Query 014496
Match_columns 423
No_of_seqs 21 out of 23
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 05:42:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014496.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014496hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07306 Porin3_VDAC Voltage-de 99.2 3.4E-09 7.3E-14 99.0 20.0 264 40-362 7-276 (276)
2 cd07303 Porin3 Eukaryotic pori 98.7 1.7E-06 3.7E-11 81.8 19.6 264 40-361 5-273 (274)
3 cd07305 Porin3_Tom40 Transloca 98.7 3.2E-06 7E-11 79.5 19.5 243 62-362 27-279 (279)
4 PF01459 Porin_3: Eukaryotic p 98.1 0.00013 2.8E-09 65.9 15.0 167 152-358 105-273 (273)
5 KOG3126 Porin/voltage-dependen 97.8 0.003 6.5E-08 62.2 19.3 263 41-361 11-279 (281)
6 PF13557 Phenol_MetA_deg: Puta 90.2 13 0.00027 33.3 13.6 63 157-233 47-115 (248)
7 cd00342 gram_neg_porins Porins 86.0 24 0.00052 32.6 13.0 119 182-320 131-258 (329)
8 KOG3296 Translocase of outer m 82.8 1.9 4.2E-05 43.5 4.9 52 310-362 257-308 (308)
9 PF13609 Porin_4: Gram-negativ 82.3 2.3 5E-05 38.6 4.8 71 155-227 187-262 (311)
10 cd07306 Porin3_VDAC Voltage-de 73.2 27 0.00059 33.2 9.2 80 89-175 103-182 (276)
11 TIGR01779 TonB-B12 TonB-depend 62.2 61 0.0013 33.1 9.7 32 337-371 564-595 (614)
12 cd00342 gram_neg_porins Porins 61.6 1.1E+02 0.0024 28.4 10.4 71 156-226 131-212 (329)
13 PF05553 DUF761: Cotton fibre 59.4 6.2 0.00013 29.1 1.6 16 245-260 10-25 (38)
14 cd07305 Porin3_Tom40 Transloca 54.7 81 0.0018 30.2 8.6 81 273-362 145-227 (279)
15 PF12519 DUF3722: Protein of u 54.5 47 0.001 33.1 7.2 72 38-127 86-160 (260)
16 PF02321 OEP: Outer membrane e 46.7 26 0.00056 28.2 3.5 24 329-352 31-54 (188)
17 PRK13483 enterobactin receptor 45.7 3E+02 0.0065 28.4 11.6 71 297-370 564-639 (660)
18 PRK04968 SecY interacting prot 39.7 23 0.00049 33.7 2.4 22 254-275 117-146 (181)
19 PF01459 Porin_3: Eukaryotic p 39.1 1.9E+02 0.004 26.5 8.1 89 268-362 135-226 (273)
20 PF13505 OMP_b-brl: Outer memb 37.6 1.6E+02 0.0035 23.5 6.7 24 298-321 43-66 (176)
21 TIGR01783 TonB-siderophor TonB 32.8 3.4E+02 0.0074 27.5 9.5 12 231-242 449-460 (650)
22 KOG0315 G-protein beta subunit 29.2 44 0.00095 34.2 2.6 62 339-408 11-72 (311)
23 PF13609 Porin_4: Gram-negativ 28.1 4.3E+02 0.0093 24.1 8.6 76 151-226 84-195 (311)
24 PRK10049 pgaA outer membrane p 28.1 75 0.0016 34.5 4.3 140 220-361 481-641 (765)
25 PF03922 OmpW: OmpW family; I 27.0 1.1E+02 0.0024 28.8 4.7 55 295-359 130-188 (192)
26 PF08379 Bact_transglu_N: Bact 25.9 1.3E+02 0.0028 23.7 4.2 54 60-115 20-77 (82)
27 PF03349 Toluene_X: Outer memb 25.5 1.1E+02 0.0023 29.9 4.5 84 209-319 264-347 (427)
28 PRK15267 subtilase cytotoxin s 22.2 1.1E+02 0.0024 28.5 3.6 39 237-275 53-127 (141)
29 PF00593 TonB_dep_Rec: TonB de 22.1 49 0.0011 26.4 1.2 20 302-321 3-23 (277)
30 PRK10959 outer membrane protei 21.8 4.9E+02 0.011 24.0 7.7 26 294-319 150-175 (212)
31 PF13372 Alginate_exp: Alginat 21.6 88 0.0019 30.6 3.1 66 217-286 243-313 (400)
32 PRK09408 ompX outer membrane p 20.8 1.8E+02 0.0038 27.0 4.7 65 299-373 86-154 (171)
33 PF04371 PAD_porph: Porphyromo 20.8 1.4E+02 0.003 29.9 4.3 54 40-107 166-225 (329)
34 PF06178 KdgM: Oligogalacturon 20.7 1.5E+02 0.0033 28.2 4.4 40 279-318 37-81 (218)
35 PF10082 DUF2320: Uncharacteri 20.7 5.9E+02 0.013 24.7 8.4 72 293-364 75-155 (381)
No 1
>cd07306 Porin3_VDAC Voltage-dependent anion channel of the outer mitochondrial membrane. The voltage-dependent anion channel (VDAC) regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane, which is highly permeable to small molecules. VDAC is the most abundant protein in the outer membrane, and membrane potentials can toggle VDAC between open or high-conducting and closed or low-conducting forms. VDAC binds to and is regulated in part by hexokinase, an interaction that renders mitochondria less susceptible to pro-apoptotic signals, most likely by intefering with VDAC's capability to respond to Bcl-2 family proteins. While VDAC appears to play a key role in mitochondrially induced cell death, a proposed involvement in forming the mitochondrial permeability transition pore, which is characteristic for damaged mitochondria and apoptosis, has been challenged by more recent studies.
Probab=99.18 E-value=3.4e-09 Score=99.01 Aligned_cols=264 Identities=16% Similarity=0.245 Sum_probs=170.3
Q ss_pred hhHHHHHHHHHHHHHhhccceeeeeecCCCCCCeeEEEEeccccCCCCCcccccceEEEEeecCCCCCceeeeeeccCCc
Q 014496 40 FAKLALKCLFDDYFEEARHFSTRIMLKPIDDPHVDMIATVSGPLDHKPEENIVGNALFRWQRELDDPHTFMDLFVSNSDP 119 (423)
Q Consensus 40 FgKlal~~LF~DYF~~a~~~~~rimLkP~dDPhVDl~Atvs~~~d~~~~~~~~G~alfRwQ~d~~dPhTF~Dl~vSt~~p 119 (423)
.||.|.-+|-.||.+..-++ -++=--..-|.+.++-... .....+.|++..++.- +..=+|..++|.+-
T Consensus 7 igK~akDll~k~y~~g~~kl----~~~tk~~~gv~~~~~g~~~---~~~~~~~g~~e~k~~~----~~~t~~~k~~t~n~ 75 (276)
T cd07306 7 IGKSAKDLLTKGYNFGAWKL----DVKTKTPNGVEFTSTGSKK---PDTGKVSGSLEAKYKI----KGLTLTQKWNTDNV 75 (276)
T ss_pred cccchhhcccCCCCCCCEEE----EEEEECCCCeEEEEEEEeC---CCCceEEEEEEEEEEe----CCEEEEEEEeCCCc
Confidence 48899999999997422222 2222222234444433322 1237788998888853 26677888888663
Q ss_pred ---eEEEeeccccCCcccceeeeeeeeecccCCCCCcceeeeeecccccccceeeecccccCCCCcceeEEeecccceee
Q 014496 120 ---VLRIRSSTYYPKWGFGAFGTIPLLMKKRISSEDYGVMGLRYGTGNLSFGAMLMPFAIKDELPKNAWLVSKMGRLTVG 196 (423)
Q Consensus 120 ---~l~~Rsc~y~Pkyg~GAFgv~PL~~~~~~~sedygvmGlRYgS~nlS~Ga~~~Pf~~s~e~pk~aWLV~k~G~ltaG 196 (423)
.+-++--.. |.--+-+=+.||=. ....-+-+.+.|-.+++.+-+. +++-..-.+-.. +|-....+.+|
T Consensus 76 l~t~v~~~~~~~-~glk~~~~~~~~p~-----~~~~s~kl~~~y~~~~~~~~~~-v~~~~~p~~~~s--~~~g~~~~~~G 146 (276)
T cd07306 76 LLTEITIEDLLA-PGLKLTLDTTFPPN-----TGKKSGKLKAGYKHDPININAD-VDLNKGPLVGAS--AVLGYKGFLLG 146 (276)
T ss_pred eeEEEEECcccC-CcceEEEEEEECCC-----CCCceEEEEEEEecCCeeEEEE-ecccCCCeeEEE--EEecccceEEE
Confidence 223332221 22222222222211 3456677899999987777544 222211111111 12222444455
Q ss_pred eeeecCCCCCcccccccccCcceeeeeccCCCCCCCccceeeeeeecccchhhhhHHHhhhhhhhcCCCccccEeeeeee
Q 014496 197 VQYEPQYGGKEDAKYKNLMNWSYAIGYGVGSGSPLSPSFNFGLELAKSSVFIASFYQHVVVQRRVKNPLEEDEIVGITNY 276 (423)
Q Consensus 197 vQykp~~g~~~~~~~~~l~nws~A~~YGVGs~SPLsPSFnf~lEL~~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgITNY 276 (423)
+|..=...+ ..+..|++|++|-- |.|.+++.+.....|.+||||.+- | -
T Consensus 147 ~e~~yd~~~------~~~~~~~~~~~Y~~-------~d~~~s~~l~~~~~l~~S~~~kv~-------~-----------~ 195 (276)
T cd07306 147 AEVVYDTAK------SKFTKYNFALGYTN-------GDFELSLKLNNGKTLRGSYFHKVS-------P-----------R 195 (276)
T ss_pred EEEEEeccC------CcEeeEEEEEEEec-------CCeEEEEEECCCCEEEEEEEEEcC-------C-----------C
Confidence 554432111 24667999999954 357999999888999999999753 1 2
Q ss_pred eeeeeEEEEeeccccccCCCCCcchheeccccccceeEEeeecCCCccceeeeeeccccceeEEEEEEeeeccc---Ccc
Q 014496 277 IDFGFELQTRIDDAKTANSIPESSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVV---GKT 353 (423)
Q Consensus 277 iD~gfEl~t~vd~~~~~~~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~---g~~ 353 (423)
+.+|.|+.-... ..+.++.+|+.|+.+++.+||||+. ....++++++..|+|.+++++++.-|+.+ +..
T Consensus 196 l~~g~e~~~~~~-------~~~~~~~vg~~y~l~~~~~vkakv~-~~g~v~~~y~~kl~~~v~~tls~~~d~~~~~~~~~ 267 (276)
T cd07306 196 LAVGAKVTWYSG-------TNETTFAVGGQYALDPDALVKAKVN-NDGQLGLSYQHKLRPGVTLTLSAGFDAKNLNQGGH 267 (276)
T ss_pred eEEEEEEEEecC-------CCCcEEEEEEEEEcCCCCEEEEEEC-CCceEEEEEEEEcCCCcEEEEEEEeeccCcCCCCC
Confidence 667788876652 3567899999999999999999998 45678999999999999999999999998 999
Q ss_pred eeeeEEEec
Q 014496 354 SYGFGIRVE 362 (423)
Q Consensus 354 ~yGFgi~VE 362 (423)
.||+|+..|
T Consensus 268 K~G~~l~~~ 276 (276)
T cd07306 268 KFGLSLSLK 276 (276)
T ss_pred eEEEEEEeC
Confidence 999999764
No 2
>cd07303 Porin3 Eukaryotic porin family that forms channels in the mitochondrial outer membrane. The porin family 3 contains two sub-families that play vital roles in the mitochondrial outer membrane, a translocase for unfolded pre-proteins (Tom40) and the voltage-dependent anion channel (VDAC) that regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane.
