Query psy5929
Match_columns 286
No_of_seqs 105 out of 157
Neff 3.7
Searched_HMMs 46136
Date Fri Aug 16 22:02:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5929.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5929hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04516 CP2: CP2 transcriptio 100.0 6.6E-66 1.4E-70 468.7 15.8 167 8-177 53-234 (236)
2 KOG4091|consensus 100.0 3.6E-42 7.8E-47 336.6 11.6 167 8-176 83-262 (463)
3 KOG4091|consensus 97.8 4.9E-06 1.1E-10 83.2 -0.1 123 13-143 226-352 (463)
4 PF02014 Reeler: Reeler domain 46.0 59 0.0013 26.7 5.6 89 20-115 31-123 (132)
5 cd08544 Reeler Reeler, the N-t 43.7 1.2E+02 0.0027 24.8 7.1 84 20-113 31-117 (135)
6 PF08850 DUF1820: Domain of un 26.1 1.7E+02 0.0038 24.5 5.2 36 15-50 5-41 (100)
7 PHA02104 hypothetical protein 22.9 47 0.001 26.8 1.3 16 108-123 18-33 (89)
8 COG1851 Uncharacterized conser 22.2 31 0.00068 32.2 0.2 17 114-132 142-158 (229)
9 PLN02415 uricase 20.6 51 0.0011 32.2 1.3 28 246-275 26-53 (304)
10 PF14085 DUF4265: Domain of un 18.7 4.1E+02 0.0089 21.9 6.1 60 22-86 39-102 (117)
No 1
>PF04516 CP2: CP2 transcription factor; InterPro: IPR007604 This entry represents a conserved region in the CP2 transcription factor family.
Probab=100.00 E-value=6.6e-66 Score=468.72 Aligned_cols=167 Identities=41% Similarity=0.750 Sum_probs=155.6
Q ss_pred cccCCCCceeEecCCceEEEEEeec-----CCCceeEeEEEEEEEecCccccChHHHhhcccccCCC--CcEEEE-eccC
Q psy5929 8 SWEKSKSDLTYLNQGQSYELKLKQD-----CGVKCLLMSVIRVSFHDRRLQYTEREQMCVWRAAHPG--HRILEV-DLPL 79 (286)
Q Consensus 8 s~k~~E~plTYLNKGQ~Y~ItL~d~-----~~~~~~vKSvIrV~F~d~k~r~~e~eq~~~W~~w~pg--~RiLdI-D~~~ 79 (286)
.+|.+|+|||||||||+|+|+|.+. ..+...|||+|||+|||+++|++|.++|+.|++.+|| +|+||| |+++
T Consensus 53 ~~k~~E~plTYLNKGQ~Y~I~l~~~~~~~~~~~~~~~kS~I~v~F~d~~~~~~~~~~w~~W~~~q~g~k~r~leivD~~~ 132 (236)
T PF04516_consen 53 AQKQDEEPLTYLNKGQFYEITLSDTAPPSSPTQPSKVKSVIRVVFHDEKLRYEEAKQWQLWKARQPGGKQRALEIVDIKQ 132 (236)
T ss_pred ccccCccceeeeccCccEEEEEEeccCCccccCCcceeEEEEEEEcCCccccCHHHHHHHHHHhCCCchhhhhhhccCCC
Confidence 5899999999999999999999995 3333679999999999999999998888888888898 999999 9999
Q ss_pred cccccccccCccccceEEEEecCCC-ceeEEEEEeeeecccCCCCCCcccCceeEEEeeeeecCCC---CCcceEeeeEe
Q psy5929 80 SYGIHDVLQDSATVNSVQFNWDPNK-ETGVYIKVNCISTEFTPKKHGGEKGVPFRIQVDTFVQDTT---HRHLHSASCQV 155 (286)
Q Consensus 80 S~Gi~d~~~~~~~lNavsF~Wdp~~-ea~I~IrvNCLSTDFS~~KhGGvKGVPfRLqIDT~~~~~~---~~~lh~ayCQI 155 (286)
|+|++++ +++.++|+++|+|||++ +|+|+|+|||||||||++| ||||||||||||||..+++ ++++|+|||||
T Consensus 133 s~~~i~~-~~~~s~n~~~f~W~p~~~~~~i~i~~ncLSTdFS~~K--GvKGvP~RlqidT~~~~~~~~~~~~~h~~~CqI 209 (236)
T PF04516_consen 133 SVGIIEI-IEEPSFNAFSFIWDPNENEASIFIRFNCLSTDFSPSK--GVKGVPFRLQIDTYMISSNGEYTEPLHRAYCQI 209 (236)
T ss_pred CCCcccc-ccccccCeEEEEecCCCCCceEEEEEEeccccccccC--CcCCCCeEEEEeeeecCCCCCCCCCceEeeeEE
Confidence 9999986 46778899999999999 9999999999999999999 9999999999999999883 79999999999
