Query 008822
Match_columns 552
No_of_seqs 128 out of 148
Neff 4.0
Searched_HMMs 46136
Date Thu Mar 28 17:01:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008822.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008822hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08737 Rgp1: Rgp1; InterPro 100.0 1.1E-52 2.4E-57 441.8 29.2 314 105-496 91-414 (415)
2 KOG4469 Uncharacterized conser 100.0 1.9E-48 4.1E-53 382.7 19.6 329 49-533 12-377 (391)
3 PF00339 Arrestin_N: Arrestin 98.5 2.7E-07 5.8E-12 81.7 6.6 117 42-168 3-127 (149)
4 PF02752 Arrestin_C: Arrestin 98.4 4.5E-06 9.8E-11 72.4 11.4 122 41-199 6-132 (136)
5 KOG3780 Thioredoxin binding pr 98.1 0.0022 4.7E-08 67.5 26.5 133 375-526 178-316 (427)
6 PF02752 Arrestin_C: Arrestin 97.8 0.0012 2.5E-08 57.4 15.2 127 382-529 2-135 (136)
7 PF00339 Arrestin_N: Arrestin 96.3 0.0046 1E-07 54.7 4.3 105 388-493 2-126 (149)
8 PF07070 Spo0M: SpoOM protein; 95.9 0.059 1.3E-06 54.1 10.4 97 40-157 13-109 (218)
9 PF01835 A2M_N: MG2 domain; I 92.7 0.61 1.3E-05 39.7 7.8 26 42-67 2-27 (99)
10 KOG3780 Thioredoxin binding pr 88.8 3.3 7.1E-05 43.9 10.5 111 38-168 186-298 (427)
11 PF08737 Rgp1: Rgp1; InterPro 84.8 6.1 0.00013 43.1 10.1 103 41-163 305-407 (415)
12 PF03643 Vps26: Vacuolar prote 83.4 5.7 0.00012 41.4 8.7 97 388-495 169-272 (275)
13 PF07070 Spo0M: SpoOM protein; 80.3 10 0.00022 38.4 9.0 100 395-497 21-123 (218)
14 KOG3865 Arrestin [Signal trans 75.5 19 0.00041 38.9 9.6 113 41-168 196-330 (402)
15 PF13199 Glyco_hydro_66: Glyco 62.6 5 0.00011 45.7 2.4 25 45-69 1-25 (559)
16 TIGR01451 B_ant_repeat conserv 57.1 10 0.00022 29.9 2.6 24 45-68 2-25 (53)
17 PF00927 Transglut_C: Transglu 57.0 52 0.0011 28.6 7.3 85 40-158 1-87 (107)
18 PF07703 A2M_N_2: Alpha-2-macr 54.8 11 0.00025 33.4 2.9 26 38-63 93-118 (136)
19 PF01835 A2M_N: MG2 domain; I 52.2 1.5E+02 0.0032 25.1 9.5 75 394-493 7-85 (99)
20 PF13002 LDB19: Arrestin_N ter 52.1 49 0.0011 33.2 7.0 44 124-168 41-87 (191)
21 PF03643 Vps26: Vacuolar prote 52.0 1.5E+02 0.0033 31.0 10.9 96 49-168 33-129 (275)
22 PF06159 DUF974: Protein of un 51.9 51 0.0011 33.7 7.3 88 38-145 112-208 (249)
23 PF10633 NPCBM_assoc: NPCBM-as 51.8 66 0.0014 26.5 6.8 65 52-150 2-66 (78)
24 PF07703 A2M_N_2: Alpha-2-macr 50.7 18 0.0004 32.1 3.5 25 42-66 1-25 (136)
25 PF01345 DUF11: Domain of unkn 45.4 27 0.00058 28.5 3.5 30 39-68 25-54 (76)
26 COG4326 Spo0M Sporulation cont 45.2 36 0.00077 35.0 4.9 88 42-153 35-125 (270)
27 PF12690 BsuPI: Intracellular 37.1 38 0.00082 29.1 3.2 73 57-152 2-78 (82)
28 PF04744 Monooxygenase_B: Mono 36.4 55 0.0012 35.9 5.0 84 41-142 248-333 (381)
29 PF07919 Gryzun: Gryzun, putat 35.7 2.7E+02 0.0058 30.7 10.2 107 38-163 171-283 (554)
30 PF12389 Peptidase_M73: Camely 31.5 1.8E+02 0.004 29.4 7.4 40 129-168 153-194 (199)
31 PF08626 TRAPPC9-Trs120: Trans 30.7 2.3E+02 0.0049 35.3 9.4 42 38-88 777-823 (1185)
32 PF14524 Wzt_C: Wzt C-terminal 26.6 94 0.002 27.1 4.0 39 109-150 60-98 (142)
33 PF13584 BatD: Oxygen toleranc 24.9 5.8E+02 0.013 27.9 10.5 115 40-163 13-151 (484)
34 PF03896 TRAP_alpha: Transloco 24.8 2.9E+02 0.0062 29.4 7.8 86 49-162 93-178 (285)
35 cd03450 NodN NodN (nodulation 23.0 71 0.0015 30.0 2.7 44 43-90 91-134 (149)
36 PF09579 Spore_YtfJ: Sporulati 22.6 36 0.00079 29.6 0.6 10 6-15 14-24 (83)
37 cd08544 Reeler Reeler, the N-t 22.5 92 0.002 28.2 3.3 27 40-66 19-45 (135)
38 PRK05089 cytochrome C oxidase 21.8 5.3E+02 0.012 26.0 8.6 91 41-160 80-170 (188)
39 cd08759 Type_III_cohesin_like 20.3 84 0.0018 30.7 2.6 28 40-67 1-28 (160)
No 1
>PF08737 Rgp1: Rgp1; InterPro: IPR014848 Rgp1 forms heterodimer with Ric1 (IPR009771 from INTERPRO) which associates with Golgi membranes and functions as a guanyl-nucleotide exchange factor [].
Probab=100.00 E-value=1.1e-52 Score=441.75 Aligned_cols=314 Identities=26% Similarity=0.363 Sum_probs=205.4
Q ss_pred CCCccccccEEEeccCcceeeeccccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEE-EEEEeeeeEEeccCcccccc
Q 008822 105 PGSKQRRGEFAFLDISASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYV-KSTLSARWLILENGLTQRES 183 (552)
Q Consensus 105 ~~skq~rge~if~~~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i-~at~~g~~~~~~ng~~~~~s 183 (552)
......++.-+|++.++ +||||++|+|||+|+|.|+++||..|||||||.+|||.|+| .+++++.
T Consensus 91 ~~~~~~~~~p~~~t~~~-iLf~dl~L~pge~k~f~~~~~lP~~lPPsy~g~~i~~~Y~l~vg~~~~~------------- 156 (415)
T PF08737_consen 91 RGELSSKSIPIFSTPQS-ILFSDLRLAPGESKSFHFSFTLPKDLPPSYRGKAIKISYSLVVGTQRGS------------- 156 (415)
T ss_pred ccccccCcceEEecCCc-eEEEeeEECCCCcEEEEEEEeCCCCCCCCCcCcEEEEEEEEEEEEEEcC-------------
Confidence 34457889999999999 99999999999999999999999999999999999999999 8888822
Q ss_pred cccccccccccceEEEEeccCCCcccccccCCCCCCccccccccccc--ccCCCcccccccccccccccccccccccccc
Q 008822 184 KRDLTQVEARLPLQIWVTQKGNGLLTEENQNDGIVPATTIQMDIYWK--EMDGDSEWSRANDIYDGVEEGYESSRDEISS 261 (552)
Q Consensus 184 ~~~~~~l~~RiPi~V~~~q~~~~~~~~~~~~~~~~p~~~~~~~i~w~--e~~~~~~~~~a~~~~~~~e~g~~ss~~e~s~ 261 (552)
..+.....+|||||||..++..|....-+ |.-|.+..+--|. ..+.+..|..... +....+
T Consensus 157 ~~~~~~~~~~~Pi~v~~~v~~~g~~l~~d-----L~~p~i~l~~~~~v~~~~~~~~~~~~~~-----------~~~~~~- 219 (415)
T PF08737_consen 157 SVNSKVKSIRVPIRVLPSVNSSGEQLQHD-----LMSPYIILRDEARVEVVDSDSKRPPSSF-----------SISSFS- 219 (415)
T ss_pred CCCcceEEEEeCEEEeeeecCCccccccc-----cCCCccccCccceEEccccccccccCcc-----------cccccc-
Confidence 23444556999999999999887764432 2222111111122 2222222211111 000000
Q ss_pred cCCCCCcc---cccccccCCcccccccccccC--CCCCCcccccccccccCCcccccccceeccCCCCCccCCccccccc
Q 008822 262 VSSYNPSK---ENLLKTFGSSLSLQSSTARSS--TKDIPAFEGELMRLSSNVALPQLSAAEVLYDSSADVISPNKSAAVV 336 (552)
Q Consensus 262 ~~s~~p~~---~~~~~~~g~~l~~~s~~~~~~--~~~~p~~~~~r~~~~~~~~~~~l~~a~~~~d~~~~~~s~~~~~~~~ 336 (552)
..+.. +.....|. .| ..+.. +.++-.++..+.... ...+.......+..+....
T Consensus 220 ---~~~~~~~~~~fl~~~~-~L-----l~s~~~~~~~~~~~~~~~~~s~------------~~~~~~~~~~~~~~~~~~~ 278 (415)
T PF08737_consen 220 ---SKKSESSKESFLQYVD-EL-----LESNSNNMPDISTLEDLLSPSQ------------FSMSSEDSDSEPSYSYKDQ 278 (415)
T ss_pred ---cCCchhhHHHHHHHHH-HH-----Hhcccccccccccccccccccc------------CCccccccccccccchhhh
Confidence 00000 01111110 00 00000 000001110000000 0000000000000000000
Q ss_pred ccccccccCCCCCCCCCCCCCCCCccccccccccCCCcceEEEEeCCEEEEEEEccCCCcceecCCcEEEEEEecCCCCc
Q 008822 337 SPSQQQKLTKPADDITGASPSPQAGVVEPAASEGFIRGRSYNIRMDDQVLLRFSPKNSESTYYFSDMIGGTLTFFHEEGA 416 (552)
Q Consensus 337 ~~~~~~~~~~~~~~~~g~~~~p~~~~l~pqls~g~~~~ksY~I~rng~~VarlsLs~pkpaYrLGEdI~GtlDF~~~~~~ 416 (552)
++.. +..+.++.. + +++|+|++||++||+|+|. ||+||+||||.|+|||++.+ .
