Query 015311
Match_columns 409
No_of_seqs 173 out of 501
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 05:07:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015311.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015311hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1860 Nuclear protein export 100.0 2E-72 4.3E-77 599.6 27.3 326 38-375 56-422 (927)
2 COG5079 SAC3 Nuclear protein e 100.0 2.4E-71 5.2E-76 558.4 25.8 328 35-377 29-385 (646)
3 KOG1861 Leucine permease trans 100.0 4.9E-51 1.1E-55 409.2 18.6 232 112-381 286-518 (540)
4 PF03399 SAC3_GANP: SAC3/GANP/ 100.0 8.6E-47 1.9E-51 351.2 20.8 201 122-352 2-204 (204)
5 PF10075 PCI_Csn8: COP9 signal 98.5 9.7E-07 2.1E-11 78.2 10.6 128 242-377 3-132 (143)
6 KOG3151 26S proteasome regulat 97.5 0.0034 7.5E-08 60.0 14.9 147 215-368 72-221 (260)
7 PF01399 PCI: PCI domain; Int 95.1 0.18 3.8E-06 41.1 8.8 72 287-362 5-82 (105)
8 KOG1464 COP9 signalosome, subu 90.4 9.1 0.0002 38.2 14.1 142 212-366 241-390 (440)
9 KOG3252 Uncharacterized conser 88.0 3.8 8.3E-05 38.2 9.0 101 272-379 88-189 (217)
10 KOG2908 26S proteasome regulat 85.8 45 0.00098 34.2 18.9 86 282-368 234-323 (380)
11 KOG0687 26S proteasome regulat 78.1 50 0.0011 33.8 12.9 98 272-372 239-353 (393)
12 KOG4414 COP9 signalosome, subu 75.4 24 0.00052 31.9 8.9 97 270-369 63-161 (197)
13 smart00088 PINT motif in prote 74.1 8.1 0.00017 30.6 5.3 42 317-361 4-45 (88)
14 smart00753 PAM PCI/PINT associ 74.1 8.1 0.00017 30.6 5.3 42 317-361 4-45 (88)
15 KOG2581 26S proteasome regulat 68.0 33 0.00071 36.0 9.1 118 271-393 302-434 (493)
16 KOG2753 Uncharacterized conser 53.0 1.2E+02 0.0027 31.0 10.0 130 216-360 182-314 (378)
17 COG5187 RPN7 26S proteasome re 45.1 55 0.0012 33.1 6.1 119 271-399 249-388 (412)
18 smart00874 B5 tRNA synthetase 39.5 44 0.00095 25.4 3.7 33 340-372 5-39 (71)
19 PF08784 RPA_C: Replication pr 38.4 56 0.0012 26.8 4.4 51 320-370 45-98 (102)
20 PF05789 Baculo_VP1054: Baculo 38.2 9.7 0.00021 38.5 -0.3 13 76-88 254-266 (325)
21 PF09759 Atx10homo_assoc: Spin 33.5 63 0.0014 27.3 3.9 69 309-379 32-100 (102)
22 PF03683 UPF0175: Uncharacteri 32.5 80 0.0017 24.9 4.2 34 335-368 29-62 (76)
23 PF13986 DUF4224: Domain of un 30.8 1E+02 0.0022 22.2 4.2 39 341-379 3-42 (47)
24 PF02042 RWP-RK: RWP-RK domain 27.4 79 0.0017 23.5 3.1 28 340-367 15-42 (52)
25 KOG0775 Transcription factor S 26.8 2E+02 0.0044 28.6 6.6 105 262-369 79-218 (304)
26 PRK13239 alkylmercury lyase; P 26.8 1.6E+02 0.0035 28.0 5.8 51 322-377 22-72 (206)
27 PF03484 B5: tRNA synthetase B 26.5 75 0.0016 24.4 3.0 32 340-371 5-38 (70)
28 PF04800 ETC_C1_NDUFA4: ETC co 26.1 35 0.00077 28.8 1.2 23 349-371 52-75 (101)
29 smart00324 RhoGAP GTPase-activ 24.2 3.9E+02 0.0084 23.6 7.8 82 261-351 59-143 (174)
30 PF07643 DUF1598: Protein of u 24.0 2.1E+02 0.0046 23.3 5.2 64 130-202 6-71 (84)
31 PF09494 Slx4: Slx4 endonuclea 22.3 1E+02 0.0022 23.4 3.0 31 339-369 23-62 (64)
32 cd00159 RhoGAP RhoGAP: GTPase- 22.3 4.7E+02 0.01 22.5 7.9 81 261-351 55-139 (169)
33 PF10978 DUF2785: Protein of u 21.4 4.8E+02 0.01 23.8 7.8 85 214-304 88-172 (175)
No 1
>KOG1860 consensus Nuclear protein export factor [Intracellular trafficking, secretion, and vesicular transport; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2e-72 Score=599.56 Aligned_cols=326 Identities=36% Similarity=0.603 Sum_probs=286.5
Q ss_pred ccCCCCCCCCCCc-hHHHHHhhHHhHHhh----------------hcCCccccCCCCCcHHHHHHHHHhccccccccccC
Q 015311 38 SFPKSSSSSSSSS-ANDVRDRRRETQEEK----------------QEEAIVGTCPFMCPEAERLQRQRLRDLAVFERLHG 100 (409)
Q Consensus 38 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~k----------------~~~~~vGtC~~MCPe~Er~~R~~~~~l~~fE~~~g 100 (409)
|..++++.+.++- ++-+.-.++.++.++ +...+||||+|||||+||++|+++++||+||+.+
T Consensus 56 r~~~p~~~~~~~~~~~~l~~~r~~~~~~~~~~~~kd~~~~~~~~~~~~~~vGtC~dMCPE~Er~eRe~~~~l~~yE~~p- 134 (927)
T KOG1860|consen 56 RVARPSSLLERNAMLEPLKGKRTFEQFEMERDALKDLLPKRENLEPAELFVGTCPDMCPEKERYEREREKDLHPYEVVP- 134 (927)
T ss_pred cccCcccccchhhhhhhhhcccCChHHHHHHhhcccccccccccchhhhhcccchhhCchHHHHHHHHhcCCCeeeecC-
Confidence 8888999988886 555443333333322 2359999999999999999999999999999987
Q ss_pred CCCCCCccchhhcccccccCCC-CCCCCCCCHHHHHHHHHHHHH-HHcCCCCCchhhhHHhhhhhhhhhhhhhhhhccCc
Q 015311 101 DPRNSSPALAVKKFCRTMSAKE-VRASDVRPLPVLEETLNYLLS-LLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVND 178 (409)
Q Consensus 101 ~~~~~~~~~aVK~Y~RsaAg~~-~~P~dVRP~~VL~kT~~yLl~-~~~~~~~~~~~~y~Fi~DRlRsIRQDltvQ~i~~~ 178 (409)
++++++|.+|||+|+|||||++ |.|+|||||+||.+||+||++ ++...+.++..+|+||||||||||||||+||+.+.
T Consensus 135 ~~~~~~~~~aVK~ysRPAAgke~pLPsdvRP~~VL~~T~dYLl~~v~~~~~~sl~~~y~FvwDRtRAVR~D~t~Q~~~d~ 214 (927)
T KOG1860|consen 135 DSKQASPSLAVKEYSRPAAGKERPLPSDVRPPPVLVKTVDYLLGKVLCDKDISLREMYDFVWDRTRAVRQDFTIQNYSDQ 214 (927)
T ss_pred CCcccCHHHHHHHhcCcccCCCCCCccccCCHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHHHHHhccCCh
Confidence 6788999999999999999987 589999999999999999996 55666678999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHhhhhhccCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCC
Q 015311 179 KAINMFEKIVKFHVISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNG 258 (409)
Q Consensus 179 ~~i~vlE~i~RF~I~s~~~L~~~~~d~~f~~~~~~n~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~ 258 (409)
.||.|+|+|+||||++.|+||+++ +.|+ .++|+|||++|+.+|.++|+|++++|+.|+||+||+||++|++|++++
T Consensus 215 ~Av~llE~i~RfhI~~~h~Lce~~--~~Fd--a~~nlEQL~K~l~sL~elYdD~r~~g~~cpnE~EFR~Y~vLl~Lgd~~ 290 (927)
T KOG1860|consen 215 EAVELLERIARFHILFRHRLCEEP--EQFD--AQQNLEQLQKCLQSLGELYDDLRKGGIPCPNEPEFRGYYVLLSLGDPQ 290 (927)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCc--ccCC--hhHHHHHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhcCCch
Confidence 999999999999999999999987 3574 789999999999999999999999999999999999999999999986
Q ss_pred CchhhhHHHHHhhCCchhhcCHhHHHHHHHHHHHHhCcHHHHHH------------------HHHh-ccchHHHHHHHHh
Q 015311 259 QPVGESLSLWFRHVPSPIIKSKEMWFARQALRYFQMGNYRRFLS------------------TVAA-EASYLQYCIIEPY 319 (409)
Q Consensus 259 ~~l~~~L~~~l~~l~~~i~~s~~v~~Al~l~~a~~~gNy~rFFr------------------Ll~~-~~~~L~~cll~~~ 319 (409)
. ..-++.+|+++++++.|++|+.++.|++.|||.+||+ +..+ ..+||+.|+++.|
T Consensus 291 ~------~~~iq~~~~evr~~~~Vk~al~~~~a~~~nn~~~~~r~~~~~t~a~~~l~~~~~~l~q~p~~~~L~~~v~~~~ 364 (927)
T KOG1860|consen 291 V------VRDIQAWPDEVRQDSEVKLALCLRRAFQSNNFRRFFRLSSLRTEALQNLYTRFFKLMQSPALPYLMGCVLELF 364 (927)
T ss_pred H------HHHHHhcCcccccchhHHHHHHHHHHhccCCeeeeeeccchhHHHHHHHHHHHHHHhcCcchHHHHHHHHHHH
Confidence 2 1234567999999999999999999999999988864 4433 5678999999999
Q ss_pred HHHHHHHHHHHHHhhcc--CCCCcCHHHHHHHHcCCc-hhHHHHHHHhCCeecccCCCc
Q 015311 320 IDEVRSLALCCIHNCCY--KLHPYPLGHLSKVLMMEE-SDVELFCNAYGLQTCIDEVGN 375 (409)
Q Consensus 320 ~~~vR~~AL~~i~~a~y--k~~~~Pl~~L~~~L~fd~-~e~~~fc~~~GL~~~~d~~g~ 375 (409)
|+.+|..|+++|.++ | +..++|+.+|..+|+|+. ++...+|+.|||.++.|..+.
