Query psy9260
Match_columns 217
No_of_seqs 71 out of 73
Neff 2.4
Searched_HMMs 46136
Date Fri Aug 16 22:54:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9260.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9260hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5178 PRP8 U5 snRNP spliceos 100.0 4E-107 9E-112 811.7 12.4 192 19-210 1523-1755(2365)
2 KOG1795|consensus 100.0 2.4E-94 5.1E-99 722.9 8.9 193 18-210 1486-1719(2321)
3 PF10596 U6-snRNA_bdg: U6-snRN 100.0 6.9E-74 1.5E-78 475.1 5.2 105 19-123 53-157 (160)
4 PF15334 AIB: Aurora kinase A 48.4 7.6 0.00016 36.5 0.7 39 20-58 255-298 (324)
5 PHA02776 E7 protein; Provision 31.3 21 0.00045 28.5 0.6 9 87-95 1-9 (101)
6 PF00965 TIMP: Tissue inhibito 31.2 24 0.00052 29.3 1.0 45 10-56 82-127 (181)
7 smart00206 NTR Tissue inhibito 23.5 54 0.0012 28.4 1.8 40 14-55 78-117 (172)
8 PF08490 DUF1744: Domain of un 23.1 50 0.0011 31.2 1.7 20 66-85 194-213 (396)
9 PRK13258 7-cyano-7-deazaguanin 21.8 91 0.002 25.0 2.7 27 97-125 58-84 (114)
10 PF00930 DPPIV_N: Dipeptidyl p 21.6 47 0.001 29.3 1.1 12 55-66 100-111 (353)
11 cd03585 NTR_TIMP NTR domain, T 20.4 68 0.0015 28.0 1.8 40 14-55 83-122 (183)
No 1
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=100.00 E-value=4.2e-107 Score=811.69 Aligned_cols=192 Identities=69% Similarity=1.064 Sum_probs=188.0
Q ss_pred eecccccceeecccCchhhhhhhhhhhhhhhcCCCCCCCceeeeeccccccceeeeeeeeeecccccccccCCchhhHHH
Q psy9260 19 VHLLKSRLKQEKASGFEESMKYKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISL 98 (217)
Q Consensus 19 ~~~~weglfwekasgfE~s~k~kkLTnAQRsGLsQIPNRRFtLWWSPTINRanVyVGfqvQlDlTGIfMhGKipTLKiSl 98 (217)
.+++||||||||||||||||||||||||||+||||||||||||||||||||||||||||||||||||+||||||||||||
T Consensus 1523 gF~SweglFWEkasgfe~smkfkKLTnAQr~GLsQIPNRRFtLWWSPTINRaNVYVGfqVQLDlTGI~mHGKiPTLKISl 1602 (2365)
T COG5178 1523 GFRSWEGLFWEKASGFEESMKFKKLTNAQRMGLSQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGILMHGKIPTLKISL 1602 (2365)
T ss_pred CcchhhhhhHhhhcchHHHHHHHHhhhhhhcccccCCCceeEEEecCcccccceEEEEEEEEechheeecCCCCceeehH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHH------------------------hcC-----------------CCcccccccccC
Q psy9260 99 IQIFRAHLWQKVHESIVMDLCQHS------------------------INF-----------------SPLMFISRDTMD 137 (217)
Q Consensus 99 IqIFR~hLWqkIHesiV~dlcqvl------------------------mns-----------------Psll~d~~d~~~ 137 (217)
|||||+|||||||||||-|||||| ||| ||+|.|++|..+
T Consensus 1603 IQIFR~hLWqkIHESvV~dlCqvld~eldvlqiEtv~ketvHpRKSYkmnSScADIll~~~~~w~Vs~Psll~e~rD~~~ 1682 (2365)
T COG5178 1603 IQIFRNHLWQKIHESVVGDLCQVLDKELDVLQIETVQKETVHPRKSYKMNSSCADILLSGAYDWCVSSPSLLLEERDGGS 1682 (2365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhheeeecccccccccccccccchHHHHHhhhhhhhccCCchhhhhcccccc
Confidence 999999999999999999999999 555 999999999999
Q ss_pred CcccceeeEEeeeccCCCCCchhhHHHHhhhhcccCCCcccCCCCceeEEEeeehhhcccccCCCcccccchh
Q psy9260 138 STTTQKYWLDVQLRWGDYDSHDIERYARAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLHRYIDYPVSAMMNCV 210 (217)
Q Consensus 138 ~~~t~k~WiDvQLRWGdyDShdIerY~R~kfldYTtD~~SiYPSptG~ii~iDLaYN~~sayG~w~~g~~~~~ 210 (217)
+..|+|+||||||||||||||||+||+||||+|||+|++|+||||||+||+||||||+|||||||++||++-.