T Consensus 279 I~~~-------------------~~~~~~~~~---~-~~~y~I~~n~~~va~~~Ls--K~~yrlGE~I~g~idf~~~~-~ 332 (415)
T PF08737_consen 279 IPSA-------------------ISNLLSQSR---N-PNSYNIRRNGQRVARLSLS--KPAYRLGEDIVGTIDFNDAS-T 332 (415)
T ss_pred hhhh-------------------hhhhccccc---C-CcEEEEEECCeEEEEEEec--CCCcccCCeEEEEEEcCCCC-c
Confidence 0000 012333333 5 9999999999999999997 89999999999999997432 4
Q ss_pred eeEEEEEEEEEEeeeecCCccCCCCC-CCCceeeEEEeeeeeecccc-eeeEEecCCCCCCCceEeCceeEEEEEEEEEE
Q 008822 417 RRCLEVLITLETSETINRWFVHPSRR-NSPTITKIQSDHHEVVADLV-QTSFLFSIPMDGPMSFSTPYVSVQWALRFEFL 494 (552)
Q Consensus 417 irC~qVSvsLESeE~Inp~~~~~S~~-s~~~~rkvhae~hE~cld~~-~T~F~L~IP~~aTPqF~Td~VsLkW~LRFEFV 494 (552)
+||++|+|+||++|+|+++|++++.. ..++++++|+++||+|+|.+ +++|.|+||+++||+|+|++|+|||+||||||
T Consensus 333 ~~c~~v~~~LEs~E~v~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~f~l~IP~~~tp~F~T~~v~lkW~LrfeFv 412 (415)
T PF08737_consen 333 IPCYQVSASLESEETVNPSYAVRSSAKINRVTRKVHAEHHEICLDSRSRTSFSLPIPLSATPQFQTSGVSLKWRLRFEFV 412 (415)
T ss_pred ceeEEEEEEEEEEEEeCchhcccccccccccEEEEEEEEeeeecCCcceEEEEeeCCCCCCCceEeCCEEEEEEEEEEEE
Confidence 99999999999999999999776544 47889999999999999999 99999999999999999999999999999999
Q ss_pred ec
Q 008822 495 TT 496 (552)
Q Consensus 495 ts 496 (552)
++
T Consensus 413 ~~ 414 (415)
T PF08737_consen 413 TS 414 (415)
T ss_pred ec
Confidence 85
No 2
>KOG4469 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.9e-48 Score=382.69 Aligned_cols=329 Identities=26% Similarity=0.415 Sum_probs=248.4
Q ss_pred eeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEE---EEEEEeccCcceeecCC-------CCC-------Ccccc
Q 008822 49 NVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFE---IKGIQKLDSQWFATQKP-------LPG-------SKQRR 111 (552)
Q Consensus 49 ~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~e---i~g~ek~D~q~~~~~~p-------l~~-------skq~r 111 (552)
-||..||..+|-|.+.||--+... +..-|-|+|+ |||.-...-+.++-..| -|. -...|
T Consensus 12 pvflagealecvvtvtnplpptat----sassealawasaqihcqfhasesrvalpppdssqpdvqpdsqtvflphrger 87 (391)
T KOG4469|consen 12 PVFLAGEALECVVTVTNPLPPTAT----SASSEALAWASAQIHCQFHASESRVALPPPDSSQPDVQPDSQTVFLPHRGER 87 (391)
T ss_pred CeeecccceEEEEEecCCCCCccc----ccchhHHHhhhhheeEEeecccceeccCCCCCCCCCCCCCceeEecccCCcc
Confidence 589999999999999999844322 3556788887 99976665555553221 111 12457
Q ss_pred ccEEEeccCcceeeeccccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEE-EEEEeeeeEEeccCccccccccccccc
Q 008822 112 GEFAFLDISASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYV-KSTLSARWLILENGLTQRESKRDLTQV 190 (552)
Q Consensus 112 ge~if~~~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i-~at~~g~~~~~~ng~~~~~s~~~~~~l 190 (552)
|.-|.++.++ ||+||+.|-||++|+|.|.+.||-.-||||||++|+|.|++ ++-+| ++|...+
T Consensus 88 gqcilstppk-ilfcdlrldpgesksysysevlpiegppsfrgqsvkyvykltigcqr------------vnspitl--- 151 (391)
T KOG4469|consen 88 GQCILSTPPK-ILFCDLRLDPGESKSYSYSEVLPIEGPPSFRGQSVKYVYKLTIGCQR------------VNSPITL--- 151 (391)
T ss_pred cceEecCCCc-eEEEEeecCCCccccccceeeeeccCCCccCCceeEEEEEEEeeeEe------------cCCcceE---
Confidence 7788899999 99999999999999999999999999999999999999999 77777 5566666
Q ss_pred ccccceEEEEeccCCCcccccccCCCCCCcccccccccccccCCCcccccccccccccccccccccccccccCCCCCccc
Q 008822 191 EARLPLQIWVTQKGNGLLTEENQNDGIVPATTIQMDIYWKEMDGDSEWSRANDIYDGVEEGYESSRDEISSVSSYNPSKE 270 (552)
Q Consensus 191 ~~RiPi~V~~~q~~~~~~~~~~~~~~~~p~~~~~~~i~w~e~~~~~~~~~a~~~~~~~e~g~~ss~~e~s~~~s~~p~~~ 270 (552)
+|+|+||.+- +-+|. +++.. ++.+.| .
T Consensus 152 -lrvplrvlvl-------------------tglqd-vrfpq------------------------deavap---s----- 178 (391)
T KOG4469|consen 152 -LRVPLRVLVL-------------------TGLQD-VRFPQ------------------------DEAVAP---S----- 178 (391)
T ss_pred -EeeceEEEEE-------------------ecccc-cccCc------------------------ccccCC---C-----
Confidence 9999999433 22121 11100 001111 0
Q ss_pred ccccccCCcccccccccccCCCCCCccccccccc----ccCCcccccccceeccCCCCCccCCcccccccccccccccCC
Q 008822 271 NLLKTFGSSLSLQSSTARSSTKDIPAFEGELMRL----SSNVALPQLSAAEVLYDSSADVISPNKSAAVVSPSQQQKLTK 346 (552)
Q Consensus 271 ~~~~~~g~~l~~~s~~~~~~~~~~p~~~~~r~~~----~~~~~~~~l~~a~~~~d~~~~~~s~~~~~~~~~~~~~~~~~~ 346 (552)
.||+|-..-.. --+++=++| +.-+. |
T Consensus 179 -----------------------spfleedeggkkdswlaelagerl---------------------maats-----c- 208 (391)
T KOG4469|consen 179 -----------------------SPFLEEDEGGKKDSWLAELAGERL---------------------MAATS-----C- 208 (391)
T ss_pred -----------------------CCccccccCCccchHHHHhhhhhh---------------------hhhcc-----c-
Confidence 23322110000 000111111 00000 0
Q ss_pred CCCCCCCCCCCCCCccccccccccCCCcceEEEEeCCEEEEEEEccCCCcceecCCcEEEEEEecCCCCceeEEEEEEEE
Q 008822 347 PADDITGASPSPQAGVVEPAASEGFIRGRSYNIRMDDQVLLRFSPKNSESTYYFSDMIGGTLTFFHEEGARRCLEVLITL 426 (552)
Q Consensus 347 ~~~~~~g~~~~p~~~~l~pqls~g~~~~ksY~I~rng~~VarlsLs~pkpaYrLGEdI~GtlDF~~~~~~irC~qVSvsL 426 (552)
+.-.-|+|+.+..+|+.|-+- |+.|||||||.|++++ .++++.|+|++++|
T Consensus 209 -------------------------rslhlynisdgrgkvgtfgif--ksvyrlgedvvgtlnl--gegtvaclqfsvsl 259 (391)
T KOG4469|consen 209 -------------------------RSLHLYNISDGRGKVGTFGIF--KSVYRLGEDVVGTLNL--GEGTVACLQFSVSL 259 (391)
T ss_pred -------------------------ceeeeEeecCCCccceeeehh--hhhhhcccceeeeeec--CCceEEEEEEEEee
Confidence 235679999999999999996 6899999999999999 57999999999999
Q ss_pred EEeeeecCCccCCCCCC-CCcee-eEEEeeeeeecccceeeEEecCCCCCCCceEeCceeEEEEEEEEEEecCC------
Q 008822 427 ETSETINRWFVHPSRRN-SPTIT-KIQSDHHEVVADLVQTSFLFSIPMDGPMSFSTPYVSVQWALRFEFLTTPK------ 498 (552)
Q Consensus 427 ESeE~Inp~~~~~S~~s-~~~~r-kvhae~hE~cld~~~T~F~L~IP~~aTPqF~Td~VsLkW~LRFEFVts~~------ 498 (552)
+++|.++|+|+.+.+.. .+... -.|+.|+|.|+++.++.|+|+||++.||.|+|.+|+|||+||||||++.+
T Consensus 260 qteervqpeyqrrrgaggvpsvshvtharhqesclhttrtsfslpiplsstpgfctaivslkwrlhfefvtsrepglvll 339 (391)
T KOG4469|consen 260 QTEERVQPEYQRRRGAGGVPSVSHVTHARHQESCLHTTRTSFSLPIPLSSTPGFCTAIVSLKWRLHFEFVTSREPGLVLL 339 (391)
T ss_pred chhhhcChHHHhhccCCCCCcchhhhhhhhhhhhhhcccceeeeccccCCCCccEeeEeeeeeEEEEEEEecCCCCeEec
Confidence 99999999999876554 12222 24999999999999999999999999999999999999999999999854
Q ss_pred -------CccccccCCCCCcCCceEEEEEeeeEEeCCCCCCC
Q 008822 499 -------HVQWTRYEHPLLIEGRDKSEWVLPITVHAPPSGAP 533 (552)
Q Consensus 499 -------~~~wqa~e~~~~l~e~EtF~W~LPItVlPt~P~~~ 533 (552)
.+.|.++|+ + .+++|+|+|||+|+|++|.-+
T Consensus 340 ppveqpepttwtgpeq---v-pvdtfswdlpikvlptsptla 377 (391)
T KOG4469|consen 340 PPVEQPEPTTWTGPEQ---V-PVDTFSWDLPIKVLPTSPTLA 377 (391)
T ss_pred CCcCCCCCccccCCcc---c-cccccccccceeeccCCcchh
Confidence 688999999 8 899999999999999998643
No 3
>PF00339 Arrestin_N: Arrestin (or S-antigen), N-terminal domain; InterPro: IPR011021 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The N-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=98.48 E-value=2.7e-07 Score=81.69 Aligned_cols=117 Identities=22% Similarity=0.292 Sum_probs=68.5
Q ss_pred eeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCC-----CCCccccccEEE
Q 008822 42 LKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPL-----PGSKQRRGEFAF 116 (552)
Q Consensus 42 l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl-----~~skq~rge~if 116 (552)
+.|..++.+|.|||.|+-.|.++... .+.++.|..+++|.+++...-...+..- ....+......+
T Consensus 3 I~ld~~~~~y~~Ge~I~G~V~l~~~~---------~~~i~~i~v~l~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 (149)
T PF00339_consen 3 IELDNPKPVYFPGEVISGKVVLELSK---------PIKIKSIKVRLKGRAKTKWSESKSSGSTFRKQTTPKVQYSEKKEY 73 (149)
T ss_dssp EEES-SEEEEESS--EEEEEEECTTT----------TTTSEEEEEEEEEEEESSSSTTSTTCEEEEEEESTSSS-SSSSS
T ss_pred EEECCCCCEECCCCEEEEEEEEEECC---------ccceeEEEEEEEEEEEEEecCCCcceeeeeeEEecccccccceee
Confidence 34444599999999999999996555 4778999999999999876622211100 001122233344
Q ss_pred eccCcceeee---ccccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEEEEEEe
Q 008822 117 LDISASKLIS---NQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYVKSTLS 168 (552)
Q Consensus 117 ~~~~~~~Lvs---d~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i~at~~ 168 (552)
.+...+++-. ...|.+|. -.|-+.+.||..|||||+|..-+-.|+|+|++.
T Consensus 74 ~~~~~~l~~~~~~~~~l~~G~-~~fpF~f~LP~~lP~S~~~~~g~I~Y~l~a~l~ 127 (149)
T PF00339_consen 74 FDHESQLWGSEDGPNILPPGE-YEFPFEFQLPSNLPSSFEGSHGSIRYKLKATLD 127 (149)
T ss_dssp SHHHHHHHHH--------C-T-TEEEEEE---TTS--SEEEE-SEEEEEEEEEES
T ss_pred ccceeEeeeeccceecccCCC-EEEEEEEECCCCCCceEeccCcCEEEEEEEEEE
Confidence 4333322222 48889994 789999999999999999998888999999994
No 4
>PF02752 Arrestin_C: Arrestin (or S-antigen), C-terminal domain; InterPro: IPR011022 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The C-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=98.38 E-value=4.5e-06 Score=72.42 Aligned_cols=122 Identities=22% Similarity=0.341 Sum_probs=67.0
Q ss_pred eeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCC-ccccccEEEecc
Q 008822 41 TLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGS-KQRRGEFAFLDI 119 (552)
Q Consensus 41 ~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~s-kq~rge~if~~~ 119 (552)
.++++++|..|.|||.|.+.|+|.|.+ ..-++.+.+.+.-....-.+ .+. ..++...++...
