Query 006983
Match_columns 623
No_of_seqs 170 out of 187
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 17:16:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006983.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006983hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00612 IQ: IQ calmodulin-bin 95.9 0.0059 1.3E-07 40.4 2.1 20 129-148 1-20 (21)
2 smart00015 IQ Short calmodulin 94.2 0.041 9E-07 37.9 2.4 21 128-148 2-22 (26)
3 TIGR03300 assembly_YfgL outer 67.1 17 0.00036 37.6 6.9 50 311-360 320-376 (377)
4 PRK11138 outer membrane biogen 58.6 27 0.00059 36.7 6.8 51 311-361 335-392 (394)
5 PF08763 Ca_chan_IQ: Voltage g 57.6 8.6 0.00019 29.6 2.1 21 128-148 8-28 (35)
6 PF13360 PQQ_2: PQQ-like domai 57.0 28 0.00062 32.7 6.0 75 290-367 12-98 (238)
7 PRK11138 outer membrane biogen 54.4 36 0.00077 35.8 6.8 56 311-366 294-356 (394)
8 TIGR03300 assembly_YfgL outer 51.6 49 0.0011 34.2 7.2 83 284-367 78-167 (377)
9 TIGR02150 IPP_isom_1 isopenten 49.2 77 0.0017 29.7 7.5 60 311-392 29-89 (158)
10 cd02885 IPP_Isomerase Isopente 46.9 62 0.0013 30.3 6.5 80 294-393 6-95 (165)
11 PF13360 PQQ_2: PQQ-like domai 43.7 37 0.00079 31.9 4.5 82 284-366 49-143 (238)
12 PF02375 JmjN: jmjN domain; I 42.7 12 0.00027 28.2 0.9 17 367-383 3-19 (34)
13 KOG0377 Protein serine/threoni 42.3 15 0.00033 41.7 2.0 22 129-150 17-38 (631)
14 PF01453 B_lectin: D-mannose b 40.3 1.3E+02 0.0028 27.2 7.3 67 282-349 19-90 (114)
15 KOG4427 E3 ubiquitin protein l 39.7 18 0.00038 43.4 2.0 23 128-150 29-51 (1096)
16 cd04970 Ig6_Contactin_like Six 36.2 89 0.0019 25.6 5.2 60 292-353 18-82 (85)
17 smart00701 PGRP Animal peptido 34.7 1.1E+02 0.0024 28.9 6.2 62 307-382 59-122 (142)
18 PF13344 Hydrolase_6: Haloacid 34.6 18 0.00039 31.9 0.8 63 315-393 1-63 (101)
19 cd00148 PROF Profilin binds ac 31.4 33 0.00071 31.6 2.1 60 337-399 9-75 (127)
20 KOG0942 E3 ubiquitin protein l 31.0 25 0.00055 42.7 1.5 21 128-148 28-48 (1001)
21 PF13570 PQQ_3: PQQ-like domai 29.3 59 0.0013 23.8 2.7 15 312-326 22-36 (40)
22 smart00108 B_lectin Bulb-type 29.0 1.5E+02 0.0032 26.3 5.6 15 313-327 56-70 (114)
23 PF15537 Toxin_59: Putative to 28.4 57 0.0012 31.3 3.1 57 311-368 50-115 (125)
24 cd00028 B_lectin Bulb-type man 28.2 2.1E+02 0.0045 25.5 6.5 17 311-327 55-71 (116)
25 PRK03759 isopentenyl-diphospha 27.7 1.6E+02 0.0035 28.3 6.1 59 313-391 38-97 (184)
26 PF00235 Profilin: Profilin; 27.1 28 0.00061 31.0 0.8 59 337-399 9-74 (121)
27 COG4632 EpsL Exopolysaccharide 27.0 86 0.0019 33.9 4.4 63 285-356 156-220 (320)
28 smart00545 JmjN Small domain f 25.6 44 0.00096 26.3 1.5 27 367-393 5-34 (42)
29 cd05853 Ig6_Contactin-4 Sixth 23.1 1.5E+02 0.0033 25.7 4.6 58 292-353 18-82 (85)
30 cd05854 Ig6_Contactin-2 Sixth 23.1 1.8E+02 0.0038 24.5 4.8 60 292-353 18-82 (85)
31 cd04678 Nudix_Hydrolase_19 Mem 22.6 2.5E+02 0.0055 24.5 5.9 61 311-394 4-65 (129)
32 PF13128 DUF3954: Protein of u 22.2 90 0.0019 25.9 2.7 20 347-366 10-30 (50)
No 1
>PF00612 IQ: IQ calmodulin-binding motif; InterPro: IPR000048 The IQ motif is an extremely basic unit of about 23 amino acids, whose conserved core usually fits the consensus A-x(3)-I-Q-x(2)-F-R-x(4)-K-K. The IQ motif, which can be present in one or more copies, serves as a binding site for different EF-hand proteins including the essential and regulatory myosin light chains, calmodulin (CaM), and CaM-like proteins [, ].Many IQ motifs are protein kinase C (PKC) phosphorylation sites [, ]. Resolution of the 3D structure of scallop myosin has shown that the IQ motif forms a basic amphipathic helix []. Some proteins known to contain an IQ motif are listed below: A number of conventional and unconventional myosins. Neuromodulin (GAP-43). This protein is associated with nerve growth. It is a major component of the motile "growth cones" that form the tips of elongating axons. Neurogranin (NG/p17). Acts as a "third messenger" substrate of protein kinase C-mediated molecular cascades during synaptic development and remodeling. Sperm surface protein Sp17. Ras GTPase-activating-like protein IQGAP1. IQGAP1 contains 4 IQ motifs. This entry covers the entire IQ motif.; GO: 0005515 protein binding; PDB: 2DFS_A 2IX7_C 1OE9_A 1W7J_A 1W7I_A 1KQM_A 1KK7_A 1WDC_A 1DFL_A 1B7T_A ....
Probab=95.90 E-value=0.0059 Score=40.35 Aligned_cols=20 Identities=25% Similarity=0.537 Sum_probs=18.1
Q ss_pred HHHHHHHHHhhhhhhhhhhc
Q 006983 129 YQAALRLQKVYKSFRTRRRL 148 (623)
Q Consensus 129 ~~AA~~iQk~Yr~yRtRR~L 148 (623)
++||++||+.||+|..|+++
T Consensus 1 ~~aai~iQ~~~R~~~~Rk~~ 20 (21)
T PF00612_consen 1 RKAAIIIQSYWRGYLARKRY 20 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHhc
Confidence 46999999999999999975
No 2
>smart00015 IQ Short calmodulin-binding motif containing conserved Ile and Gln residues. Calmodulin-binding motif.