T Consensus 365 f~~ir~~al~~~~~~-~~~~~~~vp~~~l~~~l~f~~~e~~~~~~~~y~Leis~~~~~~ 422 (927)
T KOG1860|consen 365 FPDIRWAALRAMSHA-YNSKHVPVPLGKLDRILLFDGEEELKVVCNYYGLEISVDDKIV 422 (927)
T ss_pred HHHHHHHHHHHHHHH-HhccCCCcchhHHHHHHhcCChhhhHhhhhheeeEeecccccc
Confidence 999999999999995 6 446899999999999997 469999999999998765443
No 2
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=100.00 E-value=2.4e-71 Score=558.39 Aligned_cols=328 Identities=32% Similarity=0.449 Sum_probs=291.2
Q ss_pred CccccCCCCCCCCCCchHHHHHhhHHhHH---hhh-----cC-CccccCCCCCcHHHHHHHHHhccccccccccCCCCCC
Q 015311 35 NRFSFPKSSSSSSSSSANDVRDRRRETQE---EKQ-----EE-AIVGTCPFMCPEAERLQRQRLRDLAVFERLHGDPRNS 105 (409)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~k~-----~~-~~vGtC~~MCPe~Er~~R~~~~~l~~fE~~~g~~~~~ 105 (409)
-.+|..+|++++.+|.+|.+...++++++ +|+ +. .+||||+|||||+|+.+|..+++|++||.. +..+++
T Consensus 29 r~~m~~l~ss~~d~n~fe~LkklR~kere~~eak~a~~l~~a~vfvGtC~dmCPefEreeR~lqn~v~pyE~n-P~~k~a 107 (646)
T COG5079 29 RVFMVLLFSSTLDTNPFELLKKLRAKERELLEAKSANALPSAIVFVGTCMDMCPEFEREERVLQNDVSPYEAN-PNVKKA 107 (646)
T ss_pred HHHHHHHHHhhcccCHHHHHHHHHHHHHHHHHhhcccccchhheeecchhhhCchHHHHHHHHhcCCchhhcC-cccccc
Confidence 34689999999999999999988888777 332 22 899999999999999999999999999986 456889
Q ss_pred CccchhhcccccccCCCC-CCCCCCCHHHHHHHHHHHHHHHcCCCCCchhhhHHhhhhhhhhhhhhhhhhccCchhHHHH
Q 015311 106 SPALAVKKFCRTMSAKEV-RASDVRPLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINMF 184 (409)
Q Consensus 106 ~~~~aVK~Y~RsaAg~~~-~P~dVRP~~VL~kT~~yLl~~~~~~~~~~~~~y~Fi~DRlRsIRQDltvQ~i~~~~~i~vl 184 (409)
++++|||.|.|+|||+.| .|+|||||+||++|+|||+..+.. .++...|.|+|||+||||||||+||..+..||+|+
T Consensus 108 ~~~lAvKay~RPAAgk~p~LPsDVRPp~VLvktidylv~~c~~--d~l~e~~~Fv~drtRavrqDftiQN~~g~dAV~c~ 185 (646)
T COG5079 108 SRTLAVKAYHRPAAGKHPELPSDVRPPEVLVKTIDYLVKLCAG--DQLIEMHRFVRDRTRAVRQDFTIQNEKGKDAVECH 185 (646)
T ss_pred chhhHHHHhcCccccCCCCCcccCCChHHHHHHHHHHHHHhcC--cchHHHHHHHHhhhHHHHhhceeecccCchHHHHH
Confidence 999999999999999875 799999999999999999955544 36778999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhhccCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhh
Q 015311 185 EKIVKFHVISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGES 264 (409)
Q Consensus 185 E~i~RF~I~s~~~L~~~~~d~~f~~~~~~n~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~~~l~~~ 264 (409)
|+||||||++.|.|++.+ +|+ .+||+|||.+.|.+|.++|++++..+..||||+||+||.||.+|+|+.. +
T Consensus 186 EriaRfhIl~lh~L~~~p---~Fs--~qqeleQL~ksL~sL~elYdd~r~~~~~cpneaEFraYaiL~slgDp~y--v-- 256 (646)
T COG5079 186 ERIARFHILFLHLLHDHP---HFS--KQQELEQLKKSLASLIELYDDGRAGKKECPNEAEFRAYAILASLGDPRY--V-- 256 (646)
T ss_pred HHHHHHHHHHHHHHhcCc---ccc--HHhHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhCCchh--h--
Confidence 999999999999999874 687 5799999999999999999999999999999999999999999999762 1
Q ss_pred HHHHHhhCCchhhcCHhHHHHHHHHHHHHhCc---------------HHHHHHHHHh-ccchHHHHHHHHhHHHHHHHHH
Q 015311 265 LSLWFRHVPSPIIKSKEMWFARQALRYFQMGN---------------YRRFLSTVAA-EASYLQYCIIEPYIDEVRSLAL 328 (409)
Q Consensus 265 L~~~l~~l~~~i~~s~~v~~Al~l~~a~~~gN---------------y~rFFrLl~~-~~~~L~~cll~~~~~~vR~~AL 328 (409)
.-++.+|..++..+.|+.|+.+..-.+.|| |.|||+++.+ .++||++|+++.|+..+|..||
T Consensus 257 --~~iq~wp~~if~d~~vq~alkl~~laq~nn~r~~~~rnteac~nlytrFfkl~qSpsv~~lmg~lle~h~~sir~~aL 334 (646)
T COG5079 257 --AGIQGWPGGIFCDLPVQIALKLMQLAQSNNFRLLGRRNTEACFNLYTRFFKLIQSPSVQYLMGCLLEKHNISIRGGAL 334 (646)
T ss_pred --hccccCCccccccchHHHHHHHHHHhhccCeeeccccchhhhhHHHHHHHHHHhCccHHHHHHHHHHHhhHHHHHHHH
Confidence 224457999999999999999988776665 7899999975 7999999999999999999999
Q ss_pred HHHHhhcc--CCCCcCHHHHHHHHcCCch-hHHHHHHHhCCeecccCCCccc
Q 015311 329 CCIHNCCY--KLHPYPLGHLSKVLMMEES-DVELFCNAYGLQTCIDEVGNKL 377 (409)
Q Consensus 329 ~~i~~a~y--k~~~~Pl~~L~~~L~fd~~-e~~~fc~~~GL~~~~d~~g~~~ 377 (409)
++|.++ + ...++|..+|..+|.|++. +.++||+.||+++..+..|+.-
T Consensus 335 kAm~k~-~~sahk~ipf~~l~~il~f~~~~e~~efckyy~lei~~ed~~~l~ 385 (646)
T COG5079 335 KAMEKE-IESAHKNIPFVDLSGILDFEEKGEGEEFCKYYGLEIRIEDSVKLP 385 (646)
T ss_pred HHHHHH-HHHhhcCCCeehhhhhccccccchhHHHhhhcceeeecccccccc
Confidence 999985 4 2237999999999999985 6999999999999866667653
No 3
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=100.00 E-value=4.9e-51 Score=409.17 Aligned_cols=232 Identities=22% Similarity=0.360 Sum_probs=206.6
Q ss_pred hcccccccCCCCCCCCCCCHHHHHHHHHHHHHHHcCCCCCchhhhHHhhhhhhhhhhhhhhhhccCchhHHHHHHHHHHH
Q 015311 112 KKFCRTMSAKEVRASDVRPLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINMFEKIVKFH 191 (409)
Q Consensus 112 K~Y~RsaAg~~~~P~dVRP~~VL~kT~~yLl~~~~~~~~~~~~~y~Fi~DRlRsIRQDltvQ~i~~~~~i~vlE~i~RF~ 191 (409)
|.|.|+|+ .|+|+.|||++||++++.-|..+|... ..|.|++|||||||||||||+|.++|+|+|||+
T Consensus 286 KsyLRLTs--APdPstVRP~~VL~ksL~~vkdk~k~~-----~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEt----- 353 (540)
T KOG1861|consen 286 KSYLRLTS--APDPSTVRPLEVLKKSLCLVKDKWKAK-----ANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYET----- 353 (540)
T ss_pred HhHhhhcc--CCCccccCCHHHHHHHHHHHHHHHHhh-----ccHHHHHHHHHHHhhhhhhheeccceeeeeehh-----
Confidence 99999998 689999999999999999999999874 689999999999999999999999999999999
Q ss_pred HHHhhhhhccCCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhhHHHHHhh
Q 015311 192 VISHHKLRSSCSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGESLSLWFRH 271 (409)
Q Consensus 192 I~s~~~L~~~~~d~~f~~~~~~n~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~~~l~~~L~~~l~~ 271 (409)
|+||+.|.+| +|+||||+++|+.||... + ..+-.||.||.|||.+...+. .+++ ..++.