T Consensus 6 ~~~~~i~~~~~~~Ge~i~v~v~i~n~s---------~~~i~~I~v~L~~~~~~~~~--------~~~~~~~~~~~~v~~~ 68 (136)
T PF02752_consen 6 SLSISIPRTAYVPGETIPVNVEIDNQS---------KKKIKKIKVSLVERITYKAK--------GGKDESKSEKRVVAKS 68 (136)
T ss_dssp EEEEEES-SEEETT--EEEEEEEEE-S---------SSEEEEEEEEEEEEEEE-SS------------S-EEEEEEEEEE
T ss_pred EEEEEECCCEECCCCEEEEEEEEEECC---------CCEEEEEEEEEEEEEEEEEe--------eccccceEEEEEEEEE
Confidence 478999999999999999999999866 24566666665443322221 110 223333333321
Q ss_pred CcceeeeccccCCCCeeEEE--EEEecCCCCCCCC--ccceEEEEEEEEEEEeeeeEEeccCcccccccccccccccccc
Q 008822 120 SASKLISNQIVSSDATKSYV--IRTELPSIIPPSY--RGTTIRYLYYVKSTLSARWLILENGLTQRESKRDLTQVEARLP 195 (552)
Q Consensus 120 ~~~~Lvsd~~l~~g~tk~y~--vr~~LP~~lPPSy--RG~~vRy~Y~i~at~~g~~~~~~ng~~~~~s~~~~~~l~~RiP 195 (552)
.. . .+.++....|. +.+.||..+|||. .|..|+.-|+|+-+..-. -....+.+++|
T Consensus 69 ~~----~--~~~~~~~~~~~~~~~l~lP~~~~~s~~~~~~~i~v~Y~l~v~~~~~--------------~~~~~~~~~~P 128 (136)
T PF02752_consen 69 KN----C--GVDPGSSGSFEFNIQLQLPSNLPPSTSTNSRLIQVEYQLEVTVKLS--------------GCTSDLRLELP 128 (136)
T ss_dssp EC----C--EB-B-TTEEEEEEEEE-----B-----CGGGSEEEEEEEEEEEEEE--------------TTSEEEEEEEE
T ss_pred ec----C--CccCCCCceEEEEEEEcCCCccCcccccCCcEEEEEEEEEEEEEEC--------------CceeEEEEEcc
Confidence 11 1 11566777777 9999999999998 999999999996665511 12334568999
Q ss_pred eEEE
Q 008822 196 LQIW 199 (552)
Q Consensus 196 i~V~ 199 (552)
|.|.
T Consensus 129 I~I~ 132 (136)
T PF02752_consen 129 ITIG 132 (136)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 9993
No 5
>KOG3780 consensus Thioredoxin binding protein TBP-2/VDUP1 [General function prediction only]
Probab=98.11 E-value=0.0022 Score=67.47 Aligned_cols=133 Identities=18% Similarity=0.168 Sum_probs=85.4
Q ss_pred ceEEEEeCCEEEEEEEccCCCcceecCCcEEEEEEecCCCCceeEEEEEEEEEEeeeecCCccC---CCCCCCCceeeEE
Q 008822 375 RSYNIRMDDQVLLRFSPKNSESTYYFSDMIGGTLTFFHEEGARRCLEVLITLETSETINRWFVH---PSRRNSPTITKIQ 451 (552)
Q Consensus 375 ksY~I~rng~~VarlsLs~pkpaYrLGEdI~GtlDF~~~~~~irC~qVSvsLESeE~Inp~~~~---~S~~s~~~~rkvh 451 (552)
..+..-.+|..+..+.+. +.+|..||.|...+++.+. ....+..+.+.|-..+.....-.. ..........+ +
T Consensus 178 ~~~~~~~~g~v~~~~~ip--~~~~~~ge~i~~~~~i~n~-ss~~~~~~~~~l~q~~~~~~~~~~~~~~~~~~~~~~~~-~ 253 (427)
T KOG3780|consen 178 LGCVCFSSGPVSLELTIP--KTGYVPGETIPVTLEIENK-SSRTIKKVKAKLIQKISYLAFSYGEHTKTKKSEKTLIK-S 253 (427)
T ss_pred eeEEEecCCcEEEEEEcc--cccCcCCccEEEEEEEecC-CCCcceeeEEEEEEEEEEEeecCCccccceeeeeEEee-e
Confidence 344577788888889994 7899999999999999753 677777777777776665432210 01000111111 2
Q ss_pred Eeeeeeeccccee-eEEecCCCCCCCceE--eCceeEEEEEEEEEEecCCCccccccCCCCCcCCceEEEEEeeeEEe
Q 008822 452 SDHHEVVADLVQT-SFLFSIPMDGPMSFS--TPYVSVQWALRFEFLTTPKHVQWTRYEHPLLIEGRDKSEWVLPITVH 526 (552)
Q Consensus 452 ae~hE~cld~~~T-~F~L~IP~~aTPqF~--Td~VsLkW~LRFEFVts~~~~~wqa~e~~~~l~e~EtF~W~LPItVl 526 (552)
.....+....... ...|.||... |+|. +.++++.-.|++.+.+... + .....+.+||.|.
T Consensus 254 ~~~~~v~~~~~~~~~~~~~iP~~~-Ps~~~~~~~i~v~y~l~v~~~~~~~---~-----------~~~~~l~~pi~ig 316 (427)
T KOG3780|consen 254 RGSLEVAPRSEDKFEKELRIPPVP-PSILPDTPIIRVEYELKVTLKTSSL---R-----------HSELALELPIIIG 316 (427)
T ss_pred ccccccCCCCccccceEEEcCCCC-CccCCCCceEEEEEEEEEEEecCcc---c-----------ccceeeeeceEEe
Confidence 2333344433333 5666689888 4666 6999999999999998652 1 2234566788887
No 6
>PF02752 Arrestin_C: Arrestin (or S-antigen), C-terminal domain; InterPro: IPR011022 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The C-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=97.81 E-value=0.0012 Score=57.38 Aligned_cols=127 Identities=13% Similarity=0.171 Sum_probs=77.2
Q ss_pred CCEEEEEEEccCCCcceecCCcEEEEEEecCCCCceeEEEEEEEEEEeeeecCCccCCCCCCCCceeeEEEeeeeeec--
Q 008822 382 DDQVLLRFSPKNSESTYYFSDMIGGTLTFFHEEGARRCLEVLITLETSETINRWFVHPSRRNSPTITKIQSDHHEVVA-- 459 (552)
Q Consensus 382 ng~~VarlsLs~pkpaYrLGEdI~GtlDF~~~~~~irC~qVSvsLESeE~Inp~~~~~S~~s~~~~rkvhae~hE~cl-- 459 (552)
+|..-+.+.+. |.+|..||+|...+++. +....++.++.++|.-.-.+...-... ......++.++++..-.
T Consensus 2 ~g~i~~~~~i~--~~~~~~Ge~i~v~v~i~-n~s~~~i~~I~v~L~~~~~~~~~~~~~---~~~~~~~~v~~~~~~~~~~ 75 (136)
T PF02752_consen 2 SGKISLSISIP--RTAYVPGETIPVNVEID-NQSKKKIKKIKVSLVERITYKAKGGKD---ESKSEKRVVAKSKNCGVDP 75 (136)
T ss_dssp TEEEEEEEEES---SEEETT--EEEEEEEE-E-SSSEEEEEEEEEEEEEEE-SS-------S-EEEEEEEEEEECCEB-B
T ss_pred CCEEEEEEEEC--CCEECCCCEEEEEEEEE-ECCCCEEEEEEEEEEEEEEEEEeeccc---cceEEEEEEEEEecCCccC
Confidence 56666777774 78999999999999998 468899999999997766654432111 12334445555333222
Q ss_pred -cccee--eEEecCCCCCCCce--EeCceeEEEEEEEEEEecCCCccccccCCCCCcCCceEEEEEeeeEEeCCC
Q 008822 460 -DLVQT--SFLFSIPMDGPMSF--STPYVSVQWALRFEFLTTPKHVQWTRYEHPLLIEGRDKSEWVLPITVHAPP 529 (552)
Q Consensus 460 -d~~~T--~F~L~IP~~aTPqF--~Td~VsLkW~LRFEFVts~~~~~wqa~e~~~~l~e~EtF~W~LPItVlPt~ 529 (552)
....- .+.|.+|.+.+|++ ..++++++..|++++.+.. ....+.+.+||+|...+
T Consensus 76 ~~~~~~~~~~~l~lP~~~~~s~~~~~~~i~v~Y~l~v~~~~~~---------------~~~~~~~~~PI~I~~~p 135 (136)
T PF02752_consen 76 GSSGSFEFNIQLQLPSNLPPSTSTNSRLIQVEYQLEVTVKLSG---------------CTSDLRLELPITIGSSP 135 (136)
T ss_dssp -TTEEEEEEEEE-----B-----CGGGSEEEEEEEEEEEEEET---------------TSEEEEEEEEEEEEB-S
T ss_pred CCCceEEEEEEEcCCCccCcccccCCcEEEEEEEEEEEEEECC---------------ceeEEEEEccEEEEecC
Confidence 12212 37899999999988 6789999999999999862 25678899999998554
No 7
>PF00339 Arrestin_N: Arrestin (or S-antigen), N-terminal domain; InterPro: IPR011021 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The N-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=96.32 E-value=0.0046 Score=54.74 Aligned_cols=105 Identities=13% Similarity=0.209 Sum_probs=60.6
Q ss_pred EEEccCCCcceecCCcEEEEEEecCCCCceeEEEEEEEEEEeeeecCCccCCCCCC-------------CCcee----eE
Q 008822 388 RFSPKNSESTYYFSDMIGGTLTFFHEEGARRCLEVLITLETSETINRWFVHPSRRN-------------SPTIT----KI 450 (552)
Q Consensus 388 rlsLs~pkpaYrLGEdI~GtlDF~~~~~~irC~qVSvsLESeE~Inp~~~~~S~~s-------------~~~~r----kv 450 (552)
.+.|.++++.|..||.|.|.+.+.. ...+++-.+.+.|.-.+.+.-......... ....- .+
T Consensus 2 ~I~ld~~~~~y~~Ge~I~G~V~l~~-~~~~~i~~i~v~l~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (149)
T PF00339_consen 2 EIELDNPKPVYFPGEVISGKVVLEL-SKPIKIKSIKVRLKGRAKTKWSESKSSGSTFRKQTTPKVQYSEKKEYFDHESQL 80 (149)
T ss_dssp EEEES-SEEEEESS--EEEEEEECT-TT-TTTSEEEEEEEEEEEESSSSTTSTTCEEEEEEESTSSS-SSSSSSHHHHHH
T ss_pred EEEECCCCCEECCCCEEEEEEEEEE-CCccceeEEEEEEEEEEEEEecCCCcceeeeeeEEecccccccceeeccceeEe
Confidence 4667667899999999999999963 567888889999999998753322111100 00000 00
Q ss_pred EEe-eeeee--cccceeeEEecCCCCCCCceEeCceeEEEEEEEEE
Q 008822 451 QSD-HHEVV--ADLVQTSFLFSIPMDGPMSFSTPYVSVQWALRFEF 493 (552)
Q Consensus 451 hae-~hE~c--ld~~~T~F~L~IP~~aTPqF~Td~VsLkW~LRFEF 493 (552)
+.. ....+ .....-+|.+.+|.+.+++|.....+++|.|+-..
