Query psy9968
Match_columns 118
No_of_seqs 156 out of 1155
Neff 8.1
Searched_HMMs 46136
Date Sat Aug 17 00:19:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9968.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9968hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00112 CA Cadherin repeats 99.8 6.3E-20 1.4E-24 111.9 10.5 79 6-111 1-79 (79)
2 cd00031 CA Cadherin repeat dom 99.8 1.3E-17 2.8E-22 116.4 12.1 90 2-118 18-107 (199)
3 KOG4289|consensus 99.7 7.9E-18 1.7E-22 142.1 10.0 92 1-118 803-894 (2531)
4 KOG4289|consensus 99.7 2.1E-17 4.6E-22 139.6 8.9 91 1-118 289-379 (2531)
5 PF00028 Cadherin: Cadherin do 99.7 4.6E-16 9.9E-21 97.5 11.5 77 1-104 16-93 (93)
6 KOG1219|consensus 99.6 5.1E-16 1.1E-20 135.1 8.0 91 1-118 1078-1168(4289)
7 KOG1219|consensus 99.6 1.6E-15 3.4E-20 132.1 10.2 91 1-118 973-1063(4289)
8 cd00031 CA Cadherin repeat dom 99.3 5.5E-11 1.2E-15 82.8 11.3 77 2-105 123-199 (199)
9 KOG1834|consensus 98.7 7.2E-08 1.6E-12 78.2 9.5 91 3-118 54-154 (952)
10 KOG1834|consensus 97.9 6.7E-05 1.5E-09 61.4 8.3 76 1-105 168-244 (952)
11 smart00736 CADG Dystroglycan-t 97.2 0.021 4.5E-07 35.8 11.4 71 5-108 24-96 (97)
12 PF08266 Cadherin_2: Cadherin- 96.1 0.021 4.5E-07 35.3 5.0 32 17-49 34-65 (84)
13 TIGR01965 VCBS_repeat VCBS rep 94.7 0.65 1.4E-05 29.6 9.3 82 2-112 3-85 (99)
14 PF05345 He_PIG: Putative Ig d 83.4 5.6 0.00012 21.8 6.4 36 28-89 13-48 (49)
15 PF07495 Y_Y_Y: Y_Y_Y domain; 69.1 18 0.00039 20.2 8.5 27 77-103 39-65 (66)
16 PF08758 Cadherin_pro: Cadheri 64.4 32 0.00068 21.3 7.4 45 15-91 37-81 (90)
17 TIGR00845 caca sodium/calcium 54.6 74 0.0016 28.2 7.4 19 95-114 513-531 (928)
18 PF03413 PepSY: Peptidase prop 52.2 33 0.00071 18.7 3.6 29 14-42 29-62 (64)
19 PF13754 Big_3_4: Bacterial Ig 49.7 41 0.0009 18.5 3.7 14 77-90 24-37 (54)
20 PF02494 HYR: HYR domain; Int 49.6 52 0.0011 19.3 4.4 25 77-103 57-81 (81)
21 PF12245 Big_3_2: Bacterial Ig 48.2 50 0.0011 18.6 5.4 33 77-111 23-55 (60)
22 TIGR03660 T1SS_rpt_143 T1SS-14 46.9 86 0.0019 21.0 6.3 32 77-113 85-116 (137)
23 PF14157 YmzC: YmzC-like prote 42.7 59 0.0013 19.0 3.6 28 18-45 31-58 (63)
24 smart00089 PKD Repeats in poly 39.3 76 0.0016 18.1 4.5 26 75-103 53-78 (79)
25 PF09100 Qn_am_d_aIV: Quinohem 38.6 98 0.0021 20.7 4.6 31 80-111 101-132 (133)
26 cd00146 PKD polycystic kidney 34.7 91 0.002 17.9 3.8 26 75-102 55-80 (81)
27 PF12971 NAGLU_N: Alpha-N-acet 30.1 1E+02 0.0022 18.7 3.5 31 15-45 18-49 (86)
28 PF00635 Motile_Sperm: MSP (Ma 29.3 97 0.0021 18.9 3.4 27 15-43 32-58 (109)
29 PF07145 PAM2: Ataxin-2 C-term 28.4 42 0.0009 14.6 1.1 12 106-117 6-17 (18)
30 cd06891 PX_Vps17p The phosphoi 27.3 1.7E+02 0.0036 19.8 4.4 39 76-118 25-63 (140)
31 COG3212 Predicted membrane pro 24.9 97 0.0021 20.9 2.9 29 13-41 108-138 (144)
32 PF13750 Big_3_3: Bacterial Ig 24.1 2.4E+02 0.0052 19.2 5.3 27 76-104 122-148 (158)
33 PF07861 WND: WisP family N-Te 22.0 1.3E+02 0.0029 21.7 3.2 29 14-45 202-230 (263)
34 PF01011 PQQ: PQQ enzyme repea 21.2 1.3E+02 0.0027 14.9 3.6 18 28-45 10-27 (38)
35 PF05688 DUF824: Salmonella re 21.0 1.4E+02 0.0031 16.2 2.6 14 96-109 14-27 (47)
36 PF15418 DUF4625: Domain of un 20.4 1.8E+02 0.0038 19.3 3.5 15 76-90 106-120 (132)
No 1
>smart00112 CA Cadherin repeats. Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion. Cadherin domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium.
Probab=99.84 E-value=6.3e-20 Score=111.91 Aligned_cols=79 Identities=43% Similarity=0.663 Sum_probs=70.4
Q ss_pred EeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEEEEEEE
Q psy9968 6 TDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIYITVIA 85 (118)
Q Consensus 6 ~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~l~v~a 85 (118)
+|+|.| .|+.++|+|..+... .+|.|++.+|.|++.+. |||| ....|.|.|.|
T Consensus 1 ~D~D~g-~n~~i~Y~i~~~~~~-~~F~i~~~tg~i~~~~~----------------------LD~e---~~~~y~l~v~a 53 (79)
T smart00112 1 TDADSG-ENGKVTYSILSGNED-GLFSIDPETGEITTTKP----------------------LDRE---EQPEYTLTVEA 53 (79)
T ss_pred CCCCCC-cCcEEEEEEecCCCC-CEEEEeCCccEEEeCCc----------------------cCee---CCCeEEEEEEE
Confidence 488998 689999999965442 69999999999988888 6887 55799999999
Q ss_pred EECCCCCCeeEEEEEEEEEeCCCCCC
Q psy9968 86 EDNGTPQLSDACTMKITVEDINDNEP 111 (118)
Q Consensus 86 ~D~g~p~~s~~~~v~I~v~DvNDn~P 111 (118)
.|.|.|+++++++|.|+|.|+|||+|
T Consensus 54 ~D~~~~~~~~~~~v~I~V~D~Nd~~P 79 (79)
T smart00112 54 TDGGGPPLSSTATVTVTVLDVNDNAP 79 (79)
T ss_pred EECCCCCcccEEEEEEEEEECCCCCC
Confidence 99999999999999999999999998
No 2
>cd00031 CA Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate, signalling, proliferation, differentiation, and migration; members include E-, N-, P-, T-, VE-,CNR-,proto-,and FAT-family cadherin, desmocollin, and desmoglein, exists as monomers or dimers (hetero- and homo-); two copies of the repeat are present here
Probab=99.76 E-value=1.3e-17 Score=116.37 Aligned_cols=90 Identities=41% Similarity=0.698 Sum_probs=78.5
Q ss_pred EEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEEE
Q psy9968 2 QVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIYI 81 (118)
Q Consensus 2 ~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~l 81 (118)
++.|.|+|.+ .++.+.|+|...... .+|.|++.+|.|++.+. |||| ....|.+
T Consensus 18 ~~~a~D~D~~-~~~~~~y~i~~~~~~-~~F~i~~~tG~l~~~~~----------------------lD~e---~~~~~~l 70 (199)
T cd00031 18 TVSATDPDSG-ENGRVTYSILGGNED-GLFSIDPNTGVITTTKP----------------------LDRE---EQSEYTL 70 (199)
T ss_pred EEEEECCCCC-CCceEEEEEeCCCCc-ccEEEeCCCCEEEECCC----------------------CCCc---CCceEEE
Confidence 5789999998 489999999965442 69999999999999998 6887 5579999
Q ss_pred EEEEEECCCCCCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 82 TVIAEDNGTPQLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 82 ~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
.|.|.|.|.|.++++..+.|.|.|+|||+|.|.+..|
T Consensus 71 ~v~a~D~g~~~~~~~~~v~I~V~d~Nd~~P~~~~~~~ 107 (199)
T cd00031 71 TVVASDGGGPPLSSTATVTVTVLDVNDNPPVFEQSSY 107 (199)
T ss_pred EEEEEECCcCcceeEEEEEEEEccCCCCCCcccccce
Confidence 9999999888888999999999999999999985443
No 3
>KOG4289|consensus
Probab=99.74 E-value=7.9e-18 Score=142.15 Aligned_cols=92 Identities=33% Similarity=0.557 Sum_probs=84.2
Q ss_pred CEEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEE
Q psy9968 1 MQVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIY 80 (118)
Q Consensus 1 ~~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~ 80 (118)
+||+|+|+|.| .|+++.|-+..+....+.|.|++.+|.|++.+. |||| ....|.