Probab=94.17 E-value=0.041 Score=37.87 Aligned_cols=21 Identities=24% Similarity=0.487 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhhhhhhhhhhc
Q 006983 128 RYQAALRLQKVYKSFRTRRRL 148 (623)
Q Consensus 128 ~~~AA~~iQk~Yr~yRtRR~L 148 (623)
...||++||+.||||..|++.
T Consensus 2 ~~~aa~~IQa~~Rg~~~r~~y 22 (26)
T smart00015 2 LTRAAIIIQAAWRGYLARKRY 22 (26)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 357999999999999999986
No 3
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=67.11 E-value=17 Score=37.57 Aligned_cols=50 Identities=20% Similarity=0.173 Sum_probs=34.1
Q ss_pred CeEEEEEeCCCceEEeeccCCCccccc-----cCCCCcccceeeEEEe--cCeEEEe
Q 006983 311 TKWIFVLSTSKTLYVGQKIKGNFQHSS-----FLAGGATLSAGRLVVD--NGYLKAI 360 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~KkkG~FQHSS-----FLaGg~V~AAG~I~Vk--nG~Ik~I 360 (623)
+..|||.+.+|.||+-....|.+.-+. -....++++-|.|.|- ||.|..+
T Consensus 320 g~~l~~~~~~G~l~~~d~~tG~~~~~~~~~~~~~~~sp~~~~~~l~v~~~dG~l~~~ 376 (377)
T TIGR03300 320 GGYLVVGDFEGYLHWLSREDGSFVARLKTDGSGIASPPVVVGDGLLVQTRDGDLYAF 376 (377)
T ss_pred CCEEEEEeCCCEEEEEECCCCCEEEEEEcCCCccccCCEEECCEEEEEeCCceEEEe
Confidence 446899999999999887777765332 2334455566666655 7877665
No 4
>PRK11138 outer membrane biogenesis protein BamB; Provisional
Probab=58.59 E-value=27 Score=36.66 Aligned_cols=51 Identities=16% Similarity=0.227 Sum_probs=34.7
Q ss_pred CeEEEEEeCCCceEEeeccCCCccccccC-----CCCcccceeeEEEe--cCeEEEec
Q 006983 311 TKWIFVLSTSKTLYVGQKIKGNFQHSSFL-----AGGATLSAGRLVVD--NGYLKAIW 361 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~KkkG~FQHSSFL-----aGg~V~AAG~I~Vk--nG~Ik~Is 361 (623)
+..|||.+.+|.||+=....|.+.-+.-+ ...++++-|+|.|- +|.|..|.
T Consensus 335 ~g~l~v~~~~G~l~~ld~~tG~~~~~~~~~~~~~~s~P~~~~~~l~v~t~~G~l~~~~ 392 (394)
T PRK11138 335 NGYLVVGDSEGYLHWINREDGRFVAQQKVDSSGFLSEPVVADDKLLIQARDGTVYAIT 392 (394)
T ss_pred CCEEEEEeCCCEEEEEECCCCCEEEEEEcCCCcceeCCEEECCEEEEEeCCceEEEEe
Confidence 34589999999999866666765433322 23466677777776 78887775
No 5
>PF08763 Ca_chan_IQ: Voltage gated calcium channel IQ domain; InterPro: IPR014873 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. The voltage-gated calcium channel alpha 1 subunit contains an IQ domain, named for its isoleucine-glutamine (IQ) motif, which interacts with hydrophobic pockets of Ca2+/calmodulin []. The interaction regulates two self-regulatory calcium dependent feedback mechanisms, calcium dependent inactivation (CDI), and calcium-dependent facilitation (CDF). ; PDB: 3OXQ_F 2F3Z_B 3G43_E 2F3Y_B 2BE6_D 3DVM_B 3BXK_D 2VAY_B 3DVK_B 3BXL_B ....
Probab=57.56 E-value=8.6 Score=29.61 Aligned_cols=21 Identities=24% Similarity=0.632 Sum_probs=18.1
Q ss_pred HHHHHHHHHHhhhhhhhhhhc
Q 006983 128 RYQAALRLQKVYKSFRTRRRL 148 (623)
Q Consensus 128 ~~~AA~~iQk~Yr~yRtRR~L 148 (623)
+-=||..||..||.|+.||+-
T Consensus 8 K~YAt~lI~dyfr~~K~rk~~ 28 (35)
T PF08763_consen 8 KFYATLLIQDYFRQFKKRKEQ 28 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445999999999999999873
No 6
>PF13360 PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A 3Q54_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A ....
Probab=56.97 E-value=28 Score=32.67 Aligned_cols=75 Identities=24% Similarity=0.364 Sum_probs=50.0
Q ss_pred CCeEEEccC-----Ccee-eCCCCCCCCeEEEEEeCCCceEEeeccCCCccccccCCC----CcccceeeEEEe--cCeE
Q 006983 290 DGKLIYKKS-----GTVL-DSTKGPKDTKWIFVLSTSKTLYVGQKIKGNFQHSSFLAG----GATLSAGRLVVD--NGYL 357 (623)
Q Consensus 290 dGrL~yk~s-----Gelv-DTt~~~k~~kWIFVmDtsg~LYVG~KkkG~FQHSSFLaG----g~V~AAG~I~Vk--nG~I 357 (623)
+|+.+|... +..+ .+.. ++..+||.+.++.||+=....|....+.=+.+ .++...|.|.|- +|.|
T Consensus 12 tG~~~W~~~~~~~~~~~~~~~~~---~~~~v~~~~~~~~l~~~d~~tG~~~W~~~~~~~~~~~~~~~~~~v~v~~~~~~l 88 (238)
T PF13360_consen 12 TGKELWSYDLGPGIGGPVATAVP---DGGRVYVASGDGNLYALDAKTGKVLWRFDLPGPISGAPVVDGGRVYVGTSDGSL 88 (238)
T ss_dssp TTEEEEEEECSSSCSSEEETEEE---ETTEEEEEETTSEEEEEETTTSEEEEEEECSSCGGSGEEEETTEEEEEETTSEE
T ss_pred CCCEEEEEECCCCCCCccceEEE---eCCEEEEEcCCCEEEEEECCCCCEEEEeeccccccceeeecccccccccceeee
Confidence 799998862 2223 1221 46679999999999998876676544333322 245566676655 7899
Q ss_pred EEecCCCCCC
Q 006983 358 KAIWPHSGHY 367 (623)
Q Consensus 358 k~Isp~SGHY 367 (623)
..|...+|+-
T Consensus 89 ~~~d~~tG~~ 98 (238)
T PF13360_consen 89 YALDAKTGKV 98 (238)
T ss_dssp EEEETTTSCE
T ss_pred EecccCCcce
Confidence 9999999986
No 7
>PRK11138 outer membrane biogenesis protein BamB; Provisional
Probab=54.42 E-value=36 Score=35.82 Aligned_cols=56 Identities=27% Similarity=0.319 Sum_probs=39.5
Q ss_pred CeEEEEEeCCCceEEeeccCCCccc-cccC----CCCcccceeeEEEe--cCeEEEecCCCCC
Q 006983 311 TKWIFVLSTSKTLYVGQKIKGNFQH-SSFL----AGGATLSAGRLVVD--NGYLKAIWPHSGH 366 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~KkkG~FQH-SSFL----aGg~V~AAG~I~Vk--nG~Ik~Isp~SGH 366 (623)
+..|||.+.+|.||+=..+.|...= ...+ ...++++-|.|.+- +|.|..|++..|.