T Consensus 354 ---HARIALEkGD----------~~EfNQCQtQLk~LY~eg----i-pg~~~EF~AYriLY~i~tkN~--~di~-sll~~ 412 (540)
T KOG1861|consen 354 ---HARIALEKGD----------LEEFNQCQTQLKALYSEG----I-PGAYLEFTAYRILYYIFTKNY--PDIL-SLLRD 412 (540)
T ss_pred ---hhHHHHhcCC----------HHHHHHHHHHHHHHHccC----C-CCchhhHHHHHHHHHHHhcCc--hHHH-HHHHh
Confidence 7788889887 899999999999999554 2 334899999999999876553 1333 34778
Q ss_pred CCchhhcCHhHHHHHHHHHHHHhCcHHHHHHHHHhccchHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHc
Q 015311 272 VPSPIIKSKEMWFARQALRYFQMGNYRRFLSTVAAEASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLM 351 (409)
Q Consensus 272 l~~~i~~s~~v~~Al~l~~a~~~gNy~rFFrLl~~~~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~ 351 (409)
|.++++.++.|.+||+|..|+..|||++||+|+ ..+|.|..|||+.|+.+.|..||.+|++ +|++ .||+++|++.|.
T Consensus 413 lt~E~ked~~V~hAL~vR~A~~~GNY~kFFrLY-~~AP~M~~yLmdlF~erER~~Al~ii~K-syrP-~i~~~fi~~~la 489 (540)
T KOG1861|consen 413 LTEEDKEDEAVAHALEVRSAVTLGNYHKFFRLY-LTAPNMSGYLMDLFLERERKKALTIICK-SYRP-TITVDFIASELA 489 (540)
T ss_pred ccHhhccCHHHHHHHHHHHHHHhccHHHHHHHH-hhcccchhHHHHHHHHHHHHHHHHHHHH-HcCC-CccHHHHhhhhh
Confidence 999999999999999999999999999999998 4899999999999999999999999999 6986 799999999999
Q ss_pred CCc-hhHHHHHHHhCCeecccCCCccccccC
Q 015311 352 MEE-SDVELFCNAYGLQTCIDEVGNKLLPTK 381 (409)
Q Consensus 352 fd~-~e~~~fc~~~GL~~~~d~~g~~~l~~k 381 (409)
|++ ++|..|++.+|++- +..|..+++.+
T Consensus 490 f~~~e~c~~~l~~~~~~~--~~~g~~~~~~~ 518 (540)
T KOG1861|consen 490 FDSMEDCVNFLNEQNLTY--DSLGPQILDKN 518 (540)
T ss_pred hchHHHHHHHHhccCccc--cccCCcccccc
Confidence 998 56999999999754 55676666533
No 4
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=100.00 E-value=8.6e-47 Score=351.23 Aligned_cols=201 Identities=39% Similarity=0.615 Sum_probs=160.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHcCCCCCchhhhHHhhhhhhhhhhhhhhhhccCchhHHHHHHHHHHHHHHhhhhhcc
Q 015311 122 EVRASDVRPLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSVRQDLIMQNIVNDKAINMFEKIVKFHVISHHKLRSS 201 (409)
Q Consensus 122 ~~~P~dVRP~~VL~kT~~yLl~~~~~~~~~~~~~y~Fi~DRlRsIRQDltvQ~i~~~~~i~vlE~i~RF~I~s~~~L~~~ 201 (409)
+|+|++|||++||++|++||++++ ++..+|+|||||+||||||+++||+.++++|.|||.+|||||.+
T Consensus 2 ~p~p~~vRp~~vL~~t~~~l~~~~-----~~~~~y~fi~drlRsiRqDl~vQ~~~~~~~i~v~E~~ar~~i~~------- 69 (204)
T PF03399_consen 2 EPNPSDVRPPEVLKKTLNYLLRKI-----PFKDDYNFIWDRLRSIRQDLTVQNIENDFAIKVYERIARFAIES------- 69 (204)
T ss_dssp ---------HHHHHHHHHHHHHHT-----CCCCHHHHHHHHHHHHHHHHHHTT--SHHHHHHHHHHHHHHHHH-------
T ss_pred CCChHhCCCHHHHHHHHHHHHHHh-----hhhhhhHHHHHHhHHHHhhHHHHhcCCHHHHHHHHHHHHHHhhc-------
Confidence 578999999999999999999988 34579999999999999999999999999999999999999988
Q ss_pred CCCCCCChhhhhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCC-CCchhhhHHHHHhhCCchhhcCH
Q 015311 202 CSSSSISPLHYLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSN-GQPVGESLSLWFRHVPSPIIKSK 280 (409)
Q Consensus 202 ~~d~~f~~~~~~n~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~-~~~l~~~L~~~l~~l~~~i~~s~ 280 (409)
.|++||++|+++|+++|++.+. +..++|++||.||+||+++.+. .+.+ ...+..+|++++.+|
T Consensus 70 -----------~d~~qf~~c~~~L~~lY~~~~~-~~~~~~~~ef~~y~lL~~l~~~~~~~~----~~~l~~l~~~~~~~~ 133 (204)
T PF03399_consen 70 -----------GDLEQFNQCLSQLKELYDDLRD-LPPSPNEAEFIAYYLLYLLCQNNIPDF----HMELELLPSEILSSP 133 (204)
T ss_dssp -----------HHHHHHHHHHHHHHHHHHHHHH-T---TTHHHHHHHHHHHTT-T---THH----HHHHTTS-HHHHTSH
T ss_pred -----------CCHHHHHHHHHHHHHHHHhhcc-CCCCCCHHHHHHHHHHHHHHcccchHH----HHHHHHCchhhhcCH
Confidence 1388999999999999999743 5578999999999999999543 2222 234566788999999
Q ss_pred hHHHHHHHHHHHHhCcHHHHHHHH-HhccchHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcC
Q 015311 281 EMWFARQALRYFQMGNYRRFLSTV-AAEASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMM 352 (409)
Q Consensus 281 ~v~~Al~l~~a~~~gNy~rFFrLl-~~~~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~f 352 (409)
.|++|++|..|+..|||++||+++ .+.+|++.+|+++.|++.||..||++|++ +|+. ++|++.|++||+|
T Consensus 134 ~i~~al~l~~a~~~gny~~ff~l~~~~~~~~l~~~l~~~~~~~iR~~al~~i~~-ay~~-~i~l~~l~~~L~F 204 (204)
T PF03399_consen 134 YIQFALELCRALMEGNYVRFFRLYRSKSAPYLFACLMERFFNRIRLRALQSISK-AYRS-SIPLSFLAELLGF 204 (204)
T ss_dssp HHHHHHHHHHHH--TTHHHHHHHHT-TTS-HHHHHHHGGGHHHHHHHHHHHHHH-HS-T--EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHHH-HcCC-CCCHHHHHHHcCC
Confidence 999999999999999999999988 24899999999999999999999999999 5864 6999999999998
No 5
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=98.50 E-value=9.7e-07 Score=78.25 Aligned_cols=128 Identities=19% Similarity=0.273 Sum_probs=89.1
Q ss_pred HHHHHHHHHHHhhcCCCCchhhhHHHHHhhCCchhhcC-HhHHHHHHHHHHHHhCcHHHHHHHHHh-ccchHHHHHHHHh
Q 015311 242 EAEFRSFYVLLHLDSNGQPVGESLSLWFRHVPSPIIKS-KEMWFARQALRYFQMGNYRRFLSTVAA-EASYLQYCIIEPY 319 (409)
Q Consensus 242 e~EF~aY~iL~~l~~~~~~l~~~L~~~l~~l~~~i~~s-~~v~~Al~l~~a~~~gNy~rFFrLl~~-~~~~L~~cll~~~ 319 (409)
.+++.+-.++..|-... +.+ ....+..+|.++..+ |.|+....|..++..++|..|+..++. .-+--..-++..+
T Consensus 3 ~~~~~~~~Ll~~L~~~~--~~d-f~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 79 (143)
T PF10075_consen 3 NPEIYALILLKYLMQND--LSD-FRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSNPWSPDYKPFVPGF 79 (143)
T ss_dssp -HHHHHHHHHHHHHTTT--STH-HHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT----HHHHTSTTH
T ss_pred chhHHHHHHHHHHHcCC--chH-HHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhccchHHHHHHHHHH
Confidence 46777766666665443 222 222345789999995 999999999999999999999997753 1223445567788
Q ss_pred HHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHHHHHhCCeecccCCCccc
Q 015311 320 IDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNKL 377 (409)
Q Consensus 320 ~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~fc~~~GL~~~~d~~g~~~ 377 (409)
...||..++..+.+ +|. .++++.++++||+++.|+.++|+..|=++. ++|..+
T Consensus 80 ~~~iR~~i~~~i~~-aY~--sIs~~~la~~Lg~~~~el~~~~~~~gW~~d--~~~~~~ 132 (143)
T PF10075_consen 80 EDTIRERIAHLISK-AYS--SISLSDLAEMLGLSEEELEKFIKSRGWTVD--GDGVLF 132 (143)
T ss_dssp HHHHHHHHHHHHHH-H-S--EE-HHHHHHHTTS-HHHHHHHHHHHT-EE-------EE
T ss_pred HHHHHHHHHHHHHH-HHh--HcCHHHHHHHhCCCHHHHHHHHHHcCCEEC--CCccEE
Confidence 99999999999998 585 699999999999997789999999999883 445443