Probab=98.73 E-value=1.7e-06 Score=81.79 Aligned_cols=264 Identities=15% Similarity=0.163 Sum_probs=170.5
Q ss_pred hhHHHHHHHHHHHHHhhccceeeeeecCCCCCCeeEEEEeccccCCCCCcccccceEEEEeecCCCCCceeeeeeccCCc
Q 014496 40 FAKLALKCLFDDYFEEARHFSTRIMLKPIDDPHVDMIATVSGPLDHKPEENIVGNALFRWQRELDDPHTFMDLFVSNSDP 119 (423)
Q Consensus 40 FgKlal~~LF~DYF~~a~~~~~rimLkP~dDPhVDl~Atvs~~~d~~~~~~~~G~alfRwQ~d~~dPhTF~Dl~vSt~~p 119 (423)
+||.+.--|-.|||+ -.|+.++=.-.+|+-+..+...-. ..+...|.|+..-++|-. +=..+.++..+|.+.
T Consensus 5 igk~ardll~~~~~~-----g~k~~v~~~~~~~f~~s~~~~~~~-~~~~~~~~~~~~~k~~~~--~~~~t~~~~~~~dn~ 76 (274)
T cd07303 5 LGKSARDLFTKGYGG-----GIKLDVKTKSELEFTSSGSANTET-IESTTKVGGSLETKYRWS--PYGLTFTEKWNTDNT 76 (274)
T ss_pred hhhhhHHhcccCCCC-----CEEEEEEecCCCccEEcccccccc-cCCCceEEEEEEEeeeec--CCCeEEEEEEEcCCc
Confidence 478888888888885 256666544446765555544322 134667888877777521 223466777777664
Q ss_pred -eEEEeecc-ccCCcccceeeeeeeeecccCCCCCcceeeeeecccccccceeee---cccccCCCCcceeEEeecccce
Q 014496 120 -VLRIRSST-YYPKWGFGAFGTIPLLMKKRISSEDYGVMGLRYGTGNLSFGAMLM---PFAIKDELPKNAWLVSKMGRLT 194 (423)
Q Consensus 120 -~l~~Rsc~-y~Pkyg~GAFgv~PL~~~~~~~sedygvmGlRYgS~nlS~Ga~~~---Pf~~s~e~pk~aWLV~k~G~lt 194 (423)
-+.+|--. ..|..-.=+-. .+.++ +.+-.+.+..-|-..++++...+- |.. ...++.---++.
T Consensus 77 ~~~~~~~~~~~~~glk~~~~~--~~~~~---~~~~~~q~~~~y~~~~~~~~l~~~~~gp~v-------~~~~~~g~~~~~ 144 (274)
T cd07303 77 LGLEITVEDQLSRGLKSTFDS--SFSPN---TGKKNAKIKTGYKRINLGCDVDFDIAGPLI-------RGALVLGYEGWL 144 (274)
T ss_pred ceEEEEEecccCCCeEEEEEE--EECCC---CccEEEEEeccEEcCCeeEEEEeecCCCEE-------EEEEEEeecceE
Confidence 34444221 12332222222 22111 122334666677777777776652 222 245555556677
Q ss_pred eeeeeecCCCCCcccccccccCcceeeeeccCCCCCCCccceeeeeeecccchhhhhHHHhhhhhhhcCCCccccEeeee
Q 014496 195 VGVQYEPQYGGKEDAKYKNLMNWSYAIGYGVGSGSPLSPSFNFGLELAKSSVFIASFYQHVVVQRRVKNPLEEDEIVGIT 274 (423)
Q Consensus 195 aGvQykp~~g~~~~~~~~~l~nws~A~~YGVGs~SPLsPSFnf~lEL~~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgIT 274 (423)
+|+|.-=..-+ -+..+++|++|..|- |.|++++.|.....|.+||||++- ++
T Consensus 145 ~G~e~~yd~~~-------~~~~~~~~~~y~~~y-----~d~~~s~~l~~~~~l~~Sy~hkvs----------~~------ 196 (274)
T cd07303 145 AGYQMVFETVS-------RVTQSNFAVGYKTDY-----NEFQAHTNVNDGTEFGGSIYHKVN----------DK------ 196 (274)
T ss_pred EEEEEEEeccc-------cccccceEEEEEccC-----CCeEEEEEEcCCCeEEEEEEEEcC----------Cc------
Confidence 77775433211 134578999998876 578899998777999999999863 22
Q ss_pred eeeeeeeEEEEeeccccccCCCCCcchheeccccccceeEEeeecCCCccceeeeeeccccceeEEEEEEeeecccCcce
Q 014496 275 NYIDFGFELQTRIDDAKTANSIPESSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVVGKTS 354 (423)
Q Consensus 275 NYiD~gfEl~t~vd~~~~~~~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~g~~~ 354 (423)
+.+|-|+.... ...+.++.+|+.++..++-.+|||+-..+-..++--+.| +|-++|++|+.-||.++.-.
T Consensus 197 --~~~g~e~~~~~-------~~~e~~~~vG~~y~l~~~~~vkakids~g~v~~~~~~~l-~~~~~ltls~~~D~~~~~~K 266 (274)
T cd07303 197 --LEVGVNLAATA-------GNSNTRFGIAAKYQVDPDACFSASVNNSSLVGLGYTQTL-KPGIKLTLSALLDHKAGGHK 266 (274)
T ss_pred --eEEEEEEEeec-------cCCccEEEEEEEEecCCCCEEEEEECCCceEEEEEEEEc-CCCcEEEEEEEecCCCCCee
Confidence 34455666543 136678999999999999999999988765444444555 99999999999999999999
Q ss_pred eeeEEEe
Q 014496 355 YGFGIRV 361 (423)
Q Consensus 355 yGFgi~V 361 (423)
+|+|+.+
T Consensus 267 fG~gl~~ 273 (274)
T cd07303 267 LGLGLEF 273 (274)
T ss_pred EEEEEEe
Confidence 9999865
No 3
>cd07305 Porin3_Tom40 Translocase of outer mitochondrial membrane 40 (Tom40). Tom40 forms a channel in the mitochondrial outer membrane with a pore about 1.5 to 2.5 nanometers wide. It functions as a transport channel for unfolded protein chains and forms a complex with Tom5, Tom6, Tom7, and Tom22. The primary receptors Tom20 and Tom70 recruit the unfolded precursor protein from the mitochondrial-import stimulating factor (MSF) or cytosolic Hsc70. The precursor passes through the Tom40 channel and through another channel in the inner membrane, formed by Tim23, to be finally translocated into the mitochondrial matrix. The process depends on a proton motive force across the inner membrane and requires a contact site where the outer and inner membranes come close. Tom40 is also involved in inserting outer membrane proteins into the membrane, most likely not via a lateral opening in the pore, but by transfering precursor proteins to an outer membrane sorting and assembly machinery.
Probab=98.67 E-value=3.2e-06 Score=79.50 Aligned_cols=243 Identities=14% Similarity=0.208 Sum_probs=158.2
Q ss_pred eeeecCCCCCCeeEEEEeccccCCCCCcccccceEEEEeecCCCCC--ceeeeeeccCCc-eEEEeeccccCCcccceee
Q 014496 62 RIMLKPIDDPHVDMIATVSGPLDHKPEENIVGNALFRWQRELDDPH--TFMDLFVSNSDP-VLRIRSSTYYPKWGFGAFG 138 (423)
Q Consensus 62 rimLkP~dDPhVDl~Atvs~~~d~~~~~~~~G~alfRwQ~d~~dPh--TF~Dl~vSt~~p-~l~~Rsc~y~Pkyg~GAFg 138 (423)
|+++.=--.||+-+..++.--.... -..+++....-+.. +|+|-.|-+.+. -.++. +...|....-+=.
T Consensus 27 r~~~~k~ls~~f~~shs~~lg~~~~-------~~~y~f~a~y~~~~~~~~~~~~id~~g~l~~~~~-~~~~~~~~~k~~~ 98 (279)
T cd07305 27 RLDVNKGLSPHFQVSHSLHLGSSSL-------TSSYQFGATYVGDKQYPFLQGDIDNDGNLNARII-HQLGDRLRSKLQA 98 (279)
T ss_pred EEEEccccCcCeeEEEEEEECCCCC-------CCCcEeeeEEecCCCcEEEEEEeCCCCceeEEEE-eccCcceEEEEEE
Confidence 4444445568888888776442220 22355555445566 888888886664 23333 2233333322222
Q ss_pred eeeeeecccCCCCCcceeeeeeccccccccee-eecccccCCCCcceeEEee----cccceeee--eeecCCCCCccccc
Q 014496 139 TIPLLMKKRISSEDYGVMGLRYGTGNLSFGAM-LMPFAIKDELPKNAWLVSK----MGRLTVGV--QYEPQYGGKEDAKY 211 (423)
Q Consensus 139 v~PL~~~~~~~sedygvmGlRYgS~nlS~Ga~-~~Pf~~s~e~pk~aWLV~k----~G~ltaGv--Qykp~~g~~~~~~~ 211 (423)
-++ .. ......+++-|-....+++.. ..|-... ..+..-++- -=+|.+|+ +|.. .+-
T Consensus 99 ~~~--~~----~~~~~q~~~dy~g~d~t~~l~~~n~~~~~---~sg~~~~~ylq~vt~~l~lG~E~~~~~-------~~~ 162 (279)
T cd07305 99 QLQ--DS----KFNMSQLELDYRGDDFTASLKLANPDILN---ETGIYVASYLQSVTPKLALGGELVYQR-------VPG 162 (279)
T ss_pred Eec--CC----CceeEEEEEEEcCCceEEEEEEeCCCccc---ccEEEEEEEEEEccCcEEEEEEEEEEE-------cCC
Confidence 222 11 233357788888887776666 3331100 011111111 11455553 4442 022
Q ss_pred ccccCcceeeeeccCCCCCCCccceeeeeeecccchhhhhHHHhhhhhhhcCCCccccEeeeeeeeeeeeEEEEeecccc
Q 014496 212 KNLMNWSYAIGYGVGSGSPLSPSFNFGLELAKSSVFIASFYQHVVVQRRVKNPLEEDEIVGITNYIDFGFELQTRIDDAK 291 (423)
Q Consensus 212 ~~l~nws~A~~YGVGs~SPLsPSFnf~lEL~~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgITNYiD~gfEl~t~vd~~~ 291 (423)
.....+++|+.|-- +.+++++.|.....+.+||||++ +.-+++|-|++...