T Consensus 294 ~~~vy~~~~~g~l~ald~~tG~~~W~~~~~~~~~~~sp~v~~g~l~v~~~~G~l~~ld~~tG~ 356 (394)
T PRK11138 294 GGRIYLVDQNDRVYALDTRGGVELWSQSDLLHRLLTAPVLYNGYLVVGDSEGYLHWINREDGR 356 (394)
T ss_pred CCEEEEEcCCCeEEEEECCCCcEEEcccccCCCcccCCEEECCEEEEEeCCCEEEEEECCCCC
Confidence 5579999999999998766664421 1112 24566777887775 7899999888875
No 8
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=51.59 E-value=49 Score=34.18 Aligned_cols=83 Identities=19% Similarity=0.234 Sum_probs=46.9
Q ss_pred eEEEEeCCeEEEccC-CceeeCCCCCCCCeEEEEEeCCCceEEeeccCCCccccccCC----CCcccceeeEEEe--cCe
Q 006983 284 YEVRIEDGKLIYKKS-GTVLDSTKGPKDTKWIFVLSTSKTLYVGQKIKGNFQHSSFLA----GGATLSAGRLVVD--NGY 356 (623)
Q Consensus 284 YeViIedGrL~yk~s-GelvDTt~~~k~~kWIFVmDtsg~LYVG~KkkG~FQHSSFLa----Gg~V~AAG~I~Vk--nG~ 356 (623)
|-+-..+|+++|..+ +..+...- --++..+||-+.+|+||+=....|.....-=+. ..+++..|.+.+- +|.
T Consensus 78 ~a~d~~tG~~~W~~~~~~~~~~~p-~v~~~~v~v~~~~g~l~ald~~tG~~~W~~~~~~~~~~~p~v~~~~v~v~~~~g~ 156 (377)
T TIGR03300 78 VALDAETGKRLWRVDLDERLSGGV-GADGGLVFVGTEKGEVIALDAEDGKELWRAKLSSEVLSPPLVANGLVVVRTNDGR 156 (377)
T ss_pred EEEEccCCcEeeeecCCCCcccce-EEcCCEEEEEcCCCEEEEEECCCCcEeeeeccCceeecCCEEECCEEEEECCCCe
Confidence 333334677777643 11111110 013567888888899998665555443321111 2244445566554 789
Q ss_pred EEEecCCCCCC
Q 006983 357 LKAIWPHSGHY 367 (623)
Q Consensus 357 Ik~Isp~SGHY 367 (623)
|..|+..+|.-
T Consensus 157 l~a~d~~tG~~ 167 (377)
T TIGR03300 157 LTALDAATGER 167 (377)
T ss_pred EEEEEcCCCce
Confidence 99999999863
No 9
>TIGR02150 IPP_isom_1 isopentenyl-diphosphate delta-isomerase, type 1. This model represents type 1 of two non-homologous families of the enzyme isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP is an essential building block for many compounds, including enzyme cofactors, sterols, and prenyl groups. This inzyme interconverts isopentenyl diphosphate and dimethylallyl diphosphate.
Probab=49.16 E-value=77 Score=29.72 Aligned_cols=60 Identities=23% Similarity=0.283 Sum_probs=40.5
Q ss_pred CeEEEEEeCCCceEEeeccCCCccccccCCCCcccceeeEEEecCeEEEecCCCCCCCCCHHHHHHHHHHHHH-cCCCCC
Q 006983 311 TKWIFVLSTSKTLYVGQKIKGNFQHSSFLAGGATLSAGRLVVDNGYLKAIWPHSGHYLPTEENFQAFMSFLRE-HNVDLT 389 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~KkkG~FQHSSFLaGg~V~AAG~I~VknG~Ik~Isp~SGHYRPT~eNf~~Fl~~Lke-~GVDLs 389 (623)
...++|++.+|++++.++..+.+ ...|.....+| ||--+++ ....++.|+| -|+++.
T Consensus 29 ~v~v~v~~~~g~vLl~kR~~~k~----~~PG~W~~~~g----------------G~v~~GE--~eaa~REl~EE~Gl~~~ 86 (158)
T TIGR02150 29 AFSVFLFNEEGQLLLQRRALSKI----TWPGVWTNSCC----------------SHPLPGE--LEAAIRRLREELGIPAD 86 (158)
T ss_pred EEEEEEEcCCCeEEEEeccCCCc----CCCCCcccccc----------------CCCCccc--HHHHHHHHHHHHCCCcc
Confidence 44589999999999987654332 22444443333 6777776 3778888776 799988
Q ss_pred Cee
Q 006983 390 NVK 392 (623)
Q Consensus 390 ~Vk 392 (623)
.+.
T Consensus 87 ~~~ 89 (158)
T TIGR02150 87 DVP 89 (158)
T ss_pred ccc
Confidence 765
No 10
>cd02885 IPP_Isomerase Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated proteins. These compounds are synthesized from two precursors: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). IPP isomerase catalyzes the interconversion of IPP and DMAPP by a stereoselective antarafacial transposition of hydrogen. The enzyme requires one Mn2+ or Mg2+ ion in its active site to fold into an active conformation and also contains the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as a metal binding and catalytic site. The metal binding site is present within the active site and plays structural and catalytical roles. IPP isomerase is well represented in several bacteria, archaebacteria and eukaryotes, including fungi, mamm
Probab=46.86 E-value=62 Score=30.34 Aligned_cols=80 Identities=15% Similarity=0.188 Sum_probs=51.9
Q ss_pred EEccCCceeeCCCCC---CCCe------EEEEEeCCCceEEeeccCCCccccccCCCCcccceeeEEEecCeEEEecCCC
Q 006983 294 IYKKSGTVLDSTKGP---KDTK------WIFVLSTSKTLYVGQKIKGNFQHSSFLAGGATLSAGRLVVDNGYLKAIWPHS 364 (623)
Q Consensus 294 ~yk~sGelvDTt~~~---k~~k------WIFVmDtsg~LYVG~KkkG~FQHSSFLaGg~V~AAG~I~VknG~Ik~Isp~S 364 (623)
+|+++|+++.+.... ..+- .++|.+.+|++++.....+... +.|.....+ +
T Consensus 6 ~~d~~~~~~g~~~r~~~~~~~~~~~~~v~v~i~~~~~~iLl~kR~~~~~~----~Pg~w~~~~----------------g 65 (165)
T cd02885 6 LVDEDDNPIGTAEKLEAHLKGTLLHRAFSVFLFNSKGRLLLQRRALSKYT----FPGLWTNTC----------------C 65 (165)
T ss_pred EECCCCCCccccCHHHHhhcCCcceeEEEEEEEcCCCcEEEEeccCCCcc----CCCcccccc----------------c
Confidence 466677666654421 1222 4889999999999876543322 233332222 3
Q ss_pred CCCCCCHHHHHHHHHHHHH-cCCCCCCeee
Q 006983 365 GHYLPTEENFQAFMSFLRE-HNVDLTNVKK 393 (623)
Q Consensus 365 GHYRPT~eNf~~Fl~~Lke-~GVDLs~Vki 393 (623)
||-.|.+.-...+++.++| -|+....+.+
T Consensus 66 G~ie~GEt~~eaa~REl~EEtGl~~~~~~~ 95 (165)
T cd02885 66 SHPLPGEGVKDAAQRRLREELGITGDLLEL 95 (165)
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCccchhh
Confidence 8999998888899998887 6997765443
No 11
>PF13360 PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A 3Q54_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A ....
