Query 027719
Match_columns 219
No_of_seqs 82 out of 84
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 14:08:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027719.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027719hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00132 CRIB PAK (p21 activate 99.1 2.3E-11 4.9E-16 80.7 1.9 34 97-130 1-38 (42)
2 PF00786 PBD: P21-Rho-binding 99.0 7.5E-11 1.6E-15 82.2 0.9 33 98-130 1-37 (59)
3 smart00285 PBD P21-Rho-binding 98.8 3.5E-09 7.6E-14 68.6 2.4 31 99-129 1-35 (36)
4 cd01093 CRIB_PAK_like PAK (p21 98.7 6.4E-09 1.4E-13 70.1 2.4 33 98-130 2-38 (46)
5 KOG0578 p21-activated serine/t 92.8 0.19 4E-06 49.5 5.2 37 96-132 25-65 (550)
6 KOG3671 Actin regulatory prote 84.2 0.46 1E-05 47.0 1.1 22 97-118 234-255 (569)
7 KOG4270 GTPase-activator prote 49.6 4.5 9.8E-05 40.2 -0.6 27 92-118 94-120 (577)
8 PF12273 RCR: Chitin synthesis 28.4 53 0.0012 25.5 2.5 21 48-68 7-27 (130)
9 PF05505 Ebola_NP: Ebola nucle 26.9 49 0.0011 33.9 2.5 51 51-111 129-179 (717)
10 TIGR00328 flhB flagellar biosy 26.4 2.4E+02 0.0053 26.1 6.7 67 51-121 197-280 (347)
11 smart00190 IL4_13 Interleukins 21.9 63 0.0014 27.2 1.9 39 45-88 5-43 (138)
No 1
>cd00132 CRIB PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. CRIB-containing effector proteins are functionally diverse and include serine/threonine kinases, tyrosine kinases, actin-binding proteins, and adapter molecules.
Probab=99.12 E-value=2.3e-11 Score=80.71 Aligned_cols=34 Identities=50% Similarity=1.006 Sum_probs=28.6
Q ss_pred eeeccCCccceeeeeccCCC--CC-C-CchhHhhhhcC
Q 027719 97 MEIGYPTDVKHVAHIGWDGQ--SG-S-APSWMNEFKAA 130 (219)
Q Consensus 97 MeIG~PTDVKHVAHIGWDg~--s~-n-~PsWm~dfks~ 130 (219)
|+||.||||+||+|+|||+. .. + +|.|+.+|+.+
T Consensus 1 ~~IS~Ptnf~H~~HvG~d~~g~~~~~~p~~w~~l~~~~ 38 (42)
T cd00132 1 MEISTPTDFKHISHVGWDGVGFDGANLPPDLQSLFQTA 38 (42)
T ss_pred CcccCCCCcCcccccCCCCCCccccCCCHHHHHHHHHc
Confidence 78999999999999999974 22 3 56999999874
No 2
>PF00786 PBD: P21-Rho-binding domain; InterPro: IPR000095 The molecular bases of the versatile functions of Rho-like GTPases are still unknown. Small domains that bind Cdc42p- and/or Rho-like small GTPases. Also known as the Cdc42/Rac interactive binding (CRIB). The Cdc42/Rac interactive binding (CRIB) region has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway []. In fission yeast pak1+ encodes a protein kinase that interacts with Cdc42p and is involved in the control of cell polarity and mating [].; GO: 0005515 protein binding; PDB: 2OV2_O 1EES_B 2ODB_B 1E0A_B 2QME_I 1F3M_B 3PCS_H 1T84_A 2K42_A 1EJ5_A ....
Probab=99.01 E-value=7.5e-11 Score=82.16 Aligned_cols=33 Identities=45% Similarity=0.994 Sum_probs=25.6
Q ss_pred eeccCCccceeeeeccCCCCC----CCchhHhhhhcC
Q 027719 98 EIGYPTDVKHVAHIGWDGQSG----SAPSWMNEFKAA 130 (219)
Q Consensus 98 eIG~PTDVKHVAHIGWDg~s~----n~PsWm~dfks~ 130 (219)
+||.|||||||+|||||+.++ .+|+|++.|+..
T Consensus 1 ~Is~P~nf~H~~HVg~d~~~g~~~glp~ew~~~l~~~ 37 (59)
T PF00786_consen 1 DISNPTNFKHVAHVGWDPNTGGFTGLPPEWEKLLKSS 37 (59)
T ss_dssp TB---EEEEEEEEEEEETTTTEEES--HHHHHHHHSC
T ss_pred CCCCCCCCcceeeeccCCCccccccCCHHHHhhcccc
Confidence 699999999999999999775 399999999976
No 3
>smart00285 PBD P21-Rho-binding domain. Small domains that bind Cdc42p- and/or Rho-like small GTPases. Also known as the Cdc42/Rac interactive binding (CRIB).