T Consensus 163 ~~~~~~~~~~rY~~-------~d~~~s~~l~~~~~l~asY~~kv------------------s~~l~lG~el~~~~---- 213 (279)
T cd07305 163 NGISVLSYAARYTA-------GNWIASGQLGAQGGLHLSYYRKL------------------SDKLQLGVELELNL---- 213 (279)
T ss_pred CCceeEEEEEEEcc-------CCEEEEEEEcCCCeEEEEEEEEc------------------ccceEeeeeeeecc----
Confidence 35666889999965 57799999999899999999953 33577888888764
Q ss_pred ccCCCCCcchheeccccccceeEEeeecCCCccceeeeeeccccceeEEEEEEeeecccCcceeeeEEEec
Q 014496 292 TANSIPESSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVVGKTSYGFGIRVE 362 (423)
Q Consensus 292 ~~~~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~g~~~yGFgi~VE 362 (423)
...++.+.+|+.|+.. +..+||++...+...++--|.| +|.++|++|++.||.++...+|+|+.+|
T Consensus 214 ---~~~es~~tvg~~y~~~-~~~~k~~ids~g~v~~~~e~~l-~~~~~l~ls~~~d~~~~~~kfG~gl~i~ 279 (279)
T cd07305 214 ---RTRESTATLGYQYDFR-QSRFRGSIDSNGKVSAVLEKRL-PLPLSLLLSGELNHVKNDYKFGFGLTIG 279 (279)
T ss_pred ---cCCceeEEEEEEEEcC-CCEEEEEEcCCCEEEEEEEEec-CCCeEEEEEEEEcccCCcceEEEEEEeC
Confidence 2466778999999988 9999999999887777777887 9999999999999999999999999875
No 4
>PF01459 Porin_3: Eukaryotic porin; InterPro: IPR001925 The major protein of the outer mitochondrial membrane of eukaryotes is a porin that forms a voltage-dependent anion-selective channel (VDAC) that behaves as a general diffusion pore for small hydrophilic molecules [, , , ]. The channel adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. This protein contains about 280 amino acids and its sequence is composed of between 12 to 16 beta-strands that span the mitochondrial outer membrane. Yeast contains two members of this family (genes POR1 and POR2); vertebrates have at least three members (genes VDAC1, VDAC2 and VDAC3) [].; GO: 0008308 voltage-gated anion channel activity, 0006820 anion transport, 0044070 regulation of anion transport, 0055085 transmembrane transport, 0005741 mitochondrial outer membrane; PDB: 3EMN_X 2K4T_A 2JK4_A.
Probab=98.11 E-value=0.00013 Score=65.87 Aligned_cols=167 Identities=17% Similarity=0.277 Sum_probs=117.4
Q ss_pred CcceeeeeecccccccceeeecccccCCCCcceeEEeecc-cceeeeeeecCCCCCcccccccccCcceeeeeccCCCCC
Q 014496 152 DYGVMGLRYGTGNLSFGAMLMPFAIKDELPKNAWLVSKMG-RLTVGVQYEPQYGGKEDAKYKNLMNWSYAIGYGVGSGSP 230 (423)
Q Consensus 152 dygvmGlRYgS~nlS~Ga~~~Pf~~s~e~pk~aWLV~k~G-~ltaGvQykp~~g~~~~~~~~~l~nws~A~~YGVGs~SP 230 (423)
.-..+++.|...++++.+.+.- .. .-+-...++.+ .+ ++.+|+|..=.... .++..|+.+++|.-+=+
T Consensus 105 ~~~~l~~~y~~~~~~~~~~~~~-~~-~~~~~~s~~~~-v~~~~~lG~e~~~~~~~------~~~~~~~~~~~~~~~Y~-- 173 (273)
T PF01459_consen 105 KSAQLEADYKGDDFNATFKVDN-DN-NPIFNASYVQS-VTPNLALGAEATYDLSS------GKSSKYNAGLSYAARYT-- 173 (273)
T ss_dssp EEEEEEEEEEETTEEEEEEEEE-ST-S-EEEEEEEEE-ET-TEEEEEEEEEETTT------TCEEEEEEEEEEEET----
T ss_pred eeeEEEEEEecCCEEEEEEEcc-cC-CCcEEEEEEEe-ccccEEEEEEEEEeccc------CCcCcceEEEEEecccc--
Confidence 5568899999998888877764 21 11222233443 45 88999887644333 23445888888887633
Q ss_pred CCccceeeeeee-cccchhhhhHHHhhhhhhhcCCCccccEeeeeeeeeeeeEEEEeeccccccCCCCCcchheeccccc
Q 014496 231 LSPSFNFGLELA-KSSVFIASFYQHVVVQRRVKNPLEEDEIVGITNYIDFGFELQTRIDDAKTANSIPESSFQVAASWQA 309 (423)
Q Consensus 231 LsPSFnf~lEL~-~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgITNYiD~gfEl~t~vd~~~~~~~~~~~~~q~aASWQa 309 (423)
.|.+.+++.+. ...++.+||||. +...+++|-|++..... ..+.+.+|+.|+.
T Consensus 174 -~~~~~~~~~~~~~~~~l~~sy~~k------------------~~~~~~~g~e~~~~~~~-------~~~~~~vG~~~~l 227 (273)
T PF01459_consen 174 -HPDYTASATLSNNFGTLTASYFQK------------------VNDKLQLGAELTYNLSS-------RESTFTVGYQYKL 227 (273)
T ss_dssp ---TEEEEEEE-ETTTEEEEEEEEE------------------SSTTEEEEEEEEEETTC-------CEEEEEEEEEEEE
T ss_pred -ceeEEEEEEEcCCCCEEEEEEEEE------------------eccceeeeeeeeecccC-------CCceEEEEEEEEc
Confidence 45679999994 688999999973 34566778888876644 3677899999999
Q ss_pred cceeEEeeecCCCccceeeeeeccccceeEEEEEEeeecccCcceeeeE
Q 014496 310 NKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVVGKTSYGFG 358 (423)
Q Consensus 310 NKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~g~~~yGFg 358 (423)
++.=.+|||+-..+...++-=+.| .|-++|++|+.-||.+. .|=||
T Consensus 228 ~~~~~vk~kvds~g~v~~~~~~~l-~~~~~l~ls~~~d~~~~--~~KfG 273 (273)
T PF01459_consen 228 DDSSTVKAKVDSNGRVSASYEQKL-NPGVTLTLSAELDHKNN--NHKFG 273 (273)
T ss_dssp CTTEEEEEEEETTSEEEEEEEEEE-CTTEEEEEEEEECTT-C---EEEE
T ss_pred CcccEEEEEEcCCCEEEEEEEEec-CCCcEEEEEEEEccCCC--CCCcC
Confidence 999999999998876555544444 99999999999999988 44444
No 5
>KOG3126 consensus Porin/voltage-dependent anion-selective channel protein [Inorganic ion transport and metabolism]
Probab=97.80 E-value=0.003 Score=62.20 Aligned_cols=263 Identities=17% Similarity=0.268 Sum_probs=159.8
Q ss_pred hHHHHHHHHHHHHHhhccceeeeeecCCCCCCeeEEEEeccccCCCCCcccccceEEEEeecCCCCCceeeeeeccCCc-
Q 014496 41 AKLALKCLFDDYFEEARHFSTRIMLKPIDDPHVDMIATVSGPLDHKPEENIVGNALFRWQRELDDPHTFMDLFVSNSDP- 119 (423)
Q Consensus 41 gKlal~~LF~DYF~~a~~~~~rimLkP~dDPhVDl~Atvs~~~d~~~~~~~~G~alfRwQ~d~~dPhTF~Dl~vSt~~p- 119 (423)
||+|.-+|-+||. -+....-.+.+.-. =|-+..+=+. .-....+.|+...+.+ ..+-....|+..+|.+-
T Consensus 11 gK~ArDl~~kgy~--~g~~~~~~~t~t~~--gv~ftssg~~---~~~~~~v~gsle~k~~--~~~~glt~t~kw~Tdn~L 81 (281)
T KOG3126|consen 11 GKLARDLFNKGYG--FGLWKLDLKTKTES--GVEFTSSGSV---NTDTGKVKGSLETKYK--DKDYGLTLTEKWNTDNTL 81 (281)
T ss_pred hhHHHHHhhCCCC--CCcEEEEEEeeccC--cEEEEeeecc---ccceeeeeeeeEEEEe--eccCceEEEEEeecCCcc
Confidence 8999999999998 44444444455544 2222222222 2234566677666554 13445667777777773
Q ss_pred --eEEEeeccccCCcccceeeeeeeeecccCCCCCcceeeeeecccccccceeeecccccCCCCcceeEEeecccceeee
Q 014496 120 --VLRIRSSTYYPKWGFGAFGTIPLLMKKRISSEDYGVMGLRYGTGNLSFGAMLMPFAIKDELPKNAWLVSKMGRLTVGV 197 (423)
Q Consensus 120 --~l~~Rsc~y~Pkyg~GAFgv~PL~~~~~~~sedygvmGlRYgS~nlS~Ga~~~Pf~~s~e~pk~aWLV~k~G~ltaGv 197 (423)
.+.+|- -..|..=+..=..||- ....--|.+-+.|.-....+++. +++.. +.+-.+.--+++.| +-+|.
T Consensus 82 ~t~I~~~~-~~~pglk~~~~~s~~p-----~~~~ks~Klk~~y~~~~~~~~~~-~~~~~-~P~i~~s~v~g~~g-~l~G~ 152 (281)
T KOG3126|consen 82 GTEITVED-QLAPGLKLTLDSSFSP-----NTGKKSGKLKLSYARDHFNLGAD-DFLTA-NPLILGSLVLGHEG-WLLGY 152 (281)
T ss_pred ceEEEEcc-ccCCceEEEEEEeecC-----cccccceeeecccccccceeeec-ccccc-CCeEEEEEEecccc-eEEEE
Confidence 223322 1123322222222222 22233456666677677777764 44432 22223333344444 44555
Q ss_pred eeecCCCCCcccccccccCcceeeeeccCCCCCCCccceeeeeeecccchhhhhHHHhhhhhhhcCCCccccEeeeeeee
Q 014496 198 QYEPQYGGKEDAKYKNLMNWSYAIGYGVGSGSPLSPSFNFGLELAKSSVFIASFYQHVVVQRRVKNPLEEDEIVGITNYI 277 (423)
Q Consensus 198 Qykp~~g~~~~~~~~~l~nws~A~~YGVGs~SPLsPSFnf~lEL~~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgITNYi 277 (423)
|+.=-.. =.++..|+.|+||- ++.+.+++.+-..+.+++|+|||+. +++| +|+.
T Consensus 153 ~~~fDt~------~~~~t~~n~~lgy~-------~~d~~l~~~~nn~~~~~~s~yq~v~------~~~~----~~~~--- 206 (281)
T KOG3126|consen 153 ETTFDTA------SGKLTKYNAALGYT-------TEDFTLHLNLNNGTEFLASIYQRVN------EKLE----TGAN--- 206 (281)
T ss_pred eEEEecc------CCcEeeEEEEEEee-------cCCcEEEEEecccchhhhhhhhhhc------chhe----eeee---
Confidence 5443222 23466789999885 4556899999888889999999864 2221 2221
Q ss_pred eeeeEEEEeeccccccCCCCCcchheeccccccceeEEeeecCCCccceeeeeeccccceeEEEEEEeeeccc---Ccce
Q 014496 278 DFGFELQTRIDDAKTANSIPESSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVV---GKTS 354 (423)
Q Consensus 278 D~gfEl~t~vd~~~~~~~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~---g~~~ 354 (423)
.|..... ++.+|-+|..++...--.|||||- .+|-++++++.=|+|-.++.+++..|-.. + ..