T Consensus 803 lQVSatDaD~g-~Ng~v~y~~qg~~d~p~~F~IEptSGviRtl~r----------------------LdRE---~~avy~ 856 (2531)
T KOG4289|consen 803 LQVSATDADSG-PNGRVYYTFQGGDDGPGDFYIEPTSGVIRTLRR----------------------LDRE---NVAVYV 856 (2531)
T ss_pred EEEEEeccCCC-CCceEEEEecCCCCCCCceEEccCcceeehhhh----------------------hcch---heeEEE
Confidence 58999999999 799999998765555578999999999999999 7998 678999
Q ss_pred EEEEEEECCCCCCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 81 ITVIAEDNGTPQLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 81 l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
|.+.|.|.|.|++++++.|+|+|.|+|||||+|++.+|
T Consensus 857 L~a~avDrg~p~ls~~~eItvtvldvNDnaPvfe~~e~ 894 (2531)
T KOG4289|consen 857 LAAYAVDRGNPPLSAPVEITVTVLDVNDNAPVFEQDEL 894 (2531)
T ss_pred EEEEEeeCCCCCcCCceEEEEEEEecCCCCCCCCCcce
Confidence 99999999999999999999999999999999999875
No 4
>KOG4289|consensus
Probab=99.72 E-value=2.1e-17 Score=139.64 Aligned_cols=91 Identities=35% Similarity=0.607 Sum_probs=82.1
Q ss_pred CEEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEE
Q psy9968 1 MQVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIY 80 (118)
Q Consensus 1 ~~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~ 80 (118)
++|.|+|.|.+ .|+.|+|++..+ +....|.||+.+|.|.+..+ |||| ....|.
T Consensus 289 LtvrAtD~Dsp-~Nani~Yrl~eg-~~~~~f~in~rSGvI~T~a~----------------------lDRE---~~~~y~ 341 (2531)
T KOG4289|consen 289 LTVRATDGDSP-PNANIRYRLLEG-NAKNVFEINPRSGVISTRAP----------------------LDRE---ELESYQ 341 (2531)
T ss_pred EEEEeccCCCC-CCCceEEEecCC-CccceeEEcCccceeeccCc----------------------cCHH---hhhheE
Confidence 47999999999 799999999954 44579999999999999999 7887 556899
Q ss_pred EEEEEEECCCCCCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 81 ITVIAEDNGTPQLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 81 l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
|.|+|+|.|.|+...++.|.|+|.|+|||+|+|....|
T Consensus 342 L~VeAsDqG~~pgp~Ta~V~itV~D~NDNaPqFse~~Y 379 (2531)
T KOG4289|consen 342 LDVEASDQGRPPGPRTAMVEITVEDENDNAPQFSEKRY 379 (2531)
T ss_pred EEEEeccCCCCCCCceEEEEEEEEecCCCCccccccce
Confidence 99999999998877899999999999999999998776
No 5
>PF00028 Cadherin: Cadherin domain; InterPro: IPR002126 Cadherins are a family of adhesion molecules that mediate Ca2+-dependent cell-cell adhesion in all solid tissues of the organism which modulate a wide variety of processes including cell polarisation and migration [, ,]. Cadherin-mediated cell-cell junctions are formed as a result of interaction between extracellular domains of identical cadherins, which are located on the membranes of the neighbouring cells. The stability of these adhesive junctions is ensured by binding of the intracellular cadherin domain with the actin cytoskeleton. There are a number of different isoforms distributed in a tissue-specific manner in a wide variety of organisms. Cells containing different cadherins tend to segregate in vitro, while those that contain the same cadherins tend to preferentially aggregate together. This observation is linked to the finding that cadherin expression causes morphological changes involving the positional segregation of cells into layers, suggesting they may play an important role in the sorting of different cell types during morphogenesis, histogenesis and regeneration. They may also be involved in the regulation of tight and gap junctions, and in the control of intercellular spacing. Cadherins are evolutionary related to the desmogleins which are component of intercellular desmosome junctions involved in the interaction of plaque proteins. Structurally, cadherins comprise a number of domains: classically, these include a signal sequence; a propeptide of around 130 residues; a single transmembrane domain and five tandemly repeated extracellular cadherin domains, 4 of which are cadherin repeats, and the fifth contains 4 conserved cysteines and a N-terminal cytoplasmic domain []. However, proteins are designated as members of the broadly defined cadherin family if they have one or more cadherin repeats. A cadherin repeat is an independently folding sequence of approximately 110 amino acids that contains motifs with the conserved sequences DRE, DXNDNAPXF, and DXD. Crystal structures have revealed that multiple cadherin domains form Ca2+-dependent rod-like structures with a conserved Ca2+-binding pocket at the domain-domain interface. Cadherins depend on calcium for their function: calcium ions bind to specific residues in each cadherin repeat to ensure its proper folding, to confer rigidity upon the extracellular domain and is essential for cadherin adhesive function and for protection against protease digestion.; GO: 0005509 calcium ion binding, 0007156 homophilic cell adhesion, 0016020 membrane; PDB: 2A4E_A 2A4C_B 2O72_A 2QVI_A 1NCJ_A 3Q2W_A 3Q2N_A 3LNH_B 3LNI_A 3Q2L_A ....
Probab=99.70 E-value=4.6e-16 Score=97.45 Aligned_cols=77 Identities=38% Similarity=0.485 Sum_probs=68.5
Q ss_pred CEEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEE
Q psy9968 1 MQVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIY 80 (118)
Q Consensus 1 ~~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~ 80 (118)
+++.|.|+|.+ .|+.+.|+|..+.. ..+|.|++.+|.|++.+. |||| ..+.|.