T Consensus 81 ~~~~~~~~~l~~G~~~fpF~f~LP~~lP~S~~~~~g~I~Y~l~a~l 126 (149)
T PF00339_consen 81 WGSEDGPNILPPGEYEFPFEFQLPSNLPSSFEGSHGSIRYKLKATL 126 (149)
T ss_dssp HHH--------C-TTEEEEEE---TTS--SEEEE-SEEEEEEEEEE
T ss_pred eeeccceecccCCCEEEEEEEECCCCCCceEeccCcCEEEEEEEEE
Confidence 000 00122 23344599999999999999998889999998886
No 8
>PF07070 Spo0M: SpoOM protein; InterPro: IPR009776 This family consists of several bacterial SpoOM proteins which are thought to control sporulation in Bacillus subtilis.Spo0M exerts certain negative effects on sporulation and its gene expression is controlled by sigmaH [].
Probab=95.94 E-value=0.059 Score=54.10 Aligned_cols=97 Identities=16% Similarity=0.171 Sum_probs=70.3
Q ss_pred CeeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEecc
Q 008822 40 PTLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDI 119 (552)
Q Consensus 40 ~~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~ 119 (552)
++++..|++.-|+|||.|+-+|.|..-.- ...|+.|...+..-=+. ..+.+..+.++.|..-
T Consensus 13 akVDT~L~~~~~~pGe~v~G~V~i~GG~v--------~Q~I~~I~l~L~t~~~~----------e~~d~~~~~~~~~~~~ 74 (218)
T PF07070_consen 13 AKVDTVLEKPSVRPGETVRGEVHIKGGSV--------DQEIDRIYLELVTRYEV----------ESDDKEYTQEVELARV 74 (218)
T ss_pred ceEEEEECCCCccCCCEEEEEEEEEeCCc--------ceEEeEEEEEEEEEEEE----------ecCCCeEEEEEEEEEE
Confidence 58999999999999999999999987651 35677777775542111 1122233455555432
Q ss_pred CcceeeeccccCCCCeeEEEEEEecCCCCCCCCccceE
Q 008822 120 SASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTI 157 (552)
Q Consensus 120 ~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~v 157 (552)
. +.....|.||+.|.+=+.+.||-.+|-|-.|..+
T Consensus 75 ~---v~~~f~I~~ge~~~iPF~~~lP~etPiT~~~~~v 109 (218)
T PF07070_consen 75 R---VSGPFTIEPGEEKEIPFSFPLPWETPITEGGMRV 109 (218)
T ss_pred E---eCCCEEECCCCEEEEeEEEECCCCCCccCCCcEE
Confidence 2 4556788999999999999999999999976653
No 9
>PF01835 A2M_N: MG2 domain; InterPro: IPR002890 The proteinase-binding alpha-macroglobulins (A2M) [] are large glycoproteins found in the plasma of vertebrates, in the hemolymph of some invertebrates and in reptilian and avian egg white. A2M-like proteins are able to inhibit all four classes of proteinases by a 'trapping' mechanism. They have a peptide stretch, called the 'bait region', which contains specific cleavage sites for different proteinases. When a proteinase cleaves the bait region, a conformational change is induced in the protein, thus trapping the proteinase. The entrapped enzyme remains active against low molecular weight substrates, whilst its activity toward larger substrates is greatly reduced, due to steric hindrance. Following cleavage in the bait region, a thiol ester bond, formed between the side chains of a cysteine and a glutamine, is cleaved and mediates the covalent binding of the A2M-like protein to the proteinase. This family includes the N-terminal region of the alpha-2-macroglobulin family. The inhibitor domains belong to MEROPS inhibitor family I39.; GO: 0004866 endopeptidase inhibitor activity; PDB: 2B39_B 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 4ACQ_C 2P9R_B ....
Probab=92.69 E-value=0.61 Score=39.68 Aligned_cols=26 Identities=31% Similarity=0.533 Sum_probs=21.4
Q ss_pred eeeeecceeeeCCCeEEEEEEEecCC
Q 008822 42 LKLQTDKNVYTPGDTVFVTVEICNPL 67 (552)
Q Consensus 42 l~l~~dk~vY~PGd~V~~~Iei~~~~ 67 (552)
+-+++||.+|||||.|.+.+-+-+..
T Consensus 2 ~~i~TDr~iYrPGetV~~~~~~~~~~ 27 (99)
T PF01835_consen 2 IFIQTDRPIYRPGETVHFRAIVRDLD 27 (99)
T ss_dssp EEEEESSSEE-TTSEEEEEEEEEEEC
T ss_pred EEEECCccCcCCCCEEEEEEEEeccc
Confidence 45899999999999999998876665
No 10
>KOG3780 consensus Thioredoxin binding protein TBP-2/VDUP1 [General function prediction only]
Probab=88.82 E-value=3.3 Score=43.86 Aligned_cols=111 Identities=23% Similarity=0.246 Sum_probs=68.9
Q ss_pred CCCeeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEe
Q 008822 38 VLPTLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFL 117 (552)
Q Consensus 38 ~~~~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~ 117 (552)
..-.+++++.+..|.|||.|...++|-|-. +--+..+..+++=.+..-.. ..-..-+.+..++.-.
T Consensus 186 g~v~~~~~ip~~~~~~ge~i~~~~~i~n~s---------s~~~~~~~~~l~q~~~~~~~-----~~~~~~~~~~~~~~~~ 251 (427)
T KOG3780|consen 186 GPVSLELTIPKTGYVPGETIPVTLEIENKS---------SRTIKKVKAKLIQKISYLAF-----SYGEHTKTKKSEKTLI 251 (427)
T ss_pred CcEEEEEEcccccCcCCccEEEEEEEecCC---------CCcceeeEEEEEEEEEEEee-----cCCccccceeeeeEEe
Confidence 445789999999999999999999999983 12233333332221111000 0000011122222211
Q ss_pred ccCcceeeeccccCCCCeeEEEEEEecCCCCCCCCc--cceEEEEEEEEEEEe
Q 008822 118 DISASKLISNQIVSSDATKSYVIRTELPSIIPPSYR--GTTIRYLYYVKSTLS 168 (552)
Q Consensus 118 ~~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyR--G~~vRy~Y~i~at~~ 168 (552)
- ..-+..+.++....|...+++|..+| ++. ...|+.-|-|+..+.
T Consensus 252 ~-----~~~~~~v~~~~~~~~~~~~~iP~~~P-s~~~~~~~i~v~y~l~v~~~ 298 (427)
T KOG3780|consen 252 K-----SRGSLEVAPRSEDKFEKELRIPPVPP-SILPDTPIIRVEYELKVTLK 298 (427)
T ss_pred e-----eccccccCCCCccccceEEEcCCCCC-ccCCCCceEEEEEEEEEEEe
Confidence 1 22234458899999999999999996 888 488888888877765
No 11
>PF08737 Rgp1: Rgp1; InterPro: IPR014848 Rgp1 forms heterodimer with Ric1 (IPR009771 from INTERPRO) which associates with Golgi membranes and functions as a guanyl-nucleotide exchange factor [].
Probab=84.82 E-value=6.1 Score=43.13 Aligned_cols=103 Identities=10% Similarity=0.216 Sum_probs=68.6
Q ss_pred eeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEeccC
Q 008822 41 TLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDIS 120 (552)
Q Consensus 41 ~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~~ 120 (552)
-.++.+.|..|+-||.|..+|+|.+.. . .-+-.++..+-..|++++.+-. +. .++.++--+.+..+..
T Consensus 305 va~~~LsK~~yrlGE~I~g~idf~~~~-~--------~~c~~v~~~LEs~E~v~~~~~~-~~--~~~~~~~~~~~~~~~~ 372 (415)
T PF08737_consen 305 VARLSLSKPAYRLGEDIVGTIDFNDAS-T--------IPCYQVSASLESEETVNPSYAV-RS--SAKINRVTRKVHAEHH 372 (415)
T ss_pred EEEEEecCCCcccCCeEEEEEEcCCCC-c--------ceeEEEEEEEEEEEEeCchhcc-cc--cccccccEEEEEEEEe
Confidence 357888999999999999999998776 1 3344566677888888888511 10 1121222233333332
Q ss_pred cceeeeccccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEE
Q 008822 121 ASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYV 163 (552)
Q Consensus 121 ~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i 163 (552)
. +..+....-.+.+.+|...+|+|+=..|..=|+|
T Consensus 373 e--------~~~~~~~~~~f~l~IP~~~tp~F~T~~v~lkW~L 407 (415)
T PF08737_consen 373 E--------ICLDSRSRTSFSLPIPLSATPQFQTSGVSLKWRL 407 (415)
T ss_pred e--------eecCCcceEEEEeeCCCCCCCceEeCCEEEEEEE
Confidence 2 1122222557889999999999998888877776
No 12
>PF03643 Vps26: Vacuolar protein sorting-associated protein 26 ; InterPro: IPR005377 The movement of lipid and protein components between intracellular organelles requires the regulated interactions of many molecules. Vacuolar protein sorting-associated protein (Vps)5 is a yeast protein that is a subunit of a large multimeric complex, termed the retromer complex, involved in retrograde transport of proteins from endosomes to the trans-Golgi network. Sorting nexin (SNX) 1 and SNX2 are its mammalian orthologs []. To carry out its biological functions, Vps5 forms the retromer complex with at least four other proteins: Vps17, Vps26, Vps29, and Vps35 []. This family of Vps26-proteins also contains Down syndrome critical region 3/A.; GO: 0007034 vacuolar transport, 0030904 retromer complex; PDB: 3LHA_A 3LH9_A 2R51_A 3LH8_B 2FAU_A.
Probab=83.41 E-value=5.7 Score=41.37 Aligned_cols=97 Identities=16% Similarity=0.222 Sum_probs=55.6
Q ss_pred EEEccCCCcceecCCcEEEEEEecCCCCceeEEEEEEEEEEeeeecCCccCCCCCCCCceeeEEEeeeeeecccc----e
Q 008822 388 RFSPKNSESTYYFSDMIGGTLTFFHEEGARRCLEVLITLETSETINRWFVHPSRRNSPTITKIQSDHHEVVADLV----Q 463 (552)
Q Consensus 388 rlsLs~pkpaYrLGEdI~GtlDF~~~~~~irC~qVSvsLESeE~Inp~~~~~S~~s~~~~rkvhae~hE~cld~~----~ 463 (552)
.+.+. |+.|.|.|.|.|.+.|- -..++...+-+.|-.-|++-. ..+...-.+ --...|+.-... .
T Consensus 169 ef~~~--k~~~~l~d~i~G~i~f~--lv~~kIk~~elqLiR~Et~g~------~~~~~~e~t-~i~~~eImDG~p~rge~ 237 (275)
T PF03643_consen 169 EFEYD--KSKYHLKDVITGKIYFL--LVRIKIKSMELQLIRVETCGC------GENYAKEST-EIQKIEIMDGAPCRGES 237 (275)
T ss_dssp EEEES---SEEETT-EEEEEEEEE--EESS-EEEEEEEEEEEEEECE------CCCEEEEEE-EEEEEEEESS---TT-E
T ss_pred EEEEc--ccceECCCCEEEEEEEE--EEeecceEEEEEEEEEEEEec------CCcccccce-EEEEEEeecCCccccce
Confidence 44454 67899999999999995 356888888888888888732 011000011 112233333222 2
Q ss_pred eeEEecCC-CCCCCceEe--CceeEEEEEEEEEEe
Q 008822 464 TSFLFSIP-MDGPMSFST--PYVSVQWALRFEFLT 495 (552)
Q Consensus 464 T~F~L~IP-~~aTPqF~T--d~VsLkW~LRFEFVt 495 (552)
-+|.|-+| +..||++.| +.|+++..|++-.|.