T Consensus 1683 ~~~tnk~WiDVQLR~GDYDshdi~rY~RakFldyttD~qsmYPsptGv~igiDLcYNm~saYGNw~~glKpli 1755 (2365)
T COG5178 1683 NVRTNKLWIDVQLRWGDYDSHDIHRYARAKFLDYTTDPQSMYPSPTGVVIGIDLCYNMWSAYGNWNEGLKPLI 1755 (2365)
T ss_pred cceeeeeEEEEEEeecCccccCHHHHHHhhhhhcccChhhcccCCCceEEEEeehhhhhhhhcccchhhHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999853
No 2
>KOG1795|consensus
Probab=100.00 E-value=2.4e-94 Score=722.92 Aligned_cols=193 Identities=74% Similarity=1.103 Sum_probs=188.5
Q ss_pred eeecccccceeecccCchhhhhhhhhhhhhhhcCCCCCCCceeeeeccccccceeeeeeeeeecccccccccCCchhhHH
Q psy9260 18 FVHLLKSRLKQEKASGFEESMKYKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKIS 97 (217)
Q Consensus 18 ~~~~~weglfwekasgfE~s~k~kkLTnAQRsGLsQIPNRRFtLWWSPTINRanVyVGfqvQlDlTGIfMhGKipTLKiS 97 (217)
+.+++||||||||||||||+|||||||||||+||||||||||+|||||||||||||||||||+|||||||||||||||||
T Consensus 1486 t~f~s~e~Lfwekasgfees~k~KkltnaQr~gL~QipNrrftlwwspTinrAnvyvgfQvQldLTgi~mhgkIptlkIs 1565 (2321)
T KOG1795|consen 1486 TYFPSWEGLFWEKASGFEESMKYKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIYMHGKIPTLKIS 1565 (2321)
T ss_pred cCcHHHHHHHHHhhcCchhhhHHHHHHHHHHhcccCCCccceEEeecchhhhhhheeeeEEeeccceeEEeccccceeee
Confidence 45899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhhHHHHHHHHHHHHHHHH------------------------hcC-----------------CCccccccccc
Q psy9260 98 LIQIFRAHLWQKVHESIVMDLCQHS------------------------INF-----------------SPLMFISRDTM 136 (217)
Q Consensus 98 lIqIFR~hLWqkIHesiV~dlcqvl------------------------mns-----------------Psll~d~~d~~ 136 (217)
||||||||||||||||+|+|+||+| ||| |+++.+++|..
T Consensus 1566 LiqifRaHlwQKihesvv~~lc~v~D~ELDal~iEtV~ketih~rKsykm~SScAdIll~~~~~~~vs~ps~i~~skd~~ 1645 (2321)
T KOG1795|consen 1566 LIQIFRAHLWQKIHESVVNDLCQVFDQELDALSIETVQKETIHPRKSYKMNSSCADILLGAGVKWGVSNPSLIPESKDLW 1645 (2321)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhhhhhhcCcchhhhccchhHHHhhhcceeecCCCccccccchhhc
Confidence 9999999999999999999999999 555 99999999999
Q ss_pred CCcccceeeEEeeeccCCCCCchhhHHHHhhhhcccCCCcccCCCCceeEEEeeehhhcccccCCCcccccchh
Q psy9260 137 DSTTTQKYWLDVQLRWGDYDSHDIERYARAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLHRYIDYPVSAMMNCV 210 (217)
Q Consensus 137 ~~~~t~k~WiDvQLRWGdyDShdIerY~R~kfldYTtD~~SiYPSptG~ii~iDLaYN~~sayG~w~~g~~~~~ 210 (217)
++..++++|+|||||||||||||++||+||||||||+|++|+||||||+|||||||||+|||||||||||++-.