T Consensus 207 ---~~~~~~~---------~~~~~~igt~Y~lD~~t~VkAKVn-n~g~~gl~yq~~lrp~i~~t~s~~~d~~~~~~~-hK 272 (281)
T KOG3126|consen 207 ---AEWIAGS---------SNTRFTIGTKYALDPDTSVKAKVN-NAGLAGLGYQQTLRPGIKVTLSAEFDGKALDAG-HK 272 (281)
T ss_pred ---EEEeecC---------CccEEEEEEEeccCCCceeeeeec-CCceeeEEEEEecCCCcEEEEEEEEeccCCCCC-cc
Confidence 2222221 277899999999999999999995 46789999999999999999999999776 4 56
Q ss_pred eeeEEEe
Q 014496 355 YGFGIRV 361 (423)
Q Consensus 355 yGFgi~V 361 (423)
.|.++..
T Consensus 273 ~Glsl~~ 279 (281)
T KOG3126|consen 273 FGLSLAL 279 (281)
T ss_pred eeEEEee
Confidence 7777654
No 6
>PF13557 Phenol_MetA_deg: Putative MetA-pathway of phenol degradation
Probab=90.20 E-value=13 Score=33.26 Aligned_cols=63 Identities=32% Similarity=0.309 Sum_probs=38.4
Q ss_pred eeeecc--cccccceeeecccccCCCCcceeEEeecccceeeeeeecCCCCCcccccccccCcceeeeec----cCCCCC
Q 014496 157 GLRYGT--GNLSFGAMLMPFAIKDELPKNAWLVSKMGRLTVGVQYEPQYGGKEDAKYKNLMNWSYAIGYG----VGSGSP 230 (423)
Q Consensus 157 GlRYgS--~nlS~Ga~~~Pf~~s~e~pk~aWLV~k~G~ltaGvQykp~~g~~~~~~~~~l~nws~A~~YG----VGs~SP 230 (423)
-+||+- +|+.+....-....+ .... .+-+|.+++|+.|......+ +|+.++.++ .|+-++
T Consensus 47 ~l~yg~~~~~~~l~~~~~~~~~~--~~~~---~sG~gD~~l~~~~~~~~~~~---------~~~~~~~~~~~~PtG~~~~ 112 (248)
T PF13557_consen 47 ILPYGLSSDNLELRLNGPYVWGS--GSGS---ASGFGDITLGAKYRLWDNPK---------NPSLALGLGVTLPTGSYDP 112 (248)
T ss_pred EEeeEEEEEEEEEEEecccceec--cCCC---CCCcccceeeeeeeeecCCC---------CcEEEEEEEEEeecCcccc
Confidence 367776 378877664333222 1111 23689999999887763332 788888888 466666
Q ss_pred CCc
Q 014496 231 LSP 233 (423)
Q Consensus 231 LsP 233 (423)
..+
T Consensus 113 ~~~ 115 (248)
T PF13557_consen 113 GDP 115 (248)
T ss_pred ccc
Confidence 554
No 7
>cd00342 gram_neg_porins Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.
Probab=85.98 E-value=24 Score=32.61 Aligned_cols=119 Identities=18% Similarity=0.217 Sum_probs=57.4
Q ss_pred cceeEEeeccc-ceeeeeeecCCCCCcccccccccCcceeeeeccCCCCCCCccceeeeeee--cccchhhhhHHHhhhh
Q 014496 182 KNAWLVSKMGR-LTVGVQYEPQYGGKEDAKYKNLMNWSYAIGYGVGSGSPLSPSFNFGLELA--KSSVFIASFYQHVVVQ 258 (423)
Q Consensus 182 k~aWLV~k~G~-ltaGvQykp~~g~~~~~~~~~l~nws~A~~YGVGs~SPLsPSFnf~lEL~--~ssq~iaSFyqH~vVQ 258 (423)
..+-..+.... ++++++|.+...... -++-..|..++.|-.+ +| .+.+-.. +...-...
T Consensus 131 ~~i~Y~~~~~~G~~~~~~y~~~~~~~~---~~~~~~~~~~~~Y~~~---~~----~l~a~y~~~~~~~~~~~-------- 192 (329)
T cd00342 131 NSVKYTSPFFGGLTFGAMYAFGNQAGS---TSNGRGYGAGLSYENG---PL----SLGAAYDQQRNGGGAAG-------- 192 (329)
T ss_pred ceEEEeCCCcCCEEEEEEEECCCCCCC---CCCCceEEEEEEEccC---CE----EEEEEEEEeeCCCcccc--------
Confidence 33444444433 888888887632211 1334558899999765 33 3333222 21110000
Q ss_pred hhhcCCCccccEeeeeeeeee-eeEEEEeecccccc-----CCCCCcchheeccccccceeEEeeecC
Q 014496 259 RRVKNPLEEDEIVGITNYIDF-GFELQTRIDDAKTA-----NSIPESSFQVAASWQANKNFLLKGKVG 320 (423)
Q Consensus 259 RrvkNP~Ee~~vvgITNYiD~-gfEl~t~vd~~~~~-----~~~~~~~~q~aASWQaNKNfLlKgK~G 320 (423)
..+.-++.+..++.--.++ +|.+.......+.. .......+.++++|+.++++.+.+-.+
T Consensus 193 --~~~~~~~~~~~~~ga~Y~~~~~~v~a~y~~~~~~~~~~~~~~~~~~~~lga~Y~~~~~~~~~~~y~ 258 (329)
T cd00342 193 --GAAGATSQRAYGAGASYDFGGLKLGAGYTNTRNDNGGGGGSAKFNGYELGATYQLTPALRLGAAYY 258 (329)
T ss_pred --cccccceEEEEEEEEEEEEccEEEEEEEEEEEccCCCCCCceEEEEEEEeEEEEcCCceEEEEEEE
Confidence 0112333444443322222 24443332222211 122334588999999999888877554
No 8
>KOG3296 consensus Translocase of outer mitochondrial membrane complex, subunit TOM40 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.85 E-value=1.9 Score=43.53 Aligned_cols=52 Identities=23% Similarity=0.335 Sum_probs=43.0
Q ss_pred cceeEEeeecCCCccceeeeeeccccceeEEEEEEeeecccCcceeeeEEEec
Q 014496 310 NKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVVGKTSYGFGIRVE 362 (423)
Q Consensus 310 NKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~g~~~yGFgi~VE 362 (423)
+.|-.++|++-+..+..++--|.= .+-+||.+||+-||.+-...+|||+.++
T Consensus 257 ~~~s~~rg~vDSn~~v~~~lek~L-~l~l~~~ls~~lnh~k~~~~~G~gl~~~ 308 (308)
T KOG3296|consen 257 TAQSVFRGSVDSNWSVGAVLEKKL-PLPLTLALSAELNHVKNDFKFGFGLTIG 308 (308)
T ss_pred CccceEEEEeccCceehhhhHhhc-CCCceeeeeeeecccccccccceeEEeC
Confidence 346788999998866655555555 8889999999999999999999999764
No 9
>PF13609 Porin_4: Gram-negative porin; PDB: 2FGR_A 2FGQ_X 1E54_A 2POR_A 3POR_A 1PRN_A 6PRN_A 8PRN_A 1H6S_1 3PRN_A ....
Probab=82.32 E-value=2.3 Score=38.59 Aligned_cols=71 Identities=20% Similarity=0.312 Sum_probs=42.0
Q ss_pred eeeeeeccc--ccccceeeecccccCCCCcceeEEe---ecccceeeeeeecCCCCCcccccccccCcceeeeeccCC
Q 014496 155 VMGLRYGTG--NLSFGAMLMPFAIKDELPKNAWLVS---KMGRLTVGVQYEPQYGGKEDAKYKNLMNWSYAIGYGVGS 227 (423)
Q Consensus 155 vmGlRYgS~--nlS~Ga~~~Pf~~s~e~pk~aWLV~---k~G~ltaGvQykp~~g~~~~~~~~~l~nws~A~~YGVGs 227 (423)
.+|+.|..+ ++++++...-...... ....|.++ +.|.+++++.|.-..+ ++...-.+...|...++|-+|.
T Consensus 187 ~~~~~Y~~~~~~~~~~~~y~~~~~~~~-~~~~~~~ga~y~~~~~~l~a~y~~~~~-~~~~~~~~~~~~~~~~~Y~~~~ 262 (311)
T PF13609_consen 187 GAGASYSFGGFGLTVAAGYSSADDNGG-DNDAWGVGASYNFGGFTLGAEYGQADN-DGSGGDSDQDAYYVGAAYTFGK 262 (311)
T ss_dssp EEEEEEEET-SSEEEEEEEEEEECCET-CEEEEEEEEEEECSSEEEEEEEEEEEE-ECCCCCEEEEEEEEEEEEEETT
T ss_pred EEEEEEEcCCcceEEEeeeecccccch-heeeEEeeEEEEECcEEEEEEEEEEEe-cCccccccceEEEEEEEEEeCC
Confidence 567778755 6777777664332221 44667766 5677888888873211 1111125666677777777743
No 10
>cd07306 Porin3_VDAC Voltage-dependent anion channel of the outer mitochondrial membrane. The voltage-dependent anion channel (VDAC) regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane, which is highly permeable to small molecules. VDAC is the most abundant protein in the outer membrane, and membrane potentials can toggle VDAC between open or high-conducting and closed or low-conducting forms. VDAC binds to and is regulated in part by hexokinase, an interaction that renders mitochondria less susceptible to pro-apoptotic signals, most likely by intefering with VDAC's capability to respond to Bcl-2 family proteins. While VDAC appears to play a key role in mitochondrially induced cell death, a proposed involvement in forming the mitochondrial permeability transition pore, which is characteristic for damaged mitochondria and apoptosis, has been challenged by more recent studies.
Probab=73.16 E-value=27 Score=33.25 Aligned_cols=80 Identities=15% Similarity=0.138 Sum_probs=57.3
Q ss_pred cccccceEEEEeecCCCCCceeeeeeccCCceEEEeeccccCCcccceeeeeeeeecccCCCCCcceeeeeecccccccc
Q 014496 89 ENIVGNALFRWQRELDDPHTFMDLFVSNSDPVLRIRSSTYYPKWGFGAFGTIPLLMKKRISSEDYGVMGLRYGTGNLSFG 168 (423)
Q Consensus 89 ~~~~G~alfRwQ~d~~dPhTF~Dl~vSt~~p~l~~Rsc~y~Pkyg~GAFgv~PL~~~~~~~sedygvmGlRYgS~nlS~G 168 (423)
+...|.....++.+.-.-.+.+|+.- .|.+..-.|.=+|.+-+|+=.++=...+ .-..| .+|+||..+++++.
T Consensus 103 ~~~s~kl~~~y~~~~~~~~~~v~~~~---~p~~~~s~~~g~~~~~~G~e~~yd~~~~---~~~~~-~~~~~Y~~~d~~~s 175 (276)
T cd07306 103 GKKSGKLKAGYKHDPININADVDLNK---GPLVGASAVLGYKGFLLGAEVVYDTAKS---KFTKY-NFALGYTNGDFELS 175 (276)
T ss_pred CCceEEEEEEEecCCeeEEEEecccC---CCeeEEEEEecccceEEEEEEEEeccCC---cEeeE-EEEEEEecCCeEEE
Confidence 44457777777765555555666543 8899999999899999998888743321 11234 68999999999999
Q ss_pred eeeeccc
Q 014496 169 AMLMPFA 175 (423)
Q Consensus 169 a~~~Pf~ 175 (423)
+++..+.
T Consensus 176 ~~l~~~~ 182 (276)
T cd07306 176 LKLNNGK 182 (276)
T ss_pred EEECCCC
Confidence 9888743
No 11
>TIGR01779 TonB-B12 TonB-dependent vitamin B12 receptor. This model represents the TonB-dependent outer membrane receptor found in gamma proteobacteria responsible for translocating the cobalt-containing vitamin B12 (cobalamin).
