Query psy13980
Match_columns 532
No_of_seqs 229 out of 331
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 16:31:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3648|consensus 100.0 6E-116 1E-120 920.3 28.7 499 1-532 662-1179(1179)
2 KOG3648|consensus 100.0 2.1E-73 4.7E-78 599.0 31.0 430 5-470 475-1055(1179)
3 PF00839 Cys_rich_FGFR: Cystei 99.3 3.2E-12 6.8E-17 99.9 5.7 56 394-449 1-56 (58)
4 PF00839 Cys_rich_FGFR: Cystei 99.2 1.9E-11 4.1E-16 95.5 4.3 57 8-69 1-57 (58)
5 PF01102 Glycophorin_A: Glycop 83.7 0.78 1.7E-05 41.4 2.3 30 500-529 69-99 (122)
6 PF15555 DUF4658: Domain of un 74.7 2.2 4.7E-05 38.0 2.1 28 496-523 68-95 (129)
7 PF14851 FAM176: FAM176 family 63.4 9.6 0.00021 35.8 4.0 38 488-525 11-48 (153)
8 PRK14762 membrane protein; Pro 63.1 5.8 0.00013 25.7 1.7 12 507-518 6-17 (27)
9 PHA02844 putative transmembran 53.6 24 0.00052 29.0 4.2 16 478-493 13-28 (75)
10 PHA02975 hypothetical protein; 47.7 35 0.00076 27.7 4.2 17 478-494 13-29 (69)
11 PHA02819 hypothetical protein; 44.1 43 0.00092 27.4 4.2 17 478-494 13-29 (71)
12 PRK14750 kdpF potassium-transp 43.4 26 0.00057 23.5 2.4 18 502-519 3-20 (29)
13 PHA02692 hypothetical protein; 40.0 54 0.0012 26.8 4.2 16 479-494 14-29 (70)
14 PF02060 ISK_Channel: Slow vol 38.2 29 0.00063 31.5 2.7 29 500-528 44-72 (129)
15 PHA02650 hypothetical protein; 36.9 57 0.0012 27.2 4.0 16 478-493 13-28 (81)
16 PHA02639 EEV host range protei 35.4 16 0.00034 38.0 0.7 26 493-518 249-275 (295)
17 PF04173 DoxD: TQO small subun 35.3 62 0.0013 30.9 4.6 39 481-519 46-88 (167)
18 PF09838 DUF2065: Uncharacteri 34.4 62 0.0014 25.3 3.8 34 481-514 19-53 (57)
19 PF11688 DUF3285: Protein of u 34.0 77 0.0017 23.5 3.8 29 481-509 3-31 (45)
20 PHA03054 IMV membrane protein; 33.1 80 0.0017 25.8 4.2 15 479-493 14-28 (72)
21 PF09889 DUF2116: Uncharacteri 31.9 1.4E+02 0.0031 23.6 5.4 19 456-474 19-37 (59)
22 PF05624 LSR: Lipolysis stimul 29.7 45 0.00098 25.0 2.1 17 502-518 6-22 (49)
23 PF00957 Synaptobrevin: Synapt 29.1 89 0.0019 26.0 4.2 39 482-520 47-89 (89)
24 PF15102 TMEM154: TMEM154 prot 29.1 13 0.00029 34.5 -0.9 35 494-528 51-87 (146)
25 PF06724 DUF1206: Domain of Un 27.0 1.2E+02 0.0027 24.3 4.5 32 481-512 29-60 (73)
26 PF01007 IRK: Inward rectifier 26.2 73 0.0016 33.8 3.9 35 485-519 22-56 (336)
27 PF05781 MRVI1: MRVI1 protein; 26.2 64 0.0014 36.2 3.5 28 499-526 478-505 (538)
28 PRK13836 conjugal transfer pro 25.9 88 0.0019 30.9 4.2 35 483-518 16-51 (220)
29 COG5473 Predicted integral mem 24.4 2.1E+02 0.0045 29.6 6.4 45 465-511 145-197 (290)
30 PF06747 CHCH: CHCH domain; I 24.0 74 0.0016 21.6 2.3 26 56-86 6-31 (35)
31 cd08608 GDPD_GDE2 Glycerophosp 23.0 74 0.0016 33.9 3.2 38 482-519 253-291 (351)
32 PF04241 DUF423: Protein of un 22.6 1.7E+02 0.0036 24.8 4.7 54 466-520 16-71 (89)
33 CHL00082 psbZ photosystem II p 21.8 48 0.001 26.5 1.1 31 481-520 29-59 (62)
34 PF03208 PRA1: PRA1 family pro 21.8 1.2E+02 0.0026 27.7 4.1 39 470-510 13-54 (153)
35 PF01737 Ycf9: YCF9; InterPro 21.6 1.3E+02 0.0027 23.9 3.4 25 496-520 32-56 (59)
36 KOG4503|consensus 20.8 1.1E+02 0.0023 30.3 3.4 40 482-521 175-214 (230)
37 COG5085 Predicted membrane pro 20.8 1.1E+02 0.0023 30.3 3.4 40 482-521 175-214 (230)
38 PTZ00443 Thioredoxin domain-co 20.4 1.1E+02 0.0024 30.5 3.6 8 481-488 149-156 (224)
39 PF01034 Syndecan: Syndecan do 20.2 35 0.00076 27.4 0.0 25 501-525 15-39 (64)
No 1
>KOG3648|consensus
Probab=100.00 E-value=5.8e-116 Score=920.29 Aligned_cols=499 Identities=34% Similarity=0.701 Sum_probs=478.3
Q ss_pred CcccCchHHHHHHHHHHHHHhhccccCcHHHHhhcHHHHHhhCchhhccccCCCccchhhHhhhccCCCCCCCccccHHH
Q psy13980 1 ERLPELKPDCAALVGNFTSAQVQDVRLNPLIMKYCGHVIHRYCDDELRVSFRDSTRDVMDCLVQHKNSPELRGEPKCRQS 80 (532)
Q Consensus 1 ~~~~~l~~~C~~~v~~~~~~~~~D~rld~~l~~aC~~~i~~~C~~~~~~~~~~~~g~vl~CL~~~k~~~~m~~~~~C~~~ 80 (532)
|||+++.++|+++|++||+.+++|++++..|++||+|+|++||+++++++ + |.|++|+||++||+.++|+. +|+.+
T Consensus 662 D~~~~~~~~C~~~~~~~TEmEs~D~~i~~~L~rAC~PiI~~~C~~~A~~~-I-D~GD~mECLi~NK~~K~MN~--KC~~~ 737 (1179)
T KOG3648|consen 662 DHLDDLVVECRDIVGNLTELESEDIQIEALLMRACEPIIQNFCHDVADNQ-I-DSGDLMECLIQNKHQKDMNE--KCAIG 737 (1179)
T ss_pred HHHHhcchHHHHHHhhhhhhhhhhhHHHHHHHHhccHHHHHHHHHHhhcc-C-ccchHHHHHHcCccHHHHHH--HHhhc
Confidence 68999999999999999999999999999999999999999999999999 8 99999999999999999998 99999
Q ss_pred HHHHHHHHhccccccHhHHHhhHHHHhccCCCCCCchhHHhHHHHhhhhccccc-ccCCCChhhHHHHHHHHHhhhhcCC
Q psy13980 81 IEHFQLVTAGDYRFTVAFKEACKHHAMRYCPTSRTKAKVIECLSTIITNDTLSD-ARFRIPRNCRQQVRSQLLQQRENFD 159 (532)
Q Consensus 81 v~~~q~~~~~D~rl~~~~~~ACk~Di~~lC~~v~~~g~Vl~CL~~~~~~~~~~~-~~~~Ls~~C~~ql~~~~~q~aedi~ 159 (532)
|+|||+++++||||+|+|++||++||.++|++++++.+++.|++..+++++... +.+++|.+|++||++...++.+++.
