.||+.++......... +.-+|+++|.++|+..+++++++++
T Consensus 83 ~~e~~~~~~~~~~a~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (477)
T KOG2319|consen 83 DQETFNQNTSIENAQSELEKIELYKAPHDKLQCILSQCKLIFELLLKSSIA----PNQASQFLPVLIFVTKKANPQQFHS 158 (477)
T ss_pred CccchhhccchhhhcccccccccccCchhHHHHHHHHHhhhhHHHHHhhcc----cccccccccceeeeccccCchhhhh
Confidence 888877777899999999999999999999999999999999988654433 2339999999999999999999999
Q ss_pred HHHHHHHhhchhccCCchhHHHHhHHHHHHHHHhcCcCCCCcchHHHHHHHHHhhhhcccccccccCCCCCccccc----
Q 014956 215 NIKFIQLYRRQAMLVSEAAYYFTNLVSAKTFILDLNAKSLSMEETEFEKSMQAARLANKVTLIEESTTSNGIKTLG---- 290 (415)
Q Consensus 215 ni~YI~~F~~~~~l~gE~gYylT~l~sAv~fI~~l~~~~Lsi~~~ef~~~~~~~~~~~~~~~~~~~~~~~~~ktl~---- 290 (415)
++.|..+++....+.++.+||++++..+..++-+....++.+++.+++..+....-..+-..++-+.-. ...+.+
T Consensus 159 ~~~~~~~~r~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~d~~~~~~~~~~~~l~~~~~~i~-~~~~~~~~~~ 237 (477)
T KOG2319|consen 159 NVLYEMRNRREGPLEGENKLYFTCEDSAEAFISNILLDSETSDDAEFDLALSKAIRRLQGLTSQMLDIP-VLEQIPELSK 237 (477)
T ss_pred hHHHHHHHHHhhhHHHHHHHHHHHhhHHHHHHhccccCcccCCHHHHhHHHHHHHHhhcccchhhcccc-ccccccchhH
Confidence 999999999999989999999999999999999999999999999999887764422111101100000 000000
Q ss_pred -----------CCCCCCh---hhhHHHHHhhccCCchhhHHHhhcCCCccccccccccCCCCCcccccccccCCCchhHH
Q 014956 291 -----------EQGHPER---HDVTRIEASAMSNDRKSLEEQRRVGPSQRIYGNNTITSGGYGYPFMEAEASRLTTGDVE 356 (415)
Q Consensus 291 -----------~~~~~~~---~~~~~~~a~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~~~~v~ 356 (415)
.+...+. ..+|.+-..+.......+.+.+++++..-+-.+..-+-.+..+.|......+++...++
T Consensus 238 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~f~~l~~~~~e~~~~~~~l~~~~~~~~~~~~~~~~s~~~~~~~~~~~e 317 (477)
T KOG2319|consen 238 RVALASQRLALIRELLTPRDKKEACALNCEKPIFSALKITDDENAGADKFLPSLIYCLLKAQGPHLVSNIQYILRFRAPE 317 (477)
T ss_pred HHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHHhhhhccchhhhhHHhhhHHHHHHHHhcCCcccccHHHHHHhcccHH
Confidence 0111111 22333222222222223333333322211111111122457778888888888889999
Q ss_pred HHHHHHHHHHHHHhHHHHHhcccCCCC
Q 014956 357 KLLSVYKDVVRKYTNLCRAVRHVSVPM 383 (415)
Q Consensus 357 ~ll~~Yk~l~~~~~~l~~~~~~~~~~~ 383 (415)
.+.+.|+...++|.++...+.......