Q ss_pred eeecCC---CCCcchHHHHhcCCcc
Q psy5929 156 KVFKVS---FLHKTSHNKIMTLPNL 177 (286)
Q Consensus 156 KVFrdK---RKlk~D~~K~eKr~~~ 177 (286)
|||||| ||+|||++|++|++.+
T Consensus 210 KVFrdkGAeRK~k~D~~k~~K~~~k 234 (236)
T PF04516_consen 210 KVFRDKGAERKLKNDREKVEKRIEK 234 (236)
T ss_pred eecCCcCccccccchHHHHHhcccc
Confidence 999999 9999999999999865
No 2
>KOG4091|consensus
Probab=100.00 E-value=3.6e-42 Score=336.61 Aligned_cols=167 Identities=36% Similarity=0.599 Sum_probs=149.6
Q ss_pred cccCCCCceeEecCCceEEEEEeecC------CCc-eeEeEEEEEEEecCccccChHHHhhcccccCC--CCcEEEEecc
Q psy5929 8 SWEKSKSDLTYLNQGQSYELKLKQDC------GVK-CLLMSVIRVSFHDRRLQYTEREQMCVWRAAHP--GHRILEVDLP 78 (286)
Q Consensus 8 s~k~~E~plTYLNKGQ~Y~ItL~d~~------~~~-~~vKSvIrV~F~d~k~r~~e~eq~~~W~~w~p--g~RiLdID~~ 78 (286)
++|.++++||||||||+|+|+|.... .+. +..+|+|||+|+|+++++.+..+++.|++..+ ++|++||+.+
T Consensus 83 ~~~~~~~~~ty~n~gq~yei~l~~~~~~~~~~~~ns~~~~Sii~vvf~e~k~~~~e~k~~q~w~~~~~~~~~r~ldv~~~ 162 (463)
T KOG4091|consen 83 AVKLHDETMTYLNKGQFYEITLLENRDLGKFPHPNSKVVKSIIMVVFHEDKNQETEHKQWQGWHSRQHSAKQRILDIADP 162 (463)
T ss_pred hhcccccccccccCCceEEeEcccccCCCcccCccccccceEEEEEeeccccchhHhhhhhhhhhcCccccCceecccch
Confidence 68999999999999999999999831 122 34469999999999998888666666666655 9999999998
Q ss_pred CcccccccccCccccceEEEEecCCCceeEEEEEeeeecccCCCCCCcccCceeEEEeeeeecCC-CCCcceEeeeEeee
Q psy5929 79 LSYGIHDVLQDSATVNSVQFNWDPNKETGVYIKVNCISTEFTPKKHGGEKGVPFRIQVDTFVQDT-THRHLHSASCQVKV 157 (286)
Q Consensus 79 ~S~Gi~d~~~~~~~lNavsF~Wdp~~ea~I~IrvNCLSTDFS~~KhGGvKGVPfRLqIDT~~~~~-~~~~lh~ayCQIKV 157 (286)
++.|+...+++++++|+++|.||++.+++|+|.|||||||||++| |+||+|||+|||||..+. .+.|+|++||||||
T Consensus 163 ~~~~~~i~~~~~~~~nav~f~w~~~~~~~v~i~v~c~Stdfs~~k--g~Kg~p~~vqidT~~~~~~dt~~~hr~ycqiKV 240 (463)
T KOG4091|consen 163 KSSGITIPQIEPIANNAVEFLWDPPKRASVFIQVNCLSTDFSSQK--GVKGLPLRVQIDTYSYNNESTKPLHRAYCQIKV 240 (463)
T ss_pred hhcccccCCcChhhhhheeecccccccccceeeeeeccccccccc--cccCcceeEEeeeeccccccchhhhccceEEEE
Confidence 888888888999999999999999999999999999999999999 999999999999999875 58999999999999
Q ss_pred ecCC---CCCcchHHHHhcCCc
Q psy5929 158 FKVS---FLHKTSHNKIMTLPN 176 (286)
Q Consensus 158 FrdK---RKlk~D~~K~eKr~~ 176 (286)
|||| ||+++..+|..++.-
T Consensus 241 fcdKgaerkir~~~rk~~~~~~ 262 (463)
T KOG4091|consen 241 FCDKGADRKIRDEERKEQYQPS 262 (463)
T ss_pred ecCcchhhhcccHHHHhhcccc
Confidence 9999 999999888888764
No 3
>KOG4091|consensus
Probab=97.78 E-value=4.9e-06 Score=83.23 Aligned_cols=123 Identities=15% Similarity=0.055 Sum_probs=105.4
Q ss_pred CCceeEecCCceEEEEEeecCCCceeEeEEEEEEEecCccccChHHHhhcccccCCCCcEEEEeccCcccccc----ccc
Q psy5929 13 KSDLTYLNQGQSYELKLKQDCGVKCLLMSVIRVSFHDRRLQYTEREQMCVWRAAHPGHRILEVDLPLSYGIHD----VLQ 88 (286)
Q Consensus 13 E~plTYLNKGQ~Y~ItL~d~~~~~~~vKSvIrV~F~d~k~r~~e~eq~~~W~~w~pg~RiLdID~~~S~Gi~d----~~~ 88 (286)
|++.+|.+.++.|.+-+... .. . .+++++++.++++..+...|..-.|..++...+.++|.+... ...