T Consensus 738 V~HF~Li~mrD~~FSYKF~~AC~~Di~~~C~~~~~~~~~iI~~~s~VR~~~~~~~~~~~~s~~CrrQLrV~~L~~~~~~~ 817 (1179)
T KOG3648|consen 738 VTHFQLVQMKDFRFSYKFKMACKEDVLKLCPNIKKKVDVVICLSTTVRNDTLQEAKEHRVSLKCRRQLRVEELEMTEDIR 817 (1179)
T ss_pred cchheeeeehhhhhhHHHHHHHHHHHHHhCcccccCcCeEEEehhhhhHHHHhccCcccccHHHHHHHHHHHHHhhHHHh
Confidence 999999999999999999999999999999999876666666666677777654 6789999999999999999999999
Q ss_pred CChHHHhhhHHHHHhhCCCCCCChhHHHHHHHHhhhhhcHhHHHHHHHHhhhhccCcccchHHHhhcHHHHHhhccCCCC
Q psy13980 160 LDPVLKTSCAQDVAKFCPGVERGEAQVLECLLEHKAAVSMKCHKALFHIEQQDLGDSSSDYALLSTCKPMIKFYCYDEEP 239 (532)
Q Consensus 160 ldp~l~~aC~~Di~~~C~~v~~G~g~vl~CL~~~~~~Ls~~C~~~l~~~~~~~~~d~~ld~~L~~aC~~di~~~C~~~~~ 239 (532)
++|.|+.+|..||..||++++.|.+++++||+.|+..||++|++.||.+++.++-|..+|+.|++.|+.||.+||++...
T Consensus 818 ~~P~L~~~C~~~IK~~~~~~~~~~~~~IECLr~N~~~L~~~C~~~iF~~~~~E~~D~~mD~~L~r~Cr~~I~rFC~~sDS 897 (1179)
T KOG3648|consen 818 LEPDLYEACKSDIKNFCSAVQYGNAQIIECLKENKKQLSTRCHQKVFKLQETEMMDPELDYTLMRVCKQMIKRFCPEADS 897 (1179)
T ss_pred cCchHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhHHhcChHHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHhhCCCCCh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhcccc--------hhhHHHHhhhhhhhcCCCcccHHHHhhcHHHHHhhCCCC---------CCccHHHHHHhccCC
Q psy13980 240 AKTLTCLKR--------MKCHKALFHIEQQDLGDSSSDYALLNTCKPMIKFYCYDE---------EPAKTLTCLKRYKDS 302 (532)
Q Consensus 240 g~vl~CL~~--------~~C~~al~~~~~~e~~D~~~d~~L~~aC~~di~~fC~~~---------~~g~vl~CL~~~k~~ 302 (532)
..+|+||++ ++|++.|..+++..+.|+|+++.|..+|+.+|.+||+++ -.|.|++||+....+
T Consensus 898 ~~~L~CL~~~K~~~Lm~~~CK~~i~~R~~~~~~D~RL~P~L~~sCr~~~~~~C~~I~~~~~~~s~L~G~ViSCLr~r~~~ 977 (1179)
T KOG3648|consen 898 KTMLQCLKQNKNSELMDPKCKQMITKRQITQNTDYRLNPMLRKACKADIPKFCHGILTKAKDDSELEGQVISCLKLRYAD 977 (1179)
T ss_pred HHHHHHHhccchHHhhcHHHHHHHHHHHHhhcccceeCHHHHHHHHhhHHhhChhhcCccccccccccchHHHHHHHHHH
Confidence 999999996 479999999999999999999999999999999999976 248999999999999
Q ss_pred CCchHHHHHHHHHHHHHhhcccccCHHHHHhhhHHHHhhhhhhhcCCCCCccccccccccchhhhhhhhhcccccHHHHH
Q psy13980 303 PSFEEKCKLLVIKRMIEQNEDYRFNPELMKACKPDMSKYCVTVMAHQPQDSELEGKIQGLCEMEKEEEMDSQRGTVEECL 382 (532)
Q Consensus 303 ~~~s~~C~~~v~~~~~~~~~Dyrl~p~L~~ACk~di~~~C~~~~~~~~~~~~~~g~v~~Cc~~~~~~~~~~~~~~V~~CL 382 (532)
..||+.|..+|.....+.+-||||||.|+.+|+.+|..+|.++... .++.|+|++||
T Consensus 978 ~~~S~~C~~~i~~~I~Es~~D~~LDP~L~~~C~~~I~~~CA~~~~s-----------------------~~~~~~V~ECL 1034 (1179)
T KOG3648|consen 978 QRLSSDCEDQIRIIIQESALDYRLDPQLQLHCSDEISSLCAEEAAA-----------------------QEQTGQVEECL 1034 (1179)
T ss_pred hhcCcchHHHHHHHHHHhhcCccCCHHHHHHHHHHHHHHHHHHHHh-----------------------ccccchHHHHH
Confidence 9999999999999999999999999999999999999999887643 46789999999
Q ss_pred HHHHhhcccCCHhHHHHHHHHHHhccccccCChHHHHhcHHHHHhhcccCCCCCchHHHHHHHHHhccccCCccchHhHH
Q psy13980 383 KRALVAGKIRDRACREEVAALIEEGRADINVDPLLHAACSLDLTKYCADVAPGNGRQLMCLEELARRDRADGVSLQEQCK 462 (532)
Q Consensus 383 k~~~~~~~~~~~~C~~ev~~~l~e~~~Di~lDP~L~~aC~~Di~~~C~~v~~G~Grvl~CL~~~l~~~~~~~~~L~~~C~ 462 (532)
|.+| .+|.++.|.+||+++|+|+.+||++||+|++||+-||++||++++||+||++.||++.+++. +..|+++|+
T Consensus 1035 K~~~--~KIr~~~C~~~V~~~L~ES~~DI~~DPVLH~ACAmDI~~~C~~i~PG~~R~~~CLM~s~~~~---~~~L~~EC~ 1109 (1179)
T KOG3648|consen 1035 KVNL--LKIKTELCKKEVLNMLKESKADIFVDPVLHTACALDIKHHCAAITPGRGRQMSCLMEALEDK---RVRLQPECK 1109 (1179)
T ss_pred HHhH--HHHhHHHHHHHHHHHHHHhhhhhhcchHHHHHHHHHHHHHhccCCCCCchhHHHHHHHHHhh---hhhhCHHHH
Confidence 9999 56889999999999999999999999999999999999999999999999999999999987 889999999
Q ss_pred HHHHHHHHHHHHHHhhccCCCcHHHHHHHHHhCchhHHHHHHHHHHHHHHHHHhhhccccccc-hhhhhcC
Q psy13980 463 TMLLARIDMFRNAEALISAPSSLQDMYGAVQRSPARRYLAGLLISIVGVIFLMGLVCGRVANR-SAAAKRK 532 (532)
Q Consensus 463 ~~L~~r~~~~~~a~~~~~~~~~~~~~~~~v~~s~~~~~~~~~~~~~~~~~~~~g~~~gr~t~r-~~~~k~~ 532 (532)
+.|.+|++||+||++|+ ||+||++|+++||+||+|||||++|+|||+||||+|++||||||| ++|||||
T Consensus 1110 ~rL~DR~~mW~~A~~~A-~~D~~~~~A~~VM~~P~rN~IL~~isG~I~~i~LIG~~CGRisKr~~~EmK~R 1179 (1179)
T KOG3648|consen 1110 KRLNDRIEMWSYAAKVA-PADGFSDLAMQVMTSPSKNYILSVISGSICILFLIGLMCGRITKRVTRELKDR 1179 (1179)
T ss_pred hhhhhHHHHHHHHHhcC-CCccHHHHHHHHHcCcccchhHHHHhhHHHHHHHHHHHhccchHHHHHHhccC
Confidence 99999999999999999 999999999999999999999999999999999999999999999 9999998
No 2
>KOG3648|consensus
Probab=100.00 E-value=2.1e-73 Score=598.99 Aligned_cols=430 Identities=28% Similarity=0.586 Sum_probs=393.5
Q ss_pred CchHHHHHHHHHHHHHh--hccccCcHHHHhhcHHHHHhhCchhhccccCCCccchhhHhhhccCCCCCCCccccHHHHH
Q psy13980 5 ELKPDCAALVGNFTSAQ--VQDVRLNPLIMKYCGHVIHRYCDDELRVSFRDSTRDVMDCLVQHKNSPELRGEPKCRQSIE 82 (532)
Q Consensus 5 ~l~~~C~~~v~~~~~~~--~~D~rld~~l~~aC~~~i~~~C~~~~~~~~~~~~g~vl~CL~~~k~~~~m~~~~~C~~~v~ 82 (532)
+|...|..+|..+.... ..||++|.+|..+|+++|+..|+... .++..+|+|||+|.++++|.+ +|.+.+.