Probab=62.17 E-value=61 Score=33.13 Aligned_cols=32 Identities=16% Similarity=0.190 Sum_probs=22.9
Q ss_pred eeEEEEEEeeecccCcceeeeEEEeccCccccccc
Q 014496 337 SFTFSISATKDRVVGKTSYGFGIRVENLREASYQR 371 (423)
Q Consensus 337 SfTfs~sA~~D~~~g~~~yGFgi~VEnlr~~sYqR 371 (423)
-.++.+.+.++.. ..+-+.+.|+||=+-.|.-
T Consensus 564 y~~~d~~~~y~~~---~~~~~~l~v~NLfd~~Y~~ 595 (614)
T TIGR01779 564 YSLLDLRVSYYVT---DSWTVQGRIANLFDKDYET 595 (614)
T ss_pred eEEEEEEEEEEec---CCEEEEEEEEecCCccccc
Confidence 3477777777753 2467788889998888853
No 12
>cd00342 gram_neg_porins Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.
Probab=61.56 E-value=1.1e+02 Score=28.36 Aligned_cols=71 Identities=21% Similarity=0.295 Sum_probs=39.7
Q ss_pred eeeeecccc---cccceeeecccccCCC-CcceeEEee---cccceeeeeeecCCCCCc----ccccccccCcceeeeec
Q 014496 156 MGLRYGTGN---LSFGAMLMPFAIKDEL-PKNAWLVSK---MGRLTVGVQYEPQYGGKE----DAKYKNLMNWSYAIGYG 224 (423)
Q Consensus 156 mGlRYgS~n---lS~Ga~~~Pf~~s~e~-pk~aWLV~k---~G~ltaGvQykp~~g~~~----~~~~~~l~nws~A~~YG 224 (423)
=.++|-+.. |++++...+-...... ...+|-++- .+.+++++.|.-...... ...-++..-|..++.|.
T Consensus 131 ~~i~Y~~~~~~G~~~~~~y~~~~~~~~~~~~~~~~~~~~Y~~~~~~l~a~y~~~~~~~~~~~~~~~~~~~~~~~~ga~Y~ 210 (329)
T cd00342 131 NSVKYTSPFFGGLTFGAMYAFGNQAGSTSNGRGYGAGLSYENGPLSLGAAYDQQRNGGGAAGGAAGATSQRAYGAGASYD 210 (329)
T ss_pred ceEEEeCCCcCCEEEEEEEECCCCCCCCCCCceEEEEEEEccCCEEEEEEEEEeeCCCcccccccccceEEEEEEEEEEE
Confidence 356776655 6688888765432211 234555542 356777877765422111 01234455588888887
Q ss_pred cC
Q 014496 225 VG 226 (423)
Q Consensus 225 VG 226 (423)
.|
T Consensus 211 ~~ 212 (329)
T cd00342 211 FG 212 (329)
T ss_pred Ec
Confidence 75
No 13
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=59.39 E-value=6.2 Score=29.12 Aligned_cols=16 Identities=38% Similarity=0.634 Sum_probs=14.5
Q ss_pred cchhhhhHHHhhhhhh
Q 014496 245 SVFIASFYQHVVVQRR 260 (423)
Q Consensus 245 sq~iaSFyqH~vVQRr 260 (423)
-.||+.||+|+..||.
T Consensus 10 e~FI~~f~~qlrlqr~ 25 (38)
T PF05553_consen 10 EEFIAKFREQLRLQRQ 25 (38)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4699999999999987
No 14
>cd07305 Porin3_Tom40 Translocase of outer mitochondrial membrane 40 (Tom40). Tom40 forms a channel in the mitochondrial outer membrane with a pore about 1.5 to 2.5 nanometers wide. It functions as a transport channel for unfolded protein chains and forms a complex with Tom5, Tom6, Tom7, and Tom22. The primary receptors Tom20 and Tom70 recruit the unfolded precursor protein from the mitochondrial-import stimulating factor (MSF) or cytosolic Hsc70. The precursor passes through the Tom40 channel and through another channel in the inner membrane, formed by Tim23, to be finally translocated into the mitochondrial matrix. The process depends on a proton motive force across the inner membrane and requires a contact site where the outer and inner membranes come close. Tom40 is also involved in inserting outer membrane proteins into the membrane, most likely not via a lateral opening in the pore, but by transfering precursor proteins to an outer membrane sorting and assembly machinery.
Probab=54.65 E-value=81 Score=30.24 Aligned_cols=81 Identities=16% Similarity=0.251 Sum_probs=57.7
Q ss_pred eeeeeeeeeEEEEeeccccccCCCCCcchheeccccccceeEEeeecCCCccceeeeeecccc--ceeEEEEEEeeeccc
Q 014496 273 ITNYIDFGFELQTRIDDAKTANSIPESSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWK--PSFTFSISATKDRVV 350 (423)
Q Consensus 273 ITNYiD~gfEl~t~vd~~~~~~~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~--PSfTfs~sA~~D~~~ 350 (423)
||+-+.+|.|++... . .....+.+++++.|+. ++|...++++..+ ++.+-=|.+ |..++.+..+++...
T Consensus 145 vt~~l~lG~E~~~~~---~--~~~~~~~~~~~~rY~~-~d~~~s~~l~~~~---~l~asY~~kvs~~l~lG~el~~~~~~ 215 (279)
T cd07305 145 VTPKLALGGELVYQR---V--PGNGISVLSYAARYTA-GNWIASGQLGAQG---GLHLSYYRKLSDKLQLGVELELNLRT 215 (279)
T ss_pred ccCcEEEEEEEEEEE---c--CCCCceeEEEEEEEcc-CCEEEEEEEcCCC---eEEEEEEEEcccceEeeeeeeecccC
Confidence 788899999999654 1 1235566889999987 6889999999862 333333444 446777777888877
Q ss_pred CcceeeeEEEec
Q 014496 351 GKTSYGFGIRVE 362 (423)
Q Consensus 351 g~~~yGFgi~VE 362 (423)
......+|.+.+
T Consensus 216 ~es~~tvg~~y~ 227 (279)
T cd07305 216 RESTATLGYQYD 227 (279)
T ss_pred CceeEEEEEEEE
Confidence 777777776654
No 15
>PF12519 DUF3722: Protein of unknown function (DUF3722) ; InterPro: IPR022197 This family of proteins is found in eukaryotes. Proteins in this family are typically between 415 and 473 amino acids in length.
Probab=54.45 E-value=47 Score=33.14 Aligned_cols=72 Identities=21% Similarity=0.360 Sum_probs=47.5
Q ss_pred hhhhHHHH-HHHHHHHHHhhccce--eeeeecCCCCCCeeEEEEeccccCCCCCcccccceEEEEeecCCCCCceeeeee
Q 014496 38 MLFAKLAL-KCLFDDYFEEARHFS--TRIMLKPIDDPHVDMIATVSGPLDHKPEENIVGNALFRWQRELDDPHTFMDLFV 114 (423)
Q Consensus 38 ~~FgKlal-~~LF~DYF~~a~~~~--~rimLkP~dDPhVDl~Atvs~~~d~~~~~~~~G~alfRwQ~d~~dPhTF~Dl~v 114 (423)
+++|++-+ .+..|-.| .+.|+ +.+++|=+-+|| ....-.|+.++-||.|. ...+.+...
T Consensus 86 LlYGRmylP~s~LeAl~--ikRlsp~~Ql~~~~vS~~~--------------~~~~~~~~ll~~lQ~dt--gk~~~E~ly 147 (260)
T PF12519_consen 86 LLYGRMYLPSSRLEALY--IKRLSPTTQLLLKAVSSPH--------------SGLPNGGTLLGYLQHDT--GKYSQEYLY 147 (260)
T ss_pred EEEEEEecChhhhhhhh--hhcCCHhHheeeeeeeccc--------------ccCCCCCeEEEEEEecC--CCCceEEEE
Confidence 45565543 12333333 33333 346777777776 11222699999999865 789999999
Q ss_pred ccCCceEEEeecc
Q 014496 115 SNSDPVLRIRSST 127 (423)
Q Consensus 115 St~~p~l~~Rsc~ 127 (423)
||.+.++=+|.-+
T Consensus 148 Std~~L~G~R~L~ 160 (260)
T PF12519_consen 148 STDDALLGFRGLY 160 (260)
T ss_pred EcCCceEEEEEEE
Confidence 9999999999544
No 16
>PF02321 OEP: Outer membrane efflux protein; InterPro: IPR003423 The OEP family (Outer membrane efflux protein) form trimeric channels that allow export of a variety of substrates in Gram negative bacteria. Each member of this family is composed of two repeats. The trimeric channel is composed of a 12 stranded all beta sheet barrel that spans the outer membrane, and a long all helical barrel that spans the periplasm. Examples include the Escherichia coli TolC outer membrane protein, which is required for proper expression of outer membrane protein genes; the Rhizobium nodulation protein; and the Pseudomonas FusA protein, which is involved in resistance to fusaric acid.; GO: 0005215 transporter activity, 0006810 transport; PDB: 3PIK_A 1YC9_A 3D5K_C 1WP1_B 2XMN_C 2WMZ_B 1EK9_B 2VDD_C 1TQQ_A 2VDE_B ....
Probab=46.69 E-value=26 Score=28.18 Aligned_cols=24 Identities=25% Similarity=0.203 Sum_probs=18.5
Q ss_pred eeeccccceeEEEEEEeeecccCc
Q 014496 329 AFKSWWKPSFTFSISATKDRVVGK 352 (423)
Q Consensus 329 afksWw~PSfTfs~sA~~D~~~g~ 352 (423)
+.++||-|.++++++..+....+.
T Consensus 31 ~~~~~~~P~~~l~~~~~~~~~~~~ 54 (188)
T PF02321_consen 31 AAKSSYLPQLSLSASYGYSNNSSN 54 (188)
T ss_dssp HHHHTTS-EEEEEEEEEEEEESST
T ss_pred HHhhccCCeEEEEEeecccccccc
Confidence 457899999999999888776644
No 17
>PRK13483 enterobactin receptor protein; Provisional
Probab=45.75 E-value=3e+02 Score=28.40 Aligned_cols=71 Identities=17% Similarity=0.275 Sum_probs=40.7
Q ss_pred CCcchheeccccccceeEEeee---cCCCccce-eeeeecccccee-EEEEEEeeecccCcceeeeEEEeccCcccccc
Q 014496 297 PESSFQVAASWQANKNFLLKGK---VGPLSSSV-AMAFKSWWKPSF-TFSISATKDRVVGKTSYGFGIRVENLREASYQ 370 (423)
Q Consensus 297 ~~~~~q~aASWQaNKNfLlKgK---~G~~~ss~-alafksWw~PSf-Tfs~sA~~D~~~g~~~yGFgi~VEnlr~~sYq 370 (423)
+...+.+.++|+..++|-+-.. +|...... .-.......|++ ++.+++.++..+ .+-+.+.|+||=+..|.