T Consensus 318 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (477)
T KOG2319|consen 318 RLSGEEKYYLFTYACASSDIFDATLLS 344 (477)
T ss_pred hhhccchhhhhhhhhhhhhhhhhhhhh
Confidence 999999999999999999988765543
No 5
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=99.38 E-value=5.1e-14 Score=112.01 Aligned_cols=68 Identities=18% Similarity=0.175 Sum_probs=58.1
Q ss_pred ccccCCCCCcccccCCCCCChhhhHHHHHhhccCCchhhHHHhhcCCCccccccccccCCCCCcccccccccCCCch---
Q 014956 277 IEESTTSNGIKTLGEQGHPERHDVTRIEASAMSNDRKSLEEQRRVGPSQRIYGNNTITSGGYGYPFMEAEASRLTTG--- 353 (415)
Q Consensus 277 ~~~~~~~~~~ktl~~~~~~~~~~~~~~~a~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~~~--- 353 (415)
.+|++++|++|||+|+|++|+++||++||+||+++ +|+.||+| .|+++.+++|+.+
T Consensus 6 ~q~~~sgct~KTL~V~P~~tt~~vc~lcA~Kf~V~------------qPe~y~LF---------l~vdg~~~qLadd~~P 64 (87)
T cd01776 6 FQDVNSGCTGKTLLVRPYITTEDVCQLCAEKFKVT------------QPEEYSLF---------LFVEETWQQLAPDTYP 64 (87)
T ss_pred eecCCCCceeeeeecCCCCcHHHHHHHHHHHhccC------------ChhheeEE---------EEECCcEEEcCccccc
Confidence 57789999999999999999999999999999999 99999999 5666666666654
Q ss_pred -----------hHHHHHHHHHHH
Q 014956 354 -----------DVEKLLSVYKDV 365 (415)
Q Consensus 354 -----------~v~~ll~~Yk~l 365 (415)
++.++||+||++
T Consensus 65 q~ika~L~~~~~~~~fhfvYrr~ 87 (87)
T cd01776 65 QRIKAELHSRPQPNTFHFVYRRI 87 (87)
T ss_pred ceechhhccCCCCcceEEEEecC
Confidence 556888888863
No 6
>KOG2319 consensus Vacuolar assembly/sorting protein VPS9 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.30 E-value=1.9e-11 Score=128.86 Aligned_cols=240 Identities=28% Similarity=0.340 Sum_probs=181.2
Q ss_pred hHHHHHHHHHhcCCCchHHHHHHHHHHHHhhcCCC----CChhhHHHHHHHHHHHHHHHhcCcccccCCHHHHHHHHHHH
Q 014956 16 AVTFYDFLDRMRNPASLDLVRSIKSFIVSFSFNNA----NPENDGKRVQEFFTTMESAIKDHPLWANATIEAIESAMEGL 91 (415)
Q Consensus 16 ~~~f~~FL~~lk~p~a~~l~k~ik~Fi~~f~~~~~----~~ee~~~~Vq~F~~~i~~~l~~~~~~~~~~~~~ld~~~e~i 91 (415)
...|+.+|..+..-.........++++..+..-.. ..-......+.|+......++.-. ..........+...
T Consensus 106 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~---~~~l~~~~~~~~~~ 182 (477)
T KOG2319|consen 106 YKAPHDKLQCILSQCKLIFELLLKSSIAPNQASQFLPVLIFVTKKANPQQFHSNVLYEMRNRR---EGPLEGENKLYFTC 182 (477)
T ss_pred ccCchhHHHHHHHHHhhhhHHHHHhhcccccccccccceeeeccccCchhhhhhHHHHHHHHH---hhhHHHHHHHHHHH
Confidence 45666666665554445555555555555551100 001223344557777665554311 11223345567778
Q ss_pred HHHHHHHhhHHhcCC-CccchHHHHHHHHHHHHHhcCCCCCccccCCCCccc---hhHHHHHHHHHhcccCCChHH-HHH
Q 014956 92 EKYVMTKLFSRTFAS-TSEDVKIDQEISEKICLLQTFLRPEHLDIPTFLQNE---ASWLLAEKELQKINALKAPRE-KVL 166 (415)
Q Consensus 92 Ek~Im~~Ly~~lf~~-~~~d~~~D~~L~~kI~~Lq~~Itp~~L~I~~~~~~e---~~~~~Ai~eL~ki~~~~sP~d-KL~ 166 (415)
+...+..+|..++.. ...+.+.|..++.+++.+ +|+++..++|+...... .....+.+.+..|+....|++ |..