T Consensus 475 ~LG~~C~QA~Q~~i~~~D~G~~YriDr~L~~sC~S~I~~~C~~~~-----~~~~~~LsCLM~~~~s~~MV~--~CE~RLL 547 (1179)
T KOG3648|consen 475 NLGMNCQQALQTLIQETDPGADYRIDRALNEACESVIQTACKHIR-----SGDPMILSCLMEHLYTEKMVE--DCEHRLL 547 (1179)
T ss_pred cchHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHHhccccccc-----cCCcHHHHHHHHhcCCchhhH--HHHHHHH
Confidence 57889999999988874 78999999999999999999999853 377899999999999999998 8999999
Q ss_pred HHHHHHhccccccHhHHHhhHHHHhccCCCCC--------CchhHHhHHHHhhhhcccccccCCCChhhHHHHHHHHHhh
Q psy13980 83 HFQLVTAGDYRFTVAFKEACKHHAMRYCPTSR--------TKAKVIECLSTIITNDTLSDARFRIPRNCRQQVRSQLLQQ 154 (532)
Q Consensus 83 ~~q~~~~~D~rl~~~~~~ACk~Di~~lC~~v~--------~~g~Vl~CL~~~~~~~~~~~~~~~Ls~~C~~ql~~~~~q~ 154 (532)
++|||+++||.+||.+|++|..|+.++|++.. ..|.|++||++++|.. .+.+.+||.+|+.+|++.++++
T Consensus 548 E~QYF~sRDW~mDP~LY~~C~~~A~~~C~~~~W~~s~~~~~~G~V~sCLYR~AY~~--~~~~~~LS~~C~~~V~~iLH~R 625 (1179)
T KOG3648|consen 548 ELQYFISRDWKLDPVLYRKCQGDASRLCHTHGWNETSEFMPQGAVFSCLYRHAYRT--EEQGRRLSRECRAEVQRILHQR 625 (1179)
T ss_pred HHHHHHhcccccCHHHHHHHHHHHHHHHhhcCcccccccCccchHHHHHHHHhhcc--hhhcCchhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999863 3579999999999853 3567899999999999999999
Q ss_pred hhcCCCChHHHhhhHHHHHhhCCCCCCChhHHHHHHHHhhhhhcHhHHHHHHHHhhhhccCcccchHHHhhcHHHHHhhc
Q psy13980 155 RENFDLDPVLKTSCAQDVAKFCPGVERGEAQVLECLLEHKAAVSMKCHKALFHIEQQDLGDSSSDYALLSTCKPMIKFYC 234 (532)
Q Consensus 155 aedi~ldp~l~~aC~~Di~~~C~~v~~G~g~vl~CL~~~~~~Ls~~C~~~l~~~~~~~~~d~~ld~~L~~aC~~di~~~C 234 (532)
+.+++|+|.|.+.|..|+.+||+. +..+|+.++||++|.+.+.++|.+.+.++++++++|++++..|++||+|.|++||
T Consensus 626 A~~V~L~P~i~D~C~~~L~~~CS~-~~~~~~Em~CLQD~~~~~~~~C~~~~~~~TEmEs~D~~i~~~L~rAC~PiI~~~C 704 (1179)
T KOG3648|consen 626 AMDVKLDPALQDKCLIDLGKWCSE-KTETGQELECLQDHLDDLVVECRDIVGNLTELESEDIQIEALLMRACEPIIQNFC 704 (1179)
T ss_pred HhhcccCHHHHHHHHHHHHHHHhc-cCCchHHHHHHHHHHHhcchHHHHHHhhhhhhhhhhhHHHHHHHHhccHHHHHHH
Confidence 999999999999999999999985 8899999999999999999999999999999999999999999999999999999
Q ss_pred cCC-----CCcchhhccc--------------------------------------------------------------
Q psy13980 235 YDE-----EPAKTLTCLK-------------------------------------------------------------- 247 (532)
Q Consensus 235 ~~~-----~~g~vl~CL~-------------------------------------------------------------- 247 (532)
++. ..|.+|+||.
T Consensus 705 ~~~A~~~ID~GD~mECLi~NK~~K~MN~KC~~~V~HF~Li~mrD~~FSYKF~~AC~~Di~~~C~~~~~~~~~iI~~~s~V 784 (1179)
T KOG3648|consen 705 HDVADNQIDSGDLMECLIQNKHQKDMNEKCAIGVTHFQLVQMKDFRFSYKFKMACKEDVLKLCPNIKKKVDVVICLSTTV 784 (1179)
T ss_pred HHHhhccCccchHHHHHHcCccHHHHHHHHhhccchheeeeehhhhhhHHHHHHHHHHHHHhCcccccCcCeEEEehhhh
Confidence 942 1244444444
Q ss_pred -----------------------------------------------------------------c------hhhHHHHh
Q psy13980 248 -----------------------------------------------------------------R------MKCHKALF 256 (532)
Q Consensus 248 -----------------------------------------------------------------~------~~C~~al~ 256 (532)
. +.|+.-||
T Consensus 785 R~~~~~~~~~~~~s~~CrrQLrV~~L~~~~~~~~~P~L~~~C~~~IK~~~~~~~~~~~~~IECLr~N~~~L~~~C~~~iF 864 (1179)
T KOG3648|consen 785 RNDTLQEAKEHRVSLKCRRQLRVEELEMTEDIRLEPDLYEACKSDIKNFCSAVQYGNAQIIECLKENKKQLSTRCHQKVF 864 (1179)
T ss_pred hHHHHhccCcccccHHHHHHHHHHHHHhhHHHhcCchHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhHHhcChHHHHHHH
Confidence 1 24999999
Q ss_pred hhhhhhcCCCcccHHHHhhcHHHHHhhCCCCCCccHHHHHHhccCCCCchHHHHHHHHHHHHHhhcccccCHHHHHhhhH
Q psy13980 257 HIEQQDLGDSSSDYALLNTCKPMIKFYCYDEEPAKTLTCLKRYKDSPSFEEKCKLLVIKRMIEQNEDYRFNPELMKACKP 336 (532)
Q Consensus 257 ~~~~~e~~D~~~d~~L~~aC~~di~~fC~~~~~g~vl~CL~~~k~~~~~s~~C~~~v~~~~~~~~~Dyrl~p~L~~ACk~ 336 (532)
.+++.|+.||.+||.|++.|+.||.+||++.+...||+||.++|+...|.++|++.|++||+++++||||+|.|+++|++
T Consensus 865 ~~~~~E~~D~~mD~~L~r~Cr~~I~rFC~~sDS~~~L~CL~~~K~~~Lm~~~CK~~i~~R~~~~~~D~RL~P~L~~sCr~ 944 (1179)
T KOG3648|consen 865 KLQETEMMDPELDYTLMRVCKQMIKRFCPEADSKTMLQCLKQNKNSELMDPKCKQMITKRQITQNTDYRLNPMLRKACKA 944 (1179)
T ss_pred HHHHHhhcCchhhHHHHHHHHHHHHhhCCCCChHHHHHHHhccchHHhhcHHHHHHHHHHHHhhcccceeCHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhhhhcCCCCCccccccccccchhhhhhhhhcccccHHHHHHHHHhhcccCCHhHHHHHHHHHHhccccccCChH
Q psy13980 337 DMSKYCVTVMAHQPQDSELEGKIQGLCEMEKEEEMDSQRGTVEECLKRALVAGKIRDRACREEVAALIEEGRADINVDPL 416 (532)
Q Consensus 337 di~~~C~~~~~~~~~~~~~~g~v~~Cc~~~~~~~~~~~~~~V~~CLk~~~~~~~~~~~~C~~ev~~~l~e~~~Di~lDP~ 416 (532)
||++|||.+..++.++++|+|+||+| |+.+|++ .++|+.|..||++.+.|+..|++|||.