T Consensus 564 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~dl~~~~~~~~---~~~~~l~v~NL~d~~y~ 639 (660)
T PRK13483 564 PKHLFQASLNWEPTDRLNSWARVNYRGEESQPTTGPSSSSFIAPSYTFLDLGANYQLTD---NLKLSAGIYNLFDKEIN 639 (660)
T ss_pred CceEEEEEEEEEECCCEEEEEEEEEEecccccccCCCccccccCCeEEEEEEEEEEccC---CEEEEEEEEcCCCCCcc
Confidence 4445666778887665543322 12211100 001123456665 567888887632 47789999999999884
No 18
>PRK04968 SecY interacting protein Syd; Provisional
Probab=39.70 E-value=23 Score=33.67 Aligned_cols=22 Identities=50% Similarity=0.889 Sum_probs=18.0
Q ss_pred HhhhhhhhcCCC--------ccccEeeeee
Q 014496 254 HVVVQRRVKNPL--------EEDEIVGITN 275 (423)
Q Consensus 254 H~vVQRrvkNP~--------Ee~~vvgITN 275 (423)
|++.|||.|.|= +|+.||-+.|
T Consensus 117 Hl~mqkrLK~~PT~FIg~~~~e~~~isv~N 146 (181)
T PRK04968 117 HLVMQKRLKLPPTLFIATTDEEDEVISVCN 146 (181)
T ss_pred HHHHHHhhCCCCcEEEEEecCCCeEEEEEC
Confidence 999999999997 6777776655
No 19
>PF01459 Porin_3: Eukaryotic porin; InterPro: IPR001925 The major protein of the outer mitochondrial membrane of eukaryotes is a porin that forms a voltage-dependent anion-selective channel (VDAC) that behaves as a general diffusion pore for small hydrophilic molecules [, , , ]. The channel adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. This protein contains about 280 amino acids and its sequence is composed of between 12 to 16 beta-strands that span the mitochondrial outer membrane. Yeast contains two members of this family (genes POR1 and POR2); vertebrates have at least three members (genes VDAC1, VDAC2 and VDAC3) [].; GO: 0008308 voltage-gated anion channel activity, 0006820 anion transport, 0044070 regulation of anion transport, 0055085 transmembrane transport, 0005741 mitochondrial outer membrane; PDB: 3EMN_X 2K4T_A 2JK4_A.
Probab=39.10 E-value=1.9e+02 Score=26.48 Aligned_cols=89 Identities=9% Similarity=0.205 Sum_probs=55.5
Q ss_pred ccEeeeeeeeeeeeEEEEeeccccccCCCCCcchheeccccc---cceeEEeeecCCCccceeeeeeccccceeEEEEEE
Q 014496 268 DEIVGITNYIDFGFELQTRIDDAKTANSIPESSFQVAASWQA---NKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISA 344 (423)
Q Consensus 268 ~~vvgITNYiD~gfEl~t~vd~~~~~~~~~~~~~q~aASWQa---NKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA 344 (423)
.-+.+++.=+-+|.|+.=.....+.. ...++++|.+ .+++.+-+++......+.+.+-.==.+..++.+.+
T Consensus 135 s~~~~v~~~~~lG~e~~~~~~~~~~~------~~~~~~~~~~~Y~~~~~~~~~~~~~~~~~l~~sy~~k~~~~~~~g~e~ 208 (273)
T PF01459_consen 135 SYVQSVTPNLALGAEATYDLSSGKSS------KYNAGLSYAARYTHPDYTASATLSNNFGTLTASYFQKVNDKLQLGAEL 208 (273)
T ss_dssp EEEEEET-TEEEEEEEEEETTTTCEE------EEEEEEEEEET----TEEEEEEE-ETTTEEEEEEEEESSTTEEEEEEE
T ss_pred EEEEeccccEEEEEEEEEecccCCcC------cceEEEEEeccccceeEEEEEEEcCCCCEEEEEEEEEeccceeeeeee
Confidence 34456665667888887655432211 1223344433 36889999987665555555422223778899999
Q ss_pred eeecccCcceeeeEEEec
Q 014496 345 TKDRVVGKTSYGFGIRVE 362 (423)
Q Consensus 345 ~~D~~~g~~~yGFgi~VE 362 (423)
++++..+.+.+.+|.+-.
T Consensus 209 ~~~~~~~~~~~~vG~~~~ 226 (273)
T PF01459_consen 209 TYNLSSRESTFTVGYQYK 226 (273)
T ss_dssp EEETTCCEEEEEEEEEEE
T ss_pred eecccCCCceEEEEEEEE
Confidence 999999999999888754
No 20
>PF13505 OMP_b-brl: Outer membrane protein beta-barrel domain; PDB: 3DZM_A 2LHF_A 1Q9F_A 1ORM_A 1Q9G_A 1QJ9_A 1QJ8_A 3QRA_A 3QRC_B.
Probab=37.62 E-value=1.6e+02 Score=23.46 Aligned_cols=24 Identities=29% Similarity=0.333 Sum_probs=20.5
Q ss_pred CcchheeccccccceeEEeeecCC
Q 014496 298 ESSFQVAASWQANKNFLLKGKVGP 321 (423)
Q Consensus 298 ~~~~q~aASWQaNKNfLlKgK~G~ 321 (423)
...+.+++.|++|++|-|.+.++-
T Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~ 66 (176)
T PF13505_consen 43 GFGFGLGAGYQFNDNFGLEAGYSY 66 (176)
T ss_dssp SEEEEEEEEEEETCTEEEEEEEEE
T ss_pred ceEEEEEEEEEECCcEEEEEEEEE
Confidence 488999999999999998877764
No 21
>TIGR01783 TonB-siderophor TonB-dependent siderophore receptor. This subfamily model encompasses a wide variety of TonB-dependent outer membrane siderophore receptors. It has no overlap with TonB receptors known to transport other substances, but is likely incomplete due to lack of characterizations. It is likely that genuine siderophore receptors will be identified which score below the noise cutoff to this model at which point the model should be updated.
Probab=32.82 E-value=3.4e+02 Score=27.50 Aligned_cols=12 Identities=33% Similarity=0.398 Sum_probs=8.3
Q ss_pred CCccceeeeeee
Q 014496 231 LSPSFNFGLELA 242 (423)
Q Consensus 231 LsPSFnf~lEL~ 242 (423)
|.|.-.-++|+-
T Consensus 449 L~pE~~~~~e~G 460 (650)
T TIGR01783 449 LEPEKGKNYELG 460 (650)
T ss_pred CCCeEeeeEEEE
Confidence 677777777763
No 22
>KOG0315 consensus G-protein beta subunit-like protein (contains WD40 repeats) [General function prediction only]
Probab=29.21 E-value=44 Score=34.23 Aligned_cols=62 Identities=24% Similarity=0.195 Sum_probs=47.8
Q ss_pred EEEEEEeeecccCcceeeeEEEeccCccccccccCCceEEecCCchhhhhhhHHhhCCCccccccCcCCC
Q 014496 339 TFSISATKDRVVGKTSYGFGIRVENLREASYQRADPNFVMLTPSKEHLAEGMVWKTGRRPMLQSDVNAGN 408 (423)
Q Consensus 339 Tfs~sA~~D~~~g~~~yGFgi~VEnlr~~sYqRadpn~vmltp~kehLa~g~~~~~GKrpm~Q~dv~s~n 408 (423)
-+=+||.|||.++-=+--=|||. |-++|+..+=|..-|||.|..||-+-- .-.=--||+++|
T Consensus 11 viLvsA~YDhTIRfWqa~tG~C~---rTiqh~dsqVNrLeiTpdk~~LAaa~~-----qhvRlyD~~S~n 72 (311)
T KOG0315|consen 11 VILVSAGYDHTIRFWQALTGICS---RTIQHPDSQVNRLEITPDKKDLAAAGN-----QHVRLYDLNSNN 72 (311)
T ss_pred eEEEeccCcceeeeeehhcCeEE---EEEecCccceeeEEEcCCcchhhhccC-----CeeEEEEccCCC
Confidence 34579999999988887788885 677899999999999999999997532 111123777766
No 23
>PF13609 Porin_4: Gram-negative porin; PDB: 2FGR_A 2FGQ_X 1E54_A 2POR_A 3POR_A 1PRN_A 6PRN_A 8PRN_A 1H6S_1 3PRN_A ....
Probab=28.11 E-value=4.3e+02 Score=24.12 Aligned_cols=76 Identities=17% Similarity=0.346 Sum_probs=44.6
Q ss_pred CCcceeeeeecccccccceeeecccccCC------------------C-----------CcceeEEeecccceeeeeeec
Q 014496 151 EDYGVMGLRYGTGNLSFGAMLMPFAIKDE------------------L-----------PKNAWLVSKMGRLTVGVQYEP 201 (423)
Q Consensus 151 edygvmGlRYgS~nlS~Ga~~~Pf~~s~e------------------~-----------pk~aWLV~k~G~ltaGvQykp 201 (423)
-+..-+|+...-.++++|-...|+..... + ..-...--.++.++++++|.+
T Consensus 84 ~r~ayv~l~~~~g~v~~Gr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~y~~~~~~g~~~~~~y~~ 163 (311)
T PF13609_consen 84 VRDAYVGLKSDYGEVRFGRQDSPFDDASDDYDFDPGGIGGNWYDGGGFSGGAGFDGRRNNSIIYYSPDFGGFSFGASYGP 163 (311)
T ss_dssp CSCCEEEEEETTEEEEEESEE-HHHHHHCCTTCTTTTTTSTSSS---SSCTTSTSTCCCCEEEEEEEEETTEEEEEEEEE
T ss_pred cEEEEEEEcCCeEEEEeCccCchhhhhcccccccccccccccccccccccccccCccccceEEEeccccCceEEEEEEec
Confidence 45667888888888899988777652111 1 011234456777888888876
Q ss_pred CCCCCcc-------cccccccCcceeeeeccC
Q 014496 202 QYGGKED-------AKYKNLMNWSYAIGYGVG 226 (423)
Q Consensus 202 ~~g~~~~-------~~~~~l~nws~A~~YGVG 226 (423)
-...... ...++...|..+++|-.|
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~ 195 (311)
T PF13609_consen 164 GEDDDNNGIGGSVAGDSDDDDVYGAGASYSFG 195 (311)
T ss_dssp ETTCCC-TTBSS-TCCGCTTEEEEEEEEEEET
T ss_pred cCCccccccccccccccccccceEEEEEEEcC
Confidence 5433210 112334458888888743
No 24
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=28.05 E-value=75 Score=34.54 Aligned_cols=140 Identities=15% Similarity=0.112 Sum_probs=82.5
Q ss_pred eeeeccCCCCCCCccceeeeeeecccchhhhhHHHhhhhhhhcCCCccccEeeeeeeeeeeeEEEEeecccccc------
Q 014496 220 AIGYGVGSGSPLSPSFNFGLELAKSSVFIASFYQHVVVQRRVKNPLEEDEIVGITNYIDFGFELQTRIDDAKTA------ 293 (423)
Q Consensus 220 A~~YGVGs~SPLsPSFnf~lEL~~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgITNYiD~gfEl~t~vd~~~~~------ 293 (423)
..+.|.+|+||.+=+=-+++|..=-|+-|+-=|+=.+=-+.-+-+|+|+.+ |-.++=.|-|..++--..+..