T Consensus 16 ~~v~a~D~D~~-~n~~i~y~i~~~~~-~~~F~I~~~tg~i~~~~~----------------------LD~E---~~~~y~ 68 (93)
T PF00028_consen 16 GQVTATDPDSG-PNSQITYSILGGNP-DGLFSIDPNTGEISLKKP----------------------LDRE---TQSSYQ 68 (93)
T ss_dssp EEEEEEESSTS-TTSSEEEEEEETTS-TTSEEEETTTTEEEESSS----------------------SCTT---TTSEEE
T ss_pred EEEEEEeCCCC-CCceEEEEEecCcc-cCceEEeeeeecccccee----------------------cCcc---cCCEEE
Confidence 36899999988 79999999997553 469999999999999999 6887 567999
Q ss_pred EEEEEEEC-CCCCCeeEEEEEEEEE
Q psy9968 81 ITVIAEDN-GTPQLSDACTMKITVE 104 (118)
Q Consensus 81 l~v~a~D~-g~p~~s~~~~v~I~v~ 104 (118)
|.|.|+|. |.|+++++++|.|+|.
T Consensus 69 l~v~a~D~~~~~~~~~~~~V~I~V~ 93 (93)
T PF00028_consen 69 LTVRATDSGGSPPLSSTATVTINVL 93 (93)
T ss_dssp EEEEEEETTTSSEEEEEEEEEEEEE
T ss_pred EEEEEEECCCCCCCEEEEEEEEEEC
Confidence 99999999 8899999999999985
No 6
>KOG1219|consensus
Probab=99.64 E-value=5.1e-16 Score=135.07 Aligned_cols=91 Identities=32% Similarity=0.538 Sum_probs=82.8
Q ss_pred CEEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEE
Q psy9968 1 MQVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIY 80 (118)
Q Consensus 1 ~~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~ 80 (118)
+|+.|+|+|.. .|+++.|.|.+ ++...+|+||+.||.|++.+. |||| +++++.
T Consensus 1078 vq~ea~D~Dss-sn~kLmykI~s-Gnyq~FF~Id~~TG~iTt~r~----------------------LDRE---~qdEHi 1130 (4289)
T KOG1219|consen 1078 VQAEANDPDSS-SNQKLMYKITS-GNYQGFFQIDPETGLITTIRR----------------------LDRE---KQDEHI 1130 (4289)
T ss_pred EEeccCCCCcc-cCcceEEEEcc-CCccceEEEccccceeeeehh----------------------hccc---ccccce
Confidence 47889999977 68999999994 555689999999999999999 7998 889999
Q ss_pred EEEEEEECCCCCCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 81 ITVIAEDNGTPQLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 81 l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
|.|.+.|.|.|++.+..-|.|.|+|+|||+|+|.|..|
T Consensus 1131 LeVTi~D~gep~l~s~~rviV~IldvNdnsp~Flqk~~ 1168 (4289)
T KOG1219|consen 1131 LEVTIQDNGEPWLCSNQRVIVSILDVNDNSPRFLQKKT 1168 (4289)
T ss_pred EEEEEecCCCCccccceEEEEEEeeccCCchhhhhhee
Confidence 99999999999999999999999999999999998754
No 7
>KOG1219|consensus
Probab=99.63 E-value=1.6e-15 Score=132.15 Aligned_cols=91 Identities=40% Similarity=0.646 Sum_probs=83.4
Q ss_pred CEEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEE
Q psy9968 1 MQVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIY 80 (118)
Q Consensus 1 ~~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~ 80 (118)
++|.|.|.|.| ..+.++|+|.. +...+.|+||..+|.|++.+. |||| ....|.
T Consensus 973 i~i~A~dedsg-ldg~l~Y~I~~-gdg~g~FsId~~tG~irTl~~----------------------lDrE---~ks~Yw 1025 (4289)
T KOG1219|consen 973 IRIQARDEDSG-LDGELSYKIRT-GDGDGIFSIDSTTGSIRTLKA----------------------LDRE---KKSSYW 1025 (4289)
T ss_pred EEEEEecCCCC-ccceEEEEEEc-CCcceeEEecCCcceEeechh----------------------hchh---hcceEE
Confidence 46899999999 78999999995 344578999999999999999 7888 778999
Q ss_pred EEEEEEECCCCCCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 81 ITVIAEDNGTPQLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 81 l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
|++.|.|.|.+++++.+.+.|.|+|+|||+|+|.++.|
T Consensus 1026 ltveA~D~gt~~~ssv~~vyI~ieDvNDn~Pq~s~pvy 1063 (4289)
T KOG1219|consen 1026 LTVEAKDLGTVPLSSVCEVYIEIEDVNDNVPQFSSPVY 1063 (4289)
T ss_pred EEEEEEecCCCccccceeEEEEEEecCCCCcccCCceE
Confidence 99999999999999999999999999999999999877
No 8
>cd00031 CA Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate, signalling, proliferation, differentiation, and migration; members include E-, N-, P-, T-, VE-,CNR-,proto-,and FAT-family cadherin, desmocollin, and desmoglein, exists as monomers or dimers (hetero- and homo-); two copies of the repeat are present here
Probab=99.30 E-value=5.5e-11 Score=82.80 Aligned_cols=77 Identities=38% Similarity=0.588 Sum_probs=67.0
Q ss_pred EEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEEE
Q psy9968 2 QVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIYI 81 (118)
Q Consensus 2 ~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~l 81 (118)
++.|+|+|.+ .++.++|+|..... ..+|.|++.+|.|++.+. ||+| ....|.+
T Consensus 123 ~~~a~D~D~~-~~~~~~y~l~~~~~-~~~f~i~~~~G~i~~~~~----------------------ld~e---~~~~~~l 175 (199)
T cd00031 123 TVTATDADSG-ENAKLTYSILSGND-KELFSIDPNTGIITLAKP----------------------LDRE---EKSSYEL 175 (199)
T ss_pred EEEEEcCCCC-CCccEEEEEeCCCC-CCEEEEeCCceEEEeCCc----------------------cCCc---cCceEEE
Confidence 6889999998 68999999996544 359999999999999988 6776 4568999
Q ss_pred EEEEEECCCCCCeeEEEEEEEEEe
Q psy9968 82 TVIAEDNGTPQLSDACTMKITVED 105 (118)
Q Consensus 82 ~v~a~D~g~p~~s~~~~v~I~v~D 105 (118)
.|.|.|.+.+++++++.+.|.|.|
T Consensus 176 ~v~a~D~~~~~~~~~~~i~i~v~d 199 (199)
T cd00031 176 TVVATDGGGPPLSSTATVTVTVLD 199 (199)
T ss_pred EEEEEECCCCCceeEEEEEEEEEC
Confidence 999999998889999999999876
No 9
>KOG1834|consensus
Probab=98.75 E-value=7.2e-08 Score=78.16 Aligned_cols=91 Identities=31% Similarity=0.455 Sum_probs=67.9
Q ss_pred EEEEeCCCCC-CCCcE-EEEEEeCCCCCccEEEeCCCC--EEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcce
Q psy9968 3 VHATDVDPPS-NGGTI-QYRIIKAPGERAKFSIDKETG--IVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKE 78 (118)
Q Consensus 3 v~A~D~D~~~-~n~~i-~y~i~~~~~~~~~F~id~~tG--~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~ 78 (118)
+.|-|.|.+- ..|.| -|.|.+++-.-....+|..|| .|+.+.+ ||.| .++.