T Consensus 945 ~~~~~C~~I~~~~~~~s~L~G~ViSC-------------------Lr~r~~~-~~~S~~C~~~i~~~I~Es~~D~~LDP~ 1004 (1179)
T KOG3648|consen 945 DIPKFCHGILTKAKDDSELEGQVISC-------------------LKLRYAD-QRLSSDCEDQIRIIIQESALDYRLDPQ 1004 (1179)
T ss_pred hHHhhChhhcCccccccccccchHHH-------------------HHHHHHH-hhcCcchHHHHHHHHHHhhcCccCCHH
Confidence 99999999988888899999887655 9999976 568999999999999999999999999
Q ss_pred HHHhcHHHHHhhcccCCC--C-CchHHHHHHHHHhccccCCccchHhHHHHHHHHHH
Q psy13980 417 LHAACSLDLTKYCADVAP--G-NGRQLMCLEELARRDRADGVSLQEQCKTMLLARID 470 (532)
Q Consensus 417 L~~aC~~Di~~~C~~v~~--G-~Grvl~CL~~~l~~~~~~~~~L~~~C~~~L~~r~~ 470 (532)
|+.+|+++|..+|+.+.. | .|+|.+||+.++.+ .-+..|++.+.+|++
T Consensus 1005 L~~~C~~~I~~~CA~~~~s~~~~~~V~ECLK~~~~K------Ir~~~C~~~V~~~L~ 1055 (1179)
T KOG3648|consen 1005 LQLHCSDEISSLCAEEAAAQEQTGQVEECLKVNLLK------IKTELCKKEVLNMLK 1055 (1179)
T ss_pred HHHHHHHHHHHHHHHHHHhccccchHHHHHHHhHHH------HhHHHHHHHHHHHHH
Confidence 999999999999987642 2 58999999998754 688899999988875
No 3
>PF00839 Cys_rich_FGFR: Cysteine rich repeat; InterPro: IPR001893 This cysteine rich repeat contains four cysteines. It is found in multiple copies in metazoan proteins, single copies occur in some bacterial species and is absent from the fungi. The Golgi apparatus protein 1 (GLG1,Q9Z1E9 from SWISSPROT), which is located in Golgi cisterns of various cell types, can bind fibroblast growth factor and E-selectin. Sixteen cysteine-rich GLG1 repeats form the core of the protein and are located in the lumen. The C-terminal part of GLG1 is composed of a transmembrane region and a short cytoplasmic tail. The Cys-rich GLG1 repeat is a ~60 amino acid module that contains 4 Cys residues, which can form intrachain disulphide bridges []. Homologues of the vertebrate GLG1/Golgi sialoglycoprotein MG-160 (Mg160)/E-selectin ligand 1 (ESL1)/cysteine-rich fibroblast growth factor receptor 1 (CFR1)/latent transforming growth factor-beta complex protein 1 (LTCP-1) have been found in insects and the nematode Caenorhabditis elegans [].; GO: 0016020 membrane
Probab=99.30 E-value=3.2e-12 Score=99.87 Aligned_cols=56 Identities=43% Similarity=0.793 Sum_probs=53.3
Q ss_pred HhHHHHHHHHHHhccccccCChHHHHhcHHHHHhhcccCCCCCchHHHHHHHHHhc
Q psy13980 394 RACREEVAALIEEGRADINVDPLLHAACSLDLTKYCADVAPGNGRQLMCLEELARR 449 (532)
Q Consensus 394 ~~C~~ev~~~l~e~~~Di~lDP~L~~aC~~Di~~~C~~v~~G~Grvl~CL~~~l~~ 449 (532)
++|+.+|..+..+...||++||.|++||+.||.+||+++.+|+|+|++||+++..+
T Consensus 1 ~~C~~~v~~~~~~~~~D~~ld~~L~~aC~~di~~~C~~~~~~~g~vl~CL~~~~~~ 56 (58)
T PF00839_consen 1 PECRHAVFKRQEEAAEDYRLDPPLQKACKSDIDKFCSDVEPGHGRVLECLKEHKDD 56 (58)
T ss_pred ChHHHHHHHHHHHHHhChhcCHHHHHHhHHHHHhhCcCCCCCchHHHHHHHHHHHc
Confidence 57999999999999999999999999999999999999999999999999999654
No 4
>PF00839 Cys_rich_FGFR: Cysteine rich repeat; InterPro: IPR001893 This cysteine rich repeat contains four cysteines. It is found in multiple copies in metazoan proteins, single copies occur in some bacterial species and is absent from the fungi. The Golgi apparatus protein 1 (GLG1,Q9Z1E9 from SWISSPROT), which is located in Golgi cisterns of various cell types, can bind fibroblast growth factor and E-selectin. Sixteen cysteine-rich GLG1 repeats form the core of the protein and are located in the lumen. The C-terminal part of GLG1 is composed of a transmembrane region and a short cytoplasmic tail. The Cys-rich GLG1 repeat is a ~60 amino acid module that contains 4 Cys residues, which can form intrachain disulphide bridges []. Homologues of the vertebrate GLG1/Golgi sialoglycoprotein MG-160 (Mg160)/E-selectin ligand 1 (ESL1)/cysteine-rich fibroblast growth factor receptor 1 (CFR1)/latent transforming growth factor-beta complex protein 1 (LTCP-1) have been found in insects and the nematode Caenorhabditis elegans [].; GO: 0016020 membrane
Probab=99.18 E-value=1.9e-11 Score=95.47 Aligned_cols=57 Identities=30% Similarity=0.603 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHhhccccCcHHHHhhcHHHHHhhCchhhccccCCCccchhhHhhhccCCC
Q psy13980 8 PDCAALVGNFTSAQVQDVRLNPLIMKYCGHVIHRYCDDELRVSFRDSTRDVMDCLVQHKNSP 69 (532)
Q Consensus 8 ~~C~~~v~~~~~~~~~D~rld~~l~~aC~~~i~~~C~~~~~~~~~~~~g~vl~CL~~~k~~~ 69 (532)
++|+++||+++...+.||+|||.|+++|+++|.++|+++. .++|.||+||++|++++
T Consensus 1 ~~C~~~v~~~~~~~~~D~~ld~~L~~aC~~di~~~C~~~~-----~~~g~vl~CL~~~~~~~ 57 (58)
T PF00839_consen 1 PECRHAVFKRQEEAAEDYRLDPPLQKACKSDIDKFCSDVE-----PGHGRVLECLKEHKDDL 57 (58)
T ss_pred ChHHHHHHHHHHHHHhChhcCHHHHHHhHHHHHhhCcCCC-----CCchHHHHHHHHHHHcc
Confidence 5899999999999999999999999999999999999852 28899999999999873
No 5
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=83.72 E-value=0.78 Score=41.44 Aligned_cols=30 Identities=20% Similarity=0.554 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHhhhccccccc-hhhh
Q psy13980 500 YLAGLLISIVGVIFLMGLVCGRVANR-SAAA 529 (532)
Q Consensus 500 ~~~~~~~~~~~~~~~~g~~~gr~t~r-~~~~ 529 (532)
.+|+|++++|++|||+-.+++|..|| ...+
T Consensus 69 Ii~gv~aGvIg~Illi~y~irR~~Kk~~~~~ 99 (122)
T PF01102_consen 69 IIFGVMAGVIGIILLISYCIRRLRKKSSSDV 99 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHS-------
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhccCCCCC
Confidence 46788999999999999999999998 4433
No 6
>PF15555 DUF4658: Domain of unknown function (DUF4658)
Probab=74.70 E-value=2.2 Score=38.04 Aligned_cols=28 Identities=29% Similarity=0.354 Sum_probs=25.6
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhccccc
Q psy13980 496 PARRYLAGLLISIVGVIFLMGLVCGRVA 523 (532)