T Consensus 481 ~~~~~~~~~~~~~~~~~~~~~~~~ys~~~~~~~r~f~~~~~~~~~~~~~~~--~~~~~g~G~e~~~~~~~~e~~~~~~~~ 558 (765)
T PRK10049 481 AGSTGLDSDGPDSGKHDVDITTILYSPPLADNWRGFAGFGYADGQFSEGKG--IVRDWLAGVEWRSRDIWLEAELSERVF 558 (765)
T ss_pred EecccCCCCCCccccCcCcceeEEecCccCCCeeEEeeecceeccCCCCce--eEEEEeeeeEEEecceeEEEEeecccc
Confidence 345667888886544445566655666554222222222333458888764 677777888886553332221
Q ss_pred CCCCCcchheeccccccceeEEeeecCCCccceee------------eeeccccce--eEEEEEE-eeecccCcceeeeE
Q 014496 294 NSIPESSFQVAASWQANKNFLLKGKVGPLSSSVAM------------AFKSWWKPS--FTFSISA-TKDRVVGKTSYGFG 358 (423)
Q Consensus 294 ~~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~al------------afksWw~PS--fTfs~sA-~~D~~~g~~~yGFg 358 (423)
....+....+.++|++|++|-+-|-+...+..+-| .+-.=|+++ ....+++ .-|+++|..+.-++
T Consensus 559 ~~~~~~g~~~~~~~~~nd~w~~~~~~~~~~~~~plra~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~fsD~N~r~~~~ 638 (765)
T PRK10049 559 GHEHKPGARLSGWYDFNDNWRIGGSLERLSHRTPLRALKNGVTANGGQGYVRWYQNERREYGVSWAFSDFSDGNRRQEYS 638 (765)
T ss_pred CCCCCcccEEEeeeccCCCeeeeceeecCCCCCCHHHHHcCCccccceEEEEEeEcceEEEEeeeeeecccCCchhhhee
Confidence 22345557899999999999999988775544321 122224443 3333322 24777888888877
Q ss_pred EEe
Q 014496 359 IRV 361 (423)
Q Consensus 359 i~V 361 (423)
+..
T Consensus 639 ~~~ 641 (765)
T PRK10049 639 LSG 641 (765)
T ss_pred cee
Confidence 754
No 25
>PF03922 OmpW: OmpW family; InterPro: IPR005618 This family includes outer membrane protein W (OmpW) proteins from a variety of bacterial species. This protein may form the receptor for S4 colicins in Escherichia coli [].; GO: 0019867 outer membrane; PDB: 2F1V_F 2F1T_A 2X27_X.
Probab=26.97 E-value=1.1e+02 Score=28.78 Aligned_cols=55 Identities=18% Similarity=0.129 Sum_probs=34.8
Q ss_pred CCCCcchheeccccccceeEEeeecCCCccceeeeeeccccceeEEE----EEEeeecccCcceeeeEE
Q 014496 295 SIPESSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFS----ISATKDRVVGKTSYGFGI 359 (423)
Q Consensus 295 ~~~~~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~PSfTfs----~sA~~D~~~g~~~yGFgi 359 (423)
++-.+-+|+++.|++||||.+-.- .-|-|=+...|+. ...+.|....-.-||+|+
T Consensus 130 ~s~G~a~q~G~dy~i~~~w~~n~d----------v~y~~i~t~a~~~~~g~~~~~~~v~ldP~v~~~gv 188 (192)
T PF03922_consen 130 DSWGPAAQAGFDYNINDNWFLNAD----------VKYIDIKTDATFTAVGGGVRKADVDLDPWVVGVGV 188 (192)
T ss_dssp -EEEEEEEEEEEEESSSSEEEEEE----------EEEE--EEEEEEETCTSSEEEEEEE--EEEEEEEE
T ss_pred CcccEEEEEEEEEEeCCCEEEEEE----------EEEEEecceEEEEecCCcceEEEEEECCEEEEEEe
Confidence 456677999999999999998765 2355666667776 344444444445555554
No 26
>PF08379 Bact_transglu_N: Bacterial transglutaminase-like N-terminal region; InterPro: IPR013589 This region is found towards the N terminus of various archaeal and bacterial hypothetical proteins. Some of these are annotated as being transglutaminase-like proteins, and in fact contain a transglutaminase-like superfamily domain (IPR002931 from INTERPRO).
Probab=25.91 E-value=1.3e+02 Score=23.69 Aligned_cols=54 Identities=20% Similarity=0.428 Sum_probs=39.2
Q ss_pred eeeeeecCCCCCCeeEEE---Eecccc-CCCCCcccccceEEEEeecCCCCCceeeeeec
Q 014496 60 STRIMLKPIDDPHVDMIA---TVSGPL-DHKPEENIVGNALFRWQRELDDPHTFMDLFVS 115 (423)
Q Consensus 60 ~~rimLkP~dDPhVDl~A---tvs~~~-d~~~~~~~~G~alfRwQ~d~~dPhTF~Dl~vS 115 (423)
.-++.|+|.+++.--|.+ +|+... ......+.-||...++. ...||+-+++.+.
T Consensus 20 ~~~lrl~P~~~~~Q~v~~~~l~i~P~~~~~~~~~D~fGN~v~~~~--~~~ph~~l~i~~~ 77 (82)
T PF08379_consen 20 PHRLRLTPRSDPGQRVLSWSLTIEPEPARVREYTDFFGNRVHRFS--FPEPHKELTIEAT 77 (82)
T ss_pred eeeeEEECCCCCCccEEEEEEEEcCCCCEEEEEECCCCCEEEEEE--ECCCceEEEEEEE
Confidence 446899999999976654 455522 34446778899998885 6889988886554
No 27
>PF03349 Toluene_X: Outer membrane protein transport protein (OMPP1/FadL/TodX); InterPro: IPR005017 This family includes TodX from Pseudomonas putida (strain F1/ATCC 700007) Q51971 from SWISSPROT and TbuX from Burkholderia pickettii (Ralstonia pickettii) (Pseudomonas pickettii) PKO1 Q9RBW8 from SWISSPROT. These are membrane proteins of uncertain function that are involved in toluene catabolism. Related proteins involved in the degradation of similar aromatic hydrocarbons are also in this family, such as CymD O33458 from SWISSPROT.; PDB: 2R88_A 1T16_B 2R4N_B 2R4P_B 3PGU_A 2R4L_A 3DWN_B 2R4O_A 3PF1_B 3PGS_A ....
Probab=25.53 E-value=1.1e+02 Score=29.93 Aligned_cols=84 Identities=13% Similarity=0.107 Sum_probs=46.9
Q ss_pred cccccccCcceeeeeccCCCCCCCccceeeeeeecccchhhhhHHHhhhhhhhcCCCccccEeeeeeeeeeeeEEEEeec
Q 014496 209 AKYKNLMNWSYAIGYGVGSGSPLSPSFNFGLELAKSSVFIASFYQHVVVQRRVKNPLEEDEIVGITNYIDFGFELQTRID 288 (423)
Q Consensus 209 ~~~~~l~nws~A~~YGVGs~SPLsPSFnf~lEL~~ssq~iaSFyqH~vVQRrvkNP~Ee~~vvgITNYiD~gfEl~t~vd 288 (423)
..++-...++..++|.+...- .+.+.+|..+=|++-.- .+..+..+-.. ....+-++++++=+..+
T Consensus 264 ~~~~~P~~~~~g~~~~~~~~~----~l~~d~~~~~WS~~~~~------~~~~~~~~~~~---~~~~~~~~~~~~d~~~~- 329 (427)
T PF03349_consen 264 VDLDLPASLSLGVAYRFTDKL----LLSADYEWTDWSSFDNL------YNDQFTFANGN---GSTNNNIPFNWKDTWVY- 329 (427)
T ss_dssp EEEEB-EEEEEEEEEESSSSE----EEEEEEEEEEGGG-SCE------EEEEEEETTEC---TEEEEEEE---EEEEEE-
T ss_pred eeeeeceeEEEEEEEecCCCE----EEEEEEEEEEhhhhhhh------ccccccccccc---ccccccCCCCccchhee-
Confidence 334444557777777764432 34677777776664333 22222222111 13455666666655555
Q ss_pred cccccCCCCCcchheeccccccceeEEeeec
Q 014496 289 DAKTANSIPESSFQVAASWQANKNFLLKGKV 319 (423)
Q Consensus 289 ~~~~~~~~~~~~~q~aASWQaNKNfLlKgK~ 319 (423)
.+++.|++|++|.|.+=+
T Consensus 330 -------------~lG~~Y~~~~~l~lr~G~ 347 (427)
T PF03349_consen 330 -------------RLGAEYKFNDKLTLRAGY 347 (427)
T ss_dssp -------------EEEEEEESSSSEEEEEEE
T ss_pred -------------eeeeEEEcCcCEEEEEEE
Confidence 899999999999988754
No 28
>PRK15267 subtilase cytotoxin subunit B-like protein; Provisional
Probab=22.18 E-value=1.1e+02 Score=28.50 Aligned_cols=39 Identities=21% Similarity=0.376 Sum_probs=30.9
Q ss_pred eeeeeecccchhh--------------hhHHHhhhhhh----------------------hcCCCccccEeeeee
Q 014496 237 FGLELAKSSVFIA--------------SFYQHVVVQRR----------------------VKNPLEEDEIVGITN 275 (423)
Q Consensus 237 f~lEL~~ssq~ia--------------SFyqH~vVQRr----------------------vkNP~Ee~~vvgITN 275 (423)
||||+.+.+|.|. +=|.||--|-| .++-|.-|++||||.
T Consensus 53 FCI~~~~~s~~i~~~s~ckvsv~g~~k~sF~~ml~qA~YyYtTG~~VRIYy~~nVWt~p~F~~afS~naLvgiss 127 (141)
T PRK15267 53 FCIGLKHGSEAISINAMCKVDVYGNHKQGFDNMLNTAKYYYTTGGDVRIYYKENVWRDPDFKSAFSSRELIAITT 127 (141)
T ss_pred EEEEeecCCCccchhhhccceecccccchHHHHHHhhheeeecCceEEEEEcCCcccCchhhhhccccceeEEee
Confidence 9999999999887 55677777754 346688899999975
No 29
>PF00593 TonB_dep_Rec: TonB dependent receptor; InterPro: IPR000531 In Escherichia coli the TonB protein interacts with outer membrane receptor proteins that carry out high-affinity binding and energy-dependent uptake of specific substrates into the periplasmic space []. These substrates are either poorly permeable through the porin channels or are encountered at very low concentrations. In the absence of TonB, these receptors bind their substrates but do not carry out active transport. TonB-dependent regulatory systems consist of six components: a specialised outer membrane-localised TonB-dependent receptor (TonB-dependent transducer) that interacts with its energising TonB-ExbBD protein complex, a cytoplasmic membrane-localised anti-sigma factor and an extracytoplasmic function (ECF)-subfamily sigma factor []. The TonB complex senses signals from outside the bacterial cell and transmits them via two membranes into the cytoplasm, leading to transcriptional activation of target genes. The proteins that are currently known or presumed to interact with TonB include BtuB [], CirA, FatA, FcuT, FecA [], FhuA [], FhuE, FepA [], FptA, HemR, IrgA, IutA, PfeA, PupA and Tbp1. The TonB protein also interacts with some colicins. Most of these proteins contain a short conserved region at their N terminus []. This entry covers the conserved part of the beta-barrel structure at the C-terminal.; GO: 0004872 receptor activity, 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2YSU_A 1NQG_A 3M8D_A 2GSK_A 3RGN_A 1NQE_A 3M8B_A 1NQH_A 3RGM_A 1NQF_A ....
Probab=22.13 E-value=49 Score=26.43 Aligned_cols=20 Identities=20% Similarity=0.456 Sum_probs=17.0
Q ss_pred heec-cccccceeEEeeecCC
Q 014496 302 QVAA-SWQANKNFLLKGKVGP 321 (423)
Q Consensus 302 q~aA-SWQaNKNfLlKgK~G~ 321 (423)
++++ +|++++++.|++..|.