T Consensus 54 l~aLdkdaplr~ageiC~fklhgq~vPFdavVvdK~TGegvlRaK~~----------------------lDCe---lqke 108 (952)
T KOG1834|consen 54 LAALDKDAPLRYAGEICGFKLHGQPVPFDAVVVDKYTGEGVLRAKEP----------------------LDCE---LQKE 108 (952)
T ss_pred eeeecCCCCcccccccceeEecCCCCCceEEEEeccCCceEEeecCc----------------------cccc---cccc
Confidence 3466777652 23555 677775443223455799998 5666666 7887 6789
Q ss_pred EEEEEEEEECCCC------CCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 79 IYITVIAEDNGTP------QLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 79 ~~l~v~a~D~g~p------~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
|+++|+|.|+|+. ..|..++|.|+|.|+|.++|+|..+.|
T Consensus 109 ytf~iQAydCg~gpdgtn~kKShkatvhIrVkDvNe~AP~f~ep~Y 154 (952)
T KOG1834|consen 109 YTFTIQAYDCGNGPDGTNTKKSHKATVHIRVKDVNEFAPVFKEPWY 154 (952)
T ss_pred ceEEEEEEecCCCCCccccccccceEEEEEeccccccCchhcccce
Confidence 9999999999763 467778999999999999999998877
No 10
>KOG1834|consensus
Probab=97.91 E-value=6.7e-05 Score=61.42 Aligned_cols=76 Identities=26% Similarity=0.423 Sum_probs=60.2
Q ss_pred CEEEEEeCCCCCCCCcE-EEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceE
Q psy9968 1 MQVHATDVDPPSNGGTI-QYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEI 79 (118)
Q Consensus 1 ~~v~A~D~D~~~~n~~i-~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~ 79 (118)
++|.|.|.|-+..+++| .|.|.. ++ -.|.||. .|.|+.... |.+. ++.+|
T Consensus 168 l~veAiD~DCspq~sqIC~YEI~t-~d--~PFaIdn-~G~irnTek----------------------Lny~---ke~~Y 218 (952)
T KOG1834|consen 168 LRVEAIDKDCSPQYSQICEYEITT-PD--VPFAIDN-DGNIRNTEK----------------------LNYT---KEHQY 218 (952)
T ss_pred EEEEeecCCCCCcccceeEEEecC-CC--CceEEcC-CCccccccc----------------------cccc---cceeE
Confidence 47899999988667777 788884 43 3799986 599999998 5665 56799
Q ss_pred EEEEEEEECCCCCCeeEEEEEEEEEe
Q psy9968 80 YITVIAEDNGTPQLSDACTMKITVED 105 (118)
Q Consensus 80 ~l~v~a~D~g~p~~s~~~~v~I~v~D 105 (118)
.|+|.|.|+|..+..+-..|+|+|..
T Consensus 219 ~ltVtAyDCg~kraa~d~lV~v~Vkp 244 (952)
T KOG1834|consen 219 KLTVTAYDCGKKRAASDSLVTVHVKP 244 (952)
T ss_pred EEEEEEEecccccccCcceEEEEecC
Confidence 99999999998665555778888753
No 11
>smart00736 CADG Dystroglycan-type cadherin-like domains. Cadherin-homologous domains present in metazoan dystroglycans and alpha/epsilon sarcoglycans, yeast Axl2p and in a very large protein from magnetotactic bacteria. Likely to bind calcium ions.
Probab=97.21 E-value=0.021 Score=35.84 Aligned_cols=71 Identities=28% Similarity=0.333 Sum_probs=51.5
Q ss_pred EEeCCCCCCCCcEEEEEEeCC--CCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEEEE
Q psy9968 5 ATDVDPPSNGGTIQYRIIKAP--GERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIYIT 82 (118)
Q Consensus 5 A~D~D~~~~n~~i~y~i~~~~--~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~l~ 82 (118)
..|+| + ..+.|++.... +...|.+.|+.++.+.-. + ...+ ...|.+.
T Consensus 24 F~d~d-~---~~lty~~~~~~~~~lP~Wl~fd~~~~~~~Gt-P----------------------~~~~----~g~~~i~ 72 (97)
T smart00736 24 FTDAD-G---DTLTYSATLSDGSALPSWLSFDSDTGTLSGT-P----------------------TNSD----VGSLSLK 72 (97)
T ss_pred eECCC-C---CeEEEEEEeCCCCCCCCeEEEeCCCCEEEEE-C----------------------CCCC----CcEEEEE
Confidence 45666 3 46899987432 224599999999988774 4 1221 2469999
Q ss_pred EEEEECCCCCCeeEEEEEEEEEeCCC
Q psy9968 83 VIAEDNGTPQLSDACTMKITVEDIND 108 (118)
Q Consensus 83 v~a~D~g~p~~s~~~~v~I~v~DvND 108 (118)
|.|+|..+ .+....+.|.|.+.|+
T Consensus 73 v~a~D~~g--~~~~~~f~i~V~~~~~ 96 (97)
T smart00736 73 VTATDSSG--ASASDTFTITVVNTND 96 (97)
T ss_pred EEEEECCC--CEEEEEEEEEEeCCCC
Confidence 99999875 5677889999999887
No 12
>PF08266 Cadherin_2: Cadherin-like; InterPro: IPR013164 Cadherins are a family of adhesion molecules that mediate Ca2+-dependent cell-cell adhesion in all solid tissues of the organism which modulate a wide variety of processes including cell polarisation and migration [, ,]. Cadherin-mediated cell-cell junctions are formed as a result of interaction between extracellular domains of identical cadherins, which are located on the membranes of the neighbouring cells. The stability of these adhesive junctions is ensured by binding of the intracellular cadherin domain with the actin cytoskeleton. There are a number of different isoforms distributed in a tissue-specific manner in a wide variety of organisms. Cells containing different cadherins tend to segregate in vitro, while those that contain the same cadherins tend to preferentially aggregate together. This observation is linked to the finding that cadherin expression causes morphological changes involving the positional segregation of cells into layers, suggesting they may play an important role in the sorting of different cell types during morphogenesis, histogenesis and regeneration. They may also be involved in the regulation of tight and gap junctions, and in the control of intercellular spacing. Cadherins are evolutionary related to the desmogleins which are component of intercellular desmosome junctions involved in the interaction of plaque proteins. Structurally, cadherins comprise a number of domains: classically, these include a signal sequence; a propeptide of around 130 residues; a single transmembrane domain and five tandemly repeated extracellular cadherin domains, 4 of which are cadherin repeats, and the fifth contains 4 conserved cysteines and a N-terminal cytoplasmic domain []. However, proteins are designated as members of the broadly defined cadherin family if they have one or more cadherin repeats. A cadherin repeat is an independently folding sequence of approximately 110 amino acids that contains motifs with the conserved sequences DRE, DXNDNAPXF, and DXD. Crystal structures have revealed that multiple cadherin domains form Ca2+-dependent rod-like structures with a conserved Ca2+-binding pocket at the domain-domain interface. Cadherins depend on calcium for their function: calcium ions bind to specific residues in each cadherin repeat to ensure its proper folding, to confer rigidity upon the extracellular domain and is essential for cadherin adhesive function and for protection against protease digestion. This entry represents a cadherin domain that is usually found at the N terminus of cadherin proteins.; PDB: 1WUZ_A 1WYJ_A.
Probab=96.06 E-value=0.021 Score=35.31 Aligned_cols=32 Identities=22% Similarity=0.417 Sum_probs=20.6
Q ss_pred EEEEEEeCCCCCccEEEeCCCCEEEEeeeecCC
Q psy9968 17 IQYRIIKAPGERAKFSIDKETGIVKTLYALDRD 49 (118)
Q Consensus 17 i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e 49 (118)
..|+|...+ ...+|.+++.||.|++...+|+|
T Consensus 34 ~~~ri~s~~-~~~~~~v~~~tG~L~v~~rIDRE 65 (84)
T PF08266_consen 34 RNFRIVSEG-NSQYFRVNEKTGDLFVSERIDRE 65 (84)
T ss_dssp TTBEEE-SS-SS-SEEE-TTTSEEEESS--SCC
T ss_pred cceEEeecC-CcceeEecCCceeEEeCCccCHH
Confidence 357776543 34799999999999999995444
No 13
>TIGR01965 VCBS_repeat VCBS repeat. This domain of about 100 residues is found multiple (up to 35) copies in long proteins from several species of Vibrio, Colwellia, Bradyrhizobium, and Shewanella (hence the name VCBS) and in smaller copy numbers in proteins from several other bacteria. The large protein size and repeat copy numbers, species distribution, and suggested activities of several member proteins suggests a role for this domain in adhesion.