Q Consensus 496 ~~~~~~~~~~~~~~~~~~~~g~~~gr~t 523 (532)
|.+-++|+.+..-|.+.+.+|++|||+-
T Consensus 68 p~g~sLlL~L~~CiLL~vaLglyCgrak 95 (129)
T PF15555_consen 68 PHGGSLLLRLCVCILLGVALGLYCGRAK 95 (129)
T ss_pred CCCCchhHHHHHHHHHHHHHHHHccCcc
Confidence 6778999999999999999999999864
No 7
>PF14851 FAM176: FAM176 family
Probab=63.45 E-value=9.6 Score=35.82 Aligned_cols=38 Identities=21% Similarity=0.304 Sum_probs=34.2
Q ss_pred HHHHHHhCchhHHHHHHHHHHHHHHHHHhhhccccccc
Q psy13980 488 MYGAVQRSPARRYLAGLLISIVGVIFLMGLVCGRVANR 525 (532)
Q Consensus 488 ~~~~v~~s~~~~~~~~~~~~~~~~~~~~g~~~gr~t~r 525 (532)
-|.-+..+|.|=+++.|....+|+||.+.++.+|+|=|
T Consensus 11 aya~I~~~PE~~aLYFv~gVC~GLlLtLcllV~risc~ 48 (153)
T PF14851_consen 11 AYAHIRDNPERFALYFVSGVCAGLLLTLCLLVIRISCR 48 (153)
T ss_pred HHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHhhheee
Confidence 35567889999999999999999999999999999984
No 8
>PRK14762 membrane protein; Provisional
Probab=63.10 E-value=5.8 Score=25.74 Aligned_cols=12 Identities=50% Similarity=0.775 Sum_probs=8.5
Q ss_pred HHHHHHHHHhhh
Q psy13980 507 SIVGVIFLMGLV 518 (532)
Q Consensus 507 ~~~~~~~~~g~~ 518 (532)
-++++||++|++
T Consensus 6 w~i~iifligll 17 (27)
T PRK14762 6 WAVLIIFLIGLL 17 (27)
T ss_pred HHHHHHHHHHHH
Confidence 356778888875
No 9
>PHA02844 putative transmembrane protein; Provisional
Probab=53.60 E-value=24 Score=29.03 Aligned_cols=16 Identities=19% Similarity=0.316 Sum_probs=11.9
Q ss_pred hccCCCcHHHHHHHHH
Q psy13980 478 LISAPSSLQDMYGAVQ 493 (532)
Q Consensus 478 ~~~~~~~~~~~~~~v~ 493 (532)
+.++.|+|++++..|+
T Consensus 13 msS~DdDFnnFI~vVk 28 (75)
T PHA02844 13 LSSENEDFNNFIDVVK 28 (75)
T ss_pred cCCchHHHHHHHHHHH
Confidence 3446888999888776
No 10
>PHA02975 hypothetical protein; Provisional
Probab=47.70 E-value=35 Score=27.68 Aligned_cols=17 Identities=24% Similarity=0.352 Sum_probs=12.5
Q ss_pred hccCCCcHHHHHHHHHh
Q psy13980 478 LISAPSSLQDMYGAVQR 494 (532)
Q Consensus 478 ~~~~~~~~~~~~~~v~~ 494 (532)
+.++.++|+++...|++
T Consensus 13 msS~DdDF~nFI~vVks 29 (69)
T PHA02975 13 LESNDSDFEDFIDTIMH 29 (69)
T ss_pred cCCChHHHHHHHHHHHH
Confidence 34568899998887763
No 11
>PHA02819 hypothetical protein; Provisional
Probab=44.08 E-value=43 Score=27.36 Aligned_cols=17 Identities=12% Similarity=0.307 Sum_probs=12.5
Q ss_pred hccCCCcHHHHHHHHHh
Q psy13980 478 LISAPSSLQDMYGAVQR 494 (532)
Q Consensus 478 ~~~~~~~~~~~~~~v~~ 494 (532)
+.++.|+|+++...|.+
T Consensus 13 msS~DdDFnnFI~VVks 29 (71)
T PHA02819 13 MSSSDDDFNNFINVVKS 29 (71)
T ss_pred hCCchhHHHHHHHHHHH
Confidence 34468899999887763
No 12
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=43.41 E-value=26 Score=23.55 Aligned_cols=18 Identities=17% Similarity=0.408 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHhhhc
Q psy13980 502 AGLLISIVGVIFLMGLVC 519 (532)
Q Consensus 502 ~~~~~~~~~~~~~~g~~~ 519 (532)
++++++++.+++|+|-++
T Consensus 3 ~~vi~g~llv~lLl~YLv 20 (29)
T PRK14750 3 FSIVCGALLVLLLLGYLV 20 (29)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 468889999999999776
No 13
>PHA02692 hypothetical protein; Provisional
Probab=40.03 E-value=54 Score=26.75 Aligned_cols=16 Identities=6% Similarity=0.262 Sum_probs=12.0
Q ss_pred ccCCCcHHHHHHHHHh
Q psy13980 479 ISAPSSLQDMYGAVQR 494 (532)
Q Consensus 479 ~~~~~~~~~~~~~v~~ 494 (532)
.++.|+|+++...|.+
T Consensus 14 ss~DdDF~~Fi~vVks 29 (70)
T PHA02692 14 SNSDEDFEEFLNIVRT 29 (70)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 4468899998887764
No 14
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=38.15 E-value=29 Score=31.53 Aligned_cols=29 Identities=21% Similarity=0.254 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHhhhccccccchhh
Q psy13980 500 YLAGLLISIVGVIFLMGLVCGRVANRSAA 528 (532)
Q Consensus 500 ~~~~~~~~~~~~~~~~g~~~gr~t~r~~~ 528 (532)
||.+++++++.-+|++|++.|-+--|+.|
T Consensus 44 ~lYIL~vmgfFgff~~gImlsyvRSKK~E 72 (129)
T PF02060_consen 44 YLYILVVMGFFGFFTVGIMLSYVRSKKRE 72 (129)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 55555555566678999999976544333
No 15
>PHA02650 hypothetical protein; Provisional
Probab=36.89 E-value=57 Score=27.23 Aligned_cols=16 Identities=13% Similarity=0.314 Sum_probs=11.8
Q ss_pred hccCCCcHHHHHHHHH
Q psy13980 478 LISAPSSLQDMYGAVQ 493 (532)
Q Consensus 478 ~~~~~~~~~~~~~~v~ 493 (532)
+.++.|+|++++..|+
T Consensus 13 msS~DdDFnnFI~VVk 28 (81)
T PHA02650 13 MSSTDDDFNNFIDVVK 28 (81)
T ss_pred cCCcHHHHHHHHHHHH
Confidence 3446888998888775
No 16
>PHA02639 EEV host range protein; Provisional
Probab=35.43 E-value=16 Score=38.04 Aligned_cols=26 Identities=23% Similarity=0.577 Sum_probs=20.6
Q ss_pred HhCchhHHHHH-HHHHHHHHHHHHhhh
Q psy13980 493 QRSPARRYLAG-LLISIVGVIFLMGLV 518 (532)
Q Consensus 493 ~~s~~~~~~~~-~~~~~~~~~~~~g~~ 518 (532)
+..++.|||.+ ++.+++++||++|+.
T Consensus 249 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 275 (295)
T PHA02639 249 QEKENGNIFTVIILLSIISFMFILGVL 275 (295)
T ss_pred hhcccCcEEEhhHHHHHHHHHHHHHHH
Confidence 34567777766 788899999999987
No 17
>PF04173 DoxD: TQO small subunit DoxD; InterPro: IPR007301 P97207 from SWISSPROT is a subunit of the terminal quinol oxidase present in the plasma membrane of Acidianus ambivalens, with calculated molecular mass of 20.4 kDa []. Thiosulphate:quinone oxidoreductase (TQO) is one of the early steps in elemental sulphur oxidation. A novel TQO enzyme was purified from the thermo-acidophilic archaeon A. ambivalens and shown to consist of a large subunit (DoxD) and a smaller subunit (DoxA). The DoxD- and DoxA-like two subunits are fused together in a single polypeptide in Q8AAF0 from SWISSPROT.