No 6
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=0.0034 Score=59.95 Aligned_cols=147 Identities=15% Similarity=0.244 Sum_probs=114.9
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhhHHHHHhhCCchhhcC-HhHHHHHHHHHHHH
Q 015311 215 LEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGESLSLWFRHVPSPIIKS-KEMWFARQALRYFQ 293 (409)
Q Consensus 215 ~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~~~l~~~L~~~l~~l~~~i~~s-~~v~~Al~l~~a~~ 293 (409)
.+-|..-+.+|+..|-|....=..+++.--+.+.++|+.|..+.. .+ +-..+..||..++.+ |.|++++++=..++
T Consensus 72 ~~sFerY~~Qlk~YY~d~~~~l~~S~~~~~l~GLnLL~LLsqNRi--ae-FHteLe~lp~~~l~~~~~I~~~v~LEq~~M 148 (260)
T KOG3151|consen 72 FESFERYMNQLKPYYFDYNEKLSESEKKHKLLGLNLLYLLSQNRI--AE-FHTELELLPKKILQHNPYISHPVSLEQSLM 148 (260)
T ss_pred HHHHHHHHHHhcchhcccccccCcchhhhHHHHHHHHHHHHhccH--HH-HHHHHHhccHHHhhccchhhhHHHHHHHHH
Confidence 567888889999999887654335677888999999998877652 11 223466789888776 99999999999999
Q ss_pred hCcHHHHHHHHHhccch-HHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCc-hhHHHHHHHhCCee
Q 015311 294 MGNYRRFLSTVAAEASY-LQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEE-SDVELFCNAYGLQT 368 (409)
Q Consensus 294 ~gNy~rFFrLl~~~~~~-L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~-~e~~~fc~~~GL~~ 368 (409)
.|-|-+.|...+ .+|. --...|+.....||...-.++-+ +|. .+|++..+.+|.|+. .+...|...-+-.+
T Consensus 149 EGaYnKv~~a~~-s~p~~~y~~FmdIl~~tiRdEIA~c~EK-sYd--~l~~s~a~~~L~f~~~~e~~~~~~~r~W~l 221 (260)
T KOG3151|consen 149 EGAYNKVLSAKQ-SIPSEEYTYFMDILLDTIRDEIAGCIEK-SYD--KLSASDATQMLLFNNDKELKKFATERQWPL 221 (260)
T ss_pred hhHHHHHHHHHh-cCCcHHHHHHHHHHHHHHHHHHHHHHHH-HHh--hcCHHHHHHHHhcCChHHHHHHHHhcCCcc
Confidence 999999998654 4553 34567788888899888888888 575 489999999999995 46888888777554
No 7
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=95.08 E-value=0.18 Score=41.08 Aligned_cols=72 Identities=21% Similarity=0.372 Sum_probs=53.8
Q ss_pred HHHHHHHhCcHHHHHHHHHhc------cchHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHH
Q 015311 287 QALRYFQMGNYRRFLSTVAAE------ASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELF 360 (409)
Q Consensus 287 ~l~~a~~~gNy~rFFrLl~~~------~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~f 360 (409)
++..|+..||+..|...+... .+++. -.+......+|..+|..+.+ .|+ .++++.+++.|+++..+++.+
T Consensus 5 ~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~-~~~~~l~~~i~~~~l~~l~~-~y~--~i~~~~ia~~l~~~~~~vE~~ 80 (105)
T PF01399_consen 5 ELLRAFRSGDLQEFEEFLEKHSESLFKDPFLA-EYVEQLKEKIRRRNLRQLSK-PYS--SISISEIAKALQLSEEEVESI 80 (105)
T ss_dssp HHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHH-HHHHHHHHHHHHHHHHHHHH-C-S--EEEHHHHHHHHTCCHHHHHHH
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHHHcCccHH-HHHHHHHHHHHHHHHHHHHH-Hhc--ccchHHHHHHhccchHHHHHH
Confidence 577899999999999988543 12223 36667788899999999987 575 699999999999998765554
Q ss_pred HH
Q 015311 361 CN 362 (409)
Q Consensus 361 c~ 362 (409)
+.
T Consensus 81 l~ 82 (105)
T PF01399_consen 81 LI 82 (105)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 8
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=90.45 E-value=9.1 Score=38.18 Aligned_cols=142 Identities=18% Similarity=0.249 Sum_probs=100.2
Q ss_pred hhcHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCC--chhhhHHHHHhhCCchhhcCHhHHHHHHHH
Q 015311 212 YLNLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQ--PVGESLSLWFRHVPSPIIKSKEMWFARQAL 289 (409)
Q Consensus 212 ~~n~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~~--~l~~~L~~~l~~l~~~i~~s~~v~~Al~l~ 289 (409)
|+--++|.+.-+...+.++....+| +|.+.-..-|-+|.++.-... .+. .+-..+..++|+|.---.+.
T Consensus 241 Hlreg~fe~AhTDFFEAFKNYDEsG--spRRttCLKYLVLANMLmkS~iNPFD-------sQEAKPyKNdPEIlAMTnlv 311 (440)
T KOG1464|consen 241 HLREGEFEKAHTDFFEAFKNYDESG--SPRRTTCLKYLVLANMLMKSGINPFD-------SQEAKPYKNDPEILAMTNLV 311 (440)
T ss_pred ccccchHHHHHhHHHHHHhcccccC--CcchhHHHHHHHHHHHHHHcCCCCCc-------ccccCCCCCCHHHHHHHHHH
Confidence 4556788888888888776655444 577888888888877532110 110 01123556789988777899
Q ss_pred HHHHhCcHHHHHHHHHhc------cchHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHHHHH
Q 015311 290 RYFQMGNYRRFLSTVAAE------ASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNA 363 (409)
Q Consensus 290 ~a~~~gNy~rFFrLl~~~------~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~fc~~ 363 (409)
.|++.++...|=+++++. .||+- --++-.+..||.+.|--+.+ -|. .+-+.+|++-|..+..|..+++-.
T Consensus 312 ~aYQ~NdI~eFE~Il~~~~~~IM~DpFIR-eh~EdLl~niRTQVLlkLIk-PYt--~i~Ipfis~~Lnv~~~dV~~LLV~ 387 (440)
T KOG1464|consen 312 AAYQNNDIIEFERILKSNRSNIMDDPFIR-EHIEDLLRNIRTQVLLKLIK-PYT--NIGIPFISKELNVPEADVESLLVS 387 (440)
T ss_pred HHHhcccHHHHHHHHHhhhccccccHHHH-HHHHHHHHHHHHHHHHHHhc-ccc--ccCchhhHhhcCCCHHHHHHHHHH
Confidence 999999999999888642 34433 34555678899999988887 575 477788999999998887777666
Q ss_pred hCC
Q 015311 364 YGL 366 (409)
Q Consensus 364 ~GL 366 (409)
+=|
T Consensus 388 ~IL 390 (440)
T KOG1464|consen 388 CIL 390 (440)
T ss_pred HHh
Confidence 644
No 9
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.03 E-value=3.8 Score=38.24 Aligned_cols=101 Identities=18% Similarity=0.236 Sum_probs=74.4
Q ss_pred CCchhhcCHhHHHHHHHHHHHHhCcHHHHHHHHHhccchHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHc
Q 015311 272 VPSPIIKSKEMWFARQALRYFQMGNYRRFLSTVAAEASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLM 351 (409)
Q Consensus 272 l~~~i~~s~~v~~Al~l~~a~~~gNy~rFFrLl~~~~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~ 351 (409)
+++....+.+++.-+.+-..+.++||..|+.... .-+.|.. -+--|=..||..|=..+.- .| +.+|-..|+++||
T Consensus 88 i~~~~~~ee~~r~ii~L~~~LEt~~Fq~FW~~~~-~N~~mle-~itGFedsvr~yachvv~i-Ty--QkI~k~lLaellG 162 (217)
T KOG3252|consen 88 IDERVQMEEPFRSIIDLGDYLETCRFQQFWQEAD-ENRDMLE-GITGFEDSVRKYACHVVGI-TY--QKIDKWLLAELLG 162 (217)
T ss_pred cCHHHhcccchhHHHhHHHHHhhchHHHHhhhhc-cchHHhc-CCCcHHHHHHHHHHHheec-hH--hhchHHHHHHhhC
Confidence 5677778888999999999999999999997653 2222221 1333556777777776655 45 3589999999999
Q ss_pred CC-chhHHHHHHHhCCeecccCCCccccc
Q 015311 352 ME-ESDVELFCNAYGLQTCIDEVGNKLLP 379 (409)
Q Consensus 352 fd-~~e~~~fc~~~GL~~~~d~~g~~~l~ 379 (409)
-- |.+++.+...+|-.. +++|..++.
