Query psy1440
Match_columns 283
No_of_seqs 182 out of 733
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 18:53:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1440.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1440hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00214 Calpain_III Calpain, s 99.9 6.4E-27 1.4E-31 191.7 13.4 130 142-274 7-150 (150)
2 smart00720 calpain_III calpain 99.9 1.5E-25 3.2E-30 182.2 13.3 128 142-272 5-143 (143)
3 PF01067 Calpain_III: Calpain 99.9 1.4E-23 3E-28 171.0 11.5 128 142-272 6-147 (147)
4 smart00720 calpain_III calpain 99.6 1.2E-14 2.6E-19 118.0 12.2 127 10-139 5-142 (143)
5 PF01067 Calpain_III: Calpain 99.5 3.2E-14 7E-19 115.6 10.1 128 10-140 6-147 (147)
6 cd00214 Calpain_III Calpain, s 99.5 1.2E-13 2.6E-18 113.0 12.1 130 9-141 6-149 (150)
7 KOG0045|consensus 99.5 1.7E-13 3.7E-18 134.0 10.5 128 142-272 347-484 (612)
8 KOG0045|consensus 98.8 6.8E-08 1.5E-12 95.0 13.7 136 2-140 316-484 (612)
9 PF04151 PPC: Bacterial pre-pe 45.9 94 0.002 21.1 8.2 65 166-249 5-69 (70)
10 PF10908 DUF2778: Protein of u 41.6 15 0.00033 28.7 1.3 27 222-248 10-36 (120)
11 PF14686 fn3_3: Polysaccharide 38.0 30 0.00066 25.8 2.5 28 233-262 51-78 (95)
12 cd05860 Ig4_SCFR Fourth immuno 32.7 44 0.00096 25.3 2.6 35 95-131 65-99 (101)
13 PF07495 Y_Y_Y: Y_Y_Y domain; 31.9 45 0.00097 22.2 2.4 19 234-252 31-49 (66)
14 PF11589 DUF3244: Domain of un 31.6 85 0.0019 23.6 4.1 31 231-261 74-105 (106)
15 PF00017 SH2: SH2 domain; Int 22.7 2E+02 0.0043 19.7 4.4 29 239-270 19-47 (77)
16 PF08842 Mfa2: Fimbrillin-A as 21.4 83 0.0018 27.4 2.7 47 196-250 29-76 (283)
17 PF12690 BsuPI: Intracellular 21.3 3.2E+02 0.0069 19.6 5.4 56 67-131 27-82 (82)
18 PF13620 CarboxypepD_reg: Carb 20.6 85 0.0018 21.7 2.2 15 236-250 42-56 (82)
No 1
>cd00214 Calpain_III Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are separated by C2-like domain III. Domain III plays an important role in calcium-induced activation of calpain involving electrostatic interactions with subdomain II. Proposed to mediate calpain's interaction with phospholipids and translocation to cytoplasmic/nuclear membranes. CD includes subdomain III of typical and atypical calpains.
Probab=99.95 E-value=6.4e-27 Score=191.68 Aligned_cols=130 Identities=22% Similarity=0.305 Sum_probs=101.1
Q ss_pred ccceeeeCC-C-CCC-CCCCCCCCCCeEEEEEcCCC-----ceEEEeeeccccc-cccccCCceEEEEEEEEeCCc-e--
Q psy1440 142 RPQASWSAG-Q-GPI-KDVYNIGENPQFRLEVGGGV-----GAVWILLTRHITQ-LEDFKQNREYITVLVYKNEGK-R-- 209 (283)
Q Consensus 142 ~~~G~W~~~-~-Gg~-~~~~tf~~NPQy~l~v~~~~-----~~v~i~L~~~~~~-~~~~~i~~~~i~~~v~~~~g~-r-- 209 (283)
+++|+|+++ + ||+ ++..||++||||.|++.+.+ |+|+|.|+|..+. .+....+...|||+||++++. +
T Consensus 7 ~~~G~W~~g~tAGGc~~~~~tf~~NPQf~l~v~~~~~~~~~~~v~i~L~q~~~r~~~~~~~~~~~IGf~v~~~~~~~~~~ 86 (150)
T cd00214 7 SFNGEWRRGQTAGGCRNNPDTFWTNPQFRIRVPEPDDDEGKCTVLIALMQKNRRHLRKKGLDLLTIGFHVYKVPGENRHL 86 (150)
T ss_pred EEeCeEeCCcccCCCCCcccccccCceEEEEecCCCCCCCccEEEEEeccCCcchhcccCCCcceEEEEEEEeCCcCccc
Confidence 569999994 4 555 88889999999999999633 8899999884432 222233455688999998652 2
Q ss_pred --eecCCCCCCcccCccccCcceEEEEEEecCCCccEEEEeeccCCCCcccEEEEEEeCCCceeeec
Q psy1440 210 --VYYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRLEKI 274 (283)
Q Consensus 210 --v~~~~~~~~~~sg~y~~~~~~~~~~~l~~l~~G~Y~vVpST~~p~~~g~F~L~v~s~~~~~l~~i 274 (283)
.++.....++.++.|.+.+++.+++.| +||.|+||||||+|+++|+|.|||||+.++.++++
T Consensus 87 ~~~~~~~~~~~~~s~~~~~~rev~~~~~L---~pG~YvIIPsT~~p~~~g~F~LrVfs~~~~~~~~~ 150 (150)
T cd00214 87 RRDFFLHKAPRARSSTFINTREVSLRFRL---PPGEYVIVPSTFEPGEEGEFLLRVFSEKSIKSSEL 150 (150)
T ss_pred ChhhhhccCcccccCccccccEEEEEEEc---CCCCEEEEeeecCCCCcccEEEEEEecCCCccccC
Confidence 123334445778889999998887765 99999999999999999999999999999988754
No 2
>smart00720 calpain_III calpain_III.