Probab=94.70 E-value=0.65 Score=29.59 Aligned_cols=82 Identities=27% Similarity=0.280 Sum_probs=48.7
Q ss_pred EEEEEeCCCCCCCCcEEEEEEeCCCCCccEEEeCCCCEE-EEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEE
Q psy9968 2 QVHATDVDPPSNGGTIQYRIIKAPGERAKFSIDKETGIV-KTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIY 80 (118)
Q Consensus 2 ~v~A~D~D~~~~n~~i~y~i~~~~~~~~~F~id~~tG~i-~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~ 80 (118)
++.++|+|.+. ...++.......-..|.|++ .|.- +.... . ..++|.|... ....-.
T Consensus 3 ~Lt~sD~D~gd---~~~~s~~~~~g~yGtlti~~-~G~wtYtl~n---~------------~~avq~L~~G---e~~tds 60 (99)
T TIGR01965 3 QLTISDADAGQ---AHFIAQTDAAGQYGTFSIDA-DGQWTYQADN---S------------QTAVQALKAG---ETLTDT 60 (99)
T ss_pred ceEEeCCCCCC---ceEEecccccCCcEEEEECC-CCcEEEEeCC---C------------cHHHHhhcCC---CEEEEE
Confidence 68899999872 34566643222335688887 5642 22211 0 0134445543 222345
Q ss_pred EEEEEEECCCCCCeeEEEEEEEEEeCCCCCCe
Q psy9968 81 ITVIAEDNGTPQLSDACTMKITVEDINDNEPM 112 (118)
Q Consensus 81 l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~ 112 (118)
+.+.+.|+ .+.+|.|+|.-.|| +|+
T Consensus 61 Ftvtv~DG------tt~~vtItI~GtND-apv 85 (99)
T TIGR01965 61 FTVTSADG------TSQTVTITITGAND-AAV 85 (99)
T ss_pred EEEEEeCC------CeEEEEEEEEccCC-CCE
Confidence 77778884 28889999999999 553
No 14
>PF05345 He_PIG: Putative Ig domain; InterPro: IPR008009 This alignment represents the conserved core region of a ~90 residue repeat found in several haemagglutinins and other cell surface proteins. Sequence similarities to Hyalin (IPR003410 from INTERPRO) and the PKD domain (IPR000601 from INTERPRO) suggest an Ig-like fold so this family may be similar in function to the (IPR003791 from INTERPRO) and (IPR003790 from INTERPRO) protein families.
Probab=83.36 E-value=5.6 Score=21.77 Aligned_cols=36 Identities=22% Similarity=0.232 Sum_probs=26.5
Q ss_pred CccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEEEEEEEEECC
Q psy9968 28 RAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIYITVIAEDNG 89 (118)
Q Consensus 28 ~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~l~v~a~D~g 89 (118)
.....+|+.+|.|.-.-.- .- ....|.+.|.|+|..
T Consensus 13 P~gLs~d~~tG~isGtp~~----------------------~~----~~G~y~~~vtatd~~ 48 (49)
T PF05345_consen 13 PSGLSLDPSTGTISGTPTS----------------------SV----QPGTYTFTVTATDGS 48 (49)
T ss_pred CCcEEEeCCCCEEEeecCC----------------------Cc----cccEEEEEEEEEcCC
Confidence 4589999999999887441 10 124799999999874
No 15
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=69.06 E-value=18 Score=20.20 Aligned_cols=27 Identities=30% Similarity=0.314 Sum_probs=18.0
Q ss_pred ceEEEEEEEEECCCCCCeeEEEEEEEE
Q psy9968 77 KEIYITVIAEDNGTPQLSDACTMKITV 103 (118)
Q Consensus 77 ~~~~l~v~a~D~g~p~~s~~~~v~I~v 103 (118)
..|.|.|.|.|..+........+.|+|
T Consensus 39 G~Y~l~V~a~~~~~~~~~~~~~l~i~I 65 (66)
T PF07495_consen 39 GKYTLEVRAKDNNGKWSSDEKSLTITI 65 (66)
T ss_dssp EEEEEEEEEEETTS-B-SS-EEEEEEE
T ss_pred EEEEEEEEEECCCCCcCcccEEEEEEE
Confidence 589999999998664333336666665
No 16
>PF08758 Cadherin_pro: Cadherin prodomain like; InterPro: IPR014868 Cadherins are a group of proteins that mediate calcium dependent cell-cell adhesion. They are activated through cleavage of a prosequence in the late Golgi. This protein corresponds to the folded region of the prosequence, and is termed the prodomain. The prodomain shows structural resemblance to the cadherin domain, but lacks all the features known to be important for cadherin-cadherin interactions []. ; GO: 0007155 cell adhesion, 0016021 integral to membrane; PDB: 1OP4_A.
Probab=64.41 E-value=32 Score=21.34 Aligned_cols=45 Identities=18% Similarity=0.186 Sum_probs=26.2
Q ss_pred CcEEEEEEeCCCCCccEEEeCCCCEEEEeeeecCCCCcccceeeeeeeeecccCCCCCCCCcceEEEEEEEEECCCC
Q psy9968 15 GTIQYRIIKAPGERAKFSIDKETGIVKTLYALDRDDPEREKEIYITTDIRVQALDRDDPEREKEIYITVIAEDNGTP 91 (118)
Q Consensus 15 ~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ld~e~~~~~~~~~~~~~~~~~~lDre~~~~~~~~~l~v~a~D~g~p 91 (118)
..+.|.-. + ..|.|.++ |.|++++.+ ... ...-.+.|.|.|..+.
T Consensus 37 ~~~~~~ss-D----pdF~V~~D-GsVy~~r~v----------------------~l~----~~~~~F~V~a~D~~~~ 81 (90)
T PF08758_consen 37 RRVIFESS-D----PDFRVLED-GSVYAKRPV----------------------QLS----SEQRSFTVHAWDSQTQ 81 (90)
T ss_dssp --EEEE--------SEEEEETT-TEEEEES------------------------S-S----SS-EEEEEEEEETTTT
T ss_pred CceEEecC-C----CCEEEcCC-CeEEEeeeE----------------------ecC----CCceEEEEEEECCCCC
Confidence 44565553 1 26999864 999999984 332 1234799999998763
No 17
>TIGR00845 caca sodium/calcium exchanger 1. This model is specific for the eukaryotic sodium ion/calcium ion exchangers of the Caca family
Probab=54.57 E-value=74 Score=28.16 Aligned_cols=19 Identities=26% Similarity=0.483 Sum_probs=13.3
Q ss_pred eEEEEEEEEEeCCCCCCeeC
Q psy9968 95 DACTMKITVEDINDNEPMFD 114 (118)
Q Consensus 95 ~~~~v~I~v~DvNDn~P~F~ 114 (118)
...+.+|+|.| ||++|.|.