T Consensus 1646 ~~~~~~klw~dvqLr~gdyds~dv~rytrAkfLd~Ttd~~s~ypsptGv~i~iDL~YN~~sayGNw~~g~Kpli 1719 (2321)
T KOG1795|consen 1646 DPFFTAKLWIDVQLRWGDYDSHDVERYTRAKFLDYTTDNASQYPSPTGVLIGIDLAYNLHSAYGNWFPGLKPLI 1719 (2321)
T ss_pred cccchhhhhhhhhhhccchhhhhHHHHHHhhhhhhhccccccCCCCCceEEEeeehhhhhhhhcccccccHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999853
No 3
>PF10596 U6-snRNA_bdg: U6-snRNA interacting domain of PrP8; InterPro: IPR019580 This entry represents the interacting site for U6-snRNA, which is part of U4/U6. U5 tri-snRNPs complex of the spliceosome is a prime candidate for the role of cofactor in the spliceosome's RNA core. The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that Prp8 could directly affect the function of the catalytic core, perhaps acting as a splicing cofactor [].
Probab=100.00 E-value=6.9e-74 Score=475.06 Aligned_cols=105 Identities=86% Similarity=1.245 Sum_probs=103.4
Q ss_pred eecccccceeecccCchhhhhhhhhhhhhhhcCCCCCCCceeeeeccccccceeeeeeeeeecccccccccCCchhhHHH
Q psy9260 19 VHLLKSRLKQEKASGFEESMKYKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISL 98 (217)
Q Consensus 19 ~~~~weglfwekasgfE~s~k~kkLTnAQRsGLsQIPNRRFtLWWSPTINRanVyVGfqvQlDlTGIfMhGKipTLKiSl 98 (217)
.+|+|||+||||+|||||+||+||||||||+||||||||||||||||||||+||||||||||||||||||||||||||||
T Consensus 53 ~f~~Weglfwek~sgfE~~~k~~kLt~aqrsgl~qiPNRrf~LWWsPtINR~nvyvGfqvqldlTgIfmhGK~ptlkiS~ 132 (160)
T PF10596_consen 53 GFPSWEGLFWEKASGFEESMKFKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISL 132 (160)
T ss_pred CCCccceEEEecCcchhhhhhhhHhhhccccCcccccccccccccCCccccCCceEEEEeeccccceeccCcCchhhhhh
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHh
Q psy9260 99 IQIFRAHLWQKVHESIVMDLCQHSI 123 (217)
Q Consensus 99 IqIFR~hLWqkIHesiV~dlcqvlm 123 (217)
|||||+||||||||||||||||+|-
T Consensus 133 i~ifr~~lwqkih~svv~dl~~~~~ 157 (160)
T PF10596_consen 133 IQIFRAHLWQKIHESVVMDLCQVFD 157 (160)
T ss_pred hhcccccchheehHHHHHHHHHHHH
Confidence 9999999999999999999999983
No 4
>PF15334 AIB: Aurora kinase A and ninein interacting protein
Probab=48.41 E-value=7.6 Score=36.53 Aligned_cols=39 Identities=31% Similarity=0.407 Sum_probs=32.9
Q ss_pred ecccccceeecccCc-----hhhhhhhhhhhhhhhcCCCCCCCc
Q psy9260 20 HLLKSRLKQEKASGF-----EESMKYKKLTNAQRSGLNQIPNRR 58 (217)
Q Consensus 20 ~~~weglfwekasgf-----E~s~k~kkLTnAQRsGLsQIPNRR 58 (217)
.++|+-||=|++-|- ..-+-|..+||+|+.||-|.||.-
T Consensus 255 kDswSQLFTEDSQGQrVIAHnsRaPF~DVtN~~nqglg~fp~Sp 298 (324)
T PF15334_consen 255 KDSWSQLFTEDSQGQRVIAHNSRAPFQDVTNNQNQGLGQFPNSP 298 (324)
T ss_pred hhhHHHhcccccCCcEEEecCCCCchhhhhcccccccccCCCCh
Confidence 378999999998874 335678889999999999999964