T Consensus 183 ~~~~~~~~~~~~~~~~~~d~~~~d~~~~~~~~~~-~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~ 261 (477)
T KOG2319|consen 183 EDSAEAFISNILLDSETSDDAEFDLALSKAIRRL-QGLTSQMLDIPVLEQIPELSKRVALASQRLALIRELLTPRDKKEA 261 (477)
T ss_pred hhHHHHHHhccccCcccCCHHHHhHHHHHHHHhh-cccchhhccccccccccchhHHHHHHHHHHHHHHHhhcchhhhHH
Confidence 888889999998887 446788999999999999 69999999998765432 245678889999999999999 799
Q ss_pred HHHHHHHHHHHHhhhhhcccCcCCCCcchhHHHHHHHHHHcCCcchhhHHHHHHHhhchhccCCchhHHHHhHHHHHHHH
Q 014956 167 CIMNCCRIINNLLLNASISENVELGGADDFLPVLIYIIIKANPPQLHSNIKFIQLYRRQAMLVSEAAYYFTNLVSAKTFI 246 (415)
Q Consensus 167 ~ll~~~k~I~~~l~~~s~s~~~~~~~ADdfLPlLIYVvikan~~~L~Sni~YI~~F~~~~~l~gE~gYylT~l~sAv~fI 246 (415)
|.++|++.|+..+... .....+||.|+|.++|.+++.+++++.++++|+.+|+.+..+.|+.+|++.++.++..++
T Consensus 262 ~~~~~~~~~f~~l~~~----~~e~~~~~~~l~~~~~~~~~~~~~~~~s~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 337 (477)
T KOG2319|consen 262 CALNCEKPIFSALKIT----DDENAGADKFLPSLIYCLLKAQGPHLVSNIQYILRFRAPERLSGEEKYYLFTYACASSDI 337 (477)
T ss_pred HHHHHHHHHHhhhhcc----chhhhhHHhhhHHHHHHHHhcCCcccccHHHHHHhcccHHhhhccchhhhhhhhhhhhhh
Confidence 9999999999988543 335789999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCcCCCCcch-HHHHH
Q 014956 247 LDLNAKSLSMEE-TEFEK 263 (415)
Q Consensus 247 ~~l~~~~Lsi~~-~ef~~ 263 (415)
......++.+.. +.|.+
T Consensus 338 ~~~~~~~~~i~~~q~~~~ 355 (477)
T KOG2319|consen 338 FDATLLSLTISSLQDFAR 355 (477)
T ss_pred hhhhhhhcccchhhhhhh
Confidence 998888888764 55554
No 7
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=78.47 E-value=1.3 Score=35.89 Aligned_cols=42 Identities=14% Similarity=0.059 Sum_probs=35.5
Q ss_pred CCCCcccccCCCCCChhhhHHHHHhhccCCchhhHHHhhcCCCcccccccccc
Q 014956 282 TSNGIKTLGEQGHPERHDVTRIEASAMSNDRKSLEEQRRVGPSQRIYGNNTIT 334 (415)
Q Consensus 282 ~~~~~ktl~~~~~~~~~~~~~~~a~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (415)
...+.|++.+.+.+|+++|++++++||++.. +|+.|.++...
T Consensus 13 ~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~-----------~~~~y~L~e~~ 54 (90)
T smart00314 13 PGGTYKTLRVSSRTTARDVIQQLLEKFHLTD-----------DPEEYVLVEVL 54 (90)
T ss_pred CCCcEEEEEECCCCCHHHHHHHHHHHhCCCC-----------CcccEEEEEEe
Confidence 3567899999999999999999999999871 37788888766
No 8
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=74.81 E-value=1.9 Score=34.52 Aligned_cols=44 Identities=16% Similarity=0.122 Sum_probs=36.3
Q ss_pred CCCCcccccCCCCCChhhhHHHHHhhccCCchhhHHHhhcCCCccccccccccCC
Q 014956 282 TSNGIKTLGEQGHPERHDVTRIEASAMSNDRKSLEEQRRVGPSQRIYGNNTITSG 336 (415)
Q Consensus 282 ~~~~~ktl~~~~~~~~~~~~~~~a~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (415)
...+.|++.+...+|+++|++.+++||++.. ++..|.++.....