Probab=43.66 E-value=37 Score=31.94 Aligned_cols=82 Identities=23% Similarity=0.394 Sum_probs=43.7
Q ss_pred eEEEEeCCeEEEccCC-ceeeCCCCCCCCeEEEEEeCCCceEEeeccCCCccccccC---------CCCccccee-eEEE
Q 006983 284 YEVRIEDGKLIYKKSG-TVLDSTKGPKDTKWIFVLSTSKTLYVGQKIKGNFQHSSFL---------AGGATLSAG-RLVV 352 (623)
Q Consensus 284 YeViIedGrL~yk~sG-elvDTt~~~k~~kWIFVmDtsg~LYVG~KkkG~FQHSSFL---------aGg~V~AAG-~I~V 352 (623)
|-+-+.+|+++|..+- ..+.... .-.+.-|||.+.++.||+=..+.|........ ........| .+.+
T Consensus 49 ~~~d~~tG~~~W~~~~~~~~~~~~-~~~~~~v~v~~~~~~l~~~d~~tG~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 (238)
T PF13360_consen 49 YALDAKTGKVLWRFDLPGPISGAP-VVDGGRVYVGTSDGSLYALDAKTGKVLWSIYLTSSPPAGVRSSSSPAVDGDRLYV 127 (238)
T ss_dssp EEEETTTSEEEEEEECSSCGGSGE-EEETTEEEEEETTSEEEEEETTTSCEEEEEEE-SSCTCSTB--SEEEEETTEEEE
T ss_pred EEEECCCCCEEEEeecccccccee-eecccccccccceeeeEecccCCcceeeeeccccccccccccccCceEecCEEEE
Confidence 3333346777777541 1111110 01244589998888899887677776665311 111222222 2222
Q ss_pred e--cCeEEEecCCCCC
Q 006983 353 D--NGYLKAIWPHSGH 366 (623)
Q Consensus 353 k--nG~Ik~Isp~SGH 366 (623)
- +|.|..|.+..|.
T Consensus 128 ~~~~g~l~~~d~~tG~ 143 (238)
T PF13360_consen 128 GTSSGKLVALDPKTGK 143 (238)
T ss_dssp EETCSEEEEEETTTTE
T ss_pred EeccCcEEEEecCCCc
Confidence 2 6888888877774
No 12
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=42.66 E-value=12 Score=28.23 Aligned_cols=17 Identities=24% Similarity=0.640 Sum_probs=11.7
Q ss_pred CCCCHHHHHHHHHHHHH
Q 006983 367 YLPTEENFQAFMSFLRE 383 (623)
Q Consensus 367 YRPT~eNf~~Fl~~Lke 383 (623)
|+||.++|..|++|++.
T Consensus 3 f~Pt~eEF~dp~~yi~~ 19 (34)
T PF02375_consen 3 FYPTMEEFKDPIKYISS 19 (34)
T ss_dssp E---HHHHS-HHHHHHH
T ss_pred ccCCHHHHhCHHHHHHH
Confidence 68999999999999876
No 13
>KOG0377 consensus Protein serine/threonine phosphatase RDGC/PPEF, contains STphosphatase and EF-hand domains [Signal transduction mechanisms]
Probab=42.33 E-value=15 Score=41.70 Aligned_cols=22 Identities=27% Similarity=0.448 Sum_probs=19.2
Q ss_pred HHHHHHHHHhhhhhhhhhhccC
Q 006983 129 YQAALRLQKVYKSFRTRRRLAD 150 (623)
Q Consensus 129 ~~AA~~iQk~Yr~yRtRR~Lad 150 (623)
-+||+.|||-||+|-.|+++.-
T Consensus 17 ikaAilIQkWYRr~~ARle~rr 38 (631)
T KOG0377|consen 17 IKAAILIQKWYRRYEARLEARR 38 (631)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5699999999999999988653
No 14
>PF01453 B_lectin: D-mannose binding lectin; InterPro: IPR001480 A bulb lectin super-family (Amaryllidaceae, Orchidaceae and Aliaceae) contains a ~115-residue-long domain whose overall three dimensional fold is very similar to that of [, ]: Dictyostelium discoideum comitin, an actin binding protein Curculigo latifolia curculin, a sweet tasting and taste-modifying protein This domain generally binds mannose, but in at least one protein, curculin, it is apparently devoid of mannose-binding activity. Each bulb-type lectin domain consists of three sequential beta-sheet subdomains (I, II, III) that are inter-related by pseudo three-fold symmetry. The three subdomains are flat four-stranded, antiparrallel beta-sheets. Together they form a 12-stranded beta-barrel in which the barrel axis coincides with the pseudo 3-fold axis.; GO: 0005529 sugar binding; PDB: 3M7H_A 3M7J_B 3MEZ_D 1DLP_A 1BWU_D 1KJ1_A 1B2P_A 1XD6_A 2DPF_C 2D04_B ....