T Consensus 513 ~ps~ATVTIlD-DD~aGIfs 531 (928)
T TIGR00845 513 SPNTATVTILD-DDHAGIFT 531 (928)
T ss_pred CCceEEEEEec-CcccCccc
Confidence 33466777787 88898754
No 18
>PF03413 PepSY: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR005075 This signature, PepSY, is found in the propeptide of members of the MEROPS peptidase family M4 (clan MA(E)), which contains the thermostable thermolysins (3.4.24.27 from EC), and related thermolabile neutral proteases (bacillolysins) (3.4.24.28 from EC) from various species of Bacillus. It is also in many non-peptidase proteins, including Bacillus subtilis YpeB protein - a regulator of SleB spore cortex lytic enzyme - and a large number of eubacterial and archaeal cell wall-associated and secreted proteins which are mostly annotated as 'hypothetical protein'. Many extracellular bacterial proteases are produced as proenzymes. The propeptides usually have a dual function, i.e. they function as an intramolecular chaperone required for the folding of the polypeptide and as an inhibitor preventing premature activation of the enzyme. Analysis of the propeptide region of the M4 family of peptidases reveals two regions of conservation, the PepSY domain and a second domain, proximate to the N terminus, the FTP domain (IPR011096 from INTERPRO), which is also found in isolation in the propeptide of eukaryotic peptidases belong to MEROPS peptidase family M36. Propeptide domain swapping experiments, for example swapping the propeptide domain of PA protease with that of vibrolysin, both propeptides contain the FTP and PepSY domains, allows the PA protease domain to fold correctly and inhibits the C-terminal autoprocessing activity. However, swapping the propeptide of PA protease for the thermolysin propeptide, does not facilitate the correct folding nor the processing of the chimaeric protein into an active peptidase []. Mutational analysis of the Pseudomonas aeruginosa elastase gene revealed two mutations in the propeptide which resulted in the loss of inhibitory activity but not chaperone activity: A-15V and T-153I (where +1 is defined as the first residue of the mature peptidase). Both mutations resulted in peptidase activity, the T-153V mutation being much less effective than the A-15I mutation [] in activating peptidase activity. The T-153V mutation lies N-terminal to the FTP domain while the A-15I mutation is C-terminal to the PepSY domain. Given the diverse range of other proteins, both domains occur in in isolation, the exact function of each is still unclear; though it has been proposed that the PepSY domain primarily has inhibitory activity and in conjunction with the FTP domain in chaperone activity. ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 2GU3_A 3NQZ_A 3NQY_A 2KGY_A.
Probab=52.23 E-value=33 Score=18.72 Aligned_cols=29 Identities=17% Similarity=0.336 Sum_probs=16.3
Q ss_pred CCcEEEEEEeCC---CCCc--cEEEeCCCCEEEE
Q psy9968 14 GGTIQYRIIKAP---GERA--KFSIDKETGIVKT 42 (118)
Q Consensus 14 n~~i~y~i~~~~---~~~~--~F~id~~tG~i~~ 42 (118)
++...|.+.-.. +... .+.||+.||.|.-
T Consensus 29 ~~~~~Y~v~~~~~~~~~~~~~~v~VDa~tG~Il~ 62 (64)
T PF03413_consen 29 NGRLVYEVEVVSDDDPDGGEYEVYVDAYTGEILS 62 (64)
T ss_dssp TCEEEEEEEEEBTTSTTTEEEEEEEETTT--EEE
T ss_pred CCcEEEEEEEEEEecCCCCEEEEEEECCCCeEEE
Confidence 466778876431 2223 3559999998753
No 19
>PF13754 Big_3_4: Bacterial Ig-like domain (group 3)
Probab=49.73 E-value=41 Score=18.47 Aligned_cols=14 Identities=36% Similarity=0.278 Sum_probs=11.8
Q ss_pred ceEEEEEEEEECCC
Q psy9968 77 KEIYITVIAEDNGT 90 (118)
Q Consensus 77 ~~~~l~v~a~D~g~ 90 (118)
..|.+.+.|+|..+
T Consensus 24 G~y~itv~a~D~AG 37 (54)
T PF13754_consen 24 GTYTITVTATDAAG 37 (54)
T ss_pred ccEEEEEEEEeCCC
Confidence 47999999999844
No 20
>PF02494 HYR: HYR domain; InterPro: IPR003410 This domain is known as the HYR (Hyalin Repeat) domain, after the protein hyalin that is composed exclusively of this repeat. This domain probably corresponds to a new superfamily in the immunoglobulin fold. The function of this domain is uncertain it may be involved in cell adhesion. In the Sushi repeat-containing protein (SrpX), this domain is found between two sushi repeats.
Probab=49.60 E-value=52 Score=19.33 Aligned_cols=25 Identities=28% Similarity=0.395 Sum_probs=19.2
Q ss_pred ceEEEEEEEEECCCCCCeeEEEEEEEE
Q psy9968 77 KEIYITVIAEDNGTPQLSDACTMKITV 103 (118)
Q Consensus 77 ~~~~l~v~a~D~g~p~~s~~~~v~I~v 103 (118)
..+.+...|.|..+ ..+++.+.|+|
T Consensus 57 G~t~V~ytA~D~~G--N~a~C~f~V~V 81 (81)
T PF02494_consen 57 GTTTVTYTATDAAG--NSATCSFTVTV 81 (81)
T ss_pred ceEEEEEEEEECCC--CEEEEEEEEEC
Confidence 47889999999754 46788877764
No 21
>PF12245 Big_3_2: Bacterial Ig-like domain (group 3); InterPro: IPR022038 This family of proteins is found in bacteria. They have two conserved sequence motifs: AGN and GMT.
Probab=48.24 E-value=50 Score=18.61 Aligned_cols=33 Identities=27% Similarity=0.333 Sum_probs=20.7
Q ss_pred ceEEEEEEEEECCCCCCeeEEEEEEEEEeCCCCCC
Q psy9968 77 KEIYITVIAEDNGTPQLSDACTMKITVEDINDNEP 111 (118)
Q Consensus 77 ~~~~l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P 111 (118)
..|.+.+.+.|..+ ..+.....+.+.|..-..|
T Consensus 23 g~yt~~v~a~D~AG--N~~~~~~~~~i~d~~~p~p 55 (60)
T PF12245_consen 23 GEYTLTVTATDKAG--NTSSSTTQIVIVDNTAPAP 55 (60)
T ss_pred ccEEEEEEEEECCC--CEEEeeeEEEEEcCCCCCc
Confidence 47999999999854 2344445555555543333
No 22
>TIGR03660 T1SS_rpt_143 T1SS-143 repeat domain. This model represents a domain of about 143 amino acids that may occur singly or in up to 23 tandem repeats in very large proteins in the genus Vibrio, and in related species such as Legionella pneumophila, Photobacterium profundum, Rhodopseudomonas palustris, Shewanella pealeana, and Aeromonas hydrophila. Proteins with these domains represent a subset of a broader set of proteins with a particular signal for type 1 secretion, consisting of several glycine-rich repeats modeled by pfam00353, followed by a C-terminal domain modeled by TIGR03661. Proteins with this domain tend to share several properties with the RtxA (Repeats in Toxin) protein of Vibrio cholerae, including a large size often containing tandemly repeated domains and a C-terminal signal for type 1 secretion.
Probab=46.93 E-value=86 Score=21.00 Aligned_cols=32 Identities=25% Similarity=0.361 Sum_probs=21.8
Q ss_pred ceEEEEEEEEECCCCCCeeEEEEEEEEEeCCCCCCee
Q psy9968 77 KEIYITVIAEDNGTPQLSDACTMKITVEDINDNEPMF 113 (118)
Q Consensus 77 ~~~~l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F 113 (118)
-...|.|.|+|..+... +..+.|+|.| | .|..
T Consensus 85 l~l~~~v~a~D~DGD~s--~~~l~VtI~D--D-~P~~ 116 (137)
T TIGR03660 85 LTLNFPIIATDFDGDTS--SITLPVTIVD--D-VPTI 116 (137)
T ss_pred EEEeeeEEEEeCCCCcc--ccEEEEEEEC--C-CCee
Confidence 35678899999876433 3477888877 4 3553
No 23
>PF14157 YmzC: YmzC-like protein; PDB: 3KVP_E.