T Consensus 10 ~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-----------~~~~y~L~ev~~~ 53 (87)
T cd01768 10 SGGTYKTLRVSKDTTAQDVIQQLLKKFGLDD-----------DPEDYALVEVLGD 53 (87)
T ss_pred CCccEEEEEECCCCCHHHHHHHHHHHhCCcC-----------CcccEEEEEEECC
Confidence 4567899999999999999999999999872 5677887766544
No 9
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=60.65 E-value=5.6 Score=31.69 Aligned_cols=40 Identities=10% Similarity=0.078 Sum_probs=32.9
Q ss_pred CCCCCcccccCCCCCChhhhHHHHHhhccCCchhhHHHhhcCCCccccccc
Q 014956 281 TTSNGIKTLGEQGHPERHDVTRIEASAMSNDRKSLEEQRRVGPSQRIYGNN 331 (415)
Q Consensus 281 ~~~~~~ktl~~~~~~~~~~~~~~~a~k~~~~~~~~~~~~~~~~~~~~~~~~ 331 (415)
..++..|++.+.+.+|+++|++.+++||++. .+|..|.++
T Consensus 13 ~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~-----------~~~~~y~L~ 52 (93)
T PF00788_consen 13 SPGSTYKTIKVSSSTTAREVIEMALEKFGLA-----------EDPSDYCLV 52 (93)
T ss_dssp SSCCSEEEEEEETTSBHHHHHHHHHHHTTTS-----------SSGGGEEEE
T ss_pred CCCccEEEEEECCCCCHHHHHHHHHHHhCCC-----------CCCCCEEEE
Confidence 3444689999999999999999999999983 167778774
No 10
>TIGR02878 spore_ypjB sporulation protein YpjB. Members of this protein, YpjB, family are restricted to a subset of endospore-forming bacteria, including Bacillus species but not CLostridium or some others. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon, where sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect. This protein family is not, however, a part of the endospore formation minimal gene set.
Probab=53.40 E-value=1.9e+02 Score=28.21 Aligned_cols=92 Identities=12% Similarity=0.226 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHhcCCCCC-ccccCCCCccchhHHH---HHHHHHhcc-cCCChHHHHHHHHHHHHHHHHHhhhhhccc
Q 014956 112 KIDQEISEKICLLQTFLRPE-HLDIPTFLQNEASWLL---AEKELQKIN-ALKAPREKVLCIMNCCRIINNLLLNASISE 186 (415)
Q Consensus 112 ~~D~~L~~kI~~Lq~~Itp~-~L~I~~~~~~e~~~~~---Ai~eL~ki~-~~~sP~dKL~~ll~~~k~I~~~l~~~s~s~ 186 (415)
.....|+.-+... ..|.|. .+++|+.-- ..+.. .++.++-.. ...+-++-|..+-...+.||..++
T Consensus 122 ~f~~~ln~Fl~~Y-~~I~PSl~Idl~~~~~--q~v~~~i~~l~~~r~~~~~~~~~~~~L~~~~~dl~~lF~~vk------ 192 (233)
T TIGR02878 122 AFQEKLNEFLSLY-DLIYPSLTIDVPEDQV--QRVDSHLSYLENFRFQQRSEDEKEEQLSLMRGDLKALFDGVK------ 192 (233)
T ss_pred HHHHHHHHHHHHh-hhcccceeeecCHHHH--HHHHHHHHHHHhhhhhccChHHHHHHHHHHHHHHHHHHcccc------
Confidence 3444555555444 457664 356655321 12333 333333222 223334445556666666665331
Q ss_pred CcCCCCcchhHHHHHHHHHHcCCcchhhHHHHH
Q 014956 187 NVELGGADDFLPVLIYIIIKANPPQLHSNIKFI 219 (415)
Q Consensus 187 ~~~~~~ADdfLPlLIYVvikan~~~L~Sni~YI 219 (415)
-=+|| |.||||++-.+.. +...+.|+
T Consensus 193 ---kD~aD---PSLiWvmistGg~-IvltLTYV 218 (233)
T TIGR02878 193 ---EDEAD---PSLLWVMISTGGI-IVATLTYV 218 (233)
T ss_pred ---cCCCC---cHHHHHHHHhhHH-HHHHHhhh
Confidence 12666 9999998764432 33445554
No 11
>PF05603 DUF775: Protein of unknown function (DUF775); InterPro: IPR008493 This family consists of several eukaryotic proteins of unknown function.