Probab=40.28 E-value=1.3e+02 Score=27.17 Aligned_cols=67 Identities=27% Similarity=0.421 Sum_probs=42.4
Q ss_pred cceEEEEe-CCeEE-EccCCceeeCC-CCC-CC-CeEEEEEeCCCceEEeeccCCCccccccCCCCcccceee
Q 006983 282 MEYEVRIE-DGKLI-YKKSGTVLDST-KGP-KD-TKWIFVLSTSKTLYVGQKIKGNFQHSSFLAGGATLSAGR 349 (623)
Q Consensus 282 e~YeViIe-dGrL~-yk~sGelvDTt-~~~-k~-~kWIFVmDtsg~LYVG~KkkG~FQHSSFLaGg~V~AAG~ 349 (623)
..|.+++. ||.|+ |..+|..+..+ ... .. ....-+|..+|+|.+-.. .|..-=+||-....++..|+
T Consensus 19 ~~~~L~l~~dGnLvl~~~~~~~iWss~~t~~~~~~~~~~~L~~~GNlvl~d~-~~~~lW~Sf~~ptdt~L~~q 90 (114)
T PF01453_consen 19 GNYTLILQSDGNLVLYDSNGSVIWSSNNTSGRGNSGCYLVLQDDGNLVLYDS-SGNVLWQSFDYPTDTLLPGQ 90 (114)
T ss_dssp TTEEEEEETTSEEEEEETTTEEEEE--S-TTSS-SSEEEEEETTSEEEEEET-TSEEEEESTTSSS-EEEEEE
T ss_pred ccccceECCCCeEEEEcCCCCEEEEecccCCccccCeEEEEeCCCCEEEEee-cceEEEeecCCCccEEEecc
Confidence 45888886 99884 77776777544 211 12 355667777899999874 55555566777766655554
No 15
>KOG4427 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.67 E-value=18 Score=43.44 Aligned_cols=23 Identities=35% Similarity=0.460 Sum_probs=20.5
Q ss_pred HHHHHHHHHHhhhhhhhhhhccC
Q 006983 128 RYQAALRLQKVYKSFRTRRRLAD 150 (623)
Q Consensus 128 ~~~AA~~iQk~Yr~yRtRR~Lad 150 (623)
+.+||..||++.|||=+|+++++
T Consensus 29 r~~aa~~iq~~lrsyl~Rkk~~~ 51 (1096)
T KOG4427|consen 29 REAAALFIQRVLRSYLVRKKAQI 51 (1096)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56799999999999999999765
No 16
>cd04970 Ig6_Contactin_like Sixth Ig domain of contactin. Ig6_Contactin_like: Sixth Ig domain of contactins. Contactins are neural cell adhesion molecules and are comprised of six Ig domains followed by four fibronectin type III(FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module via contacts between Ig domains 1 and 4, and between Ig domains 2 and 3. Contactin-2 (TAG-1, axonin-1) may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. This group also includes contactin-1 and contactin-5. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-5 is expressed specifically in the rat postnatal nervous system, peaking at about 3 week
Probab=36.17 E-value=89 Score=25.65 Aligned_cols=60 Identities=13% Similarity=0.184 Sum_probs=39.9
Q ss_pred eEEEccCCceeeCCCCCCCCe--EEEEEeCCCceEEee---ccCCCccccccCCCCcccceeeEEEe
Q 006983 292 KLIYKKSGTVLDSTKGPKDTK--WIFVLSTSKTLYVGQ---KIKGNFQHSSFLAGGATLSAGRLVVD 353 (623)
Q Consensus 292 rL~yk~sGelvDTt~~~k~~k--WIFVmDtsg~LYVG~---KkkG~FQHSSFLaGg~V~AAG~I~Vk 353 (623)
.+.|.++|++++.... +.. -+++....|.|.|-. ...|.+...--...|.+.+...|.|.
T Consensus 18 ~~~W~~~g~~i~~~~~--~~~~~~~~~~~~~~~L~I~~v~~~D~G~Y~C~a~n~~g~~~~~~~l~V~ 82 (85)
T cd04970 18 TFTWSFNGVPIDFDKD--GGHYRRVGGKDSNGDLMIRNAQLKHAGKYTCTAQTVVDSLSASADLIVR 82 (85)
T ss_pred EEEEEECCeEeeccCC--CccEEEEecccccceEEEccCCHHhCeeeEEEEecCCCcEEEEEEEEEE
Confidence 4578899998876431 222 245556678999976 56788887654445556677777765
No 17
>smart00701 PGRP Animal peptidoglycan recognition proteins homologous to Bacteriophage T3 lysozyme. The bacteriophage molecule, but not its moth homologue, has been shown to have N-acetylmuramoyl-L-alanine amidase activity. One member of this family, Tag7, is a cytokine.
Probab=34.67 E-value=1.1e+02 Score=28.89 Aligned_cols=62 Identities=23% Similarity=0.311 Sum_probs=35.0
Q ss_pred CCCCCeEEEEEeCCCceEEeecc--CCCccccccCCCCcccceeeEEEecCeEEEecCCCCCCCCCHHHHHHHHHHHH
Q 006983 307 GPKDTKWIFVLSTSKTLYVGQKI--KGNFQHSSFLAGGATLSAGRLVVDNGYLKAIWPHSGHYLPTEENFQAFMSFLR 382 (623)
Q Consensus 307 ~~k~~kWIFVmDtsg~LYVG~Kk--kG~FQHSSFLaGg~V~AAG~I~VknG~Ik~Isp~SGHYRPT~eNf~~Fl~~Lk 382 (623)
+..|--+=|+++.+|++|.|..- .|. |.. |- -++.|.|. +--.-..+.||.+++......|.
T Consensus 59 gw~DIgYhflI~~dG~IyeGR~~~~~ga--h~~---g~---N~~sigI~------~iG~~~~~~pt~~q~~al~~Li~ 122 (142)
T smart00701 59 GWCDIGYNFLVGGDGKVYEGRGWNVVGA--HTG---GY---NDISLGIA------FIGNFTDKLPTDAALDAAQDLLA 122 (142)
T ss_pred CCCCcCCeEEEcCCCEEEECCCCCcccc--ccc---CC---CCCeEEEE------EEeCCCCCCCcHHHHHHHHHHHH
Confidence 34566678999999999999742 121 211 10 11222222 22223457999888776665554
No 18
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=34.60 E-value=18 Score=31.91 Aligned_cols=63 Identities=14% Similarity=0.206 Sum_probs=40.9
Q ss_pred EEEeCCCceEEeeccCCCccccccCCCCcccceeeEEEecCeEEEecCCCCCCCCCHHHHHHHHHHHHHcCCCCCCeee
Q 006983 315 FVLSTSKTLYVGQKIKGNFQHSSFLAGGATLSAGRLVVDNGYLKAIWPHSGHYLPTEENFQAFMSFLREHNVDLTNVKK 393 (623)
Q Consensus 315 FVmDtsg~LYVG~KkkG~FQHSSFLaGg~V~AAG~I~VknG~Ik~Isp~SGHYRPT~eNf~~Fl~~Lke~GVDLs~Vki 393 (623)
|++|.+|.||.|.+. +- |++-+--.|+-.+-.+.-++|.|++ .-..+.+.|+..|++.+.=.|
T Consensus 1 ~l~D~dGvl~~g~~~---------ip-ga~e~l~~L~~~g~~~~~lTNns~~------s~~~~~~~L~~~Gi~~~~~~i 63 (101)
T PF13344_consen 1 FLFDLDGVLYNGNEP---------IP-GAVEALDALRERGKPVVFLTNNSSR------SREEYAKKLKKLGIPVDEDEI 63 (101)
T ss_dssp EEEESTTTSEETTEE----------T-THHHHHHHHHHTTSEEEEEES-SSS-------HHHHHHHHHHTTTT--GGGE
T ss_pred CEEeCccEeEeCCCc---------Cc-CHHHHHHHHHHcCCCEEEEeCCCCC------CHHHHHHHHHhcCcCCCcCEE
Confidence 788999999987642 22 3344445555556788899999874 335677788999988655443
No 19
>cd00148 PROF Profilin binds actin monomers, membrane polyphosphoinositides such as PI(4,5)P2, and poly-L-proline. Profilin can inhibit actin polymerization into F-actin by binding to monomeric actin (G-actin) and terminal F-actin subunits, but - as a regulator of the cytoskeleton - it may also promote actin polymerization. It plays a role in the assembly of branched actin filament networks, by activating WASP via binding to WASP's proline rich domain. Profilin may link the cytoskeleton with major signalling pathways by interacting with components of the phosphatidylinositol cycle and Ras pathway.