Probab=42.73 E-value=59 Score=18.95 Aligned_cols=28 Identities=14% Similarity=0.335 Sum_probs=18.5
Q ss_pred EEEEEeCCCCCccEEEeCCCCEEEEeee
Q psy9968 18 QYRIIKAPGERAKFSIDKETGIVKTLYA 45 (118)
Q Consensus 18 ~y~i~~~~~~~~~F~id~~tG~i~~~~~ 45 (118)
+|.+.........|..|+++++|++.+.
T Consensus 31 ~Fav~~e~~~iKIfkyd~~tNei~L~KE 58 (63)
T PF14157_consen 31 HFAVVDEDGQIKIFKYDEDTNEITLKKE 58 (63)
T ss_dssp EEEEE-ETTEEEEEEEETTTTEEEEEEE
T ss_pred EEEEEecCCeEEEEEeCCCCCeEEEEEe
Confidence 5555533333356888999999888876
No 24
>smart00089 PKD Repeats in polycystic kidney disease 1 (PKD1) and other proteins. Polycystic kidney disease 1 protein contains 14 repeats, present elsewhere such as in microbial collagenases.
Probab=39.25 E-value=76 Score=18.14 Aligned_cols=26 Identities=15% Similarity=0.219 Sum_probs=18.7
Q ss_pred CcceEEEEEEEEECCCCCCeeEEEEEEEE
Q psy9968 75 REKEIYITVIAEDNGTPQLSDACTMKITV 103 (118)
Q Consensus 75 ~~~~~~l~v~a~D~g~p~~s~~~~v~I~v 103 (118)
....|.+.+.+.|..+ +.++++.|.|
T Consensus 53 ~~G~y~v~l~v~n~~g---~~~~~~~i~v 78 (79)
T smart00089 53 KPGTYTVTLTVTNAVG---SASATVTVVV 78 (79)
T ss_pred CCcEEEEEEEEEcCCC---cEEEEEEEEE
Confidence 3458999999999765 5566666655
No 25
>PF09100 Qn_am_d_aIV: Quinohemoprotein amine dehydrogenase, alpha subunit domain IV; InterPro: IPR015184 This domain is predominantly found in the prokaryotic protein quinohemoprotein amine dehydrogenase, adopting an immunoglobulin-like beta-sandwich fold, with seven strands arranged into two beta sheets; the fold is possibly related to the immunoglobulin and/or fibronectin type III superfamilies. The precise function of this domain has not, as yet, been defined []. ; PDB: 1JMZ_A 1JMX_A 1PBY_A 1JJU_A.
Probab=38.59 E-value=98 Score=20.72 Aligned_cols=31 Identities=26% Similarity=0.443 Sum_probs=17.2
Q ss_pred EEEEEEEEC-CCCCCeeEEEEEEEEEeCCCCCC
Q psy9968 80 YITVIAEDN-GTPQLSDACTMKITVEDINDNEP 111 (118)
Q Consensus 80 ~l~v~a~D~-g~p~~s~~~~v~I~v~DvNDn~P 111 (118)
.|.|.|+=. +..+++..+.+.|+|.+-|+ +|
T Consensus 101 nl~VvAtv~d~~~~l~~e~~liVtVqr~~~-pp 132 (133)
T PF09100_consen 101 NLKVVATVKDGGKPLTGEAHLIVTVQRWNN-PP 132 (133)
T ss_dssp EEEEEEEETTTT---EEEEEEEEE---S----S
T ss_pred cEEEEEEEccCCcccceeEeEEEEeecccC-CC
Confidence 577777765 44589999999999988876 44
No 26
>cd00146 PKD polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is presented here. The domain is also found in microbial collagenases and chitinases.
Probab=34.71 E-value=91 Score=17.89 Aligned_cols=26 Identities=12% Similarity=0.082 Sum_probs=17.1
Q ss_pred CcceEEEEEEEEECCCCCCeeEEEEEEE
Q psy9968 75 REKEIYITVIAEDNGTPQLSDACTMKIT 102 (118)
Q Consensus 75 ~~~~~~l~v~a~D~g~p~~s~~~~v~I~ 102 (118)
....|.+++.+.|..+ .+.+..+.|.
T Consensus 55 ~~G~y~v~l~v~d~~g--~~~~~~~~V~ 80 (81)
T cd00146 55 KPGTYTVTLTVTNAVG--SSSTKTTTVV 80 (81)
T ss_pred CCcEEEEEEEEEeCCC--CEEEEEEEEE
Confidence 3468999999999853 3444444443
No 27
>PF12971 NAGLU_N: Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; InterPro: IPR024240 Alpha-N-acetylglucosaminidase, is a lysosomal enzyme required for the stepwise degradation of heparan sulphate []. Mutations on the alpha-N-acetylglucosaminidase (NAGLU) gene can lead to Mucopolysaccharidosis type IIIB (MPS IIIB; or Sanfilippo syndrome type B) characterised by neurological dysfunction but relatively mild somatic manifestations []. The structure shows that the enzyme is composed of three domains. This entry represents the N-terminal domain of Alpha-N-acetylglucosaminidase which has an alpha-beta fold [].; PDB: 4A4A_A 2VC9_A 2VCC_A 2VCB_A 2VCA_A.
Probab=30.14 E-value=1e+02 Score=18.67 Aligned_cols=31 Identities=10% Similarity=0.297 Sum_probs=20.8
Q ss_pred CcEEEEEEeCCCCCccEEEeC-CCCEEEEeee
Q psy9968 15 GTIQYRIIKAPGERAKFSIDK-ETGIVKTLYA 45 (118)
Q Consensus 15 ~~i~y~i~~~~~~~~~F~id~-~tG~i~~~~~ 45 (118)
+.+.+++.........|.|.. ..|.|.+...
T Consensus 18 ~~f~~~~~~~~~~~d~F~l~~~~~gki~I~G~ 49 (86)
T PF12971_consen 18 SQFTFELIPSSNGKDVFELSSADNGKIVIRGN 49 (86)
T ss_dssp GGEEEEE---BTTBEEEEEEE-SSS-EEEEES
T ss_pred ceEEEEEecCCCCCCEEEEEeCCCCeEEEEeC
Confidence 458888886554567999997 8899888765
No 28
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=29.32 E-value=97 Score=18.86 Aligned_cols=27 Identities=15% Similarity=0.385 Sum_probs=18.9
Q ss_pred CcEEEEEEeCCCCCccEEEeCCCCEEEEe
Q psy9968 15 GTIQYRIIKAPGERAKFSIDKETGIVKTL 43 (118)
Q Consensus 15 ~~i~y~i~~~~~~~~~F~id~~tG~i~~~ 43 (118)
..+.|.|....+. .|.+.|..|.|.-.
T Consensus 32 ~~i~fKiktt~~~--~y~v~P~~G~i~p~ 58 (109)
T PF00635_consen 32 KPIAFKIKTTNPN--RYRVKPSYGIIEPG 58 (109)
T ss_dssp SEEEEEEEES-TT--TEEEESSEEEE-TT
T ss_pred CcEEEEEEcCCCc--eEEecCCCEEECCC
Confidence 5688888865544 79999999876443
No 29
>PF07145 PAM2: Ataxin-2 C-terminal region; InterPro: IPR009818 This entry represents a conserved region approximately 250 residues long located towards the C terminus of eukaryotic ataxin-2. Ataxin-2 is a protein of unknown function, within which expansion of a polyglutamine tract (due to expansion of unstable CAG repeats in the coding region of the SCA2 gene) causes spinocerebellar ataxia type 2 (SCA2), a late-onset neurodegenerative disorder []. The expanded polyglutamine repeat in ataxin-2 causes disruption of the normal morphology of the Golgi complex and increased incidence of cell death []. Ataxin-2 is predicted to consist of mostly non-globular domains [].; PDB: 3NTW_B 1JH4_B 3KTR_B 3KUJ_B 3KUT_D 3KUS_D 1JGN_B 2RQG_A 2RQH_A.