T Consensus 238 IPirl~l~~l~l~Pt~~~~~~~FsV~y~lnlvlid 272 (275)
T PF03643_consen 238 IPIRLFLPRLFLCPTYKNVNNKFSVEYELNLVLID 272 (275)
T ss_dssp EEEEEECCCT-----EEEECTTEEEEEEEEEEEEE
T ss_pred eeEEEEcCCcccCCcchhcCCcEEEEEEEEEEEEc
Confidence 26655554 567999995 679999999987765
No 13
>PF07070 Spo0M: SpoOM protein; InterPro: IPR009776 This family consists of several bacterial SpoOM proteins which are thought to control sporulation in Bacillus subtilis.Spo0M exerts certain negative effects on sporulation and its gene expression is controlled by sigmaH [].
Probab=80.33 E-value=10 Score=38.35 Aligned_cols=100 Identities=11% Similarity=0.121 Sum_probs=60.6
Q ss_pred CcceecCCcEEEEEEecCCCCceeEEEEEEEEEEeeeecCCccCCCCC-CCCceee-EEEeeeeeeccccee-eEEecCC
Q 008822 395 ESTYYFSDMIGGTLTFFHEEGARRCLEVLITLETSETINRWFVHPSRR-NSPTITK-IQSDHHEVVADLVQT-SFLFSIP 471 (552)
Q Consensus 395 kpaYrLGEdI~GtlDF~~~~~~irC~qVSvsLESeE~Inp~~~~~S~~-s~~~~rk-vhae~hE~cld~~~T-~F~L~IP 471 (552)
++.|+.||+|.|++.+...+..-++-++.+.|.+.=..... +... ....+-+ ..++-..+=.+..+. +|.++||
T Consensus 21 ~~~~~pGe~v~G~V~i~GG~v~Q~I~~I~l~L~t~~~~e~~---d~~~~~~~~~~~~~v~~~f~I~~ge~~~iPF~~~lP 97 (218)
T PF07070_consen 21 KPSVRPGETVRGEVHIKGGSVDQEIDRIYLELVTRYEVESD---DKEYTQEVELARVRVSGPFTIEPGEEKEIPFSFPLP 97 (218)
T ss_pred CCCccCCCEEEEEEEEEeCCcceEEeEEEEEEEEEEEEecC---CCeEEEEEEEEEEEeCCCEEECCCCEEEEeEEEECC
Confidence 57999999999999997545566777888888775333211 0000 0011111 011222222333333 9999999
Q ss_pred CCCCCceEeCceeEEEEEEEEEEecC
Q 008822 472 MDGPMSFSTPYVSVQWALRFEFLTTP 497 (552)
Q Consensus 472 ~~aTPqF~Td~VsLkW~LRFEFVts~ 497 (552)
.+.+-+-....|.|+=.|.++.-+-+
T Consensus 98 ~etPiT~~~~~v~l~T~LdI~~avD~ 123 (218)
T PF07070_consen 98 WETPITEGGMRVWLRTGLDIAGAVDP 123 (218)
T ss_pred CCCCccCCCcEEEEEEEEEeCCCCCC
Confidence 99888776666777777766655543
No 14
>KOG3865 consensus Arrestin [Signal transduction mechanisms]
Probab=75.49 E-value=19 Score=38.90 Aligned_cols=113 Identities=23% Similarity=0.280 Sum_probs=68.9
Q ss_pred eeeeeecceeeeCCCeEEEEEEEecCCCCCCc----ccch---hhhh------ccceEE-EEEEEeccCccee----ecC
Q 008822 41 TLKLQTDKNVYTPGDTVFVTVEICNPLSSGDN----AVLS---SLLI------ESLSFE-IKGIQKLDSQWFA----TQK 102 (552)
Q Consensus 41 ~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~----~~~~---s~l~------e~Ls~e-i~g~ek~D~q~~~----~~~ 102 (552)
.|.++|||++|-=||.+-|.|.+.|-++-.-. +..+ ..|+ .-++++ ..--|.+.+.--- +-+
T Consensus 196 hLevsLDkEiYyHGE~isvnV~V~NNsnKtVKkIK~~V~Q~adi~Lfs~aqy~~~VA~~E~~eGc~v~Pgstl~Kvf~l~ 275 (402)
T KOG3865|consen 196 HLEVSLDKEIYYHGEPISVNVHVTNNSNKTVKKIKISVRQVADICLFSTAQYKKPVAMEETDEGCPVAPGSTLSKVFTLT 275 (402)
T ss_pred EEEEEecchheecCCceeEEEEEecCCcceeeeeEEEeEeeceEEEEecccccceeeeeecccCCccCCCCeeeeeEEec
Confidence 48899999999999999999999998832110 0000 0111 111110 0001122221000 022
Q ss_pred C-CCCCccccccEEEe---ccCcceeeeccccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEEEEEEe
Q 008822 103 P-LPGSKQRRGEFAFL---DISASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYVKSTLS 168 (552)
Q Consensus 103 p-l~~skq~rge~if~---~~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i~at~~ 168 (552)
| |...++|||=-+=- .+-+ -|+|--+|..|+.|.-. |+-|-|--+||.++.
T Consensus 276 PllanN~dkrGlALDG~lKhEDt-nLASSTii~~~~~re~l--------------GI~VsY~VkVkL~vs 330 (402)
T KOG3865|consen 276 PLLANNKDKRGLALDGKLKHEDT-NLASSTIIREGADREAL--------------GILVSYKVKVKLVVS 330 (402)
T ss_pred hhhhcCccccccccccccccccc-ccchhheecCCCCccee--------------EEEEEEEEEEEEEEe
Confidence 3 66778888854322 4445 49999999999999988 998888777777765
No 15
>PF13199 Glyco_hydro_66: Glycosyl hydrolase family 66; PDB: 3VMO_A 3VMN_A 3VMP_A.
Probab=62.63 E-value=5 Score=45.68 Aligned_cols=25 Identities=40% Similarity=0.583 Sum_probs=16.7
Q ss_pred eecceeeeCCCeEEEEEEEecCCCC
Q 008822 45 QTDKNVYTPGDTVFVTVEICNPLSS 69 (552)
Q Consensus 45 ~~dk~vY~PGd~V~~~Iei~~~~~~ 69 (552)
++||+.|+|||.|+++|++.|....
T Consensus 1 ~tDKA~Y~PGe~V~l~~~~~~~~~~ 25 (559)
T PF13199_consen 1 TTDKARYRPGEKVTLTASLKNTTGS 25 (559)
T ss_dssp EES-SSB-TTS-EEEE-EEE--SSS
T ss_pred CCCcceeCCCCeEEEEEEeccCccc
Confidence 5899999999999999999998643
No 16
>TIGR01451 B_ant_repeat conserved repeat domain. This model represents the conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis, and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydial outer membrane proteins.
Probab=57.14 E-value=10 Score=29.89 Aligned_cols=24 Identities=38% Similarity=0.426 Sum_probs=21.3
Q ss_pred eecceeeeCCCeEEEEEEEecCCC
Q 008822 45 QTDKNVYTPGDTVFVTVEICNPLS 68 (552)
Q Consensus 45 ~~dk~vY~PGd~V~~~Iei~~~~~ 68 (552)
+.|++.+.|||.|+-+|.+.|...
T Consensus 2 t~d~~~~~~Gd~v~Yti~v~N~g~ 25 (53)
T TIGR01451 2 TVDKTVATIGDTITYTITVTNNGN 25 (53)
T ss_pred ccCccccCCCCEEEEEEEEEECCC
Confidence 468889999999999999999873
No 17
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=57.00 E-value=52 Score=28.55 Aligned_cols=85 Identities=20% Similarity=0.282 Sum_probs=49.0
Q ss_pred CeeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEecc
Q 008822 40 PTLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDI 119 (552)
Q Consensus 40 ~~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~ 119 (552)
|++++++..++. -|+-+.+.|.|.|+... .+.++...+++.-.. -+|... ++
T Consensus 1 p~~~i~~~~~~~-vG~d~~v~v~~~N~~~~---------~l~~v~~~l~~~~v~----------ytG~~~--------~~ 52 (107)
T PF00927_consen 1 PEIKIKLPGDPV-VGQDFTVSVSFTNPSSE---------PLRNVSLNLCAFTVE----------YTGLTR--------DQ 52 (107)
T ss_dssp EEEEEEEESEEB-TTSEEEEEEEEEE-SSS----------EECEEEEEEEEEEE----------CTTTEE--------EE
T ss_pred CeEEEEECCCcc-CCCCEEEEEEEEeCCcC---------ccccceeEEEEEEEE----------ECCccc--------cc
Confidence 788999987877 89999999999999933 344533333221100 033311 11
Q ss_pred CcceeeeccccCCCCeeEEEEEEecCCCCCCCC--ccceEE
Q 008822 120 SASKLISNQIVSSDATKSYVIRTELPSIIPPSY--RGTTIR 158 (552)
Q Consensus 120 ~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSy--RG~~vR 158 (552)
.. ...-...|.||+++++.+++. |-.| |...+-
T Consensus 53 ~~-~~~~~~~l~p~~~~~~~~~i~-----p~~yG~~~~l~~ 87 (107)
T PF00927_consen 53 FK-KEKFEVTLKPGETKSVEVTIT-----PSQYGPKQLLVD 87 (107)
T ss_dssp EE-EEEEEEEE-TTEEEEEEEEE------HHSHEEECCEEE
T ss_pred Ee-EEEcceeeCCCCEEEEEEEEE-----ceeEecchhcch
Confidence 11 234455679999999887753 4445 444444
No 18
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=54.84 E-value=11 Score=33.37 Aligned_cols=26 Identities=19% Similarity=0.436 Sum_probs=22.8
Q ss_pred CCCeeeeeecceeeeCCCeEEEEEEE
Q 008822 38 VLPTLKLQTDKNVYTPGDTVFVTVEI 63 (552)
Q Consensus 38 ~~~~l~l~~dk~vY~PGd~V~~~Iei 63 (552)
..-+++++.+++.|+|||.|++.|+.
T Consensus 93 ~~~~v~l~~~~~~~~Pg~~~~~~i~~ 118 (136)
T PF07703_consen 93 FELKVELTASPDEYKPGEEVTLRIKA 118 (136)
T ss_dssp GSSSEEEEESSSSBTTTSEEEEEEEE
T ss_pred ccceEEEEEecceeCCCCEEEEEEEe
Confidence 45578889999999999999999987
No 19
>PF01835 A2M_N: MG2 domain; InterPro: IPR002890 The proteinase-binding alpha-macroglobulins (A2M) [] are large glycoproteins found in the plasma of vertebrates, in the hemolymph of some invertebrates and in reptilian and avian egg white. A2M-like proteins are able to inhibit all four classes of proteinases by a 'trapping' mechanism. They have a peptide stretch, called the 'bait region', which contains specific cleavage sites for different proteinases. When a proteinase cleaves the bait region, a conformational change is induced in the protein, thus trapping the proteinase. The entrapped enzyme remains active against low molecular weight substrates, whilst its activity toward larger substrates is greatly reduced, due to steric hindrance. Following cleavage in the bait region, a thiol ester bond, formed between the side chains of a cysteine and a glutamine, is cleaved and mediates the covalent binding of the A2M-like protein to the proteinase. This family includes the N-terminal region of the alpha-2-macroglobulin family. The inhibitor domains belong to MEROPS inhibitor family I39.; GO: 0004866 endopeptidase inhibitor activity; PDB: 2B39_B 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 4ACQ_C 2P9R_B ....