Probab=31.45 E-value=33 Score=31.65 Aligned_cols=60 Identities=20% Similarity=0.292 Sum_probs=46.0
Q ss_pred ccCCCCcccceeeEEEecCeEEEecCCCCC-CCCCHHHHHHHHHHHHH------cCCCCCCeeeCCCchh
Q 006983 337 SFLAGGATLSAGRLVVDNGYLKAIWPHSGH-YLPTEENFQAFMSFLRE------HNVDLTNVKKSPEEEE 399 (623)
Q Consensus 337 SFLaGg~V~AAG~I~VknG~Ik~Isp~SGH-YRPT~eNf~~Fl~~Lke------~GVDLs~Vki~~~~~~ 399 (623)
.+++.+.+..|..+..++|. +|..|.. +.++.+++..+++.+++ +|+-+..++-..+..|
T Consensus 9 ~L~~~g~~~~aAI~g~d~g~---vwA~s~~~f~~t~~E~~~i~~~f~d~~~~~~~Gi~l~G~KY~~l~~d 75 (127)
T cd00148 9 NLLGTGKVDSAAIVGHDDGS---VWAASAGGFNLTPEEVGTLVAGFKDPDGVFSTGLTLGGQKYMVIRAD 75 (127)
T ss_pred HHhhcCCcCEEEEEecCCCC---eEEecCCCCccCHHHHHHHHHHccCccccccCCEEECCeEEEEEecC
Confidence 46666678888888887687 5888888 99999999999997765 6666666666555444
No 20
>KOG0942 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.00 E-value=25 Score=42.70 Aligned_cols=21 Identities=24% Similarity=0.548 Sum_probs=18.6
Q ss_pred HHHHHHHHHHhhhhhhhhhhc
Q 006983 128 RYQAALRLQKVYKSFRTRRRL 148 (623)
Q Consensus 128 ~~~AA~~iQk~Yr~yRtRR~L 148 (623)
+..+|++||+.+||||.|++-
T Consensus 28 ~e~~av~vQs~~Rg~~~r~~~ 48 (1001)
T KOG0942|consen 28 QEKNAVKVQSFWRGFRVRHNQ 48 (1001)
T ss_pred HhccchHHHHHHHHHHHHHHH
Confidence 456899999999999999984
No 21
>PF13570 PQQ_3: PQQ-like domain; PDB: 3HXJ_B 3Q54_A.
Probab=29.28 E-value=59 Score=23.77 Aligned_cols=15 Identities=20% Similarity=0.275 Sum_probs=10.1
Q ss_pred eEEEEEeCCCceEEe
Q 006983 312 KWIFVLSTSKTLYVG 326 (623)
Q Consensus 312 kWIFVmDtsg~LYVG 326 (623)
..+||.+.+|+||+=
T Consensus 22 g~vyv~~~dg~l~al 36 (40)
T PF13570_consen 22 GRVYVGTGDGNLYAL 36 (40)
T ss_dssp SEEEEE-TTSEEEEE
T ss_pred CEEEEEcCCCEEEEE
Confidence 357888888888763
No 22
>smart00108 B_lectin Bulb-type mannose-specific lectin.
Probab=28.97 E-value=1.5e+02 Score=26.26 Aligned_cols=15 Identities=13% Similarity=0.171 Sum_probs=10.7
Q ss_pred EEEEEeCCCceEEee
Q 006983 313 WIFVLSTSKTLYVGQ 327 (623)
Q Consensus 313 WIFVmDtsg~LYVG~ 327 (623)
..++|+.+|+|++-.
T Consensus 56 ~~l~l~~dGnLvl~~ 70 (114)
T smart00108 56 CTLTLQSDGNLVLYD 70 (114)
T ss_pred EEEEEeCCCCEEEEe
Confidence 456777788888744
No 23
>PF15537 Toxin_59: Putative toxin 59
Probab=28.38 E-value=57 Score=31.28 Aligned_cols=57 Identities=23% Similarity=0.245 Sum_probs=34.6
Q ss_pred CeEEEEEeCCCceEEeecc----CCCccccccCC----CCcccceeeEEE-ecCeEEEecCCCCCCC
Q 006983 311 TKWIFVLSTSKTLYVGQKI----KGNFQHSSFLA----GGATLSAGRLVV-DNGYLKAIWPHSGHYL 368 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~Kk----kG~FQHSSFLa----Gg~V~AAG~I~V-knG~Ik~Isp~SGHYR 368 (623)
+..-||.|...+.|+--.. .+.-+|--++. -.+++.-|+|.= -||.|. -.-+||||-
T Consensus 50 G~~eFVFDP~~~~Fa~G~~~~~~~~~~~H~~la~~iGA~~s~vvGGr~~R~~~G~l~-TnewSGHyg 115 (125)
T PF15537_consen 50 GSIEFVFDPKTNRFAVGSPRDYGIDVSGHDQLARAIGADESTVVGGRFSRGPNGELS-TNEWSGHYG 115 (125)
T ss_pred CCccEEEcCCcCeEeecCCcccccccchHHHHHHhcCCCCCeeEeeEEEecCCCCEe-ecccccccc
Confidence 3345888877665553322 24556654442 335666677776 477764 466899994
No 24
>cd00028 B_lectin Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically recognize diverse carbohydrates and mediate a wide variety of biological processes, such as cell-cell and host-pathogen interactions, serum glycoprotein turnover, and innate immune responses.
Probab=28.16 E-value=2.1e+02 Score=25.46 Aligned_cols=17 Identities=12% Similarity=0.208 Sum_probs=11.4
Q ss_pred CeEEEEEeCCCceEEee
Q 006983 311 TKWIFVLSTSKTLYVGQ 327 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~ 327 (623)
....++|+.+|+|++-.