Probab=35.32 E-value=62 Score=30.93 Aligned_cols=39 Identities=15% Similarity=0.304 Sum_probs=33.6
Q ss_pred CCCcHHHHHHHHHhCchhHHHHHHHHH----HHHHHHHHhhhc
Q psy13980 481 APSSLQDMYGAVQRSPARRYLAGLLIS----IVGVIFLMGLVC 519 (532)
Q Consensus 481 ~~~~~~~~~~~v~~s~~~~~~~~~~~~----~~~~~~~~g~~~ 519 (532)
.+..+++++..|..+|.--|-.+++++ ++|+.+++|++.
T Consensus 46 ~a~~~~~~i~~~v~~~~~l~~~lv~ft~vE~~~Gl~LilGL~T 88 (167)
T PF04173_consen 46 HALPIKPFIEFVVLPPDLLFGFLVVFTIVEIIFGLLLILGLFT 88 (167)
T ss_pred CccccHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468899999999999999999888888 778888888764
No 18
>PF09838 DUF2065: Uncharacterized protein conserved in bacteria (DUF2065); InterPro: IPR019201 This entry represents a protein found in various prokaryotic proteins, and has no known function.
Probab=34.39 E-value=62 Score=25.27 Aligned_cols=34 Identities=26% Similarity=0.569 Sum_probs=28.0
Q ss_pred CCCcHHHHHHHHHhCchhHH-HHHHHHHHHHHHHH
Q psy13980 481 APSSLQDMYGAVQRSPARRY-LAGLLISIVGVIFL 514 (532)
Q Consensus 481 ~~~~~~~~~~~v~~s~~~~~-~~~~~~~~~~~~~~ 514 (532)
.|+.|.++..++...|.+.. +.+.+..++|++++
T Consensus 19 ~P~~~r~~l~~l~~~p~~~lR~~Gl~~~~~Gl~ll 53 (57)
T PF09838_consen 19 APERWRRMLRQLAQLPDRQLRRIGLVSMVIGLVLL 53 (57)
T ss_pred CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999999887 67777777776654
No 19
>PF11688 DUF3285: Protein of unknown function (DUF3285); InterPro: IPR021702 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=33.96 E-value=77 Score=23.49 Aligned_cols=29 Identities=14% Similarity=0.028 Sum_probs=17.9
Q ss_pred CCCcHHHHHHHHHhCchhHHHHHHHHHHH
Q psy13980 481 APSSLQDMYGAVQRSPARRYLAGLLISIV 509 (532)
Q Consensus 481 ~~~~~~~~~~~v~~s~~~~~~~~~~~~~~ 509 (532)
||.||=-|++.=|----+.+++=....++
T Consensus 3 p~pSyvKLAMRNMVRKg~~SL~HF~LT~~ 31 (45)
T PF11688_consen 3 PPPSYVKLAMRNMVRKGGTSLFHFGLTAV 31 (45)
T ss_pred CCchHHHHHHHHHHHccCcchhHHHHHHH
Confidence 78899999987765544444443333333
No 20
>PHA03054 IMV membrane protein; Provisional
Probab=33.07 E-value=80 Score=25.82 Aligned_cols=15 Identities=27% Similarity=0.255 Sum_probs=11.0
Q ss_pred ccCCCcHHHHHHHHH
Q psy13980 479 ISAPSSLQDMYGAVQ 493 (532)
Q Consensus 479 ~~~~~~~~~~~~~v~ 493 (532)
.++.++|+++...|+
T Consensus 14 ss~d~Df~~Fi~vV~ 28 (72)
T PHA03054 14 GSPEDDLTDFIEIVK 28 (72)
T ss_pred CCchHHHHHHHHHHH
Confidence 346788888887775
No 21
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=31.92 E-value=1.4e+02 Score=23.56 Aligned_cols=19 Identities=16% Similarity=0.267 Sum_probs=12.9
Q ss_pred cchHhHHHHHHHHHHHHHH
Q psy13980 456 SLQEQCKTMLLARIDMFRN 474 (532)
Q Consensus 456 ~L~~~C~~~L~~r~~~~~~ 474 (532)
-=|+.|++...+|.+...+
T Consensus 19 fCS~~C~~~~~k~qk~~~~ 37 (59)
T PF09889_consen 19 FCSPKCREEYRKRQKRMRK 37 (59)
T ss_pred hhCHHHHHHHHHHHHHHHH
Confidence 3578999988776654333
No 22
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=29.68 E-value=45 Score=24.98 Aligned_cols=17 Identities=12% Similarity=0.464 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHhhh
Q psy13980 502 AGLLISIVGVIFLMGLV 518 (532)
Q Consensus 502 ~~~~~~~~~~~~~~g~~ 518 (532)
+.++.+++.+++|+|++
T Consensus 6 ~~iilg~~ll~~LigiC 22 (49)
T PF05624_consen 6 VLIILGALLLLLLIGIC 22 (49)
T ss_pred eHHHHHHHHHHHHHHHH
Confidence 45677778888889986
No 23
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=29.08 E-value=89 Score=26.02 Aligned_cols=39 Identities=15% Similarity=0.416 Sum_probs=19.0
Q ss_pred CCcHHHHHHHHHhCch----hHHHHHHHHHHHHHHHHHhhhcc
Q psy13980 482 PSSLQDMYGAVQRSPA----RRYLAGLLISIVGVIFLMGLVCG 520 (532)
Q Consensus 482 ~~~~~~~~~~v~~s~~----~~~~~~~~~~~~~~~~~~g~~~g 520 (532)
.+.|..-+.++....- +-|+++.+.+++++++++..+||
T Consensus 47 a~~F~k~a~~l~r~~~~~~~k~~~i~~~iv~~~~~~i~~~~~g 89 (89)
T PF00957_consen 47 AKQFKKNAKKLKRKMWWRNYKLYIIIIIIVIIIILIIIIVICG 89 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhhhhhHHHHHHhC
Confidence 3444444444443333 34455555555666666667776
No 24
>PF15102 TMEM154: TMEM154 protein family
Probab=29.06 E-value=13 Score=34.52 Aligned_cols=35 Identities=14% Similarity=0.184 Sum_probs=22.2
Q ss_pred hCchhHHHHHHHHH-H-HHHHHHHhhhccccccchhh
Q psy13980 494 RSPARRYLAGLLIS-I-VGVIFLMGLVCGRVANRSAA 528 (532)
Q Consensus 494 ~s~~~~~~~~~~~~-~-~~~~~~~g~~~gr~t~r~~~ 528 (532)
.+++-+++|+|+.- + +++|||+.++.-.+.||++.
T Consensus 51 ~~~q~efiLmIlIP~VLLvlLLl~vV~lv~~~kRkr~ 87 (146)
T PF15102_consen 51 DSSQLEFILMILIPLVLLVLLLLSVVCLVIYYKRKRT 87 (146)
T ss_pred CCCCcceEEEEeHHHHHHHHHHHHHHHheeEEeeccc
Confidence 34566766665554 3 34567778888888888443
No 25
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=27.01 E-value=1.2e+02 Score=24.29 Aligned_cols=32 Identities=16% Similarity=0.044 Sum_probs=26.9
Q ss_pred CCCcHHHHHHHHHhCchhHHHHHHHHHHHHHH
Q psy13980 481 APSSLQDMYGAVQRSPARRYLAGLLISIVGVI 512 (532)
Q Consensus 481 ~~~~~~~~~~~v~~s~~~~~~~~~~~~~~~~~ 512 (532)
..++-++....++.+|-+++++++++..+...
T Consensus 29 ~~~~~~~~~~~l~~~p~G~~ll~~vg~gli~~ 60 (73)
T PF06724_consen 29 SDQGSQGALAWLLEQPFGRWLLGAVGLGLIGY 60 (73)
T ss_pred CCCCHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence 47899999999999999999998877655443
No 26
>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....