Probab=52.15 E-value=1.5e+02 Score=25.14 Aligned_cols=75 Identities=12% Similarity=0.081 Sum_probs=37.6
Q ss_pred CCcceecCCcEEEEEEecCCCC---ceeEEEEEEEEEEeeeecCCccCCCCCCCCceeeEEEeeee-eecccceeeEEec
Q 008822 394 SESTYYFSDMIGGTLTFFHEEG---ARRCLEVLITLETSETINRWFVHPSRRNSPTITKIQSDHHE-VVADLVQTSFLFS 469 (552)
Q Consensus 394 pkpaYrLGEdI~GtlDF~~~~~---~irC~qVSvsLESeE~Inp~~~~~S~~s~~~~rkvhae~hE-~cld~~~T~F~L~ 469 (552)
-|+.||.||+|...+-+...++ ...-..+++.|.. |. .+...+... .....-...+.+.
T Consensus 7 Dr~iYrPGetV~~~~~~~~~~~~~~~~~~~~~~v~i~d-----p~------------g~~v~~~~~~~~~~~G~~~~~~~ 69 (99)
T PF01835_consen 7 DRPIYRPGETVHFRAIVRDLDNDFKPPANSPVTVTIKD-----PS------------GNEVFRWSVNTTNENGIFSGSFQ 69 (99)
T ss_dssp SSSEE-TTSEEEEEEEEEEECTTCSCESSEEEEEEEEE-----TT------------SEEEEEEEEEETTCTTEEEEEEE
T ss_pred CccCcCCCCEEEEEEEEeccccccccccCCceEEEEEC-----CC------------CCEEEEEEeeeeCCCCEEEEEEE
Confidence 4899999999988776543222 2223344444443 21 111222222 2334445588899
Q ss_pred CCCCCCCceEeCceeEEEEEEEEE
Q 008822 470 IPMDGPMSFSTPYVSVQWALRFEF 493 (552)
Q Consensus 470 IP~~aTPqF~Td~VsLkW~LRFEF 493 (552)
||.++... .|.|+++.
T Consensus 70 lp~~~~~G--------~y~i~~~~ 85 (99)
T PF01835_consen 70 LPDDAPLG--------TYTIRVKT 85 (99)
T ss_dssp --SS---E--------EEEEEEEE
T ss_pred CCCCCCCE--------eEEEEEEE
Confidence 99887433 57777664
No 20
>PF13002 LDB19: Arrestin_N terminal like; InterPro: IPR024391 This entry represents a predicted Ig-like beta sandwich domain found towards the N terminus of protein LDB19 []. It is also found in other sequences and is related to the arrestin N-terminal fold [].
Probab=52.10 E-value=49 Score=33.20 Aligned_cols=44 Identities=14% Similarity=0.286 Sum_probs=36.7
Q ss_pred eeeccccCCCCeeEEEEEEecCCCCCCCCc---cceEEEEEEEEEEEe
Q 008822 124 LISNQIVSSDATKSYVIRTELPSIIPPSYR---GTTIRYLYYVKSTLS 168 (552)
Q Consensus 124 Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyR---G~~vRy~Y~i~at~~ 168 (552)
|-.-..|..|. .+|=+..-||..||+|-. +..+..-|+++|+..
T Consensus 41 l~~~t~l~~G~-h~fPFS~LiPG~LPaS~~lgs~~l~~I~Yel~A~a~ 87 (191)
T PF13002_consen 41 LTHPTTLTKGS-HAFPFSYLIPGHLPASMDLGSTPLVSIKYELKAEAT 87 (191)
T ss_pred ecCccccCCCc-ccCCeeEECCCCCccccccCCCCcEEEEEEEEEEEE
Confidence 34444578885 999999999999999999 888889999977665
No 21
>PF03643 Vps26: Vacuolar protein sorting-associated protein 26 ; InterPro: IPR005377 The movement of lipid and protein components between intracellular organelles requires the regulated interactions of many molecules. Vacuolar protein sorting-associated protein (Vps)5 is a yeast protein that is a subunit of a large multimeric complex, termed the retromer complex, involved in retrograde transport of proteins from endosomes to the trans-Golgi network. Sorting nexin (SNX) 1 and SNX2 are its mammalian orthologs []. To carry out its biological functions, Vps5 forms the retromer complex with at least four other proteins: Vps17, Vps26, Vps29, and Vps35 []. This family of Vps26-proteins also contains Down syndrome critical region 3/A.; GO: 0007034 vacuolar transport, 0030904 retromer complex; PDB: 3LHA_A 3LH9_A 2R51_A 3LH8_B 2FAU_A.
Probab=52.01 E-value=1.5e+02 Score=31.04 Aligned_cols=96 Identities=22% Similarity=0.341 Sum_probs=51.5
Q ss_pred eeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEE-EeccCcceeecCCCCCCccccccEEEeccCcceeeec
Q 008822 49 NVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGI-QKLDSQWFATQKPLPGSKQRRGEFAFLDISASKLISN 127 (552)
Q Consensus 49 ~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~-ek~D~q~~~~~~pl~~skq~rge~if~~~~~~~Lvsd 127 (552)
-+|.+||.|.=.|.|..+.+. .+--+.+.+++.|. |-...+ .+..+ |..... -|+.-
T Consensus 33 ~iY~~gE~V~G~V~I~~~~gk-------~~~H~GI~l~lvG~ie~~~~~------------~k~~~--f~~~~~-eL~~~ 90 (275)
T PF03643_consen 33 PIYSDGETVSGKVVITSKPGK-------SLEHQGIKLELVGQIEAFYDS------------GKPIE--FLSLSI-ELAPP 90 (275)
T ss_dssp EEEETC--EEEEEEEEESSTS--------EEES-EEEEEEEEEEEGCCT------------T-EEE--EEEEEE-EEE-S
T ss_pred ceEcCCCEEEEEEEEEECCCC-------ceEEeeEEEEEEEeEeEeccC------------CCceE--eEEeeE-EEcCC
Confidence 699999999999999888721 23345667776663 322221 12222 333333 23333
Q ss_pred cccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEEEEEEe
Q 008822 128 QIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYVKSTLS 168 (552)
Q Consensus 128 ~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i~at~~ 168 (552)
=.|..|.+ |-+.|.+-.--=.||+|..||.-|+|+++..
T Consensus 91 G~l~~~~t--~pFeF~~~~k~yETY~G~~v~i~Y~lrv~v~ 129 (275)
T PF03643_consen 91 GKLPEGKT--FPFEFPLVEKPYETYHGVNVNIRYFLRVTVK 129 (275)
T ss_dssp EEE-S-EE--EEEEE-SB---S--EE-SSEEEEEEEEEEE-
T ss_pred cccCCCcE--EeeEeCCCCCCCccEeeeEEEEEEEEEEEEE
Confidence 34555555 7777765333368999999999999999886
No 22
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=51.90 E-value=51 Score=33.70 Aligned_cols=88 Identities=25% Similarity=0.361 Sum_probs=54.9
Q ss_pred CCCeeeeeecceeeeCCC--------eEEEEEEEecCCCCCCcccchhhhhccceEE-EEEEEeccCcceeecCCCCCCc
Q 008822 38 VLPTLKLQTDKNVYTPGD--------TVFVTVEICNPLSSGDNAVLSSLLIESLSFE-IKGIQKLDSQWFATQKPLPGSK 108 (552)
Q Consensus 38 ~~~~l~l~~dk~vY~PGd--------~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~e-i~g~ek~D~q~~~~~~pl~~sk 108 (552)
+.+-|.+.+ ++|...+ .+.+++||.|-... .+.+|.+.|+ ..+....|-.|-......
T Consensus 112 v~~PL~Vkt--K~~~~~~~~~~~~~~~~~LEaqlqN~s~~-------pl~Le~v~lep~~~~~~~~ln~~~~~~~~---- 178 (249)
T PF06159_consen 112 VLNPLSVKT--KVYNLEDDSSLSPRERVFLEAQLQNISSG-------PLFLEKVKLEPSPGFKVTDLNWEPSGESS---- 178 (249)
T ss_pred CCCCcEEEE--EEEecCCccccccceeEEEEEEEEecCCC-------ceEEEEEEeecCCCceeEecccccccccc----
Confidence 555588888 8888888 89999999999832 5999999998 455555555543321111
Q ss_pred cccccEEEeccCcceeeeccccCCCCeeEEEEEEecC
Q 008822 109 QRRGEFAFLDISASKLISNQIVSSDATKSYVIRTELP 145 (552)
Q Consensus 109 q~rge~if~~~~~~~Lvsd~~l~~g~tk~y~vr~~LP 145 (552)
+..+.... .-....|.||.++.|.+.++--
T Consensus 179 ----~~~~~~~~---~~~~~~L~P~d~~qylF~l~~~ 208 (249)
T PF06159_consen 179 ----DGEFGGIS---SGSRPYLQPGDVRQYLFCLTPK 208 (249)
T ss_pred ----cccccccc---cCCcceeCCCCEEEEEEEEEEC
Confidence 01111000 1123347899988887665543
No 23
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=51.83 E-value=66 Score=26.49 Aligned_cols=65 Identities=22% Similarity=0.354 Sum_probs=35.6
Q ss_pred eCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEeccCcceeeeccccC
Q 008822 52 TPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDISASKLISNQIVS 131 (552)
Q Consensus 52 ~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~~~~~Lvsd~~l~ 131 (552)
.||+.+.+++.|.|.-.. -+.++.+.+.. | .|++ .-+ .+. -+. .|.
T Consensus 2 ~~G~~~~~~~tv~N~g~~---------~~~~v~~~l~~-------------P-~GW~-----~~~--~~~--~~~--~l~ 47 (78)
T PF10633_consen 2 TPGETVTVTLTVTNTGTA---------PLTNVSLSLSL-------------P-EGWT-----VSA--SPA--SVP--SLP 47 (78)
T ss_dssp -TTEEEEEEEEEE--SSS----------BSS-EEEEE----------------TTSE----------EEE--EE----B-
T ss_pred CCCCEEEEEEEEEECCCC---------ceeeEEEEEeC-------------C-CCcc-----ccC--Ccc--ccc--cCC
Confidence 589999999999997622 23455555543 2 3442 001 111 122 679
Q ss_pred CCCeeEEEEEEecCCCCCC
Q 008822 132 SDATKSYVIRTELPSIIPP 150 (552)
Q Consensus 132 ~g~tk~y~vr~~LP~~lPP 150 (552)
||+++++.++++.|...+|
T Consensus 48 pG~s~~~~~~V~vp~~a~~ 66 (78)
T PF10633_consen 48 PGESVTVTFTVTVPADAAP 66 (78)
T ss_dssp TTSEEEEEEEEEE-TT--S
T ss_pred CCCEEEEEEEEECCCCCCC
Confidence 9999999999999999887
No 24
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=50.70 E-value=18 Score=32.06 Aligned_cols=25 Identities=48% Similarity=0.731 Sum_probs=20.4
Q ss_pred eeeeecceeeeCCCeEEEEEEEecC
Q 008822 42 LKLQTDKNVYTPGDTVFVTVEICNP 66 (552)
Q Consensus 42 l~l~~dk~vY~PGd~V~~~Iei~~~ 66 (552)
|.+.+||+-|.|||.+++.|....+
T Consensus 1 l~i~~~~~~~~~Ge~~~v~v~~~~~ 25 (136)
T PF07703_consen 1 LQISTDKDSYKPGETAKVTVQSPFP 25 (136)
T ss_dssp EEEEE-SSSB-TTSEEEEEEEEESC
T ss_pred CEEEcCCCCcCCCCEEEEEEEcCCC
Confidence 6789999999999999999997666
No 25
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=45.36 E-value=27 Score=28.54 Aligned_cols=30 Identities=23% Similarity=0.294 Sum_probs=25.2
Q ss_pred CCeeeeeecceeeeCCCeEEEEEEEecCCC
Q 008822 39 LPTLKLQTDKNVYTPGDTVFVTVEICNPLS 68 (552)
Q Consensus 39 ~~~l~l~~dk~vY~PGd~V~~~Iei~~~~~ 68 (552)
...+.-+.++..+.|||.|+.+|.+.|...