No 5
>PHA02776 E7 protein; Provisional
Probab=31.25 E-value=21 Score=28.54 Aligned_cols=9 Identities=89% Similarity=1.302 Sum_probs=8.4
Q ss_pred cccCCchhh
Q psy9260 87 MHGKIPTLK 95 (217)
Q Consensus 87 MhGKipTLK 95 (217)
||||=||||
T Consensus 1 M~G~~pTl~ 9 (101)
T PHA02776 1 MHGKHPTLK 9 (101)
T ss_pred CCCCCCcHh
Confidence 999999986
No 6
>PF00965 TIMP: Tissue inhibitor of metalloproteinase; InterPro: IPR001820 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. Tissue inhibitors of metalloproteinases (TIMPs, [, , ]) and their target matrix metalloproteinases (MMPs, MEROPS peptidase family M10A) are important in connective tissue re-modelling in diseases of the cardiovascular system and in the physiological degradation of connective tissue, as well as in pathological states such as tumour invasion and arthritis. TIMPs belong to MEROPS proteinase inhibitor family I35, clan IT. TIMPs complex with extracellular matrix metalloproteinases (such as collagenases) and irreversibly inactivate them. Members of this family are common in extracellular regions of vertebrate species []. TIMPs are proteins of about 200 amino acid residues, 12 of which are cysteines involved in disulphide bonds []. The basic structure of such a type of inhibitor is shown in the following schematic representation: +-----------------------------+ +--------------+ | | | | CxCxCxxxxxxxxxxxxxxxxxCxxxxxxxxxCxxxxxxxCxCxCxCxCxxxxxCxxCxxx | | | | | | | | | +-----------------|-----------------+ +-+ +-----+ +---------------------+ 'C': conserved cysteine involved in a disulphide bond. The crystal structure of the human proMMP-2/TIMP-2 complex reveals an interaction between the hemopexin domain of proMMP-2 and the C-terminal domain of TIMP-2, leaving the catalytic site of MMP-2 and the inhibitory site of TIMP-2 distant and spatially isolated. The interfacial contact of these two proteins is characterised by two distinct binding regions composed of alternating hydrophobic and hydrophilic interactions. This unique structure provides information for how specificity for non-inhibitory MMP/TIMP complex formation is achieved []. ; GO: 0008191 metalloendopeptidase inhibitor activity; PDB: 2E2D_C 1BUV_T 1BQQ_T 1BR9_A 1GXD_D 2TMP_A 2J0T_F 1D2B_A 3MA2_C 1UEA_B ....
Probab=31.20 E-value=24 Score=29.29 Aligned_cols=45 Identities=22% Similarity=0.248 Sum_probs=26.5
Q ss_pred cccceeEEeeeccc-ccceeecccCchhhhhhhhhhhhhhhcCCCCCC
Q psy9260 10 VEESQIYLFVHLLK-SRLKQEKASGFEESMKYKKLTNAQRSGLNQIPN 56 (217)
Q Consensus 10 ~~~~~~~~~~~~~w-eglfwekasgfE~s~k~kkLTnAQRsGLsQIPN 56 (217)
.+..+-||..-..- .|-..-..=+|- +.+.+||.+||.||++.-.