Probab=26.22 E-value=73 Score=33.78 Aligned_cols=35 Identities=20% Similarity=0.348 Sum_probs=29.2
Q ss_pred HHHHHHHHHhCchhHHHHHHHHHHHHHHHHHhhhc
Q psy13980 485 LQDMYGAVQRSPARRYLAGLLISIVGVIFLMGLVC 519 (532)
Q Consensus 485 ~~~~~~~v~~s~~~~~~~~~~~~~~~~~~~~g~~~ 519 (532)
++|++..+++.|-|.++++++++++++-|++|++-
T Consensus 22 ~~D~~~tlv~~~W~~~l~~f~~~y~~~~~~Fa~~y 56 (336)
T PF01007_consen 22 LRDLYTTLVDMSWRWFLLLFVLSYLLSWLFFALLY 56 (336)
T ss_dssp CHTHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhccCCCeeeeeehhHHHHHHHHHHHHHHH
Confidence 68999999999998778878888989888888664
No 27
>PF05781 MRVI1: MRVI1 protein; InterPro: IPR008677 This family consists of mammalian MRVI1 proteins which are related to the lymphoid-restricted membrane protein (JAW1) and the IP3 receptor associated cGMP kinase substrates A and B (IRAGA and IRAGB). The function of MRVI1 is unknown although mutations in the Mrvi1 gene induces myeloid leukaemia by altering the expression of a gene important for myeloid cell growth and/or differentiation so it has been speculated that Mrvi1 is a tumour suppressor gene []. IRAG is very similar in sequence to MRVI1 and is an essential NO/cGKI-dependent regulator of IP3-induced calcium release. Activation of cGKI decreases IP3-stimulated elevations in intracellular calcium, induces smooth muscle relaxation and contributes to the antiproliferative and pro-apoptotic effects of NO/cGMP []. Jaw1 is a member of a class of proteins with COOH-terminal hydrophobic membrane anchors and is structurally similar to proteins involved in vesicle targeting and fusion. This suggests that the function and/or the structure of the ER in lymphocytes may be modified by lymphoid-restricted resident ER proteins [].
Probab=26.21 E-value=64 Score=36.19 Aligned_cols=28 Identities=21% Similarity=0.171 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccccch
Q psy13980 499 RYLAGLLISIVGVIFLMGLVCGRVANRS 526 (532)
Q Consensus 499 ~~~~~~~~~~~~~~~~~g~~~gr~t~r~ 526 (532)
++|.+++++||++..|+|++.|++..|.
T Consensus 478 K~LWIsvAliVLLAaLlSfLtg~~fq~~ 505 (538)
T PF05781_consen 478 KVLWISVALIVLLAALLSFLTGLFFQRC 505 (538)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccccch
Confidence 8999999999999999999999988874
No 28
>PRK13836 conjugal transfer protein TrbF; Provisional
Probab=25.94 E-value=88 Score=30.87 Aligned_cols=35 Identities=14% Similarity=0.076 Sum_probs=25.0
Q ss_pred CcHHHHHHHHHhCchhHHHHHHH-HHHHHHHHHHhhh
Q psy13980 483 SSLQDMYGAVQRSPARRYLAGLL-ISIVGVIFLMGLV 518 (532)
Q Consensus 483 ~~~~~~~~~v~~s~~~~~~~~~~-~~~~~~~~~~g~~ 518 (532)
.+|+|.+..+..| .+++.+..+ ++++.++.+.|++
T Consensus 16 ~~w~er~g~~~~~-~~~W~~~a~~~l~~a~~~v~~~~ 51 (220)
T PRK13836 16 QEWNERYGSYVKA-AAAWRIVGILGLTMAVIGFGYAL 51 (220)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788999999999 688887766 4444445455554
No 29
>COG5473 Predicted integral membrane protein [Function unknown]
Probab=24.41 E-value=2.1e+02 Score=29.57 Aligned_cols=45 Identities=16% Similarity=0.301 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHh--------hccCCCcHHHHHHHHHhCchhHHHHHHHHHHHHH
Q psy13980 465 LLARIDMFRNAEA--------LISAPSSLQDMYGAVQRSPARRYLAGLLISIVGV 511 (532)
Q Consensus 465 L~~r~~~~~~a~~--------~~~~~~~~~~~~~~v~~s~~~~~~~~~~~~~~~~ 511 (532)
+......|.|+++ ++ ||.||+.+...|.+-+ .-.=++.+..++++
T Consensus 145 l~alF~lwl~~a~~iy~~~fgi~-~p~ti~tF~~~vltTg-~g~~~~~lG~~~g~ 197 (290)
T COG5473 145 LFALFALWLYMAQGIYTGCFGIA-PPVTISTFFRLVLTTG-LGWALIFLGNLIGV 197 (290)
T ss_pred HHHHHHHHHHHHHHHHhhccCCC-CCccHHHHHHHHhccc-hhhHHHHHHHHHHH
Confidence 5666788999987 45 7999999999999999 43333333333333
No 30
>PF06747 CHCH: CHCH domain; InterPro: IPR010625 A conserved motif was identified in the LOC118487 protein was called the CHCH motif. Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterised proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11 kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation []. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit []. The CHCH domain was previously called DUF657 []. ; PDB: 2ZXT_A 3A3C_A 2L0Y_A 2K3J_A.
Probab=24.02 E-value=74 Score=21.63 Aligned_cols=26 Identities=19% Similarity=0.574 Sum_probs=20.0
Q ss_pred cchhhHhhhccCCCCCCCccccHHHHHHHHH
Q psy13980 56 RDVMDCLVQHKNSPELRGEPKCRQSIEHFQL 86 (532)
Q Consensus 56 g~vl~CL~~~k~~~~m~~~~~C~~~v~~~q~ 86 (532)
...|.||.+|.++ . . +|+..+..|+.
T Consensus 6 ~~~~~Cl~~n~~~--~-~--~C~~~~~~~~~ 31 (35)
T PF06747_consen 6 KAYLACLKENNFD--W-S--KCRKEFKAYKE 31 (35)
T ss_dssp HHHHHHHHCH-SS--T-C--CCHHHHHHHHH
T ss_pred HHHHHHHHHCCCc--H-H--hhHHHHHHHHH
Confidence 3679999999997 3 3 79999988764
No 31
>cd08608 GDPD_GDE2 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE2 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE2 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 5 (GDPD5)) and their metazoan homologs. Mammalian GDE2 is transmembrane protein primarily expressed in mature neurons. It is a mammalian homolog of bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyze the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Mammalian GDE2 selectively hydrolyzes glycerophosphocholine (GPC) and has been characterized as GPC-GDE (EC 3.1.4.2) that contributes to osmotic regulation of cellular GPC. Mammalian GDE2 functions in a complex with an antioxidant scavenger peroxiredoxin1 (Prdx1) to control motor neuron differenti
Probab=23.01 E-value=74 Score=33.93 Aligned_cols=38 Identities=13% Similarity=0.222 Sum_probs=22.9
Q ss_pred CCcHHHHHHHHHhCchhHHHHHHHHH-HHHHHHHHhhhc
Q psy13980 482 PSSLQDMYGAVQRSPARRYLAGLLIS-IVGVIFLMGLVC 519 (532)
Q Consensus 482 ~~~~~~~~~~v~~s~~~~~~~~~~~~-~~~~~~~~g~~~ 519 (532)
|+-+..+-.-+.-=|..-|.|+|+.+ .|++++++|+|+
T Consensus 253 P~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 (351)
T cd08608 253 SHVLRKVPFPLWLMPPDEYCLIWITSDLISFAVIVGIFI 291 (351)
T ss_pred HHHHHHhhhhhhhCChhhhhHHHHHHHHHHHHHHHHHHH
Confidence 33333333334444556677777665 677778888876
No 32
>PF04241 DUF423: Protein of unknown function (DUF423); InterPro: IPR006696 This is a potential integral membrane protein with no known function.
Probab=22.60 E-value=1.7e+02 Score=24.81 Aligned_cols=54 Identities=11% Similarity=0.112 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhhccCCCcHHHHHHHHHhC--chhHHHHHHHHHHHHHHHHHhhhcc
Q psy13980 466 LARIDMFRNAEALISAPSSLQDMYGAVQRS--PARRYLAGLLISIVGVIFLMGLVCG 520 (532)
Q Consensus 466 ~~r~~~~~~a~~~~~~~~~~~~~~~~v~~s--~~~~~~~~~~~~~~~~~~~~g~~~g 520 (532)
.++.+.|+.|.++. .-.++.=+...+... ++|..-+.....++|++++-|-+-.