Probab=99.93 E-value=1.5e-25 Score=182.23 Aligned_cols=128 Identities=24% Similarity=0.337 Sum_probs=98.6
Q ss_pred ccceeeeC-CC-CCCCCC-CCCCCCCeEEEEEcCCC---ceEEEeeecccccc-ccccCCceEEEEEEEEeCCc----ee
Q psy1440 142 RPQASWSA-GQ-GPIKDV-YNIGENPQFRLEVGGGV---GAVWILLTRHITQL-EDFKQNREYITVLVYKNEGK----RV 210 (283)
Q Consensus 142 ~~~G~W~~-~~-Gg~~~~-~tf~~NPQy~l~v~~~~---~~v~i~L~~~~~~~-~~~~i~~~~i~~~v~~~~g~----rv 210 (283)
+++|+|++ .+ ||+.+. .||++||||.|++.+.+ |+|+|.|+|+.+.. ++.......||++||++++. +.
T Consensus 5 ~~~G~W~~~~tAGG~~~~~~tf~~NPqy~l~v~~~~~~~~~v~i~L~q~~~r~~~~~~~~~~~iGf~v~~~~~~~~~~~~ 84 (143)
T smart00720 5 SVQGSWTRGQTAGGCRNYPATFWTNPQFRITLEEPDDDDCTVLIALMQKNRRRLRRKGADFLTIGFAVYKVPKELHLRRD 84 (143)
T ss_pred EEeCeEECCCccCCccccccccccCCeEEEEecCCCCCceEEEEEecccCcccccccCCccceEeEEEEEeccccccchh
Confidence 56999995 45 665554 89999999999999532 46999998854332 22223556688999998653 34
Q ss_pred ecCCCCCCcccCccccCcceEEEEEEecCCCccEEEEeeccCCCCcccEEEEEEeCCCceee
Q psy1440 211 YYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRLE 272 (283)
Q Consensus 211 ~~~~~~~~~~sg~y~~~~~~~~~~~l~~l~~G~Y~vVpST~~p~~~g~F~L~v~s~~~~~l~ 272 (283)
++.....++.++.|.+.+++.+++.| +||.|+||||||+|+++|+|.||||++.+++++
T Consensus 85 ~~~~~~~~~~s~~y~~~r~v~~~~~L---~~G~Y~iVPsT~~p~~~g~F~LrV~s~~~~~l~ 143 (143)
T smart00720 85 FFLSNAPRASSGDYINGREVSERFRL---PPGEYVIVPSTFEPNQEGDFLLRVFSEGPFKLT 143 (143)
T ss_pred hhhccCccccccccccCeEEEEEEEc---CCCCEEEEEeecCCCCccCEEEEEEecCccccC
Confidence 44445556788999999997777755 999999999999999999999999999998763
No 3
>PF01067 Calpain_III: Calpain large subunit, domain III; InterPro: IPR022682 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C2 (calpain family, clan CA). A type example is calpain, which is an intracellular protease involved in many important cellular functions that are regulated by calcium []. The protein is a complex of 2 polypeptide chains (light and heavy), with three known forms in mammals [, ]: a highly calcium-sensitive (i.e., micro-molar range) form known as mu-calpain, mu-CANP or calpain I; a form sensitive to calcium in the milli-molar range, known as m-calpain, m-CANP or calpain II; and a third form, known as p94, which is found in skeletal muscle only []. All forms have identical light but different heavy chains. Both mu- and m-calpain are heterodimers containing an identical 28kDa subunit and an 80kDa subunit that shares 55-65% sequence homology between the two proteases [, ]. The crystallographic structure of m-calpain reveals six "domains" in the 80kDa subunit: A 19-amino acid NH2-terminal sequence; Active site domain IIa; Active site domain IIb. Domain 2 shows low levels of sequence similarity to papain; although the catalytic His has not been located by biochemical means, it is likely that calpain and papain are related []. Domain III; An 18-amino acid extended sequence linking domain III to domain IV; Domain IV, which resembles the penta EF-hand family of polypeptides, binds calcium and regulates activity []. />]. Ca2+-binding causes a rearrangement of the protein backbone, the net effect of which is that a Trp side chain, which acts as a wedge between catalytic domains IIa and IIb in the apo state, moves away from the active site cleft allowing for the proper formation of the catalytic triad []. Calpain-like mRNAs have been identified in other organisms including bacteria, but the molecules encoded by these mRNAs have not been isolated, so little is known about their properties. How calpain activity is regulated in these organisms cells is still unclear In metazoans, the activity of calpain is controlled by a single proteinase inhibitor, calpastatin (IPR001259 from INTERPRO). The calpastatin gene can produce eight or more calpastatin polypeptides ranging from 17 to 85 kDa by use of different promoters and alternative splicing events. The physiological significance of these different calpastatins is unclear, although all bind to three different places on the calpain molecule; binding to at least two of the sites is Ca2+ dependent. The calpains ostensibly participate in a variety of cellular processes including remodelling of cytoskeletal/membrane attachments, different signal transduction pathways, and apoptosis. Deregulated calpain activity following loss of Ca2+ homeostasis results in tissue damage in response to events such as myocardial infarcts, stroke, and brain trauma []. This entry represents domain III. It is found in association with PF00648 from PFAM. The function of the domain III and I are currently unknown. Domain II is a cysteine protease and domain IV is a calcium binding domain. Calpains are believed to participate in intracellular signaling pathways mediated by calcium ions. ; PDB: 1QXP_B 2QFE_A 1DF0_A 1U5I_A 3DF0_A 3BOW_A 1KFU_L 1KFX_L.