T Consensus 55 ~~~~l~l~~dGnLvl~~ 71 (116)
T cd00028 55 SSCTLTLQSDGNLVIYD 71 (116)
T ss_pred CCEEEEEecCCCeEEEc
Confidence 33457777788887754
No 25
>PRK03759 isopentenyl-diphosphate delta-isomerase; Provisional
Probab=27.66 E-value=1.6e+02 Score=28.28 Aligned_cols=59 Identities=24% Similarity=0.272 Sum_probs=39.8
Q ss_pred EEEEEeCCCceEEeeccCCCccccccCCCCcccceeeEEEecCeEEEecCCCCCCCCCHHHHHHHHHHHHH-cCCCCCCe
Q 006983 313 WIFVLSTSKTLYVGQKIKGNFQHSSFLAGGATLSAGRLVVDNGYLKAIWPHSGHYLPTEENFQAFMSFLRE-HNVDLTNV 391 (623)
Q Consensus 313 WIFVmDtsg~LYVG~KkkG~FQHSSFLaGg~V~AAG~I~VknG~Ik~Isp~SGHYRPT~eNf~~Fl~~Lke-~GVDLs~V 391 (623)
.++|++.+|++++.....+.. + +-|...... .||-.|.+.-...+++.|.| -|++..++
T Consensus 38 ~v~i~~~~g~vLL~rR~~~~~---~-~PG~w~~~~----------------gG~ve~GEt~~~aa~REl~EEtGl~~~~~ 97 (184)
T PRK03759 38 SCYLFDADGRLLVTRRALSKK---T-WPGVWTNSC----------------CGHPQPGESLEDAVIRRCREELGVEITDL 97 (184)
T ss_pred EEEEEcCCCeEEEEEccCCCC---C-CCCcccccc----------------cCCCCCCCCHHHHHHHHHHHHhCCCcccc
Confidence 478888888888887543321 1 233333322 39999999888888888886 79987543
No 26
>PF00235 Profilin: Profilin; InterPro: IPR002097 Profilin is a small eukaryotic protein that binds to monomeric actin (G-actin) in a 1:1 ratio thus preventing the polymerisation of actin into filaments (F-actin). It can also in certain circumstance promote actin polymerisation. Profilin also binds to polyphosphoinositides such as PIP2. Overall sequence similarity among profilin from organisms which belong to different phyla (ranging from fungi to mammals) is low, but the N-terminal region is relatively well conserved. That region is thought to be involved in the binding to actin. A protein structurally similar to profilin is present in the genome of Variola virus and Vaccinia virus (gene A42R). Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Ara t 8, Bet v 2, Cyn d 12, Hel a 2, Mer a 1 and Phl p 11.; GO: 0003779 actin binding, 0007010 cytoskeleton organization, 0015629 actin cytoskeleton; PDB: 1ACF_A 3NEC_C 2V8F_B 2V8C_A 2VK3_A 2JKF_A 2JKG_A 1F2K_B 2ACG_A 1YPR_B ....
Probab=27.14 E-value=28 Score=30.99 Aligned_cols=59 Identities=15% Similarity=0.290 Sum_probs=44.6
Q ss_pred ccCCCCcccceeeEEEecCeEEEecCCCCCC-CCCHHHHHHHHHHHHH------cCCCCCCeeeCCCchh
Q 006983 337 SFLAGGATLSAGRLVVDNGYLKAIWPHSGHY-LPTEENFQAFMSFLRE------HNVDLTNVKKSPEEEE 399 (623)
Q Consensus 337 SFLaGg~V~AAG~I~VknG~Ik~Isp~SGHY-RPT~eNf~~Fl~~Lke------~GVDLs~Vki~~~~~~ 399 (623)
.+++-+.+..|+.+- .|| .+|..|+.+ .++++++..+++.|++ .|+.+..++-..+..|
T Consensus 9 ~L~~~~~~~~aaI~~-~dG---~vwA~s~~f~~~~~~E~~~i~~~f~~~~~~~~~gi~l~G~kY~~~~~d 74 (121)
T PF00235_consen 9 QLIGTGNITKAAIIG-SDG---SVWASSPGFSNISPEEAKAIIKAFNNPSKFPSNGITLGGKKYIVLRAD 74 (121)
T ss_dssp HHHTTSSESEEEEEE-TTS---SEEEEETTGGGCSHHHHHHHHHHHHSSSHHHHH-EEETTEEEEEEEEE
T ss_pred HhcccCcEeEEEEEc-CCC---CEEEecCCCCCCCHHHHHHHHHHhcCchhcccCCeEEcCcEeEEEecC
Confidence 345556688888888 999 467777779 9999999999998776 5788888777555543
No 27
>COG4632 EpsL Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]
Probab=26.96 E-value=86 Score=33.95 Aligned_cols=63 Identities=21% Similarity=0.296 Sum_probs=41.3
Q ss_pred EEEEeCCeEEEccCCceeeCCCCCCCCeEEEEEeCCCceEEeeccCCCccccccCCCCc-c-cceeeEEEecCe
Q 006983 285 EVRIEDGKLIYKKSGTVLDSTKGPKDTKWIFVLSTSKTLYVGQKIKGNFQHSSFLAGGA-T-LSAGRLVVDNGY 356 (623)
Q Consensus 285 eViIedGrL~yk~sGelvDTt~~~k~~kWIFVmDtsg~LYVG~KkkG~FQHSSFLaGg~-V-~AAG~I~VknG~ 356 (623)
=++|.||+|+|.++=. +....+--|+++.+|+|-|+-.... -+-++.+++ + .+-|-+.|+||+
T Consensus 156 GfqisdGklvkp~dw~------~~t~ae~~~aftkdG~lkVyg~~sp---a~ll~sngaeasf~fgp~LIkdgk 220 (320)
T COG4632 156 GFQISDGKLVKPYDWA------GYTGAEACVAFTKDGTLKVYGRESP---ADLLISNGAEASFAFGPWLIKDGK 220 (320)
T ss_pred EEEEeCCeEeecCChh------hhccccceEEEccCCcEEEcCCCCh---HHHHHhccceeeeeeccEEEecCC
Confidence 6778999999876421 1123344688899999999853211 122344443 4 678999999996
No 28
>smart00545 JmjN Small domain found in the jumonji family of transcription factors. To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).