T Consensus 226 ~dt~~~hr~ycqiKVfcdKg-ae-r------kir~~~rk~~~~~~~~~~~~te~~~~~d~~~~~v~~s~~~~~~~~~~~~ 297 (463)
T KOG4091|consen 226 ESTKPLHRAYCQIKVFCDKG-AD-R------KIRDEERKEQYQPSYGTTILTECSPWPDIAEPDVPNSPSPDHTYSSQPA 297 (463)
T ss_pred ccchhhhccceEEEEecCcc-hh-h------hcccHHHHhhccccCcceeeeeccCCcccccccCCCCcCcCcccccCCC
Confidence 89999999999988877442 22 1 889999999999999999999999999999999999987743 123
Q ss_pred CccccceEEEEecCCCceeEEEEEeeeecccCCCCCCcccCceeEEEeeeeecCC
Q psy5929 89 DSATVNSVQFNWDPNKETGVYIKVNCISTEFTPKKHGGEKGVPFRIQVDTFVQDT 143 (286)
Q Consensus 89 ~~~~lNavsF~Wdp~~ea~I~IrvNCLSTDFS~~KhGGvKGVPfRLqIDT~~~~~ 143 (286)
.+..+++..+.|++.++...++.+||.+|.|++-+|+|+++.++||+.+++..-.
T Consensus 298 ~~d~~s~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~rls~~~li~~~ 352 (463)
T KOG4091|consen 298 SPDLLSQSNIFPHPTKVHTQQWLRNNRFTPFTRTFAEFEGADLLRLSREDLIQIC 352 (463)
T ss_pred CCCccCCCccccCCchhhhhhhhhcCccccchhhhccccccchhhccccchhhhc
Confidence 4566777889999999999999999999999999999999999999999987544
No 4
>PF02014 Reeler: Reeler domain Schematic picture including Reeler domain; InterPro: IPR002861 Extracellular matrix (ECM) proteins play an important role in early cortical development, specifically in the formation of neural connections and in controlling the cyto-architecture of the central nervous system. The product of the reeler gene in mouse is reelin,a large extracellular protein secreted by pioneer neurons that coordinates cell positioning during neurodevelopment []. F-spondin and mindin are a family of matrix-attached adhesion molecules that share structural similarities and overlapping domains of expression. Both F-spondin and mindin promote adhesion and outgrowth of hippocampal embryonic neurons and bind to a putative receptor(s) expressed on both hippocampal and sensory neurons []. This domain of unknown function is found at the N terminus of reelin and F-spondin.; PDB: 2ZOT_B 2ZOU_B 3COO_A.