Probab=99.90 E-value=1.4e-23 Score=170.97 Aligned_cols=128 Identities=26% Similarity=0.370 Sum_probs=87.0
Q ss_pred ccceeee-CCC-CCCCCCC-CCCCCCeEEEEEcCCC-----ceEEEeeecccccc-ccccCCceEEEEEEEEeC--C---
Q psy1440 142 RPQASWS-AGQ-GPIKDVY-NIGENPQFRLEVGGGV-----GAVWILLTRHITQL-EDFKQNREYITVLVYKNE--G--- 207 (283)
Q Consensus 142 ~~~G~W~-~~~-Gg~~~~~-tf~~NPQy~l~v~~~~-----~~v~i~L~~~~~~~-~~~~i~~~~i~~~v~~~~--g--- 207 (283)
+++|+|. ..+ ||+.+.. +|++||||.|++.+.. ++|.|.|+|+.++. ++.......|+++||+.. .
T Consensus 6 ~~~G~W~~~~taGG~~~~~~s~~~NPQy~l~v~~~~~~~~~~~v~i~L~q~~~~~~~~~~~~~~~Ig~~v~~~~~~~~~~ 85 (147)
T PF01067_consen 6 TIEGEWVTGNTAGGCPNNPYSWWNNPQYRLTVSEPTEESNKCTVVISLMQKDRRRKRDVGEKDLPIGFYVFKVQSQQKRL 85 (147)
T ss_dssp EEEEEE-TTTS---STT-TTTGGGS-EEEEEESSGCCCSSBEEEEEEEEECSGCCGCSTTTTTSEEEEEEEEETTTTSE-
T ss_pred EEeCEEeCCCcCCCCcccccccccCcEEEEEEcCCCCCcceeEEEEEEEecCcchhhcccccceEEeEEEEeeecccccC
Confidence 5799994 445 6666555 9999999999999522 25999998744322 211223456888999872 1
Q ss_pred ceeecCCCCCCcccCccccCcceEEEEEEecCCCccEEEEeeccCCCCcccEEEEEEeCCCceee
Q psy1440 208 KRVYYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRLE 272 (283)
Q Consensus 208 ~rv~~~~~~~~~~sg~y~~~~~~~~~~~l~~l~~G~Y~vVpST~~p~~~g~F~L~v~s~~~~~l~ 272 (283)
.+.+......++.++.|.+.+++.+.+.| +||+|+||||||+|+++|+|.|+|||+.+++|.
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~v~~~~~L---~~G~YvIVPsT~~~~~~g~F~L~v~s~~~~~l~ 147 (147)
T PF01067_consen 86 PRQYFLFNKPVVSSGDYSNSREVSEEFTL---PPGTYVIVPSTYEPGQEGEFTLRVFSDSPFELQ 147 (147)
T ss_dssp -HHHHHTS-SSEE-SSEBSSSEEEEEEEE----SEEEEEEEEESSTT--EEEEEEEEESSSEEE-
T ss_pred CcceeccccceeeccccccceEEEEEEEc---CCCCEEEEEecCCCCCeeeEEEEEEECCCcccC
Confidence 12223334556788999999987777665 999999999999999999999999999999873
No 4
>smart00720 calpain_III calpain_III.
Probab=99.60 E-value=1.2e-14 Score=118.03 Aligned_cols=127 Identities=24% Similarity=0.303 Sum_probs=97.9
Q ss_pred cceecccCC--CCCCcCC-CCCCCCCcEEEEEcCCC---ceEEEEEEecccccc-cccCCCCeEEEEEEeeCCe----EE
Q psy1440 10 NYLLAYTAG--QGPIKDV-YNIGENPQFRLEVGGGV---GAVWILLTRHITQLE-DFKQNREYITVLVYKNEGK----RV 78 (283)
Q Consensus 10 ~ly~nW~p~--~~~~~d~-~~~~~NPQy~l~~~~~~---~~vwvlL~rH~~~~~-d~~~~~~~i~l~v~~~~g~----rv 78 (283)
.+...|.++ .|++.+. .+|..||||.|+++... .+|+|.|.++..... +.......|+++||+.++. +.
T Consensus 5 ~~~G~W~~~~tAGG~~~~~~tf~~NPqy~l~v~~~~~~~~~v~i~L~q~~~r~~~~~~~~~~~iGf~v~~~~~~~~~~~~ 84 (143)
T smart00720 5 SVQGSWTRGQTAGGCRNYPATFWTNPQFRITLEEPDDDDCTVLIALMQKNRRRLRRKGADFLTIGFAVYKVPKELHLRRD 84 (143)
T ss_pred EEeCeEECCCccCCccccccccccCCeEEEEecCCCCCceEEEEEecccCcccccccCCccceEeEEEEEeccccccchh
Confidence 456789854 3777777 89999999999998642 269999998765432 2223456799999998654 23
Q ss_pred EccCCCCCCcccceeCCceEEEEEEecCCCCccEEEEEeccccccccccEEEEEeCcceEE
Q psy1440 79 YYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRL 139 (283)
Q Consensus 79 ~~~~~~~~~~~g~~~ns~~~l~~~~~~p~~~~~ytlV~s~~e~~~~~~ftL~~~s~~~~~l 139 (283)
.+.........|.|.|++++.+++.++|| .|++|+++|++..+..|.|++|+..++++
T Consensus 85 ~~~~~~~~~~s~~y~~~r~v~~~~~L~~G---~Y~iVPsT~~p~~~g~F~LrV~s~~~~~l 142 (143)
T smart00720 85 FFLSNAPRASSGDYINGREVSERFRLPPG---EYVIVPSTFEPNQEGDFLLRVFSEGPFKL 142 (143)
T ss_pred hhhccCccccccccccCeEEEEEEEcCCC---CEEEEEeecCCCCccCEEEEEEecCcccc
Confidence 33333333456789999999999999996 69999999999999999999999998765
No 5
>PF01067 Calpain_III: Calpain large subunit, domain III; InterPro: IPR022682 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C2 (calpain family, clan CA). A type example is calpain, which is an intracellular protease involved in many important cellular functions that are regulated by calcium []. The protein is a complex of 2 polypeptide chains (light and heavy), with three known forms in mammals [, ]: a highly calcium-sensitive (i.e., micro-molar range) form known as mu-calpain, mu-CANP or calpain I; a form sensitive to calcium in the milli-molar range, known as m-calpain, m-CANP or calpain II; and a third form, known as p94, which is found in skeletal muscle only []. All forms have identical light but different heavy chains. Both mu- and m-calpain are heterodimers containing an identical 28kDa subunit and an 80kDa subunit that shares 55-65% sequence homology between the two proteases [, ]. The crystallographic structure of m-calpain reveals six "domains" in the 80kDa subunit: A 19-amino acid NH2-terminal sequence; Active site domain