Probab=28.40 E-value=42 Score=14.60 Aligned_cols=12 Identities=33% Similarity=0.493 Sum_probs=7.8
Q ss_pred CCCCCCeeCCCC
Q psy9968 106 INDNEPMFDRVQ 117 (118)
Q Consensus 106 vNDn~P~F~~~~ 117 (118)
.|-|+|.|-.+.
T Consensus 6 LNp~A~eFvP~~ 17 (18)
T PF07145_consen 6 LNPNAPEFVPSS 17 (18)
T ss_dssp SSTTSSSS-TTT
T ss_pred cCCCCccccCCC
Confidence 477888887654
No 30
>cd06891 PX_Vps17p The phosphoinositide binding Phox Homology domain of yeast sorting nexin Vps17p. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. Similar to Vps5p and SNX1, Vps17p harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvatur
Probab=27.30 E-value=1.7e+02 Score=19.78 Aligned_cols=39 Identities=15% Similarity=0.279 Sum_probs=24.6
Q ss_pred cceEEEEEEEEECCCCCCeeEEEEEEEEEeCCCCCCeeCCCCC
Q psy9968 76 EKEIYITVIAEDNGTPQLSDACTMKITVEDINDNEPMFDRVQY 118 (118)
Q Consensus 76 ~~~~~l~v~a~D~g~p~~s~~~~v~I~v~DvNDn~P~F~~~~Y 118 (118)
.+.|.+.|.++|....+- ....+.+.+ .-|.|.|.+..|
T Consensus 25 ~~~~~l~i~Vtd~ek~G~-~~~~~~~~~---~Tnlp~Fr~~~~ 63 (140)
T cd06891 25 KPKYFLRVRVTGIERNKS-KDPIIRFDV---TTNLPTFRSSTY 63 (140)
T ss_pred CCCceEEEEEeCceecCC-CCeEEEEEE---eeCCcccCCCCC
Confidence 457889999988643221 333444444 477999987654
No 31
>COG3212 Predicted membrane protein [Function unknown]
Probab=24.91 E-value=97 Score=20.94 Aligned_cols=29 Identities=24% Similarity=0.475 Sum_probs=20.9
Q ss_pred CCCcEEEEEEe-CC-CCCccEEEeCCCCEEE
Q psy9968 13 NGGTIQYRIIK-AP-GERAKFSIDKETGIVK 41 (118)
Q Consensus 13 ~n~~i~y~i~~-~~-~~~~~F~id~~tG~i~ 41 (118)
.+++..|.+.= .+ +...-|.||..||.|-
T Consensus 108 ~~g~~vYevei~~~d~~e~ev~iDA~TG~Il 138 (144)
T COG3212 108 DNGRLVYEVEIVKDDGQEYEVEIDAKTGKIL 138 (144)
T ss_pred cCCEEEEEEEEEeCCCcEEEEEEecCCCCcc
Confidence 46889999864 32 3345699999999764
No 32
>PF13750 Big_3_3: Bacterial Ig-like domain (group 3)
Probab=24.13 E-value=2.4e+02 Score=19.16 Aligned_cols=27 Identities=15% Similarity=0.174 Sum_probs=19.0
Q ss_pred cceEEEEEEEEECCCCCCeeEEEEEEEEE
Q psy9968 76 EKEIYITVIAEDNGTPQLSDACTMKITVE 104 (118)
Q Consensus 76 ~~~~~l~v~a~D~g~p~~s~~~~v~I~v~ 104 (118)
...|.|+|.|.|..+ -.++..+.+...
T Consensus 122 ~~~YtLtV~a~D~aG--N~~~~si~F~y~ 148 (158)
T PF13750_consen 122 DDSYTLTVSATDKAG--NQSTKSISFSYM 148 (158)
T ss_pred CCeEEEEEEEEecCC--CEEEEEEEEEEe
Confidence 458999999999854 355666655544
No 33
>PF07861 WND: WisP family N-Terminal Region; InterPro: IPR012503 This family is found at the N terminus of the Tropheryma whipplei WisP family proteins [].
Probab=21.98 E-value=1.3e+02 Score=21.70 Aligned_cols=29 Identities=17% Similarity=0.324 Sum_probs=21.7
Q ss_pred CCcEEEEEEeCCCCCccEEEeCCCCEEEEeee
Q psy9968 14 GGTIQYRIIKAPGERAKFSIDKETGIVKTLYA 45 (118)
Q Consensus 14 n~~i~y~i~~~~~~~~~F~id~~tG~i~~~~~ 45 (118)
|++..|++..... -..||..||.|...-.
T Consensus 202 ~S~~T~SLs~P~~---~v~lD~~TG~l~~Svk 230 (263)
T PF07861_consen 202 GSPFTYSLSTPVA---GVRLDANTGALSGSVK 230 (263)
T ss_pred CCcceEEeccCCC---ceEEecccceeeeeee
Confidence 5788999974322 5899999999877643
No 34
>PF01011 PQQ: PQQ enzyme repeat family.; InterPro: IPR002372 Pyrrolo-quinoline quinone (PQQ) is a redox coenzyme, which serves as a cofactor for a number of enzymes (quinoproteins) and particularly for some bacterial dehydrogenases [, ]. A number of bacterial quinoproteins belong to this family. Enzymes in this group have repeats of a beta propeller.; PDB: 1H4I_C 1H4J_E 1W6S_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A 1G72_A ....
Probab=21.23 E-value=1.3e+02 Score=14.92 Aligned_cols=18 Identities=22% Similarity=0.313 Sum_probs=14.6
Q ss_pred CccEEEeCCCCEEEEeee
Q psy9968 28 RAKFSIDKETGIVKTLYA 45 (118)
Q Consensus 28 ~~~F~id~~tG~i~~~~~ 45 (118)
...+.+|..||++.....
T Consensus 10 g~l~AlD~~TG~~~W~~~ 27 (38)
T PF01011_consen 10 GYLYALDAKTGKVLWKFQ 27 (38)
T ss_dssp SEEEEEETTTTSEEEEEE
T ss_pred CEEEEEECCCCCEEEeee
Confidence 358999999999887765
No 35
>PF05688 DUF824: Salmonella repeat of unknown function (DUF824); InterPro: IPR008542 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with this entry. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=20.95 E-value=1.4e+02 Score=16.24 Aligned_cols=14 Identities=36% Similarity=0.579 Sum_probs=7.7
Q ss_pred EEEEEEEEEeCCCC
Q psy9968 96 ACTMKITVEDINDN 109 (118)
Q Consensus 96 ~~~v~I~v~DvNDn 109 (118)
+..++|++.|.|.|
T Consensus 14 ~I~ltVt~kda~G~ 27 (47)
T PF05688_consen 14 TIPLTVTVKDANGN 27 (47)
T ss_pred eEEEEEEEECCCCC
Confidence 34556666666543
No 36
>PF15418 DUF4625: Domain of unknown function (DUF4625)
Probab=20.38 E-value=1.8e+02 Score=19.31 Aligned_cols=15 Identities=7% Similarity=0.122 Sum_probs=12.1
Q ss_pred cceEEEEEEEEECCC
Q psy9968 76 EKEIYITVIAEDNGT 90 (118)
Q Consensus 76 ~~~~~l~v~a~D~g~ 90 (118)
...|.+.|.++|..+
T Consensus 106 ~G~YH~~i~VtD~~G 120 (132)
T PF15418_consen 106 AGDYHFMITVTDAAG 120 (132)
T ss_pred CcceEEEEEEEECCC
Confidence 358999999999865
Done!