T Consensus 3 ~~~~~~y~~~~~~~l~~~~~~ 23 (277)
T PF00593_consen 3 RLGLTSYKPTDNLSLRASYGR 23 (277)
T ss_dssp EEEEEEEEESTSEEEEEEEEE
T ss_pred eEEEEEEEECCCeEEEEEEEE
Confidence 6788 7999999999998763
No 30
>PRK10959 outer membrane protein W; Provisional
Probab=21.81 E-value=4.9e+02 Score=23.96 Aligned_cols=26 Identities=31% Similarity=0.302 Sum_probs=20.6
Q ss_pred CCCCCcchheeccccccceeEEeeec
Q 014496 294 NSIPESSFQVAASWQANKNFLLKGKV 319 (423)
Q Consensus 294 ~~~~~~~~q~aASWQaNKNfLlKgK~ 319 (423)
++.....+|+++.|.+++||-+-+.+
T Consensus 150 d~~~~~~~~~G~~y~i~~~~~l~~~~ 175 (212)
T PRK10959 150 KDSWGVAGQVGLDYLINKNWLLNASV 175 (212)
T ss_pred cCcEEEEEEEEEEEEeCCCeEEEEEE
Confidence 44455668999999999999887763
No 31
>PF13372 Alginate_exp: Alginate export ; PDB: 3RBH_B.
Probab=21.63 E-value=88 Score=30.65 Aligned_cols=66 Identities=18% Similarity=0.291 Sum_probs=33.9
Q ss_pred cceeeeeccCCCCCCCccceeeeeeeccc-----chhhhhHHHhhhhhhhcCCCccccEeeeeeeeeeeeEEEEe
Q 014496 217 WSYAIGYGVGSGSPLSPSFNFGLELAKSS-----VFIASFYQHVVVQRRVKNPLEEDEIVGITNYIDFGFELQTR 286 (423)
Q Consensus 217 ws~A~~YGVGs~SPLsPSFnf~lEL~~ss-----q~iaSFyqH~vVQRrvkNP~Ee~~vvgITNYiD~gfEl~t~ 286 (423)
|..-+||-. ...|+.|.|.+..+.+-.. .=+.+|-+..-..+ +.+-+--.++-+|-+|+...+...
T Consensus 243 ~~~~~Gyt~-~~~~~~P~l~~~y~~~SGD~~~~d~~~~~F~~l~~~~~---~~~g~~~~~~~~Nl~~~~~~~~~~ 313 (400)
T PF13372_consen 243 WAAEAGYTF-KDLPWKPRLGLGYDYASGDDDPTDGKNETFDPLFGTNH---KYYGYMDYFGWSNLQDISPGLTVK 313 (400)
T ss_dssp EEEEEEEEE----E-SSSEEEEEEEEEE-T-----SB---EE-TTSSS---ETT-TTT---SSSEEEEEEEEEEE
T ss_pred hhhccccee-eccCCCcEEEEEEEEEeCCCCCCCCCccccccCCCCCC---cccccccccccCceecceEEEEEE
Confidence 355567777 4779999999999998554 13334543322222 555566666777877777666544
No 32
>PRK09408 ompX outer membrane protein X; Provisional
Probab=20.78 E-value=1.8e+02 Score=27.03 Aligned_cols=65 Identities=20% Similarity=0.218 Sum_probs=40.9
Q ss_pred cchheeccccccceeEEeeecCCCccceeeeeeccccceeEEEEEEeeecccCcceeeeEEEe---ccC-ccccccccC
Q 014496 299 SSFQVAASWQANKNFLLKGKVGPLSSSVAMAFKSWWKPSFTFSISATKDRVVGKTSYGFGIRV---ENL-REASYQRAD 373 (423)
Q Consensus 299 ~~~q~aASWQaNKNfLlKgK~G~~~ss~alafksWw~PSfTfs~sA~~D~~~g~~~yGFgi~V---Enl-r~~sYqRad 373 (423)
-++-++.+|++|+.|++=|++|..-.-+-.- .+.....+..+..-.||-|+.+ ||+ -+++||...
T Consensus 86 ~sl~agP~yr~nd~~svYg~~G~~~~k~~~~----------~~~~~~~s~s~~g~~yGAGvq~np~~nv~id~~Ye~S~ 154 (171)
T PRK09408 86 YGITAGPAYRINDWASIYGVVGVGYGKFQTT----------EYPTYKHDTSDYGFSYGAGLQFNPMENVALDFSYEQSR 154 (171)
T ss_pred EEEEEeeeEEeCCcEeeeEEeceeeEEEEee----------cccccccccccccEEEEeeEEEEecCCEEEEEEEEEee
Confidence 4578899999999999999999764332111 0011122334455668888886 444 456777653
No 33
>PF04371 PAD_porph: Porphyromonas-type peptidyl-arginine deiminase; InterPro: IPR007466 Peptidyl-arginine deiminase (PAD) enzymes catalyse the deimination of the guanidino group from carboxy-terminal arginine residues of various peptides to produce ammonia. PAD from Porphyromonas gingivalis (Bacteroides gingivalis) (PPAD) appears to be evolutionarily unrelated to mammalian PAD (IPR004303 from INTERPRO), which is a metalloenzyme. PPAD is thought to belong to the same superfamily as aminotransferase and arginine deiminase, and to form an alpha/beta propeller structure. This family has previously been named PPADH (Porphyromonas peptidyl-arginine deiminase homologs) []. The predicted catalytic residues in PPAD (Q9RQJ2 from SWISSPROT) are Asp130, Asp187, His236, Asp238 and Cys351 []. These are absolutely conserved with the exception of Asp187 which is absent in two family members. PPAD is also able to catalyse the deimination of free L-arginine, but has primarily peptidyl-arginine specificity. It may have a FMN cofactor [].; PDB: 2Q3U_A 1VKP_A 3H7C_X 3H7K_A 2EWO_K 1ZBR_B 1XKN_A 2JER_B 3HVM_A 2CMU_A.
Probab=20.77 E-value=1.4e+02 Score=29.93 Aligned_cols=54 Identities=28% Similarity=0.428 Sum_probs=38.5
Q ss_pred hhHHHHHHHHHHHHHhhccceeeeeec----CCC--CCCeeEEEEeccccCCCCCcccccceEEEEeecCCCCC
Q 014496 40 FAKLALKCLFDDYFEEARHFSTRIMLK----PID--DPHVDMIATVSGPLDHKPEENIVGNALFRWQRELDDPH 107 (423)
Q Consensus 40 FgKlal~~LF~DYF~~a~~~~~rimLk----P~d--DPhVDl~Atvs~~~d~~~~~~~~G~alfRwQ~d~~dPh 107 (423)
..|.++...+..+| .++--|.|. +-| |-|||-+|+..++ |.++..|..|.+||+
T Consensus 166 ~s~~eie~~L~~~l----G~~kviwL~~g~~~~d~t~GHiD~~arFv~~----------~~vl~~~~~d~~d~~ 225 (329)
T PF04371_consen 166 LSKAEIEAELKRYL----GVEKVIWLPHGLLGDDDTDGHIDGIARFVDP----------GTVLVSRCDDPSDPN 225 (329)
T ss_dssp S-HHHHHHHHHHHH----T-SEEEEESS-STTTTTTSS-GGGTEEEEET----------TEEEEEE-S-TTSTT
T ss_pred CCHHHHHHHHHHHh----CCCEEEEecCCcCCCCCcCCccceeEEecCC----------CEEEEEecCCCCCcC
Confidence 57888888888888 333335566 223 6899999999999 999999988888885
No 34
>PF06178 KdgM: Oligogalacturonate-specific porin protein (KdgM); InterPro: IPR009331 This family consists of several bacterial proteins which are homologous to the oligogalacturonate-specific porin protein KdgM (Q934G3 from SWISSPROT) from Erwinia chrysanthemi. The phytopathogenic Gram-negative bacteria E. chrysanthemi secretes pectinases, which are able to degrade the pectic polymers of plant cell walls, and uses the degradation products as a carbon source for growth. KdgM is a major outer membrane protein, whose synthesis is strongly induced in the presence of pectic derivatives. KdgM behaves like a voltage-dependent porin that is slightly selective for anions and that exhibits fast block in the presence of trigalacturonate. In contrast to most porins, KdgM seems to be monomeric [].; PDB: 2WJQ_A 2WJR_A.
Probab=20.75 E-value=1.5e+02 Score=28.23 Aligned_cols=40 Identities=25% Similarity=0.500 Sum_probs=19.8
Q ss_pred eeeEEEEee-c--cccc--cCCCCCcchheeccccccceeEEeee
Q 014496 279 FGFELQTRI-D--DAKT--ANSIPESSFQVAASWQANKNFLLKGK 318 (423)
Q Consensus 279 ~gfEl~t~v-d--~~~~--~~~~~~~~~q~aASWQaNKNfLlKgK 318 (423)
+||++.+.. | ..++ ....+..++.+.-.|.+|+||.|.-=
T Consensus 37 ~g~~~E~k~~~~~~~~~~~~~~~ng~E~~~~y~~k~~d~~~l~PG 81 (218)
T PF06178_consen 37 FGFSVEAKWTDSDKDKPFDEMVSNGNEFEISYRYKLNDNFTLQPG 81 (218)
T ss_dssp EEEEEEEEEEEE------------EEEEEEEE-EESSSSEEEEEE
T ss_pred cEEEEEEEecCCCCCCCccccccceeEEEEEEEEEcCCCEEEecc
Confidence 456665544 1 2333 22334445777777889999987643
No 35
>PF10082 DUF2320: Uncharacterized protein conserved in bacteria (DUF2320); InterPro: IPR018759 This domain has no known function.
Probab=20.68 E-value=5.9e+02 Score=24.74 Aligned_cols=72 Identities=17% Similarity=0.215 Sum_probs=46.0
Q ss_pred cCCCCCcchheeccccccceeEEeeecC------CCccceeeee-eccccc--eeEEEEEEeeecccCcceeeeEEEecc
Q 014496 293 ANSIPESSFQVAASWQANKNFLLKGKVG------PLSSSVAMAF-KSWWKP--SFTFSISATKDRVVGKTSYGFGIRVEN 363 (423)
Q Consensus 293 ~~~~~~~~~q~aASWQaNKNfLlKgK~G------~~~ss~alaf-ksWw~P--SfTfs~sA~~D~~~g~~~yGFgi~VEn 363 (423)
.++-.+-.+++.+.|+++..+.+.++.+ +.++.-+... ...=+| .-++++.+...+..++.+..+++.+.+
T Consensus 75 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~pv~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 154 (381)
T PF10082_consen 75 DDDYTDHNLNANGRWDFTRRLRLDLGGSYRRGHEPRGSGDTFGGSDVQDDPVERNTFSASYGYGARFGRGRLSLGAGYDR 154 (381)
T ss_pred CCCccccEEEEEEEEeeccceEEEEEEEEEEEeccCCCCccccccccccCceEEEEEEEEEEEEEEcCCEEEEEEEEEEE
Confidence 4466677788888999998887777654 3444444433 222333 667777777766666667777776544
Q ss_pred C
Q 014496 364 L 364 (423)
Q Consensus 364 l 364 (423)
+
T Consensus 155 ~ 155 (381)
T PF10082_consen 155 L 155 (381)
T ss_pred E
Confidence 3
Done!