T Consensus 16 ~~~~~~~~tA~~y~-~~Halall~~~~~~~~~~~~~~~~a~~l~~~G~~lFsGslY~ 71 (89)
T PF04241_consen 16 PEQLEWFQTAVQYQ-FIHALALLALGLLAQRRSSRLLRLAGWLFLLGTLLFSGSLYY 71 (89)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHhHHHHH
Confidence 34667888888777 445554444443333 5555555555566666666655443
No 33
>CHL00082 psbZ photosystem II protein Z
Probab=21.84 E-value=48 Score=26.50 Aligned_cols=31 Identities=16% Similarity=0.395 Sum_probs=26.3
Q ss_pred CCCcHHHHHHHHHhCchhHHHHHHHHHHHHHHHHHhhhcc
Q psy13980 481 APSSLQDMYGAVQRSPARRYLAGLLISIVGVIFLMGLVCG 520 (532)
Q Consensus 481 ~~~~~~~~~~~v~~s~~~~~~~~~~~~~~~~~~~~g~~~g 520 (532)
.|++|+ .+||.++.....-++++|+.|++-+
T Consensus 29 sp~~W~---------~sK~~v~~g~~~W~~LV~lvgilns 59 (62)
T CHL00082 29 SPDGWS---------SNKNVVFSGTSLWIGLVFLVGILNS 59 (62)
T ss_pred CCCcch---------hhcceeeeHHHHHHHHHHHHHHHHh
Confidence 478876 6899999999999999999998754
No 34
>PF03208 PRA1: PRA1 family protein; InterPro: IPR004895 This family includes yeast hypothetical proteins and the uncharacterised rat prenylated rab acceptor protein PRA1.
Probab=21.80 E-value=1.2e+02 Score=27.73 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=28.6
Q ss_pred HHHHHHHhhccCCCcHHHHHHHHHhC---chhHHHHHHHHHHHH
Q psy13980 470 DMFRNAEALISAPSSLQDMYGAVQRS---PARRYLAGLLISIVG 510 (532)
Q Consensus 470 ~~~~~a~~~~~~~~~~~~~~~~v~~s---~~~~~~~~~~~~~~~ 510 (532)
+++.. +++. .|.|++++...+..- =+.||++++++.++.
T Consensus 13 eF~~~-~~fs-~P~~~~~~~~Ri~~Nl~~F~~NY~~i~~~~~~~ 54 (153)
T PF03208_consen 13 EFFDT-SRFS-VPSSFSEAKSRIKRNLSYFQTNYLLIFLLLFLI 54 (153)
T ss_pred HHhCc-cCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44433 3566 679999999999876 788999887766443
No 35
>PF01737 Ycf9: YCF9; InterPro: IPR002644 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents PsbZ (Ycf9), which is a core low molecular weight transmembrane protein of photosystem II in thylakoid-containing chloroplasts of cyanobacteria and plants. It is thought to be located at the interface of PSII and LHCII (light-harvesting complex II) complexes, the latter containing the light-harvesting antenna. PsbZ appears to act as a structural factor, or linker, that stabilises the PSII-LHCII supercomplexes, which fail to form in PsbZ-deficient mutants. This may in part be due to the marked decrease in two LHCII antenna proteins, CP26 and CP29, found in PsbZ-deficient mutants, which result in structural changes, as well as functional modifications in PSII []. PsbZ may also be involved in photo-protective processes under sub-optimal growth conditions.; GO: 0015979 photosynthesis, 0042549 photosystem II stabilization, 0009523 photosystem II, 0009539 photosystem II reaction center; PDB: 3A0B_Z 3ARC_Z 3A0H_Z 3PRQ_Z 4FBY_l 2AXT_z 3PRR_Z 3BZ1_Z 3KZI_Z 1S5L_Z ....
Probab=21.62 E-value=1.3e+02 Score=23.93 Aligned_cols=25 Identities=16% Similarity=0.380 Sum_probs=22.1
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhcc
Q psy13980 496 PARRYLAGLLISIVGVIFLMGLVCG 520 (532)
Q Consensus 496 ~~~~~~~~~~~~~~~~~~~~g~~~g 520 (532)
-+||.++.-...-++++|+.|++-+
T Consensus 32 ~sK~~i~~g~~lW~~LV~lvgilns 56 (59)
T PF01737_consen 32 SSKNLIFSGAGLWIGLVFLVGILNS 56 (59)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hhccchhhHHHHHHHHHHHHHhHhh
Confidence 4799999999999999999998754
No 36
>KOG4503|consensus
Probab=20.80 E-value=1.1e+02 Score=30.34 Aligned_cols=40 Identities=23% Similarity=0.288 Sum_probs=35.2
Q ss_pred CCcHHHHHHHHHhCchhHHHHHHHHHHHHHHHHHhhhccc
Q psy13980 482 PSSLQDMYGAVQRSPARRYLAGLLISIVGVIFLMGLVCGR 521 (532)
Q Consensus 482 ~~~~~~~~~~v~~s~~~~~~~~~~~~~~~~~~~~g~~~gr 521 (532)
++.|.|.++.....=+=+.+|.+++++|+++|.--...|-
T Consensus 175 A~vFgdvIdaFi~~~s~rs~lfili~vig~lf~sn~afg~ 214 (230)
T KOG4503|consen 175 AEVFGDVIDAFIRKFSVRSSLFILIFVIGFLFFSNAAFGF 214 (230)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhhhhHhHH
Confidence 5889999999999999999999999999999987666663
No 37
>COG5085 Predicted membrane protein [Function unknown]
Probab=20.80 E-value=1.1e+02 Score=30.34 Aligned_cols=40 Identities=23% Similarity=0.288 Sum_probs=35.2
Q ss_pred CCcHHHHHHHHHhCchhHHHHHHHHHHHHHHHHHhhhccc
Q psy13980 482 PSSLQDMYGAVQRSPARRYLAGLLISIVGVIFLMGLVCGR 521 (532)
Q Consensus 482 ~~~~~~~~~~v~~s~~~~~~~~~~~~~~~~~~~~g~~~gr 521 (532)
++.|.|.++.....=+=+.+|.+++++|+++|.--...|-
T Consensus 175 A~vFgdvIdaFi~~~s~rs~lfili~vig~lf~sn~afg~ 214 (230)
T COG5085 175 AEVFGDVIDAFIRKFSVRSSLFILIFVIGFLFFSNAAFGF 214 (230)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhhhhHhHH
Confidence 5889999999999999999999999999999987666663
No 38
>PTZ00443 Thioredoxin domain-containing protein; Provisional
Probab=20.44 E-value=1.1e+02 Score=30.52 Aligned_cols=8 Identities=38% Similarity=0.501 Sum_probs=4.3
Q ss_pred CCCcHHHH
Q psy13980 481 APSSLQDM 488 (532)
Q Consensus 481 ~~~~~~~~ 488 (532)
+|.++-++
T Consensus 149 ~p~~~~~~ 156 (224)
T PTZ00443 149 APLSFFAL 156 (224)
T ss_pred CchHHHHH
Confidence 46666533
No 39
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=20.16 E-value=35 Score=27.41 Aligned_cols=25 Identities=20% Similarity=0.377 Sum_probs=0.7
Q ss_pred HHHHHHHHHHHHHHHhhhccccccc
Q psy13980 501 LAGLLISIVGVIFLMGLVCGRVANR 525 (532)
Q Consensus 501 ~~~~~~~~~~~~~~~g~~~gr~t~r 525 (532)
|.+++.++++.|+|+.++.-|+-||
T Consensus 15 IaG~Vvgll~ailLIlf~iyR~rkk 39 (64)
T PF01034_consen 15 IAGGVVGLLFAILLILFLIYRMRKK 39 (64)
T ss_dssp ----------------------S--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445556778888999999998766
Done!