IIa; Active site domain IIb. Domain 2 shows low levels of sequence similarity to papain; although the catalytic His has not been located by biochemical means, it is likely that calpain and papain are related []. Domain III; An 18-amino acid extended sequence linking domain III to domain IV; Domain IV, which resembles the penta EF-hand family of polypeptides, binds calcium and regulates activity []. />]. Ca2+-binding causes a rearrangement of the protein backbone, the net effect of which is that a Trp side chain, which acts as a wedge between catalytic domains IIa and IIb in the apo state, moves away from the active site cleft allowing for the proper formation of the catalytic triad []. Calpain-like mRNAs have been identified in other organisms including bacteria, but the molecules encoded by these mRNAs have not been isolated, so little is known about their properties. How calpain activity is regulated in these organisms cells is still unclear In metazoans, the activity of calpain is controlled by a single proteinase inhibitor, calpastatin (IPR001259 from INTERPRO). The calpastatin gene can produce eight or more calpastatin polypeptides ranging from 17 to 85 kDa by use of different promoters and alternative splicing events. The physiological significance of these different calpastatins is unclear, although all bind to three different places on the calpain molecule; binding to at least two of the sites is Ca2+ dependent. The calpains ostensibly participate in a variety of cellular processes including remodelling of cytoskeletal/membrane attachments, different signal transduction pathways, and apoptosis. Deregulated calpain activity following loss of Ca2+ homeostasis results in tissue damage in response to events such as myocardial infarcts, stroke, and brain trauma []. This entry represents domain III. It is found in association with PF00648 from PFAM. The function of the domain III and I are currently unknown. Domain II is a cysteine protease and domain IV is a calcium binding domain. Calpains are believed to participate in intracellular signaling pathways mediated by calcium ions. ; PDB: 1QXP_B 2QFE_A 1DF0_A 1U5I_A 3DF0_A 3BOW_A 1KFU_L 1KFX_L.
Probab=99.55 E-value=3.2e-14 Score=115.65 Aligned_cols=128 Identities=26% Similarity=0.355 Sum_probs=89.1
Q ss_pred cceecccCCC--CCCcCCC-CCCCCCcEEEEEcCCCc-----eEEEEEEeccccccc-ccCCCCeEEEEEEeeC--CeEE
Q psy1440 10 NYLLAYTAGQ--GPIKDVY-NIGENPQFRLEVGGGVG-----AVWILLTRHITQLED-FKQNREYITVLVYKNE--GKRV 78 (283)
Q Consensus 10 ~ly~nW~p~~--~~~~d~~-~~~~NPQy~l~~~~~~~-----~vwvlL~rH~~~~~d-~~~~~~~i~l~v~~~~--g~rv 78 (283)
.+...|..+. |+..+.. +|.+||||.|++..... .|+|.|.++...... .+.....|+++||+.+ .++.
T Consensus 6 ~~~G~W~~~~taGG~~~~~~s~~~NPQy~l~v~~~~~~~~~~~v~i~L~q~~~~~~~~~~~~~~~Ig~~v~~~~~~~~~~ 85 (147)
T PF01067_consen 6 TIEGEWVTGNTAGGCPNNPYSWWNNPQYRLTVSEPTEESNKCTVVISLMQKDRRRKRDVGEKDLPIGFYVFKVQSQQKRL 85 (147)
T ss_dssp EEEEEE-TTTS---STT-TTTGGGS-EEEEEESSGCCCSSBEEEEEEEEECSGCCGCSTTTTTSEEEEEEEEETTTTSE-
T ss_pred EEeCEEeCCCcCCCCcccccccccCcEEEEEEcCCCCCcceeEEEEEEEecCcchhhcccccceEEeEEEEeeecccccC
Confidence 4677895443 5556554 99999999999987422 599999987655432 1234568999999982 2222
Q ss_pred ---EccCCCCCCcccceeCCceEEEEEEecCCCCccEEEEEeccccccccccEEEEEeCcceEEe
Q psy1440 79 ---YYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRLE 140 (283)
Q Consensus 79 ---~~~~~~~~~~~g~~~ns~~~l~~~~~~p~~~~~ytlV~s~~e~~~~~~ftL~~~s~~~~~l~ 140 (283)
+...+......+.|+++.+...+++|+|+ .|++|+++|++..++.|+|++|+..+++|.
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~v~~~~~L~~G---~YvIVPsT~~~~~~g~F~L~v~s~~~~~l~ 147 (147)
T PF01067_consen 86 PRQYFLFNKPVVSSGDYSNSREVSEEFTLPPG---TYVIVPSTYEPGQEGEFTLRVFSDSPFELQ 147 (147)
T ss_dssp -HHHHHTS-SSEE-SSEBSSSEEEEEEEE-SE---EEEEEEEESSTT--EEEEEEEEESSSEEE-
T ss_pred CcceeccccceeeccccccceEEEEEEEcCCC---CEEEEEecCCCCCeeeEEEEEEECCCcccC
Confidence 22223345667889999999999999986 799999999999999999999999999874
No 6
>cd00214 Calpain_III Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are separated by C2-like domain III. Domain III plays an important role in calcium-induced activation of calpain involving electrostatic interactions with subdomain II. Proposed to mediate calpain's interaction with phospholipids and translocation to cytoplasmic/nuclear membranes. CD includes subdomain III of typical and atypical calpains.