Probab=98.78 E-value=3.5e-09 Score=68.58 Aligned_cols=31 Identities=48% Similarity=0.947 Sum_probs=26.2
Q ss_pred eccCCccceeeeeccCCCC----CCCchhHhhhhc
Q 027719 99 IGYPTDVKHVAHIGWDGQS----GSAPSWMNEFKA 129 (219)
Q Consensus 99 IG~PTDVKHVAHIGWDg~s----~n~PsWm~dfks 129 (219)
|+.||||+|++|+|||+.. +-+|.|...++.
T Consensus 1 IS~P~nf~H~~HVg~d~~~~~f~glp~ew~~~l~~ 35 (36)
T smart00285 1 ISTPTDFKHIAHVGFDGQTGEFTGLPTEWESLLKT 35 (36)
T ss_pred CCCCCCCcEEEEeeECCCCCccCCCCHHHHHHhcc
Confidence 8999999999999999832 239999998764
No 4
>cd01093 CRIB_PAK_like PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. This subgroup of CRIB/PBD-domains is found N-terminal of Serine/Threonine kinase domains in PAK and PAK-like proteins.
Probab=98.72 E-value=6.4e-09 Score=70.14 Aligned_cols=33 Identities=39% Similarity=0.758 Sum_probs=28.6
Q ss_pred eeccCCccceeeeeccCCCCC----CCchhHhhhhcC
Q 027719 98 EIGYPTDVKHVAHIGWDGQSG----SAPSWMNEFKAA 130 (219)
Q Consensus 98 eIG~PTDVKHVAHIGWDg~s~----n~PsWm~dfks~ 130 (219)
+||.||||+|+.|||||..++ -+|.|.+.|+.+
T Consensus 2 ~IS~P~n~~H~~Hv~~d~~~g~f~glP~eW~~ll~~s 38 (46)
T cd01093 2 EISSPTNFKHRVHVGFDPQTGEFTGLPEEWQRLLKSS 38 (46)
T ss_pred ccCCCCCceeeeEeeECCCCCcccCCCHHHHHHHHHc
Confidence 699999999999999998543 389999999873
No 5
>KOG0578 consensus p21-activated serine/threonine protein kinase [Signal transduction mechanisms]
Probab=92.80 E-value=0.19 Score=49.53 Aligned_cols=37 Identities=24% Similarity=0.575 Sum_probs=31.8
Q ss_pred ceeeccCCccceeeeeccCCCCCC----CchhHhhhhcCCC
Q 027719 96 EMEIGYPTDVKHVAHIGWDGQSGS----APSWMNEFKAAPD 132 (219)
Q Consensus 96 EMeIG~PTDVKHVAHIGWDg~s~n----~PsWm~dfks~~~ 132 (219)
--+|+.|++++|.-|.|.|.-.++ +..|-.+++..+.
T Consensus 25 ~s~iS~P~nf~h~vHvGfd~~tg~ftGlP~~W~~Ll~~s~i 65 (550)
T KOG0578|consen 25 KSEISSPSNFEHRVHVGFDPVTGEFTGLPKQWQRLLQSSEI 65 (550)
T ss_pred CCccCCCCCccceeecccCCCcccccCCcHHHHHHhcchhh
Confidence 589999999999999999987664 8899998887544
No 6
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=84.16 E-value=0.46 Score=47.00 Aligned_cols=22 Identities=45% Similarity=1.022 Sum_probs=19.9
Q ss_pred eeeccCCccceeeeeccCCCCC
Q 027719 97 MEIGYPTDVKHVAHIGWDGQSG 118 (219)
Q Consensus 97 MeIG~PTDVKHVAHIGWDg~s~ 118 (219)
-.||.||.++|++|+|||..++
T Consensus 234 ~disaPtnf~h~~hVgwd~~~g 255 (569)
T KOG3671|consen 234 ADISAPTNFPHIPHVGWDEQVG 255 (569)
T ss_pred ccCCCCCCCccccccCCCcCCC
Confidence 5799999999999999998665
No 7
>KOG4270 consensus GTPase-activator protein [Signal transduction mechanisms]
Probab=49.58 E-value=4.5 Score=40.17 Aligned_cols=27 Identities=37% Similarity=0.646 Sum_probs=23.3
Q ss_pred ccccceeeccCCccceeeeeccCCCCC
Q 027719 92 VKEREMEIGYPTDVKHVAHIGWDGQSG 118 (219)
Q Consensus 92 ~KE~EMeIG~PTDVKHVAHIGWDg~s~ 118 (219)
++|..|+||.|||+.|++|.+.|.-.+
T Consensus 94 ~e~~~~kie~~~d~~~~~~~~f~~~~~ 120 (577)
T KOG4270|consen 94 EEECGMKIEQPTDQRHADHVTFDRKEG 120 (577)
T ss_pred HHhhcCccccCcchhhhhhhhhhhhcc
Confidence 345669999999999999999998776
No 8
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=28.36 E-value=53 Score=25.52 Aligned_cols=21 Identities=33% Similarity=0.472 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHhhhhhhhcc
Q 027719 48 YIFVAVFLAFASFFLHRVVIR 68 (219)
Q Consensus 48 ~~~~a~fl~fa~~~~h~~~~~ 68 (219)
.|++++||+|+.++.|++.-.