T Consensus 163 ~~sDs~le~~~~~~GW~a--~e~G~ifv~ 189 (217)
T KOG3252|consen 163 GLSDSQLEVWMTKYGWIA--DESGQIFVA 189 (217)
T ss_pred cccHHHHHHHHHHcccee--cCCceEEEe
Confidence 54 567999999999875 677877664
No 10
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=85.78 E-value=45 Score=34.18 Aligned_cols=86 Identities=20% Similarity=0.222 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHhCcHHHHHHHHHh--ccchHHHHHHHHhHHHHHHHHHHHHHhhc-cCCCCcCHHHHHHHHcCCchhHH
Q 015311 282 MWFARQALRYFQMGNYRRFLSTVAA--EASYLQYCIIEPYIDEVRSLALCCIHNCC-YKLHPYPLGHLSKVLMMEESDVE 358 (409)
Q Consensus 282 v~~Al~l~~a~~~gNy~rFFrLl~~--~~~~L~~cll~~~~~~vR~~AL~~i~~a~-yk~~~~Pl~~L~~~L~fd~~e~~ 358 (409)
.++-..+..|+..||..+|+++... ..|-|.+.- .....++|..||.-|+-.- -....+|++.|++....+..|++
T Consensus 234 ~eWL~dll~Afn~Gdl~~f~~l~~~~~~~p~L~~~e-~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~eVE 312 (380)
T KOG2908|consen 234 REWLKDLLIAFNSGDLKRFESLKGVWGKQPDLASNE-DFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKEVE 312 (380)
T ss_pred HHHHHHHHHHhccCCHHHHHHHHHHhccCchHHHHH-HHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHHHH
Confidence 4667788999999999999998753 455665433 3345788888988886421 12247999999999999876654
Q ss_pred H-HHHHhCCee
Q 015311 359 L-FCNAYGLQT 368 (409)
Q Consensus 359 ~-fc~~~GL~~ 368 (409)
- .+++.++-.
T Consensus 313 ~LVMKAlslgL 323 (380)
T KOG2908|consen 313 LLVMKALSLGL 323 (380)
T ss_pred HHHHHHHhccc
Confidence 3 356666643
No 11
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=78.06 E-value=50 Score=33.80 Aligned_cols=98 Identities=20% Similarity=0.257 Sum_probs=65.6
Q ss_pred CCchhhcCHhHHHHH-------HHHHHHHhCcHHHHHHHHHh------ccchHHHHHHHHhHHHHHHHHHHHHHhhccCC
Q 015311 272 VPSPIIKSKEMWFAR-------QALRYFQMGNYRRFLSTVAA------EASYLQYCIIEPYIDEVRSLALCCIHNCCYKL 338 (409)
Q Consensus 272 l~~~i~~s~~v~~Al-------~l~~a~~~gNy~rFFrLl~~------~~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~ 338 (409)
|...|.++|+|+-.+ ++...+...||..||.-+.. +...+..--...|...||.++-..+-- +||
T Consensus 239 lktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLE-SYr- 316 (393)
T KOG0687|consen 239 LKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLE-SYR- 316 (393)
T ss_pred HHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHH-HHH-
Confidence 344566777765433 34556778999999997742 122222334556788999999988877 687
Q ss_pred CCcCHHHHHHHHcCCc----hhHHHHHHHhCCeecccC
Q 015311 339 HPYPLGHLSKVLMMEE----SDVELFCNAYGLQTCIDE 372 (409)
Q Consensus 339 ~~~Pl~~L~~~L~fd~----~e~~~fc~~~GL~~~~d~ 372 (409)
.+.++.+++-+|.+- -|+-.|.-.-.|-...|.
T Consensus 317 -sl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDr 353 (393)
T KOG0687|consen 317 -SLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDR 353 (393)
T ss_pred -HHHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeec
Confidence 488999999999873 357778766555444343
No 12
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=75.41 E-value=24 Score=31.94 Aligned_cols=97 Identities=16% Similarity=0.155 Sum_probs=75.7
Q ss_pred hhCCchhhc-CHhHHHHHHHHHHHHhCcHHHHHHHHHh-ccchHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHH
Q 015311 270 RHVPSPIIK-SKEMWFARQALRYFQMGNYRRFLSTVAA-EASYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLS 347 (409)
Q Consensus 270 ~~l~~~i~~-s~~v~~Al~l~~a~~~gNy~rFFrLl~~-~~~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~ 347 (409)
.++|+.|.. .|++--|..|-.-+...+|...+..+.. .-+--..-+|.-|-..-|.+++..+.. +|. ++-..+++
T Consensus 63 KRIP~AIKe~k~El~aaWgiGQkiWq~Df~GiYeaI~~~dWSeeak~imaAf~D~~~kR~FaLl~q-AYs--sI~~~D~A 139 (197)
T KOG4414|consen 63 KRIPPAIKEAKPELGAAWGIGQKIWQHDFAGIYEAINAHDWSEEAKDIMAAFRDATRKRAFALLLQ-AYS--SIIADDFA 139 (197)
T ss_pred HhCCHHHhhcCchhhhhhhhhHHHHhcccchHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHH-HHH--HHHHHHHH
Confidence 458988876 6788888888888899999998887742 334444556666667789999998887 464 58889999
Q ss_pred HHHcCCchhHHHHHHHhCCeec
Q 015311 348 KVLMMEESDVELFCNAYGLQTC 369 (409)
Q Consensus 348 ~~L~fd~~e~~~fc~~~GL~~~ 369 (409)
-.||+.++|+....-+.|-.+.
T Consensus 140 ~FlGl~~ddAtk~ilEnGWqaD 161 (197)
T KOG4414|consen 140 AFLGLPEDDATKGILENGWQAD 161 (197)
T ss_pred HHhCCCHHHHHHHHHHcccchh
Confidence 9999998898888888887763
No 13
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=74.09 E-value=8.1 Score=30.65 Aligned_cols=42 Identities=24% Similarity=0.325 Sum_probs=33.4
Q ss_pred HHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHHH
Q 015311 317 EPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFC 361 (409)
Q Consensus 317 ~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~fc 361 (409)
..+...+|..+|..+++ .|+ .++++.|++.|+++..+++.++
T Consensus 4 ~~l~~~~~~~~l~~l~~-~y~--~i~~~~i~~~~~l~~~~vE~~i 45 (88)
T smart00088 4 ERLQRKIRLTNLLQLSE-PYS--SISLSDLAKLLGLSVPEVEKLV 45 (88)
T ss_pred HHHHHHHHHHHHHHHhH-Hhc--eeeHHHHHHHhCcCHHHHHHHH
Confidence 34567899999999988 575 5999999999999976655443
No 14
>smart00753 PAM PCI/PINT associated module.
Probab=74.09 E-value=8.1 Score=30.65 Aligned_cols=42 Identities=24% Similarity=0.325 Sum_probs=33.4
Q ss_pred HHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHHH
Q 015311 317 EPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFC 361 (409)
Q Consensus 317 ~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~fc 361 (409)
..+...+|..+|..+++ .|+ .++++.|++.|+++..+++.++
T Consensus 4 ~~l~~~~~~~~l~~l~~-~y~--~i~~~~i~~~~~l~~~~vE~~i 45 (88)
T smart00753 4 ERLQRKIRLTNLLQLSE-PYS--SISLSDLAKLLGLSVPEVEKLV 45 (88)
T ss_pred HHHHHHHHHHHHHHHhH-Hhc--eeeHHHHHHHhCcCHHHHHHHH
Confidence 34567899999999988 575 5999999999999976655443
No 15
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=68.01 E-value=33 Score=36.00 Aligned_cols=118 Identities=16% Similarity=0.165 Sum_probs=66.4
Q ss_pred hCCc-hhhcCHhHHHHH----HHHHHHHhCcHHHHHHHHHhccchHHHHHHHHhHHHHHHHH----HHHHHhhccCCCCc
Q 015311 271 HVPS-PIIKSKEMWFAR----QALRYFQMGNYRRFLSTVAAEASYLQYCIIEPYIDEVRSLA----LCCIHNCCYKLHPY 341 (409)
Q Consensus 271 ~l~~-~i~~s~~v~~Al----~l~~a~~~gNy~rFFrLl~~~~~~L~~cll~~~~~~vR~~A----L~~i~~a~yk~~~~ 341 (409)
.+|. .++..|.++-+| .+..|+..||-.+|=..+.+-.+-+++-=......++|... ++.|.- +|+ .|
T Consensus 302 eiPers~F~Qp~~~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISl-sYS--RI 378 (493)
T KOG2581|consen 302 EIPERSVFRQPGMRKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISL-SYS--RI 378 (493)
T ss_pred CCcchhhhcCccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheee-eee--ec
Confidence 4453 455667555554 55679999999998776643222222222222234455554 455544 565 59
Q ss_pred CHHHHHHHHcCCchhHHHHHH----HhCCee--cccCCCccccccCCCccCCCCCCcc
Q 015311 342 PLGHLSKVLMMEESDVELFCN----AYGLQT--CIDEVGNKLLPTKQTTFCRPKGGLQ 393 (409)
Q Consensus 342 Pl~~L~~~L~fd~~e~~~fc~----~~GL~~--~~d~~g~~~l~~k~~~f~~p~~~~~ 393 (409)
.+.+++..|++++++..+|+- +-|+.= ..+++| ++..|.+.....+..+|
T Consensus 379 Sl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g--~m~skE~~diy~t~epQ 434 (493)
T KOG2581|consen 379 SLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDG--FMQSKETFDIYSTREPQ 434 (493)
T ss_pred cHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccC--ceehhhhhhhhccCCch
Confidence 999999999999876555533 345531 234445 55444444444433333
No 16
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=52.97 E-value=1.2e+02 Score=31.01 Aligned_cols=130 Identities=19% Similarity=0.298 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhhHHHHHhhCCc-hhhcCHhHHHHHHHHHHHHh
Q 015311 216 EQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGESLSLWFRHVPS-PIIKSKEMWFARQALRYFQM 294 (409)
Q Consensus 216 eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~~~l~~~L~~~l~~l~~-~i~~s~~v~~Al~l~~a~~~ 294 (409)
++=.|.++.|..-|..... ....|+-++| +.-.+.+++.-..+.| -.||+ ..++-..|--.|.|+..-..