T Consensus 25 ~~~~~k~~~~~~~~~Gd~v~ytitvtN~G~ 54 (76)
T PF01345_consen 25 DLSITKTVNPSTANPGDTVTYTITVTNTGP 54 (76)
T ss_pred CEEEEEecCCCcccCCCEEEEEEEEEECCC
Confidence 345556778899999999999999999873
No 26
>COG4326 Spo0M Sporulation control protein [General function prediction only]
Probab=45.15 E-value=36 Score=35.05 Aligned_cols=88 Identities=15% Similarity=0.188 Sum_probs=54.5
Q ss_pred eeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEE---EEeccCcceeecCCCCCCccccccEEEec
Q 008822 42 LKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKG---IQKLDSQWFATQKPLPGSKQRRGEFAFLD 118 (552)
Q Consensus 42 l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g---~ek~D~q~~~~~~pl~~skq~rge~if~~ 118 (552)
+.-.|.+++|-||+.|+.+|-+-.-.- +.-+.++...++| +|+-|.. +-+|. .+..
T Consensus 35 VDt~L~~~~~~PG~~v~g~vhv~GG~~--------AQdI~~I~LkL~t~Y~~evdDe~---------~~~~~---t~~n- 93 (270)
T COG4326 35 VDTVLQQEVLYPGQSVKGIVHVYGGAT--------AQDIDNIELKLCTCYIAEVDDER---------GQQQG---TLAN- 93 (270)
T ss_pred hhhhhhhccccCCceEEEEEEEecCch--------HhhhhhhhhhheeeEEEEecccc---------ceeEE---EEEE-
Confidence 344578899999999999998765441 2334444444332 2232322 11111 1111
Q ss_pred cCcceeeeccccCCCCeeEEEEEEecCCCCCCCCc
Q 008822 119 ISASKLISNQIVSSDATKSYVIRTELPSIIPPSYR 153 (552)
Q Consensus 119 ~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyR 153 (552)
. .|---.+|.||+.+.|-+.+.||.+.|=++-
T Consensus 94 -~--rl~~~fTIqpgEe~~fpf~l~lP~~tPvT~G 125 (270)
T COG4326 94 -W--RLPYAFTIQPGEERNFPFELSLPWNTPVTIG 125 (270)
T ss_pred -E--eecceEEecCCceEeccEEEecCCCCceeec
Confidence 1 1223456799999999999999999998764
No 27
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=37.10 E-value=38 Score=29.11 Aligned_cols=73 Identities=15% Similarity=0.259 Sum_probs=33.8
Q ss_pred EEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEe----ccCcceeeeccccCC
Q 008822 57 VFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFL----DISASKLISNQIVSS 132 (552)
Q Consensus 57 V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~----~~~~~~Lvsd~~l~~ 132 (552)
|.+++.++|..... +.++..-.++-|.. .+++.|+.|+. --+++ -+.+..|.|
T Consensus 2 v~~~l~v~N~s~~~------------v~l~f~sgq~~D~~----------v~d~~g~~vwrwS~~~~FtQ-al~~~~l~p 58 (82)
T PF12690_consen 2 VEFTLTVTNNSDEP------------VTLQFPSGQRYDFV----------VKDKEGKEVWRWSDGKMFTQ-ALQEETLEP 58 (82)
T ss_dssp EEEEEEEEE-SSS-------------EEEEESSS--EEEE----------EE-TT--EEEETTTT--------EEEEE-T
T ss_pred EEEEEEEEeCCCCe------------EEEEeCCCCEEEEE----------EECCCCCEEEEecCCchhhh-eeeEEEECC
Confidence 67888999988322 33333333333332 12455666666 33554 456889999
Q ss_pred CCeeEEEEEEecCCCCCCCC
Q 008822 133 DATKSYVIRTELPSIIPPSY 152 (552)
Q Consensus 133 g~tk~y~vr~~LP~~lPPSy 152 (552)
|++++|.....++..-|-.|
T Consensus 59 Ge~~~~~~~~~~~~~~~G~Y 78 (82)
T PF12690_consen 59 GESLTYEETWDLKDLSPGEY 78 (82)
T ss_dssp T-EEEEEEEESS----SEEE
T ss_pred CCEEEEEEEECCCCCCCceE
Confidence 99999987777666555554
No 28
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=36.38 E-value=55 Score=35.95 Aligned_cols=84 Identities=14% Similarity=0.296 Sum_probs=43.7
Q ss_pred eeeeeecceeee-CCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEecc
Q 008822 41 TLKLQTDKNVYT-PGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDI 119 (552)
Q Consensus 41 ~l~l~~dk~vY~-PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~ 119 (552)
.|++...++.|+ ||..++.++++.|..+. .+.+.++..+ +.+.+|+........-|.. +..++
T Consensus 248 ~V~~~v~~A~Y~vpgR~l~~~l~VtN~g~~-------pv~LgeF~tA--~vrFln~~v~~~~~~~P~~-------l~A~~ 311 (381)
T PF04744_consen 248 SVKVKVTDATYRVPGRTLTMTLTVTNNGDS-------PVRLGEFNTA--NVRFLNPDVPTDDPDYPDE-------LLAER 311 (381)
T ss_dssp SEEEEEEEEEEESSSSEEEEEEEEEEESSS--------BEEEEEESS--S-EEE-TTT-SS-S---TT-------TEETT
T ss_pred ceEEEEeccEEecCCcEEEEEEEEEcCCCC-------ceEeeeEEec--cEEEeCcccccCCCCCchh-------hhccC
Confidence 378887777775 89999999999998843 2444443322 3444555533321111111 11111
Q ss_pred Ccceeeecc-ccCCCCeeEEEEEE
Q 008822 120 SASKLISNQ-IVSSDATKSYVIRT 142 (552)
Q Consensus 120 ~~~~Lvsd~-~l~~g~tk~y~vr~ 142 (552)
. .-++|. .|.|||||+..|..
T Consensus 312 g--L~vs~~~pI~PGETrtl~V~a 333 (381)
T PF04744_consen 312 G--LSVSDNSPIAPGETRTLTVEA 333 (381)
T ss_dssp ---EEES--S-B-TT-EEEEEEEE
T ss_pred c--ceeCCCCCcCCCceEEEEEEe
Confidence 1 234444 78999999999765
No 29
>PF07919 Gryzun: Gryzun, putative trafficking through Golgi; InterPro: IPR012880 The proteins featured in this family are all hypothetical eukaryotic proteins of unknown function. The region in question is approximately 150 residues long.
Probab=35.68 E-value=2.7e+02 Score=30.73 Aligned_cols=107 Identities=13% Similarity=0.130 Sum_probs=58.8
Q ss_pred CCCeeeeee--cceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCccee-ecCC---CCCCcccc
Q 008822 38 VLPTLKLQT--DKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFA-TQKP---LPGSKQRR 111 (552)
Q Consensus 38 ~~~~l~l~~--dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~-~~~p---l~~skq~r 111 (552)
..|.|++++ ++.-|.-||.+.+.|+|.|...... ...+.++....-+.++.. .+.. ......+.
T Consensus 171 ~pp~v~I~~~~~~~~~l~gE~~~i~i~I~n~e~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (554)
T PF07919_consen 171 RPPKVSIKLPNHKPPALTGEFYPIPITISNNEDEEA----------SGVLEVRLLHPSQLGVSSEETEDLSQVNWDSDKD 240 (554)
T ss_pred CCCCeEEEeCCCCCCeEcCCEEEEEEEEEcCCCccc----------eeEEEEEEecccccccccccCccceecccccccc
Confidence 567888888 8899999999999999999883321 112222222000001000 0111 12233444
Q ss_pred ccEEEeccCcceeeeccccCCCCeeEEEEEEecCCCCCCCCccceEEEEEEE
Q 008822 112 GEFAFLDISASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYYV 163 (552)
Q Consensus 112 ge~if~~~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i 163 (552)
.+..+....-+ .|.+|++.+-.+... ..-+.=+--.|++.|.+
T Consensus 241 ~~~~~~~~~lg------~l~~~~s~~~~l~i~---~~~~~~~~L~i~~~Y~l 283 (554)
T PF07919_consen 241 DEPLFLGIPLG------ELAPGSSITVTLYIR---TSRPGEYELSISVSYHL 283 (554)
T ss_pred cchhccCcccc------cCCCCCcEEEEEEEE---eCCceeEEEEEEEEEEE
Confidence 44444433321 246777665555555 33344456778888887
No 30
>PF12389 Peptidase_M73: Camelysin metallo-endopeptidase; InterPro: IPR022121 Camelysin is a novel surface metallopeptidase from Bacillus cereus []. Camelysin prefers cleavage sites in front of aliphatic and hydrophilic amino acid residues (-OH, -SO3H, amido group), and requires zinc for activity [, ].
Probab=31.52 E-value=1.8e+02 Score=29.42 Aligned_cols=40 Identities=5% Similarity=0.187 Sum_probs=35.2
Q ss_pred ccCCCCeeEEEEEEecCCC--CCCCCccceEEEEEEEEEEEe
Q 008822 129 IVSSDATKSYVIRTELPSI--IPPSYRGTTIRYLYYVKSTLS 168 (552)
Q Consensus 129 ~l~~g~tk~y~vr~~LP~~--lPPSyRG~~vRy~Y~i~at~~ 168 (552)
=|.||.+..|.|+|++..+ ===.|.|-+|..=|...|.|+
T Consensus 153 gl~aG~~d~l~V~f~F~Dn~~dqN~FQGD~l~L~wtF~a~Q~ 194 (199)
T PF12389_consen 153 GLAAGSSDDLWVKFEFVDNGEDQNQFQGDSLELTWTFNANQT 194 (199)
T ss_pred CCCCCCCcEEEEEEEEeeCCCccceecCcEEEEEEEEeeecc
Confidence 3689999999999999776 457899999999999999887
No 31
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=30.66 E-value=2.3e+02 Score=35.32 Aligned_cols=42 Identities=21% Similarity=0.351 Sum_probs=29.9
Q ss_pred CCCeeeeeec-----ceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEE
Q 008822 38 VLPTLKLQTD-----KNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIK 88 (552)
Q Consensus 38 ~~~~l~l~~d-----k~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~ 88 (552)
=+|.|.++.. .-...-||..+++|++.|-+ ..-++.|.|.+.
T Consensus 777 ~qP~L~v~~~sl~~~~~mlleGE~~~~~ItL~N~S---------~~pvd~l~~sf~ 823 (1185)
T PF08626_consen 777 PQPLLEVKSSSLTQGALMLLEGEKQTFTITLRNTS---------SVPVDFLSFSFQ 823 (1185)
T ss_pred CCCeEEEEeccCCCcceEEECCcEEEEEEEEEECC---------ccccceEEEEEE
Confidence 3577776653 23568999999999999999 244556666654
No 32
>PF14524 Wzt_C: Wzt C-terminal domain; PDB: 2R5O_B.