Probab=46.01 E-value=59 Score=26.68 Aligned_cols=89 Identities=11% Similarity=0.196 Sum_probs=45.6
Q ss_pred cCCceEEEEEeecCCCceeEeEEEEEEEecCccccChHHHhhcccccCCCCcEEEEec--cCcccccccccCccccceEE
Q psy5929 20 NQGQSYELKLKQDCGVKCLLMSVIRVSFHDRRLQYTEREQMCVWRAAHPGHRILEVDL--PLSYGIHDVLQDSATVNSVQ 97 (286)
Q Consensus 20 NKGQ~Y~ItL~d~~~~~~~vKSvIrV~F~d~k~r~~e~eq~~~W~~w~pg~RiLdID~--~~S~Gi~d~~~~~~~lNavs 97 (286)
..|+.|.|+|..+ ....+|.++.-.+........ .+-.|....+.+-..-++- +....+.+. ....-..++
T Consensus 31 ~pg~~~~Vtl~~~--~~~~F~GFllqAr~~~~~~~~---~vG~f~~~~~~~~~~~~~C~~~~~~avTH~--~~~~K~~v~ 103 (132)
T PF02014_consen 31 EPGQTYTVTLSSS--GSSSFRGFLLQARDANNSSPA---PVGTFQLPPDSDTTQLLDCSGGDNNAVTHS--NNSPKTSVT 103 (132)
T ss_dssp -TTBEEEEEEEET--TTEEBSEEEEEEEETT--SSS---BSSEEEES-TTTEEEETTE----EEEEEES--S-S-BSEEE
T ss_pred cCCCEEEEEEECC--CCCceeEEEEEEEeCCCCCcc---cccccCcCCcccceEeecccccccceEEec--CCCCccEEE
Confidence 4799999999322 336788888888776665321 2567777755422222111 111233332 233446789
Q ss_pred EEecCCCc--eeEEEEEeee
Q psy5929 98 FNWDPNKE--TGVYIKVNCI 115 (286)
Q Consensus 98 F~Wdp~~e--a~I~IrvNCL 115 (286)
|.|.+... -.|.++.=.+
T Consensus 104 ~~W~AP~~~~g~V~fraTvv 123 (132)
T PF02014_consen 104 FTWTAPADFSGCVTFRATVV 123 (132)
T ss_dssp EEEE--STTS-EEEEEEEEE
T ss_pred EEEcCCCCCCceEEEEEEEE
Confidence 99987443 4566655443
No 5
>cd08544 Reeler Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins. This domain is found at the N-terminus of F-spondin, a protein attached to the extracellular matrix, which plays roles in neuronal development and vascular remodelling. The F-spondin reeler domain has been reported to bind heparin. The reeler domain is also found at the N-terminus of reelin, an extracellular glycoprotein involved in the development of the brain cortex, and in a variety of other eukaryotic proteins with different domain architectures, including the animal ferric-chelate reductase 1 or stromal cell-derived receptor 2, a member of the cytochrome B561 family, which reduces ferric iron before its transport from the endosome to the cytoplasm. Also included is the insect putative defense protein 1, which is expressed upon bacterial infection and appears to contain a single reeler domain.
Probab=43.66 E-value=1.2e+02 Score=24.76 Aligned_cols=84 Identities=13% Similarity=0.257 Sum_probs=48.9
Q ss_pred cCCceEEEEEeecCCCceeEeEEEEEEEecCccccChHHHhhcccccCC-CCcEEEEeccCcccccccccCccccceEEE
Q psy5929 20 NQGQSYELKLKQDCGVKCLLMSVIRVSFHDRRLQYTEREQMCVWRAAHP-GHRILEVDLPLSYGIHDVLQDSATVNSVQF 98 (286)
Q Consensus 20 NKGQ~Y~ItL~d~~~~~~~vKSvIrV~F~d~k~r~~e~eq~~~W~~w~p-g~RiLdID~~~S~Gi~d~~~~~~~lNavsF 98 (286)
.-|+.|.|+|..... ..+|-+..-..... ..+.+-.|..... +-++++-.-. ...+.+. ....-..++|
T Consensus 31 ~pG~~~~Vtl~~~~~--~~F~GF~lqAr~~~-----~~~~vG~f~~~~~~~tk~~~c~~~-~~avtH~--~~~~k~~v~~ 100 (135)
T cd08544 31 VPGETYTVTLSGSSP--SPFRGFLLQARDAS-----SNEPVGTFQLPPDSGTKLLTCCGS-DNAVTHS--NNSKKTSVTF 100 (135)
T ss_pred CCCCEEEEEEECCCC--CceeEEEEEEEcCC-----CCcceEEEEeCCCcccEEecCCCC-CCcceeC--CCCCCceeEE
Confidence 479999999976532 35677665554433 1234667777655 6666552211 1233332 4556778999
Q ss_pred EecCCCc--eeEEEEEe
Q psy5929 99 NWDPNKE--TGVYIKVN 113 (286)
Q Consensus 99 ~Wdp~~e--a~I~IrvN 113 (286)
.|.+.++ ..|.++.-
T Consensus 101 ~W~AP~~~~g~V~F~aT 117 (135)
T cd08544 101 TWTAPSNGSGCVTFRAT 117 (135)
T ss_pred EEECCCCCCccEEEEEE
Confidence 9987554 33554443
No 6
>PF08850 DUF1820: Domain of unknown function (DUF1820); InterPro: IPR014949 This protein includes small functionally uncharacterised proteins of around 100 amino acids in length.