Probab=99.53 E-value=1.2e-13 Score=113.05 Aligned_cols=130 Identities=21% Similarity=0.229 Sum_probs=96.7
Q ss_pred ccceecccCCC--CCCc-CCCCCCCCCcEEEEEcCCC-----ceEEEEEEecccccc-cccCCCCeEEEEEEeeCCeEEE
Q psy1440 9 ENYLLAYTAGQ--GPIK-DVYNIGENPQFRLEVGGGV-----GAVWILLTRHITQLE-DFKQNREYITVLVYKNEGKRVY 79 (283)
Q Consensus 9 ~~ly~nW~p~~--~~~~-d~~~~~~NPQy~l~~~~~~-----~~vwvlL~rH~~~~~-d~~~~~~~i~l~v~~~~g~rv~ 79 (283)
..+...|..+. |.++ +..+|+.||||.|++.... .+|.|.|.+...... +...+...|+++||+.++....
T Consensus 6 ~~~~G~W~~g~tAGGc~~~~~tf~~NPQf~l~v~~~~~~~~~~~v~i~L~q~~~r~~~~~~~~~~~IGf~v~~~~~~~~~ 85 (150)
T cd00214 6 KSFNGEWRRGQTAGGCRNNPDTFWTNPQFRIRVPEPDDDEGKCTVLIALMQKNRRHLRKKGLDLLTIGFHVYKVPGENRH 85 (150)
T ss_pred EEEeCeEeCCcccCCCCCcccccccCceEEEEecCCCCCCCccEEEEEeccCCcchhcccCCCcceEEEEEEEeCCcCcc
Confidence 34567898842 6664 4479999999999998642 689998888653322 2223456799999998663222
Q ss_pred ccC----CCCC-CcccceeCCceEEEEEEecCCCCccEEEEEeccccccccccEEEEEeCcceEEec
Q psy1440 80 YPY----DPPP-YLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRLEK 141 (283)
Q Consensus 80 ~~~----~~~~-~~~g~~~ns~~~l~~~~~~p~~~~~ytlV~s~~e~~~~~~ftL~~~s~~~~~l~~ 141 (283)
++. ...+ ...+.|.|++++.+++.++|| .|++|+++|++..+..|.|++|+..++++++
T Consensus 86 ~~~~~~~~~~~~~~s~~~~~~rev~~~~~L~pG---~YvIIPsT~~p~~~g~F~LrVfs~~~~~~~~ 149 (150)
T cd00214 86 LRRDFFLHKAPRARSSTFINTREVSLRFRLPPG---EYVIVPSTFEPGEEGEFLLRVFSEKSIKSSE 149 (150)
T ss_pred cChhhhhccCcccccCccccccEEEEEEEcCCC---CEEEEeeecCCCCcccEEEEEEecCCCcccc
Confidence 221 1122 346678999999999999986 8999999999999999999999999887653
No 7
>KOG0045|consensus
Probab=99.47 E-value=1.7e-13 Score=134.05 Aligned_cols=128 Identities=20% Similarity=0.232 Sum_probs=99.1
Q ss_pred ccceee--eCCC---CCCCCCCCCCCCCeEEEEEcCCC---ceEEEeeec-cccccccccCCceEEEEEEEEeCCce-ee
Q psy1440 142 RPQASW--SAGQ---GPIKDVYNIGENPQFRLEVGGGV---GAVWILLTR-HITQLEDFKQNREYITVLVYKNEGKR-VY 211 (283)
Q Consensus 142 ~~~G~W--~~~~---Gg~~~~~tf~~NPQy~l~v~~~~---~~v~i~L~~-~~~~~~~~~i~~~~i~~~v~~~~g~r-v~ 211 (283)
..+|+| ..+. ||.++.++|++||||.+.+.+.. +.+.+.|.| ++++.+.+..++..|++++|+..+.+ .+
T Consensus 347 ~~~~~w~~~~~~t~ggc~~~~~tF~~npq~~~~~~~~~~~~~~~v~~~~q~~~~~~~~~~~~~~~ig~~i~~v~~~~~~~ 426 (612)
T KOG0045|consen 347 SLDGEWELARGVTAGGCRNSVDTFDRNPQYILAVRKPTKSLCAVVLALFQKTRRGERSFGANILDIGFHIYEVPLEGKYF 426 (612)
T ss_pred ecCCccceeecccCCCCccCcccccCCceEEEEecCCCccceEEEEEeecccccccccccceeeecceEEEEecCCCCce
Confidence 779999 4443 77888789999999999998522 455555555 55555666667778999999987552 22
Q ss_pred cCCCCCCcccCccccCcceEEEEEEecCCCccEEEEeeccCCCCcccEEEEEEeCCCceee
Q psy1440 212 YPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRAYATCPFRLE 272 (283)
Q Consensus 212 ~~~~~~~~~sg~y~~~~~~~~~~~l~~l~~G~Y~vVpST~~p~~~g~F~L~v~s~~~~~l~ 272 (283)
.....+++.+..+++.|++..++. +|||.|.+|||||+|++++.|.|||||...+..+
T Consensus 427 ~~~~~~~~~~~~~i~~r~v~~~~~---~P~~~y~~~pst~~~~~~~~f~lrvfs~~~~~~~ 484 (612)
T KOG0045|consen 427 VLDNAPIASSSSFINNREVSVRFR---LPPGTYVIVPSTFEPGEEGEFLLRVFSNVKVKSE 484 (612)
T ss_pred EecccchhcccccccceeEEEEec---CCCcceeecccCCCCCCCccEEEEEeecccccCc
Confidence 333455678889999999777765 5999999999999999999999999998876655
No 8
>KOG0045|consensus
Probab=98.81 E-value=6.8e-08 Score=95.03 Aligned_cols=136 Identities=17% Similarity=0.187 Sum_probs=102.7
Q ss_pred cchhcccccceecccCCCCC---------------------------Cc-CCCCCCCCCcEEEEEcCC-C---ceEEEEE
Q psy1440 2 KAVKSYWENYLLAYTAGQGP---------------------------IK-DVYNIGENPQFRLEVGGG-V---GAVWILL 49 (283)
Q Consensus 2 ~~v~~~f~~ly~nW~p~~~~---------------------------~~-d~~~~~~NPQy~l~~~~~-~---~~vwvlL 49 (283)