T Consensus 182 ~~s~kvmt~lLgtyt~dna---s~AredA~rc--V~~av~dP~~F~fD~L----l~L~pV~qLE~d~i~qLL~IF~s~~L 252 (378)
T KOG2753|consen 182 DESSKVMTELLGTYTEDNA---SEAREDAMRC--VVEAVKDPKIFLFDHL----LTLPPVKQLEGDLIHQLLKIFVSGKL 252 (378)
T ss_pred hhHHHHHHHHHHHhcccch---hHHHHHHHHH--HHHHHcCCceeccchh----ccCchHHHhccchHHHHHHHHHhcch
Confidence 4455666666666655321 1234555666 4555556553222211 12332 11122225557788877788
Q ss_pred CcHHHHHHHHHhccchHHHHHH--HHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHH
Q 015311 295 GNYRRFLSTVAAEASYLQYCII--EPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELF 360 (409)
Q Consensus 295 gNy~rFFrLl~~~~~~L~~cll--~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~f 360 (409)
..|+.|.. ..-.|++..-+ +....+||...|..|+.. ...+|.+.|++-|-.++.|.+.|
T Consensus 253 ~aYveF~~---~N~~Fvqs~gl~~E~~~~KMRLLTlm~LA~e---s~eisy~~l~k~LqI~edeVE~f 314 (378)
T KOG2753|consen 253 DAYVEFVA---ANSGFVQSQGLVHEQNMAKMRLLTLMSLAEE---SNEISYDTLAKELQINEDEVELF 314 (378)
T ss_pred HHHHHHHH---hChHHHHHhcccHHHHHHHHHHHHHHHHhcc---CCCCCHHHHHHHhccCHHHHHHH
Confidence 89999875 33445544432 335678999888888752 34799999999999998776655
No 17
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=45.13 E-value=55 Score=33.08 Aligned_cols=119 Identities=18% Similarity=0.207 Sum_probs=73.5
Q ss_pred hCCchhhcCHhHHHH----------HHHHHHHHhCcHHHHHHHHHh-ccchHHHH-----HHHHhHHHHHHHHHHHHHhh
Q 015311 271 HVPSPIIKSKEMWFA----------RQALRYFQMGNYRRFLSTVAA-EASYLQYC-----IIEPYIDEVRSLALCCIHNC 334 (409)
Q Consensus 271 ~l~~~i~~s~~v~~A----------l~l~~a~~~gNy~rFFrLl~~-~~~~L~~c-----ll~~~~~~vR~~AL~~i~~a 334 (409)
.+...|+++|+|--. .++...+...||..||..+.. -+..|+.| -...|...||.++...+.-
T Consensus 249 diktki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLE- 327 (412)
T COG5187 249 DIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLE- 327 (412)
T ss_pred hhhhhhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 345567777755221 233445567899988875532 34444444 3456788999999888876
Q ss_pred ccCCCCcCHHHHHHHHcCCc----hhHHHHHHHhCCeecccC-CCccccccCCCccCCCCCCccccchhh
Q 015311 335 CYKLHPYPLGHLSKVLMMEE----SDVELFCNAYGLQTCIDE-VGNKLLPTKQTTFCRPKGGLQNYSFLG 399 (409)
Q Consensus 335 ~yk~~~~Pl~~L~~~L~fd~----~e~~~fc~~~GL~~~~d~-~g~~~l~~k~~~f~~p~~~~~~~~~~~ 399 (409)
+|| .+.++.++.-+|.+- -|+-+|.-.-.|....|. +| ++. -+.|.++-+.|+..+
T Consensus 328 SYr--~lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRvnG--vVe-----tnrpdekn~qy~~vV 388 (412)
T COG5187 328 SYR--LLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRVNG--VVE-----TNRPDEKNQQYSSVV 388 (412)
T ss_pred HHH--HhhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecccc--eEe-----ccCcchhhhhHHHHH
Confidence 687 478888888888763 357777655555433332 34 232 235777777775443
No 18
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=39.47 E-value=44 Score=25.39 Aligned_cols=33 Identities=9% Similarity=0.280 Sum_probs=27.5
Q ss_pred CcCHHHHHHHHcCC--chhHHHHHHHhCCeecccC
Q 015311 340 PYPLGHLSKVLMME--ESDVELFCNAYGLQTCIDE 372 (409)
Q Consensus 340 ~~Pl~~L~~~L~fd--~~e~~~fc~~~GL~~~~d~ 372 (409)
.++.+.+.++||.+ .+++.+.++..|+.+..++
T Consensus 5 ~~~~~~i~~llG~~i~~~ei~~~L~~lg~~~~~~~ 39 (71)
T smart00874 5 TLRRERINRLLGLDLSAEEIEEILKRLGFEVEVSG 39 (71)
T ss_pred EecHHHHHHHHCCCCCHHHHHHHHHHCCCeEEecC
Confidence 47899999999986 3579999999999986543
No 19
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=38.43 E-value=56 Score=26.81 Aligned_cols=51 Identities=14% Similarity=0.092 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchh---HHHHHHHhCCeecc
Q 015311 320 IDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESD---VELFCNAYGLQTCI 370 (409)
Q Consensus 320 ~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e---~~~fc~~~GL~~~~ 370 (409)
+..+..+.|..|....-....+++..|++.|+++..+ +.++|..-|....+
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYST 98 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEES
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecc
Confidence 4556666677775411234579999999999998654 78888888987655
No 20
>PF05789 Baculo_VP1054: Baculovirus VP1054 protein; InterPro: IPR008416 This family consists of several VP1054 proteins from the Baculoviruses. VP1054 is a virus structural protein required for nucleocapsid assembly [].
Probab=38.21 E-value=9.7 Score=38.47 Aligned_cols=13 Identities=38% Similarity=0.720 Sum_probs=11.6
Q ss_pred CCCcHHHHHHHHH
Q 015311 76 FMCPEAERLQRQR 88 (409)
Q Consensus 76 ~MCPe~Er~~R~~ 88 (409)
-|||..|+..|+.
T Consensus 254 iMCPPremvKrIf 266 (325)
T PF05789_consen 254 IMCPPREMVKRIF 266 (325)
T ss_pred ccCChHHHHHHHH
Confidence 5999999999986
No 21
>PF09759 Atx10homo_assoc: Spinocerebellar ataxia type 10 protein domain; InterPro: IPR019156 This is the conserved C-terminal 100 residues of Ataxin-10. Ataxin-10 belongs to the family of armadillo repeat proteins and in solution it tends to form homotrimeric complexes, which associate via a tip-to-tip association in a horseshoe-shaped contact with the concave sides of the molecules facing each other. This domain may represent the homo-association site since that is located near the C terminus of Ataxin-10. The protein does not contain a signal sequence for secretion or any subcellular compartment confirming its cytoplasmic localisation, specifically to the olivocerebellar region [].
Probab=33.48 E-value=63 Score=27.28 Aligned_cols=69 Identities=23% Similarity=0.247 Sum_probs=45.3
Q ss_pred chHHHHHHHHhHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHHHHHhCCeecccCCCccccc
Q 015311 309 SYLQYCIIEPYIDEVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNKLLP 379 (409)
Q Consensus 309 ~~L~~cll~~~~~~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~fc~~~GL~~~~d~~g~~~l~ 379 (409)
..|..|.++-+-+.+|-.|+-+|..-.. ..+=.-+.+++ |--....-...++..|+.+..|.+|++.+.