Probab=25.64 E-value=44 Score=26.32 Aligned_cols=27 Identities=19% Similarity=0.396 Sum_probs=19.3
Q ss_pred CCCCHHHHHHHHHHHHH---cCCCCCCeee
Q 006983 367 YLPTEENFQAFMSFLRE---HNVDLTNVKK 393 (623)
Q Consensus 367 YRPT~eNf~~Fl~~Lke---~GVDLs~Vki 393 (623)
|+||.++|..++.|++. .|-.--=|||
T Consensus 5 f~Pt~eEF~Dp~~yi~~i~~~~~~yGi~KI 34 (42)
T smart00545 5 FYPTMEEFKDPLAYISKIRPQAEKYGICKV 34 (42)
T ss_pred EcCCHHHHHCHHHHHHHHHHHHhhCCEEEE
Confidence 79999999999988875 3444444444
No 29
>cd05853 Ig6_Contactin-4 Sixth Ig domain of contactin-4. Ig6_Contactin-4: sixth Ig domain of the neural cell adhesion molecule contactin-4. Contactins are neural cell adhesion molecules, and are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. The different contactins show different expression patterns in the central nervous system. Highest expresson of contactin-4 is in testes, thyroid, small intestine, uterus and brain. Contactin-4 plays a role in the response of neuroblastoma cells to differentiating agents, such as retinoids. The contactin 4 gene is associated with cerebellar degeneration in spinocerebellar ataxia type 16.
Probab=23.10 E-value=1.5e+02 Score=25.66 Aligned_cols=58 Identities=17% Similarity=0.239 Sum_probs=36.2
Q ss_pred eEEEccCCceeeCCCCCCCCeEEEEE----eCCCceEEee---ccCCCccccccCCCCcccceeeEEEe
Q 006983 292 KLIYKKSGTVLDSTKGPKDTKWIFVL----STSKTLYVGQ---KIKGNFQHSSFLAGGATLSAGRLVVD 353 (623)
Q Consensus 292 rL~yk~sGelvDTt~~~k~~kWIFVm----Dtsg~LYVG~---KkkG~FQHSSFLaGg~V~AAG~I~Vk 353 (623)
.+.|.++|++++.... +.. |.+ +.++.|.|-. +..|.+...-=..-+.+.+...|.|.
T Consensus 18 ~~~W~~dg~~i~~~~~--~~~--~~~~~~~~~~~~L~I~nv~~~dsG~YtC~a~n~~~~~~a~a~L~V~ 82 (85)
T cd05853 18 VFTWSFNGHLIDFQKD--GDH--FERVGGQDSAGDLMIRSIQLKHAGKYVCMVQTSVDKLSAAADLIVR 82 (85)
T ss_pred EEEEEECCEECcccCC--Ccc--EEEeccCCCCCcEEEecCCHHHCEEEEEEEEcccCceEEEEEEEEe
Confidence 5689999999985321 222 444 4568899976 45566665444444555666666654
No 30
>cd05854 Ig6_Contactin-2 Sixth Ig domain of contactin-2. Ig6_Contactin-2: Sixth Ig domain of the neural cell adhesion molecule contactin-2-like. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. Contactin-2 (TAG-1, axonin-1) facilitates cell adhesion by homophilic binding between molecules in apposed membranes. It may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module by contacts between IG domains 1 and 4, and domains 2 and 3. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-2 is also expressed in retinal amacrine cells in the developing c
Probab=23.05 E-value=1.8e+02 Score=24.49 Aligned_cols=60 Identities=15% Similarity=0.157 Sum_probs=40.6
Q ss_pred eEEEccCCceeeCCCCCCCCeE-E-EEEeCCCceEEee---ccCCCccccccCCCCcccceeeEEEe
Q 006983 292 KLIYKKSGTVLDSTKGPKDTKW-I-FVLSTSKTLYVGQ---KIKGNFQHSSFLAGGATLSAGRLVVD 353 (623)
Q Consensus 292 rL~yk~sGelvDTt~~~k~~kW-I-FVmDtsg~LYVG~---KkkG~FQHSSFLaGg~V~AAG~I~Vk 353 (623)
.+.|.++|++++.... +..+ + .|....+.|.|.. ...|.+...--...|.+.+.-.|.|.
T Consensus 18 ~v~W~~~g~~i~~~~~--~~~~~~~~~~~~~~~L~I~~v~~~D~G~YtC~A~n~~g~~~~~~~L~V~ 82 (85)
T cd05854 18 TFTWSLDDFPIDLDKP--NGHYRRMEVKETIGDLVIVNAQLSHAGTYTCTAQTVVDSASASATLVVR 82 (85)
T ss_pred EEEEEECCeEccccCC--CCcEEEEEecceEeEEEEccCChhhCeEEEEEEecCCCCEEEEEEEEEE
Confidence 5789999998865431 2333 2 2333457888875 56788887767777778888888775
No 31
>cd04678 Nudix_Hydrolase_19 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=22.64 E-value=2.5e+02 Score=24.53 Aligned_cols=61 Identities=23% Similarity=0.234 Sum_probs=41.3
Q ss_pred CeEEEEEeCCCceEEeeccCCCccccccCCCCcccceeeEEEecCeEEEecCCCCCCCCCHHHHHHHHHHHHH-cCCCCC
Q 006983 311 TKWIFVLSTSKTLYVGQKIKGNFQHSSFLAGGATLSAGRLVVDNGYLKAIWPHSGHYLPTEENFQAFMSFLRE-HNVDLT 389 (623)
Q Consensus 311 ~kWIFVmDtsg~LYVG~KkkG~FQHSSFLaGg~V~AAG~I~VknG~Ik~Isp~SGHYRPT~eNf~~Fl~~Lke-~GVDLs 389 (623)
+..++|++.+|+|++..+..+.+ .|.... .| ||=.|.+.-...+++.|+| -|+++.
T Consensus 4 ~v~~ii~~~~~~iLl~~r~~~~~------~~~w~~-PG----------------G~ve~gEt~~~Aa~REl~EE~Gl~~~ 60 (129)
T cd04678 4 GVGVFVLNPKGKVLLGKRKGSHG------AGTWAL-PG----------------GHLEFGESFEECAAREVLEETGLHIE 60 (129)
T ss_pred EEEEEEECCCCeEEEEeccCCCC------CCeEEC-Cc----------------ccccCCCCHHHHHHHHHHHHhCCccc
Confidence 45688899989999998764411 222111 12 6767887777888887775 899887
Q ss_pred CeeeC
Q 006983 390 NVKKS 394 (623)
Q Consensus 390 ~Vki~ 394 (623)
.+...
T Consensus 61 ~~~~~ 65 (129)
T cd04678 61 NVQFL 65 (129)
T ss_pred ceEEE
Confidence 76553
No 32
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=22.18 E-value=90 Score=25.88 Aligned_cols=20 Identities=35% Similarity=0.539 Sum_probs=13.6
Q ss_pred eeeEEEecCeEEEe-cCCCCC
Q 006983 347 AGRLVVDNGYLKAI-WPHSGH 366 (623)
Q Consensus 347 AG~I~VknG~Ik~I-sp~SGH 366 (623)
-|..+|+||.|..| =|.|||
T Consensus 10 ngiYiV~~G~v~~i~pP~sGf 30 (50)
T PF13128_consen 10 NGIYIVKDGEVTFIEPPESGF 30 (50)
T ss_pred CeEEEEECCeEEEcCCCCCCc
Confidence 46677778888887 455665
Done!