+|+|++|+.++++|....+. ++ +..++..||||.+.+... . .-||.++
T Consensus 316 ~dF~~~F~~~~vC~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~t~ggc~~~~~tF~~npq~~~~~~~~~~~~~~~v~~~~ 395 (612)
T KOG0045|consen 316 DDFLREFDSLTVCRLRPDWLESRNQLQWVKLSLDGEWELARGVTAGGCRNSVDTFDRNPQYILAVRKPTKSLCAVVLALF 395 (612)
T ss_pred HHHHhhCCeEeecCCCcchhhhhheeeeeeeecCCccceeecccCCCCccCcccccCCceEEEEecCCCccceEEEEEee
Confidence 57899999999999876521 11 125899999999999763 2 4688888
Q ss_pred EecccccccccCCCCeEEEEEEeeCCe-EEEccCCCCCCcccceeCCceEEEEEEecCCCCccEEEEEeccccccccccE
Q psy1440 50 TRHITQLEDFKQNREYITVLVYKNEGK-RVYYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYT 128 (283)
Q Consensus 50 ~rH~~~~~d~~~~~~~i~l~v~~~~g~-rv~~~~~~~~~~~g~~~ns~~~l~~~~~~p~~~~~ytlV~s~~e~~~~~~ft 128 (283)
.+|+.+..++..+-..|++++|+.++. .-++..+..+..-+.++|.....++++++|+ .|.+|+++|++..+..|.
T Consensus 396 q~~~~~~~~~~~~~~~ig~~i~~v~~~~~~~~~~~~~~~~~~~~i~~r~v~~~~~~P~~---~y~~~pst~~~~~~~~f~ 472 (612)
T KOG0045|consen 396 QKTRRGERSFGANILDIGFHIYEVPLEGKYFVLDNAPIASSSSFINNREVSVRFRLPPG---TYVIVPSTFEPGEEGEFL 472 (612)
T ss_pred cccccccccccceeeecceEEEEecCCCCceEecccchhcccccccceeEEEEecCCCc---ceeecccCCCCCCCccEE
Confidence 888887766655667788999998644 2222222223345568889999999998775 899999999999999999
Q ss_pred EEEEeCcceEEe
Q psy1440 129 LRAYATCPFRLE 140 (283)
Q Consensus 129 L~~~s~~~~~l~ 140 (283)
|++|++..+...
T Consensus 473 lrvfs~~~~~~~ 484 (612)
T KOG0045|consen 473 LRVFSNVKVKSE 484 (612)
T ss_pred EEEeecccccCc
Confidence 999998775444
No 9
>PF04151 PPC: Bacterial pre-peptidase C-terminal domain; InterPro: IPR007280 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. This domain is normally found at the C terminus of secreted archaeal and bacterial peptidases, the majority of which belong to MEROPS peptidase families M4 (vibriolysin, IPR001570 from INTERPRO), M9A amd M9B (microbial collangenase, IPR002169 from INTERPRO), M28 (aminopeptidase Ap1, IPR007484 from INTERPRO) and S8 (subtilisin family peptidases, IPR000209 from INTERPRO).; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 4DY5_B 4DXZ_A 4DY3_B 3JQW_A 3JQX_C 1NQJ_B 1NQD_A 2O8O_A 1WMF_A 1WME_A ....
Probab=45.87 E-value=94 Score=21.13 Aligned_cols=65 Identities=14% Similarity=0.190 Sum_probs=34.5
Q ss_pred EEEEEcCCCceEEEeeeccccccccccCCceEEEEEEEEeCCceeecCCCCCCcccCccccCcceEEEEEEecCCCccEE
Q psy1440 166 FRLEVGGGVGAVWILLTRHITQLEDFKQNREYITVLVYKNEGKRVYYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYT 245 (283)
Q Consensus 166 y~l~v~~~~~~v~i~L~~~~~~~~~~~i~~~~i~~~v~~~~g~rv~~~~~~~~~~sg~y~~~~~~~~~~~l~~l~~G~Y~ 245 (283)
|+|+++. +..|.|.|.. . ..++. +.|+...|..+..... .+... ...+ .+.+.. +++|+|.
T Consensus 5 y~f~v~a-g~~l~i~l~~---~----~~d~d---l~l~~~~g~~~~~~d~----~~~~~-~~~~-~i~~~~--~~~GtYy 65 (70)
T PF04151_consen 5 YSFTVPA-GGTLTIDLSG---G----SGDAD---LYLYDSNGNSLASYDD----SSQSG-GNDE-SITFTA--PAAGTYY 65 (70)
T ss_dssp EEEEEST-TEEEEEEECE---T----TSSEE---EEEEETTSSSCEECCC----CTCET-TSEE-EEEEEE--SSSEEEE
T ss_pred EEEEEcC-CCEEEEEEcC---C----CCCeE---EEEEcCCCCchhhhee----cCCCC-CCcc-EEEEEc--CCCEEEE
Confidence 7899984 6678888843 1 11232 5677766543221111 11101 1222 344444 6999999
Q ss_pred EEee
Q psy1440 246 LVVS 249 (283)
Q Consensus 246 vVpS 249 (283)
|.++
T Consensus 66 i~V~ 69 (70)
T PF04151_consen 66 IRVY 69 (70)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8764
No 10
>PF10908 DUF2778: Protein of unknown function (DUF2778); InterPro: IPR021225 This is a bacterial family of uncharacterised proteins.