Probab=26.57 E-value=94 Score=27.11 Aligned_cols=39 Identities=15% Similarity=0.202 Sum_probs=15.0
Q ss_pred cccccEEEeccCcceeeeccccCCCCeeEEEEEEecCCCCCC
Q 008822 109 QRRGEFAFLDISASKLISNQIVSSDATKSYVIRTELPSIIPP 150 (552)
Q Consensus 109 q~rge~if~~~~~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPP 150 (552)
...|..||.+... ..+..+...+...|.+.+++|..|.|
T Consensus 60 ~~~g~~v~~~~t~---~~~~~~~~~~~g~~~~~~~i~~~L~~ 98 (142)
T PF14524_consen 60 DSDGQRVFGTNTY---DSGFPIPLSEGGTYEVTFTIPKPLNP 98 (142)
T ss_dssp ETT--EEEEEEHH---HHT--EEE-TT-EEEEEEEEE--B-S
T ss_pred cCCCCEEEEECcc---ccCccccccCCCEEEEEEEEcCccCC
Confidence 3456667763322 22233333234556666666666776
No 33
>PF13584 BatD: Oxygen tolerance
Probab=24.92 E-value=5.8e+02 Score=27.90 Aligned_cols=115 Identities=16% Similarity=0.190 Sum_probs=67.9
Q ss_pred CeeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEe-ccCccee-----------e---cC--
Q 008822 40 PTLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQK-LDSQWFA-----------T---QK-- 102 (552)
Q Consensus 40 ~~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek-~D~q~~~-----------~---~~-- 102 (552)
++|.+++|+.-+.-||.++++|+++++... -+.+.+ +++.+ .|.-. ...+++. + ++
T Consensus 13 ~~v~a~vd~~~v~~ge~~~l~i~~~~~~~~---~~~p~l--~~f~v--~~~~~s~~~~~inG~~~~~~~~~~~l~p~~~G 85 (484)
T PF13584_consen 13 VSVTASVDRNEVGLGETFQLTITINGDGDD---PDLPEL--DGFEV--LGPSQSSSTSIINGKVSSSTTYTYTLQPKKTG 85 (484)
T ss_pred eEEEEEECCcEEcCCCEEEEEEEEecCccc---CCCCCC--CCeEE--cceEEEEEEEEecCceEEEEEEEEEEEecccc
Confidence 789999999999999999999999984421 111111 33332 11111 0111111 1 11
Q ss_pred --CCCCCccccccEEEeccCcceeeeccccCC-----CCeeEEEEEEecCCCCCCCCccceEEEEEEE
Q 008822 103 --PLPGSKQRRGEFAFLDISASKLISNQIVSS-----DATKSYVIRTELPSIIPPSYRGTTIRYLYYV 163 (552)
Q Consensus 103 --pl~~skq~rge~if~~~~~~~Lvsd~~l~~-----g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~i 163 (552)
-+|.-+=.-+-....+.+..+-|.+-.-.+ ...+.+.++.++.+.-+ |-|..|.|-|+|
T Consensus 86 ~~~IP~~~v~v~Gk~~~S~pi~i~V~~~~~~~~~~~~~~~~~~~l~~~v~~~~~--Yvge~v~lt~~l 151 (484)
T PF13584_consen 86 TFTIPPFTVEVDGKTYKSQPITIEVSKASQSPSQPPSNADDDVFLEAEVSKKSV--YVGEPVILTLRL 151 (484)
T ss_pred eEEEceEEEEECCEEEeecCEEEEEEecccCCccccccccccEEEEEEeCCCce--ecCCcEEEEEEE
Confidence 244443222222333444446666655554 36778899999987644 999999998888
No 34
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=24.84 E-value=2.9e+02 Score=29.36 Aligned_cols=86 Identities=16% Similarity=0.196 Sum_probs=57.1
Q ss_pred eeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEeccCcceeeecc
Q 008822 49 NVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDISASKLISNQ 128 (552)
Q Consensus 49 ~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~~~~~Lvsd~ 128 (552)
.-+-.|+.|+++|.|.|.-.. .+.|+.+..-+| .|.. +..+..-.+ .+--|.
T Consensus 93 ~~l~aG~~~~~LvgftN~g~~-------~~~V~~i~aSl~-------------~p~d-------~~~~iqNfT-a~~y~~ 144 (285)
T PF03896_consen 93 KKLPAGEPVKFLVGFTNKGSE-------PFTVESIEASLR-------------YPQD-------YSYYIQNFT-AVRYNR 144 (285)
T ss_pred ccccCCCeEEEEEEEEeCCCC-------CEEEEEEeeeec-------------Cccc-------cceEEEeec-ccccCc
Confidence 335669999999999998732 234443333332 2211 222233444 344588
Q ss_pred ccCCCCeeEEEEEEecCCCCCCCCccceEEEEEE
Q 008822 129 IVSSDATKSYVIRTELPSIIPPSYRGTTIRYLYY 162 (552)
Q Consensus 129 ~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~Y~ 162 (552)
.|.||+..+|-|.|.....+.|---|-.|-.+|.
T Consensus 145 ~V~pg~~aT~~YsF~~~~~l~pr~f~L~i~l~y~ 178 (285)
T PF03896_consen 145 EVPPGEEATFPYSFTPSEELAPRPFGLVINLIYE 178 (285)
T ss_pred ccCCCCeEEEEEEEecchhcCCcceEEEEEEEEE
Confidence 9999999999999999888887766777766664
No 35
>cd03450 NodN NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their legume hosts, a symbiotic process that requires production of Nod factors, which are signal molecules involved in root hair deformation and meristematic cell division. The nodulation gene products, including NodN, are involved in producing the Nod factors, however the role played by NodN is unclear.
Probab=23.03 E-value=71 Score=30.01 Aligned_cols=44 Identities=16% Similarity=0.118 Sum_probs=29.3
Q ss_pred eeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEE
Q 008822 43 KLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGI 90 (552)
Q Consensus 43 ~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ 90 (552)
+++..+-| ++||+|.|+.+|........+- ....-++..+|+|.
T Consensus 91 ~~rF~~PV-~~GDtl~~~~~V~~~~~~~~~~---~~~~~~~~~~~~~~ 134 (149)
T cd03450 91 KVRFPAPV-PVGSRVRGRFTLLSVEELKGGG---VQVTLEVTVEIEGE 134 (149)
T ss_pred EEEeCcce-eCCcEEEEEEEEEEEEEcCCCe---EEEEEEEEEEEeCC
Confidence 56777777 4899999999998765332210 24445677777774
No 36
>PF09579 Spore_YtfJ: Sporulation protein YtfJ (Spore_YtfJ); InterPro: IPR014229 Proteins in this entry, exemplified by YtfJ of Bacillus subtilis, are encoded by bacterial genomes if, and only if, the species is capable of endospore formation. YtfJ was confirmed in spores of B. subtilis; it appears to be expressed in the forespore under control of SigF [].
Probab=22.60 E-value=36 Score=29.57 Aligned_cols=10 Identities=60% Similarity=1.245 Sum_probs=5.4
Q ss_pred eee-ccCCCCC
Q 008822 6 FSL-FGGGGGG 15 (552)
Q Consensus 6 ~~~-~~~~~~~ 15 (552)
.+| ||+|++.
T Consensus 14 VsfGfG~Gg~~ 24 (83)
T PF09579_consen 14 VSFGFGAGGGE 24 (83)
T ss_pred EEEEEEEeCCC
Confidence 455 6665543
No 37
>cd08544 Reeler Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins. This domain is found at the N-terminus of F-spondin, a protein attached to the extracellular matrix, which plays roles in neuronal development and vascular remodelling. The F-spondin reeler domain has been reported to bind heparin. The reeler domain is also found at the N-terminus of reelin, an extracellular glycoprotein involved in the development of the brain cortex, and in a variety of other eukaryotic proteins with different domain architectures, including the animal ferric-chelate reductase 1 or stromal cell-derived receptor 2, a member of the cytochrome B561 family, which reduces ferric iron before its transport from the endosome to the cytoplasm. Also included is the insect putative defense protein 1, which is expressed upon bacterial infection and appears to contain a single reeler domain.
Probab=22.48 E-value=92 Score=28.22 Aligned_cols=27 Identities=30% Similarity=0.506 Sum_probs=23.5
Q ss_pred CeeeeeecceeeeCCCeEEEEEEEecC
Q 008822 40 PTLKLQTDKNVYTPGDTVFVTVEICNP 66 (552)
Q Consensus 40 ~~l~l~~dk~vY~PGd~V~~~Iei~~~ 66 (552)
+-..+++++.-|.||+.++|+|+..++
T Consensus 19 ~py~i~~~~~~y~pG~~~~Vtl~~~~~ 45 (135)
T cd08544 19 SPYSITISGNSYVPGETYTVTLSGSSP 45 (135)
T ss_pred CCEEEEeCCCEECCCCEEEEEEECCCC
Confidence 568899999999999999999996654
No 38
>PRK05089 cytochrome C oxidase assembly protein; Provisional
Probab=21.82 E-value=5.3e+02 Score=25.97 Aligned_cols=91 Identities=16% Similarity=0.170 Sum_probs=57.9
Q ss_pred eeeeeecceeeeCCCeEEEEEEEecCCCCCCcccchhhhhccceEEEEEEEeccCcceeecCCCCCCccccccEEEeccC
Q 008822 41 TLKLQTDKNVYTPGDTVFVTVEICNPLSSGDNAVLSSLLIESLSFEIKGIQKLDSQWFATQKPLPGSKQRRGEFAFLDIS 120 (552)
Q Consensus 41 ~l~l~~dk~vY~PGd~V~~~Iei~~~~~~~~~~~~~s~l~e~Ls~ei~g~ek~D~q~~~~~~pl~~skq~rge~if~~~~ 120 (552)
..+-+...-...|||..++.-+..|.++.. |.|+-.-+- .|..+ -.+.--.+|+
T Consensus 80 ~F~P~q~~v~V~pGE~~~~~y~a~N~sd~~----------------i~g~A~~nV------~P~~a----~~YF~KieCF 133 (188)
T PRK05089 80 EFKPEQRSVDVHPGELNLVFYEAENLSDRP----------------IVGQAIPSV------TPGQA----GAYFNKIECF 133 (188)
T ss_pred eEEeeeeEEEEcCCCeEEEEEEEECCCCCc----------------EEEEEeccc------CHHHH----hhhccceeee
Confidence 344444445578999999999999999332 222111000 11111 1122222555
Q ss_pred cceeeeccccCCCCeeEEEEEEecCCCCCCCCccceEEEE
Q 008822 121 ASKLISNQIVSSDATKSYVIRTELPSIIPPSYRGTTIRYL 160 (552)
Q Consensus 121 ~~~Lvsd~~l~~g~tk~y~vr~~LP~~lPPSyRG~~vRy~ 160 (552)
- |..|+|.|||++..=|+|.+=..||-..+-.++-|-
T Consensus 134 C---F~eQ~L~pgE~~~mPV~F~IDP~i~~dv~~iTLSYT 170 (188)
T PRK05089 134 C---FTQQTLQPGETREMPVVFYVDPDLPKDVKTITLSYT 170 (188)
T ss_pred c---ccCcccCCCCeEecCEEEEECCCcccccCEEEEEEE
Confidence 5 789999999999999999999999999665555543
No 39
>cd08759 Type_III_cohesin_like Cohesin domain, interaction partner of dockerin. Bacterial cohesin domains bind to a complementary protein domain named dockerin, and this interaction is required for the formation of the cellulosome, a cellulose-degrading complex. Two specific calcium-dependent interactions between cohesin and dockerin appear to be essential for cellulosome assembly, type I and type II. This subfamily represents type III cohesins and closely related domains.
Probab=20.26 E-value=84 Score=30.74 Aligned_cols=28 Identities=21% Similarity=0.182 Sum_probs=23.9
Q ss_pred CeeeeeecceeeeCCCeEEEEEEEecCC
Q 008822 40 PTLKLQTDKNVYTPGDTVFVTVEICNPL 67 (552)
Q Consensus 40 ~~l~l~~dk~vY~PGd~V~~~Iei~~~~ 67 (552)
++|.|+-.|.-|.+||.|++.|--.+-.
T Consensus 1 G~l~l~~~k~~~~aGetvti~vkg~~l~ 28 (160)
T cd08759 1 GTLSLVPSKTTVKAGETITIDLYGQGLK 28 (160)
T ss_pred CceEEeccccccCCCCEEEEEEEecccc
Confidence 5788999999999999999998866554
Done!