Probab=30.44 E-value=1.6e+02 Score=27.83 Aligned_cols=53 Identities=11% Similarity=0.308 Sum_probs=37.0
Q ss_pred hHHHHHHHHHhcCCCchHHHHHHHHHHHHhhcCCCCChh---hHHHHHHHHHHHHHHHhcCccc
Q 014956 16 AVTFYDFLDRMRNPASLDLVRSIKSFIVSFSFNNANPEN---DGKRVQEFFTTMESAIKDHPLW 76 (415)
Q Consensus 16 ~~~f~~FL~~lk~p~a~~l~k~ik~Fi~~f~~~~~~~ee---~~~~Vq~F~~~i~~~l~~~~~~ 76 (415)
+.++.+|-+| |++.+-.|+.+|.......++ ....+++-|++++.+++++|-|
T Consensus 146 ~~~~~~~A~k--------i~~NlfNyl~SF~~~~~~~~~~~VP~~~~~~W~~kFe~Kl~~dP~F 201 (202)
T PF05603_consen 146 PDSTKEFAQK--------IAENLFNYLSSFSGSQPQGGEEVVPLSVFDKWWEKFERKLRNDPNF 201 (202)
T ss_pred cccHHHHHHH--------HHHHHHHHHHhccCCCCCCCceEEeHHHHHHHHHHHHHHHhcCCCC
Confidence 4566666655 556667777777765322221 2578999999999999999854
No 12
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=30.27 E-value=38 Score=27.81 Aligned_cols=28 Identities=14% Similarity=0.113 Sum_probs=25.7
Q ss_pred CCcccccCCCCCChhhhHHHHHhhccCC
Q 014956 284 NGIKTLGEQGHPERHDVTRIEASAMSND 311 (415)
Q Consensus 284 ~~~ktl~~~~~~~~~~~~~~~a~k~~~~ 311 (415)
..+|++.+...||+++||++.|.|-+..
T Consensus 12 g~sK~l~V~~~~Ta~dV~~~L~~K~h~~ 39 (85)
T cd01787 12 GASKSLEVDERMTARDVCQLLVDKNHCQ 39 (85)
T ss_pred CCeeEEEEcCCCcHHHHHHHHHHHhCCC
Confidence 4679999999999999999999999886
No 13
>PF08678 Rsbr_N: Rsbr N terminal; InterPro: IPR014792 Rsbr is a regulator of the RNA polymerase sigma factor subunit sigma(B). The structure of the N-terminal domain belongs to the globin fold superfamily []. ; PDB: 2BNL_A.
Probab=26.07 E-value=4.4e+02 Score=23.29 Aligned_cols=68 Identities=7% Similarity=0.097 Sum_probs=47.1
Q ss_pred hHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHhcCcccccCCHHHHHHHHHHHHHHHHHHhhHHhc
Q 014956 32 LDLVRSIKSFIVSFSFNNANPENDGKRVQEFFTTMESAIKDHPLWANATIEAIESAMEGLEKYVMTKLFSRTF 104 (415)
Q Consensus 32 ~~l~k~ik~Fi~~f~~~~~~~ee~~~~Vq~F~~~i~~~l~~~~~~~~~~~~~ld~~~e~iEk~Im~~Ly~~lf 104 (415)
...-..|..|..++-..+++.-=...-+|.|=..+.+.|..+. .++++...+...++++| ++++..+.
T Consensus 54 ~~~~e~L~eFaer~VqlGwpL~flT~GL~~F~kvvy~~m~~~~----~~~~~~~e~~~eid~Wi-~pi~neiV 121 (129)
T PF08678_consen 54 EEFEERLDEFAERVVQLGWPLKFLTKGLQEFRKVVYETMNEEE----IDDQQSSELFWEIDSWI-DPIYNEIV 121 (129)
T ss_dssp STTHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHT------TT--HHHHHHHHHHHH-HHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHhcc----cchHHHHHHHHHHHHHH-hHHHHHHH
Confidence 4556888999999988888888888899999999999998775 23344455566667776 56665543
No 14
>PF10757 YbaJ: Biofilm formation regulator YbaJ; InterPro: IPR019693 YbaJ regulates biofilm formation. It also has an important role in the regulation of motility in the biofilm. YbaJ functions in increasing conjugation, aggregation and decreasing the motility, resulting in an increase of biofilm [].