Probab=26.08 E-value=1.7e+02 Score=24.48 Aligned_cols=36 Identities=22% Similarity=0.450 Sum_probs=22.6
Q ss_pred ceeEecCCceEEEEEeecCCCcee-EeEEEEEEEecC
Q psy5929 15 DLTYLNQGQSYELKLKQDCGVKCL-LMSVIRVSFHDR 50 (286)
Q Consensus 15 plTYLNKGQ~Y~ItL~d~~~~~~~-vKSvIrV~F~d~ 50 (286)
.++|+|+||-|+|-...-.+.... +-.+=-++|.++
T Consensus 5 rV~F~n~~kvyelyAr~v~~s~l~GFieIed~vF~e~ 41 (100)
T PF08850_consen 5 RVQFINQGKVYELYARSVYQSDLYGFIEIEDFVFGER 41 (100)
T ss_pred EEEEEeCCEEEEEEEEEecCCCceeEEEeEEEEEcCc
Confidence 478999999999988773222111 233334566665
No 7
>PHA02104 hypothetical protein
Probab=22.85 E-value=47 Score=26.78 Aligned_cols=16 Identities=38% Similarity=0.304 Sum_probs=12.1
Q ss_pred EEEEEeeeecccCCCC
Q psy5929 108 VYIKVNCISTEFTPKK 123 (286)
Q Consensus 108 I~IrvNCLSTDFS~~K 123 (286)
=.|+||.||||--.-|
T Consensus 18 ~ni~vnllstd~eqik 33 (89)
T PHA02104 18 RNIHVNLLSTDPEQVK 33 (89)
T ss_pred CceEEEEecCCHHHhh
Confidence 3689999999955433
No 8
>COG1851 Uncharacterized conserved protein [Function unknown]
Probab=22.19 E-value=31 Score=32.15 Aligned_cols=17 Identities=29% Similarity=0.632 Sum_probs=15.6
Q ss_pred eeecccCCCCCCcccCcee
Q psy5929 114 CISTEFTPKKHGGEKGVPF 132 (286)
Q Consensus 114 CLSTDFS~~KhGGvKGVPf 132 (286)
-|+|||+.+. |.+|+|+
T Consensus 142 Glttefykqn--g~~~~PL 158 (229)
T COG1851 142 GLTTEFYKQN--GFESIPL 158 (229)
T ss_pred cchhhhhhhc--CcCCCCC
Confidence 5799999998 9999998
No 9
>PLN02415 uricase
Probab=20.63 E-value=51 Score=32.24 Aligned_cols=28 Identities=18% Similarity=0.239 Sum_probs=24.4
Q ss_pred cceeeccceeeeeeccCCcCCCcccccccc
Q psy5929 246 GRWHEVEDLAVAVVGNLSGDFDDNFTEGLG 275 (286)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 275 (286)
|++|++-++-|.|. |.|||+..||+|=.
T Consensus 26 ~~~H~i~e~~V~v~--L~Gd~~~syt~gDN 53 (304)
T PLN02415 26 GGIHHFVEWNVSIS--LLSDCLPAYVRDDN 53 (304)
T ss_pred CCceEEEEEEEEEE--EeecchhheecCCC
Confidence 68999999998885 79999999999853
No 10
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=18.71 E-value=4.1e+02 Score=21.87 Aligned_cols=60 Identities=28% Similarity=0.368 Sum_probs=35.9
Q ss_pred CceEEEEEeecCCCceeEeEEEEEEEecCcc--ccChHHHhhccccc--CCCCcEEEEeccCccccccc
Q psy5929 22 GQSYELKLKQDCGVKCLLMSVIRVSFHDRRL--QYTEREQMCVWRAA--HPGHRILEVDLPLSYGIHDV 86 (286)
Q Consensus 22 GQ~Y~ItL~d~~~~~~~vKSvIrV~F~d~k~--r~~e~eq~~~W~~w--~pg~RiLdID~~~S~Gi~d~ 86 (286)
|+..-..+....+. |.|||.|.+... ...=.+.+...--. -...++++|++|.+.+...+
T Consensus 39 g~~~~~~~v~~sGn-----sTiRv~~~~~~~~~~~~v~~~l~~lG~~~E~~~~~~lav~VP~~~~~~~i 102 (117)
T PF14085_consen 39 GELWFQKVVESSGN-----STIRVIFDDPGPDDIEAVREELEALGCTVEGFSERMLAVDVPPSVDFDAI 102 (117)
T ss_pred CeEEEEEEEecCCC-----EEEEEEEcCCcchhHHHHHHHHHHcCCeEEccCCCEEEEEECCCCCHHHH
Confidence 55555555544444 889999998876 11112223322111 13349999999999887654
Done!