T Consensus 82 l~~g~~YLIaG~~~~~g~l~i~~C~~v--~~w~~lt~~Qr~g~~~~Y~ 127 (181)
T PF00965_consen 82 LELGKEYLIAGRVVSDGKLHISLCSFV--EPWDSLTPSQRRGLKHRYQ 127 (181)
T ss_dssp --SSSEEEEEEEEESTTEEE--TTSCE--EEGGGS-HHHHHCCCTTTT
T ss_pred cCCCceEEEEEEecCCCcEEEEECCcE--eehhhCCHHHHhhhHHhhC
Confidence 45556777655222 444444444453 4788999999999988743
No 7
>smart00206 NTR Tissue inhibitor of metalloproteinase family. Form complexes with metalloproteinases, such as collagenases, and irreversibly inactivate them.
Probab=23.47 E-value=54 Score=28.44 Aligned_cols=40 Identities=28% Similarity=0.350 Sum_probs=30.2
Q ss_pred eeEEeeecccccceeecccCchhhhhhhhhhhhhhhcCCCCC
Q psy9260 14 QIYLFVHLLKSRLKQEKASGFEESMKYKKLTNAQRSGLNQIP 55 (217)
Q Consensus 14 ~~~~~~~~~weglfwekasgfE~s~k~kkLTnAQRsGLsQIP 55 (217)
+.||.+-.-..|-.+-..=+| -..+.+||.+||.||++.-
T Consensus 78 ~~YLIaG~~~dG~l~i~lC~f--v~pW~~lT~~Qr~Gl~~~Y 117 (172)
T smart00206 78 EEYLIAGRLEDGKMHITLCSF--VVPWDSLSLAQRKGLNKRY 117 (172)
T ss_pred EEEEEEEEccCCeEEEEecCc--EeehHhCCHHHHhhhhHhh
Confidence 677777666666666666666 4578899999999999754
No 8
>PF08490 DUF1744: Domain of unknown function (DUF1744); InterPro: IPR013697 This domain is found on the catalytic subunit of DNA polymerase epsilon. It is found C-terminal to IPR006133 from INTERPRO and IPR006134 from INTERPRO. ; GO: 0003887 DNA-directed DNA polymerase activity, 0008270 zinc ion binding, 0006260 DNA replication, 0005634 nucleus
Probab=23.12 E-value=50 Score=31.23 Aligned_cols=20 Identities=30% Similarity=0.567 Sum_probs=15.4
Q ss_pred ccccceeeeeeeeeeccccc
Q psy9260 66 TINRANVYVGFQVQLDLTGI 85 (217)
Q Consensus 66 TINRanVyVGfqvQlDlTGI 85 (217)
.||+.-+|-..-|.||+-+.
T Consensus 194 ~in~pG~Y~~vcvEl~i~~L 213 (396)
T PF08490_consen 194 EINNPGAYRSVCVELDISNL 213 (396)
T ss_pred EEECCCccceEEEEEEecce
Confidence 37888888888888877554
No 9
>PRK13258 7-cyano-7-deazaguanine reductase; Provisional
Probab=21.80 E-value=91 Score=24.97 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=24.1
Q ss_pred HHHHHhhhhhHHHHHHHHHHHHHHHHhcC
Q psy9260 97 SLIQIFRAHLWQKVHESIVMDLCQHSINF 125 (217)
Q Consensus 97 SlIqIFR~hLWqkIHesiV~dlcqvlmns 125 (217)
.|+.-||.+. ..||.++.+|++.|+..