Probab=41.55 E-value=15 Score=28.75 Aligned_cols=27 Identities=19% Similarity=0.126 Sum_probs=18.0
Q ss_pred CccccCcceEEEEEEecCCCccEEEEe
Q psy1440 222 GVRINSPHYLCKIILNENSSRKYTLVV 248 (283)
Q Consensus 222 g~y~~~~~~~~~~~l~~l~~G~Y~vVp 248 (283)
+.|.|.++..+.-..-.+|||+|.||-
T Consensus 10 g~~~N~p~~~~~~~~GPiP~G~Y~Ivd 36 (120)
T PF10908_consen 10 GPYRNNPECTAVPNKGPIPPGRYWIVD 36 (120)
T ss_pred CCcCcCcccccccCCCCCCCCeEEEEE
Confidence 456666664443333468999999995
No 11
>PF14686 fn3_3: Polysaccharide lyase family 4, domain II; PDB: 1NKG_A 2XHN_B 3NJX_A 3NJV_A.
Probab=37.96 E-value=30 Score=25.76 Aligned_cols=28 Identities=14% Similarity=0.167 Sum_probs=15.7
Q ss_pred EEEEecCCCccEEEEeeccCCCCcccEEEE
Q psy1440 233 KIILNENSSRKYTLVVSQYEKMHTIYYTLR 262 (283)
Q Consensus 233 ~~~l~~l~~G~Y~vVpST~~p~~~g~F~L~ 262 (283)
.+.++.+.||+|.|.. |.++.-++|...
T Consensus 51 ~Fti~~V~pGtY~L~a--y~~g~~g~~~~~ 78 (95)
T PF14686_consen 51 NFTIPNVRPGTYRLYA--YADGIFGDYKVA 78 (95)
T ss_dssp EEE---B-SEEEEEEE--EE----TTEEEE
T ss_pred cEEeCCeeCcEeEEEE--EEecccCceEEe
Confidence 4555678999999998 448999999873
No 12
>cd05860 Ig4_SCFR Fourth immunoglobulin (Ig)-like domain of stem cell factor receptor (SCFR). Ig4_SCFR: The fourth Immunoglobulin (Ig)-like domain in stem cell factor receptor (SCFR). SCFR is organized as an extracellular component having five IG-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. SCFR and its ligand SCF are critical for normal hematopoiesis, mast cell development, melanocytes and gametogenesis. SCF binds to the second and third Ig-like domains of SCFR. This fourth Ig-like domain participates in SCFR dimerization, which follows ligand binding. Deletion of this fourth domain abolishes the ligand-induced dimerization of SCFR and completely inhibits signal transduction.
Probab=32.66 E-value=44 Score=25.28 Aligned_cols=35 Identities=20% Similarity=0.307 Sum_probs=25.8
Q ss_pred CceEEEEEEecCCCCccEEEEEeccccccccccEEEE
Q psy1440 95 SPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRA 131 (283)
Q Consensus 95 s~~~l~~~~~~p~~~~~ytlV~s~~e~~~~~~ftL~~ 131 (283)
|-..|.|++....| .||+-++.-+......|.|.+
T Consensus 65 S~L~L~Rlk~~E~G--~YTf~a~N~~~~~s~tF~l~v 99 (101)
T cd05860 65 SELHLTRLKGTEGG--TYTFLVSNSDASASVTFNVYV 99 (101)
T ss_pred EEEEEeecChhhCc--EEEEEEECCCCeEEEEEEEEE
Confidence 55668888877765 999998877665677777764
No 13
>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=31.85 E-value=45 Score=22.24 Aligned_cols=19 Identities=32% Similarity=0.345 Sum_probs=12.1
Q ss_pred EEEecCCCccEEEEeeccC
Q psy1440 234 IILNENSSRKYTLVVSQYE 252 (283)
Q Consensus 234 ~~l~~l~~G~Y~vVpST~~ 252 (283)
+....|+||+|++-+-.-.
T Consensus 31 ~~~~~L~~G~Y~l~V~a~~ 49 (66)
T PF07495_consen 31 ISYTNLPPGKYTLEVRAKD 49 (66)
T ss_dssp EEEES--SEEEEEEEEEEE
T ss_pred EEEEeCCCEEEEEEEEEEC
Confidence 3445689999999887554
No 14
>PF11589 DUF3244: Domain of unknown function (DUF3244); InterPro: IPR021638 This family of proteins with unknown function appear to be restricted to Bacteroidetes. The protein may have an immunoglobulin-like beta-sandwich fold however this cannot be confirmed. ; PDB: 3D33_B 3SD2_A.
Probab=31.57 E-value=85 Score=23.55 Aligned_cols=31 Identities=26% Similarity=0.180 Sum_probs=21.5
Q ss_pred EEEEEEecCCCccEEEEeeccCC-CCcccEEE
Q psy1440 231 LCKIILNENSSRKYTLVVSQYEK-MHTIYYTL 261 (283)
Q Consensus 231 ~~~~~l~~l~~G~Y~vVpST~~p-~~~g~F~L 261 (283)
...+.+..+++|.|+|....=+- .-.|.|.+
T Consensus 74 ~~~I~L~~~~~G~Y~l~i~~~~g~~l~G~F~i 105 (106)
T PF11589_consen 74 SITIDLNGLPSGEYTLEITNGNGTYLYGEFTI 105 (106)
T ss_dssp EEEEE-TTS-SEEEEEEEEECTC-EEEEEEEE
T ss_pred EEEEEeCCCCCccEEEEEEeCCCCEEEEEEEE
Confidence 45678888899999999887554 45677765
No 15
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=22.66 E-value=2e+02 Score=19.67 Aligned_cols=29 Identities=10% Similarity=0.060 Sum_probs=21.1
Q ss_pred CCCccEEEEeeccCCCCcccEEEEEEeCCCce
Q psy1440 239 NSSRKYTLVVSQYEKMHTIYYTLRAYATCPFR 270 (283)
Q Consensus 239 l~~G~Y~vVpST~~p~~~g~F~L~v~s~~~~~ 270 (283)
.+.|+|.|=+|.- ..+.|.|+|.....+.