Probab=24.08 E-value=4.5e+02 Score=23.00 Aligned_cols=43 Identities=14% Similarity=0.234 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHhcCc
Q 014956 32 LDLVRSIKSFIVSFSFNNANPENDGKRVQEFFTTMESAIKDHP 74 (415)
Q Consensus 32 ~~l~k~ik~Fi~~f~~~~~~~ee~~~~Vq~F~~~i~~~l~~~~ 74 (415)
.+|+..|-+|+-+|.-.-++-.+....|.+++++...-+....
T Consensus 49 NeLIEHIA~F~~~fKIKYp~~~~l~~~ideYLDeTy~LFssy~ 91 (122)
T PF10757_consen 49 NELIEHIAAFIWNFKIKYPDESDLIELIDEYLDETYMLFSSYG 91 (122)
T ss_pred HHHHHHHHHHHHhheeccCcHhhHHHHHHHHHHHHHHHhcCcc
Confidence 3667788889988887777777788888888888887777653
No 15
>PF14747 DUF4473: Domain of unknown function (DUF4473)
Probab=24.02 E-value=3.8e+02 Score=21.44 Aligned_cols=62 Identities=21% Similarity=0.221 Sum_probs=42.5
Q ss_pred hcCCCchHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHhcCcccccCCHHHHHHHHHHHHH
Q 014956 26 MRNPASLDLVRSIKSFIVSFSFNNANPENDGKRVQEFFTTMESAIKDHPLWANATIEAIESAMEGLEK 93 (415)
Q Consensus 26 lk~p~a~~l~k~ik~Fi~~f~~~~~~~ee~~~~Vq~F~~~i~~~l~~~~~~~~~~~~~ld~~~e~iEk 93 (415)
|...++..|++....|-..|.....+.+.....|..|...+...|... ++++.......+||
T Consensus 20 mS~~aidgi~~i~~~~~~~~~~~~~~~e~~~~~~~~~~~e~~~fikt~------s~~DQ~~y~~~~eK 81 (82)
T PF14747_consen 20 MSEKAIDGIVKIAEKFKSQFAKAKGNKEAAKKFFEKYKAEVDAFIKTQ------SEEDQTAYNAFVEK 81 (82)
T ss_pred CCHHHHHHHHHHHHHHHhccccccCCHHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHhc
Confidence 445556677777777777776656677777888899999998888864 34454444445554
No 16
>PF04878 Baculo_p48: Baculovirus P48 protein; InterPro: IPR006962 This family comprises the Baculovirus P48 proteins. They contain two possible membrane-spanning domains and a cysteine-rich domain that are conserved in all of the proteins. The Bombyx mori (Silk moth) nuclear polyhedrosis virus protein, O92463 from SWISSPROT, has been described as a putative DNA helicase.
Probab=20.27 E-value=57 Score=33.68 Aligned_cols=49 Identities=20% Similarity=0.408 Sum_probs=33.0
Q ss_pred CChHHHHHHHHHHHHHHHHHhhhhhcccCcCCCCcchh------HHHHHHHHHHcCCc
Q 014956 159 KAPREKVLCIMNCCRIINNLLLNASISENVELGGADDF------LPVLIYIIIKANPP 210 (415)
Q Consensus 159 ~sP~dKL~~ll~~~k~I~~~l~~~s~s~~~~~~~ADdf------LPlLIYVvikan~~ 210 (415)
.+|..|+.|+.-=|.-+..++... ..+-.-|.|-| +|+|+||++|++..
T Consensus 126 C~~~~kl~Cl~Ck~~YlS~~is~l---D~~iQ~GWDiFlRPM~GlPLllfvl~kTd~~ 180 (374)
T PF04878_consen 126 CSPVNKLECLTCKINYLSEAISTL---DSGIQDGWDIFLRPMFGLPLLLFVLFKTDFS 180 (374)
T ss_pred cccccccchhhhhHHHHHHHHHHH---HhhhhccHHHHHHHHhhhHHHHHHhhccccC
Confidence 456888999875555454444321 12234588888 49999999999885
Done!