T Consensus 32 liL~~c~iD~~nP~irEwai~aiRnL~e-~n~eNQ~~I~~-L~~~~~~~~~~L~~~G~~v~~d~~Gk~~l~ 100 (102)
T PF09759_consen 32 LILSCCNIDDHNPFIREWAIFAIRNLCE-GNPENQEFIAQ-LEPQGVADNEELEELGLEVEIDKDGKVRLK 100 (102)
T ss_pred HHHHhcCCCcccHHHHHHHHHHHHHHHh-CCHHHHHHHHh-ccccCCcchHHHHHcCCeEEEcCCCeEeee
Confidence 4578888999999999999988865321 11111222322 322222345678889999999888987663
No 22
>PF03683 UPF0175: Uncharacterised protein family (UPF0175); InterPro: IPR005368 This entry contains small proteins of unknown function.
Probab=32.50 E-value=80 Score=24.85 Aligned_cols=34 Identities=15% Similarity=0.185 Sum_probs=30.3
Q ss_pred ccCCCCcCHHHHHHHHcCCchhHHHHHHHhCCee
Q 015311 335 CYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQT 368 (409)
Q Consensus 335 ~yk~~~~Pl~~L~~~L~fd~~e~~~fc~~~GL~~ 368 (409)
.|+...+++..-++++|++-.+..++|..+|+.+
T Consensus 29 lY~~g~iS~gkAAelag~s~~eF~~~L~~~gI~~ 62 (76)
T PF03683_consen 29 LYEEGKISLGKAAELAGMSRWEFLELLKERGIPI 62 (76)
T ss_pred HHHcCCCCHHHHHHHhCCCHHHHHHHHHHCCCCC
Confidence 4666689999999999998889999999999984
No 23
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=30.84 E-value=1e+02 Score=22.16 Aligned_cols=39 Identities=10% Similarity=0.123 Sum_probs=31.0
Q ss_pred cCHHHHHHHHcCCc-hhHHHHHHHhCCeecccCCCccccc
Q 015311 341 YPLGHLSKVLMMEE-SDVELFCNAYGLQTCIDEVGNKLLP 379 (409)
Q Consensus 341 ~Pl~~L~~~L~fd~-~e~~~fc~~~GL~~~~d~~g~~~l~ 379 (409)
+.-++|.++-|+.- ..-.++|+..|+.+..+.+|.+.+.
T Consensus 3 LT~~El~elTG~k~~~~Q~~~L~~~Gi~~~~~~~G~p~V~ 42 (47)
T PF13986_consen 3 LTDEELQELTGYKRPSKQIRWLRRNGIPFVVRADGRPIVT 42 (47)
T ss_pred CCHHHHHHHHCCCCHHHHHHHHHHCCCeeEECCCCCEEee
Confidence 45577888888874 3467899999999999999988763
No 24
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=27.42 E-value=79 Score=23.46 Aligned_cols=28 Identities=18% Similarity=0.355 Sum_probs=24.7
Q ss_pred CcCHHHHHHHHcCCchhHHHHHHHhCCe
Q 015311 340 PYPLGHLSKVLMMEESDVELFCNAYGLQ 367 (409)
Q Consensus 340 ~~Pl~~L~~~L~fd~~e~~~fc~~~GL~ 367 (409)
.+|+.+-++.||+....++.-|..+|+.
T Consensus 15 hlp~~eAA~~Lgv~~T~LKr~CR~~GI~ 42 (52)
T PF02042_consen 15 HLPIKEAAKELGVSVTTLKRRCRRLGIP 42 (52)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHcCCC
Confidence 3799999999999987899999999974
No 25
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=26.83 E-value=2e+02 Score=28.64 Aligned_cols=105 Identities=20% Similarity=0.370 Sum_probs=68.2
Q ss_pred hhhHHHHHhhCC--chhhcCHhHHHHHHHHHHHHhCcHHHHHHHHHh------ccchHHHHHHHHhH---HHHHHHHHHH
Q 015311 262 GESLSLWFRHVP--SPIIKSKEMWFARQALRYFQMGNYRRFLSTVAA------EASYLQYCIIEPYI---DEVRSLALCC 330 (409)
Q Consensus 262 ~~~L~~~l~~l~--~~i~~s~~v~~Al~l~~a~~~gNy~rFFrLl~~------~~~~L~~cll~~~~---~~vR~~AL~~ 330 (409)
++.|..++..|| .++..+..|.-|..+ .||..|||.-.|++|.. .-+.||.--++-|. .++|-+-|-.
T Consensus 79 ~erL~rFlwsLp~~~~~~~nEsvLkArA~-vafH~gnf~eLY~iLE~h~Fs~~~h~~LQ~lWl~AhY~EAek~RGR~Lga 157 (304)
T KOG0775|consen 79 IERLGRFLWSLPVCEELLKNESVLKARAV-VAFHSGNFRELYHILENHKFSPHNHPKLQALWLKAHYKEAEKLRGRPLGA 157 (304)
T ss_pred HHHHHHHHHcCchHHHHhhhHHHHHHHHH-HHHhcccHHHHHHHHHhccCChhhhHHHHHHHHHHHHHHHHHhcCCcCCc
Confidence 345777888888 677788888777654 69999999999999953 23446665555442 3455555666
Q ss_pred HHhhccCC-CCcCH-------------------HHHHHHHcCCc----hhHHHHHHHhCCeec
Q 015311 331 IHNCCYKL-HPYPL-------------------GHLSKVLMMEE----SDVELFCNAYGLQTC 369 (409)
Q Consensus 331 i~~a~yk~-~~~Pl-------------------~~L~~~L~fd~----~e~~~fc~~~GL~~~ 369 (409)
+-| |+. ..+|+ ..|.+|..-+. .|=.++.++-||++.
T Consensus 158 V~K--YRvRrKfPlPrTIWDGEet~yCFKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~t 218 (304)
T KOG0775|consen 158 VDK--YRVRRKFPLPRTIWDGEETVYCFKEKSRSLLREWYLQNPYPSPREKRELAEATGLTIT 218 (304)
T ss_pred ccc--ceeeccCCCCCccccCceeeeehhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchh
Confidence 554 431 13443 24666666442 356788889999764
No 26
>PRK13239 alkylmercury lyase; Provisional
Probab=26.80 E-value=1.6e+02 Score=28.04 Aligned_cols=51 Identities=20% Similarity=0.137 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHhhccCCCCcCHHHHHHHHcCCchhHHHHHHHhCCeecccCCCccc
Q 015311 322 EVRSLALCCIHNCCYKLHPYPLGHLSKVLMMEESDVELFCNAYGLQTCIDEVGNKL 377 (409)
Q Consensus 322 ~vR~~AL~~i~~a~yk~~~~Pl~~L~~~L~fd~~e~~~fc~~~GL~~~~d~~g~~~ 377 (409)
.+....|+.+.+ +.+++++.|+..++.+.+++..-++..+.... |++|+++
T Consensus 22 ~~~~~llr~la~----G~pvt~~~lA~~~~~~~~~v~~~L~~l~~~~~-d~~g~iv 72 (206)
T PRK13239 22 TLLVPLLRLLAK----GRPVSVTTLAAALGWPVEEVEAVLEAMPDTEY-DEDGRII 72 (206)
T ss_pred HHHHHHHHHHHc----CCCCCHHHHHHHhCCCHHHHHHHHHhCCCeEE-CCCCCEE
Confidence 345555666654 46899999999999998888999999887654 6788874
No 27
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=26.46 E-value=75 Score=24.41 Aligned_cols=32 Identities=13% Similarity=0.223 Sum_probs=25.2
Q ss_pred CcCHHHHHHHHcCC--chhHHHHHHHhCCeeccc
Q 015311 340 PYPLGHLSKVLMME--ESDVELFCNAYGLQTCID 371 (409)
Q Consensus 340 ~~Pl~~L~~~L~fd--~~e~~~fc~~~GL~~~~d 371 (409)
.++++.+.++||++ .+++.+.++..|+.+...
T Consensus 5 ~~~~~~i~~~lG~~i~~~~i~~~L~~lg~~~~~~ 38 (70)
T PF03484_consen 5 TLSLDKINKLLGIDISPEEIIKILKRLGFKVEKI 38 (70)
T ss_dssp EEEHHHHHHHHTS---HHHHHHHHHHTT-EEEE-
T ss_pred EecHHHHHHHhCCCCCHHHHHHHHHHCCCEEEEC
Confidence 47889999999986 357999999999999774
No 28
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=26.10 E-value=35 Score=28.76 Aligned_cols=23 Identities=13% Similarity=0.268 Sum_probs=17.7
Q ss_pred HHcCCc-hhHHHHHHHhCCeeccc
Q 015311 349 VLMMEE-SDVELFCNAYGLQTCID 371 (409)
Q Consensus 349 ~L~fd~-~e~~~fc~~~GL~~~~d 371 (409)
.|.|++ +|++.||+.+|+.....
T Consensus 52 ~l~F~skE~Ai~yaer~G~~Y~V~ 75 (101)
T PF04800_consen 52 RLKFDSKEDAIAYAERNGWDYEVE 75 (101)
T ss_dssp EEEESSHHHHHHHHHHCT-EEEEE
T ss_pred EeeeCCHHHHHHHHHHcCCeEEEe
Confidence 467887 46999999999987554
No 29
>smart00324 RhoGAP GTPase-activator protein for Rho-like GTPases. GTPase activator proteins towards Rho/Rac/Cdc42-like small GTPases. etter domain limits and outliers.