T Consensus 58 ~Yl~Sf~~~~--~~qE~lt~~I~~dL~~~ 84 (114)
T PRK13258 58 LYLFSFRNHG--IFHEDCTNRILDDLVAL 84 (114)
T ss_pred HHHHHHHCCC--chHHHHHHHHHHHHHHh
Confidence 5788999999 89999999999998654
No 10
>PF00930 DPPIV_N: Dipeptidyl peptidase IV (DPP IV) N-terminal region; InterPro: IPR002469 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain defines serine peptidases belonging to MEROPS peptidase family S9 (clan SC), subfamily S9B (dipeptidyl-peptidase IV). The protein fold of the peptidase domain for members of this family resembles that of serine carboxypeptidase D, the type example of clan SC. This domain is an alignment of the region to the N-terminal side of the active site, which is found in IPR001375 from INTERPRO. CD26 (3.4.14.5 from EC) is also called adenosine deaminase-binding protein (ADA-binding protein) or dipeptidylpeptidase IV (DPP IV ectoenzyme). The exopeptidase cleaves off N-terminal X-Pro or X-Ala dipeptides from polypeptides (dipeptidyl peptidase IV activity). CD26 serves as the costimulatory molecule in T cell activation and is an associated marker of autoimmune diseases, adenosine deaminase-deficiency and HIV pathogenesis. Dipeptidyl peptidase IV (DPP IV) is responsible for the removal of N-terminal dipeptides sequentially from polypeptides having unsubstituted N termini, provided that the penultimate residue is proline. The enzyme catalyses the reaction: Dipeptidyl-Polypeptide + H(2)O = Dipeptide + Polypeptide It is a type II membrane protein that forms a homodimer. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0006508 proteolysis, 0016020 membrane; PDB: 2RIP_A 3Q8W_B 2AJL_I 1TKR_B 1TK3_B 3C45_A 2G5P_A 3G0C_D 1R9M_C 1RWQ_A ....
Probab=21.61 E-value=47 Score=29.29 Aligned_cols=12 Identities=50% Similarity=1.265 Sum_probs=9.1
Q ss_pred CCCceeeeeccc
Q psy9260 55 PNRRFTLWWSPT 66 (217)
Q Consensus 55 PNRRFtLWWSPT 66 (217)
-.|+-++||||-
T Consensus 100 ~~~~~~~~WSpd 111 (353)
T PF00930_consen 100 FDRRSAVWWSPD 111 (353)
T ss_dssp SSSSBSEEE-TT
T ss_pred cccccceEECCC
Confidence 358999999995
No 11
>cd03585 NTR_TIMP NTR domain, TIMP subfamily; TIMPs, or tissue inibitors of metalloproteases, are essential regulators of extracellular matrix turnover and remodeling. They form complexes with matrix metalloproteases (MMPs) and inactivate them irreversibly by non-covalently binding their active zinc-binding sites. The levels of activated membrane-type MMPs, MMPs, and free TIMPs determine the balance between matrix degradation and matrix formation or stabilization. Consequently, TIMPs play roles in processes that require the remodeling and degradation of connective tissue, such as development, morphogenesis, wound healing, as well as in various diseases and pathological states such as tumor cell metastasis, arthritis, and artherosclerosis. Most TIMPs bind to a variety of MMPs. TIMP-1 and TIMP-2 appear to be multifunctional proteins with diverse biological action. They may exhibit growth factor-like activity and can inhibit angiogenesis. TIMP-3 has been implicated in apoptosis.
Probab=20.36 E-value=68 Score=28.01 Aligned_cols=40 Identities=20% Similarity=0.252 Sum_probs=29.5
Q ss_pred eeEEeeecccccceeecccCchhhhhhhhhhhhhhhcCCCCC
Q psy9260 14 QIYLFVHLLKSRLKQEKASGFEESMKYKKLTNAQRSGLNQIP 55 (217)
Q Consensus 14 ~~~~~~~~~weglfwekasgfE~s~k~kkLTnAQRsGLsQIP 55 (217)
+.||.+-.-..|-++-..=+| .+.+.+||.+||.||++.-
T Consensus 83 ~eYLIaG~~~~g~l~i~~C~f--v~pW~~lT~~Qr~gl~~~Y 122 (183)
T cd03585 83 KEYLISGKVEGGKVHITLCDF--VEPWDSLSLTQKKGLNHRY 122 (183)
T ss_pred EEEEEEEEccCCcEEEEecCC--EeehHhCCHHHHhhhhHhh
Confidence 677777666666666655555 3578899999999998754
Done!