T Consensus 19 ~~~G~FLvR~s~~---~~~~~~Lsv~~~~~v~ 47 (77)
T PF00017_consen 19 KPDGTFLVRPSSS---KPGKYVLSVRFDGKVK 47 (77)
T ss_dssp SSTTEEEEEEESS---STTSEEEEEEETTEEE
T ss_pred CCCCeEEEEeccc---cccccccccccccccE
Confidence 4789999888864 3455899888776443
No 16
>PF08842 Mfa2: Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; InterPro: IPR014941 This family of proteins may be lipoproteins principally from bacilli. They are between 300 and 400 residues. Many Bacteroides-like bacterial species, including Porphyromonas gingivalis, the causal agent of periodontal infection, carry at least two types of fimbriae, namely FimA and Mfa1 fimbriae, following the names of their major subunit proteins []. Normally, FimA fimbriae are long filaments that are easily detached from cells, whereas Mfa1 fimbriae are short filaments that are tightly bound to cells; however, in the absence of Mfa2 protein, the Mfa1 fimbriae are also very long and are not attached. Mfa2 and Mfa1 are associated with each other in whole P. gingivalis cells to the extent that Mfa2 is located on the cell surface and probably associated with Mfa1 fimbriae in such a way that it anchors the Mfa1 fimbriae to the cell surface and regulates Mfa1 filament length [].; PDB: 3PAY_C 3GF8_A.
Probab=21.39 E-value=83 Score=27.40 Aligned_cols=47 Identities=19% Similarity=0.219 Sum_probs=22.2
Q ss_pred eEEEEEEEEeCCceeecCCCCC-CcccCccccCcceEEEEEEecCCCccEEEEeec
Q psy1440 196 EYITVLVYKNEGKRVYYPYDPP-PYLDGVRINSPHYLCKIILNENSSRKYTLVVSQ 250 (283)
Q Consensus 196 ~~i~~~v~~~~g~rv~~~~~~~-~~~sg~y~~~~~~~~~~~l~~l~~G~Y~vVpST 250 (283)
.-+.+.||+.+|+.+....... ....+.| + +....|++|.|++|.-.
T Consensus 29 ~~v~lyvFd~~g~~v~~~~~~~~~~~~~~y-------~-~~~~~l~~G~Y~~va~~ 76 (283)
T PF08842_consen 29 KRVDLYVFDEDGKLVKQRTIDSEELEGGGY-------T-MFLLDLPPGTYTFVAWG 76 (283)
T ss_dssp -EEEEEEE-TTSBEEEEEEEECGGCCTTTE-------E-E-CCT--SEEEEEEEEE
T ss_pred eEEEEEEEeCCCeEEEEEEcccccccCCce-------E-EeeccCCCCcEEEEEEE
Confidence 3455789988887443221111 0111212 2 22235899999999876
No 17
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=21.29 E-value=3.2e+02 Score=19.57 Aligned_cols=56 Identities=25% Similarity=0.196 Sum_probs=24.2
Q ss_pred EEEEEeeCCeEEEccCCCCCCcccceeCCceEEEEEEecCCCCccEEEEEeccccccccccEEEE
Q psy1440 67 TVLVYKNEGKRVYYPYDPPPYLDGVRINSPHYLCKIILNENSSRKYTLVVSQYEKMHTIYYTLRA 131 (283)
Q Consensus 67 ~l~v~~~~g~rv~~~~~~~~~~~g~~~ns~~~l~~~~~~p~~~~~ytlV~s~~e~~~~~~ftL~~ 131 (283)
-+.|.+.+|+.|+-=.+..++.+ .+-...++||....|...+..-... .+.|+|.+
T Consensus 27 D~~v~d~~g~~vwrwS~~~~FtQ--------al~~~~l~pGe~~~~~~~~~~~~~~-~G~Y~~~a 82 (82)
T PF12690_consen 27 DFVVKDKEGKEVWRWSDGKMFTQ--------ALQEETLEPGESLTYEETWDLKDLS-PGEYTLEA 82 (82)
T ss_dssp EEEEE-TT--EEEETTTT---------------EEEEE-TT-EEEEEEEESS-----SEEEEEEE
T ss_pred EEEEECCCCCEEEEecCCchhhh--------eeeEEEECCCCEEEEEEEECCCCCC-CceEEEeC
Confidence 45677667777764333234443 3456677887655666665443311 56777653
No 18
>PF13620 CarboxypepD_reg: Carboxypeptidase regulatory-like domain; PDB: 3MN8_D 3P0D_I 3KCP_A 2B59_B 1UWY_A 1H8L_A 1QMU_A 2NSM_A.
Probab=20.64 E-value=85 Score=21.70 Aligned_cols=15 Identities=33% Similarity=0.372 Sum_probs=10.4
Q ss_pred EecCCCccEEEEeec
Q psy1440 236 LNENSSRKYTLVVSQ 250 (283)
Q Consensus 236 l~~l~~G~Y~vVpST 250 (283)
+..|+||.|.|..+.
T Consensus 42 ~~~l~~g~Y~l~v~~ 56 (82)
T PF13620_consen 42 FEGLPPGTYTLRVSA 56 (82)
T ss_dssp EEEE-SEEEEEEEEB
T ss_pred EEccCCEeEEEEEEE
Confidence 334588999999864
Done!