Probab=24.20 E-value=3.9e+02 Score=23.56 Aligned_cols=82 Identities=15% Similarity=0.148 Sum_probs=45.6
Q ss_pred hhhhHHHHHhhCCchhhcCHhHHHHHHHHHHHHhCcH---HHHHHHHHhccchHHHHHHHHhHHHHHHHHHHHHHhhccC
Q 015311 261 VGESLSLWFRHVPSPIIKSKEMWFARQALRYFQMGNY---RRFLSTVAAEASYLQYCIIEPYIDEVRSLALCCIHNCCYK 337 (409)
Q Consensus 261 l~~~L~~~l~~l~~~i~~s~~v~~Al~l~~a~~~gNy---~rFFrLl~~~~~~L~~cll~~~~~~vR~~AL~~i~~a~yk 337 (409)
+...|..|++.||.+++.......-+++. ..++. ...++.+-...|.....++...+..++ .++..+ .
T Consensus 59 va~~lK~~Lr~Lp~pli~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~Lp~~~~~~L~~l~~~l~-----~i~~~~-~ 129 (174)
T smart00324 59 VAGLLKLFLRELPEPLIPYELYEEFIEAA---KVEDETERLRALRELISLLPPANRATLRYLLAHLN-----RVAEHS-E 129 (174)
T ss_pred HHHHHHHHHHhCCCccCCHHHHHHHHHHH---hCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-----HHHhcc-c
Confidence 34456789999999998877665544433 22222 122222223567766666666554433 232211 1
Q ss_pred CCCcCHHHHHHHHc
Q 015311 338 LHPYPLGHLSKVLM 351 (409)
Q Consensus 338 ~~~~Pl~~L~~~L~ 351 (409)
...+....|+..++
T Consensus 130 ~n~M~~~nLa~~f~ 143 (174)
T smart00324 130 ENKMTARNLAIVFG 143 (174)
T ss_pred cCCCCHHHHHHHHh
Confidence 23577887877777
No 30
>PF07643 DUF1598: Protein of unknown function (DUF1598); InterPro: IPR011487 This is a family of Rhodopirellula baltica hypothetical proteins of about 500 amino acids in length.
Probab=23.97 E-value=2.1e+02 Score=23.34 Aligned_cols=64 Identities=17% Similarity=0.149 Sum_probs=38.6
Q ss_pred CHHHHHHHHHHHHHHHcCCCCCchhhhHHhhhhhhhh--hhhhhhhhccCchhHHHHHHHHHHHHHHhhhhhccC
Q 015311 130 PLPVLEETLNYLLSLLDSTEHPFEVIHDFVFDRTRSV--RQDLIMQNIVNDKAINMFEKIVKFHVISHHKLRSSC 202 (409)
Q Consensus 130 P~~VL~kT~~yLl~~~~~~~~~~~~~y~Fi~DRlRsI--RQDltvQ~i~~~~~i~vlE~i~RF~I~s~~~L~~~~ 202 (409)
.++.|++..+||.+.-.. ..+.. -..+.+.+|.. +||++|.++.... ..||.++-+.|++-...
T Consensus 6 ~~egl~~~qq~~~~~~~~-~~~~~--~~~~~~~l~~~LG~QdV~V~Gip~~s------h~ArvLVeADyrMKrIg 71 (84)
T PF07643_consen 6 TPEGLKRLQQFLESSNSR-SSPAG--PAAWVDGLRQALGPQDVTVYGIPADS------HFARVLVEADYRMKRIG 71 (84)
T ss_pred CHHHHHHHHHHHHHHhcc-ccccC--HHHHHHHHHHHhCCceeEEEccCCcc------HHHHHHHHhhhHHHHhc
Confidence 468899999999875433 11111 12233444443 6777777776543 55677777788775543
No 31
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=22.30 E-value=1e+02 Score=23.40 Aligned_cols=31 Identities=19% Similarity=0.275 Sum_probs=24.1
Q ss_pred CCcCHHHHHHHHcCCc---------hhHHHHHHHhCCeec
Q 015311 339 HPYPLGHLSKVLMMEE---------SDVELFCNAYGLQTC 369 (409)
Q Consensus 339 ~~~Pl~~L~~~L~fd~---------~e~~~fc~~~GL~~~ 369 (409)
.|+.+++|..+|.... .++.+||...|+.+.
T Consensus 23 ePI~L~el~~~L~~~g~~~~~~~~~~~l~~~lD~~gIt~~ 62 (64)
T PF09494_consen 23 EPINLEELHAWLKASGIGFDRKVDPSKLKEWLDSQGITFT 62 (64)
T ss_pred CCccHHHHHHHHHHcCCCccceeCHHHHHHHHHHCCceee
Confidence 4799999999987331 247899999998864
No 32
>cd00159 RhoGAP RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when bound to GDP. The Rho family of small G proteins, which includes Cdc42Hs, activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. G proteins generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude. The RhoGAPs are one of the major classes of regulators of Rho G proteins.
Probab=22.29 E-value=4.7e+02 Score=22.52 Aligned_cols=81 Identities=12% Similarity=0.145 Sum_probs=43.6
Q ss_pred hhhhHHHHHhhCCchhhcCHhHHHHHHHHHHHHhCcH----HHHHHHHHhccchHHHHHHHHhHHHHHHHHHHHHHhhcc
Q 015311 261 VGESLSLWFRHVPSPIIKSKEMWFARQALRYFQMGNY----RRFLSTVAAEASYLQYCIIEPYIDEVRSLALCCIHNCCY 336 (409)
Q Consensus 261 l~~~L~~~l~~l~~~i~~s~~v~~Al~l~~a~~~gNy----~rFFrLl~~~~~~L~~cll~~~~~~vR~~AL~~i~~a~y 336 (409)
+...+..|++.||.+++.......-++ ++...+- ...-.++ ...|.....++...+..++. ++..+.
T Consensus 55 va~~lK~~l~~Lp~pli~~~~~~~~~~---~~~~~~~~~~~~~~~~~i-~~Lp~~~~~~L~~l~~~l~~-----v~~~~~ 125 (169)
T cd00159 55 VASLLKLYLRELPEPLIPFELYDEFIE---LAKIEDEEERIEALKELL-KSLPPENRDLLKYLLKLLHK-----ISQNSE 125 (169)
T ss_pred HHHHHHHHHHcCCCccCCHHHHHHHHH---HHHcCCHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHH-----HHhhcc
Confidence 344566789999998888754433322 3322111 1222222 35677777776666555432 222111
Q ss_pred CCCCcCHHHHHHHHc
Q 015311 337 KLHPYPLGHLSKVLM 351 (409)
Q Consensus 337 k~~~~Pl~~L~~~L~ 351 (409)
...+....|+..++
T Consensus 126 -~n~M~~~nLa~~f~ 139 (169)
T cd00159 126 -VNKMTASNLAIVFA 139 (169)
T ss_pred -CCCCCHHHHHHHHc
Confidence 23577777777776
No 33
>PF10978 DUF2785: Protein of unknown function (DUF2785); InterPro: IPR021247 Some members in this family are annotated as hypothetical membrane spanning proteins however this cannot be confirmed. The family has no known function.
Probab=21.40 E-value=4.8e+02 Score=23.78 Aligned_cols=85 Identities=16% Similarity=0.284 Sum_probs=46.7
Q ss_pred cHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHhhcCCCCchhhhHHHHHhhCCchhhcCHhHHHHHHHHHHHH
Q 015311 214 NLEQLTKALTSLYNLYEANRSSKPIHEKEAEFRSFYVLLHLDSNGQPVGESLSLWFRHVPSPIIKSKEMWFARQALRYFQ 293 (409)
Q Consensus 214 n~eql~kcL~sL~~lY~d~~~~~~~~~ne~EF~aY~iL~~l~~~~~~l~~~L~~~l~~l~~~i~~s~~v~~Al~l~~a~~ 293 (409)
........|..+...|.... ......|+|-.|..++..+..+.-+ .+.+..|++.++..+-... -.......+.
T Consensus 88 ~~~~~~~lL~~i~~~~~~~~--~~~~~~EdeRLa~~~~~~l~~~~l~-~~~~~~wl~~~~~~l~~~~---~~~~~~~~~~ 161 (175)
T PF10978_consen 88 DRADKIELLAAILEKYKRLS--TPFIDGEDERLATALIELLNRNKLY-QEELLSWLKSWRQDLPTQR---PPYSEADWYR 161 (175)
T ss_pred CHHHHHHHHHHHHHHHcCCC--cceeCCChhHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHHhhhcc---cccchHHHHH
Confidence 35667777888888886643 2345689999998777666554322 2335567665422211100 0001123445
Q ss_pred hCcHHHHHHHH
Q 015311 294 MGNYRRFLSTV 304 (409)
Q Consensus 294 ~gNy~rFFrLl 304 (409)
..|+.+|++.+
T Consensus 162 ~~N~~~fL~sL 172 (175)
T PF10978_consen 162 FSNIKRFLRSL 172 (175)
T ss_pred HHHHHHHHHHH
Confidence 66777777644
Done!