T Consensus 7 iii~~i~l~~~~~~~~~rRR~ 27 (130)
T PF12273_consen 7 IIIVAILLFLFLFYCHNRRRR 27 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 345566677777888866543
No 9
>PF05505 Ebola_NP: Ebola nucleoprotein; InterPro: IPR008609 This family consists of Ebola virus sp., Lake Victoria marburgvirus nucleoproteins. These proteins are responsible for encapsidation of genomic RNA. It has been found that nucleoprotein DNA vaccines can offer protection from the virus [].; GO: 0019074 viral RNA genome packaging, 0019013 viral nucleocapsid
Probab=26.94 E-value=49 Score=33.92 Aligned_cols=51 Identities=37% Similarity=0.566 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhhhhhhccCcchhhhhhhhhhhhHHHHhhhhccccceeeccCCccceeeee
Q 027719 51 VAVFLAFASFFLHRVVIRTPRMATKMKGIYKSFKYISQIFVVKEREMEIGYPTDVKHVAHI 111 (219)
Q Consensus 51 ~a~fl~fa~~~~h~~~~~kp~matkmkgl~Kg~k~iSqiF~~KE~EMeIG~PTDVKHVAHI 111 (219)
...||.||++||-+-|+-..-- |= |..-||=++-|+.+ |-|||--+-|.|.
T Consensus 129 aGqFLSFaSLFLPKLVVGekAc------lE---KvqRQIqVHaEQGl-IqYPt~WqSvGHM 179 (717)
T PF05505_consen 129 AGQFLSFASLFLPKLVVGEKAC------LE---KVQRQIQVHAEQGL-IQYPTAWQSVGHM 179 (717)
T ss_pred hhhHHHHHHHhcchhhhccHHH------HH---HHHHHhhhHHhcCe-eeccchhhcccch
Confidence 3568999999887766643221 11 23345556667764 7899988888775
No 10
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=26.36 E-value=2.4e+02 Score=26.12 Aligned_cols=67 Identities=21% Similarity=0.334 Sum_probs=38.4
Q ss_pred HHHHHHHHHhhhhhhhcc---------------CcchhhhhhhhhhhhHHHHhhh-hccccceeeccCCccceeee-ecc
Q 027719 51 VAVFLAFASFFLHRVVIR---------------TPRMATKMKGIYKSFKYISQIF-VVKEREMEIGYPTDVKHVAH-IGW 113 (219)
Q Consensus 51 ~a~fl~fa~~~~h~~~~~---------------kp~matkmkgl~Kg~k~iSqiF-~~KE~EMeIG~PTDVKHVAH-IGW 113 (219)
+|++=|+...|+|.+-+. .|.+-.+++.+-+-+-. .++. +..+-+..|-+|| |.|= |-+
T Consensus 197 ia~~D~~~qr~~~~k~lrMskqEVKdE~K~~EGdP~iK~rrR~~~re~a~-~~m~~~V~~AdVVItNPT---H~AVal~Y 272 (347)
T TIGR00328 197 IAVFDYFFQRWQYIKSLKMTKQEVKDELKQSEGDPEVKGRIRQMQREAAR-RRMMQEVPKADVVITNPT---HYAVALKY 272 (347)
T ss_pred HHHHHHHHHHHHHHHhCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHH-hhHhhcCCCCcEEEECCC---ceEEEeEe
Confidence 333334556677777665 45544444444332222 1222 4567789999999 6665 778
Q ss_pred CCCCCCCc
Q 027719 114 DGQSGSAP 121 (219)
Q Consensus 114 Dg~s~n~P 121 (219)
|.....+|
T Consensus 273 ~~~~~~aP 280 (347)
T TIGR00328 273 DPGKMPAP 280 (347)
T ss_pred CCCCCCCC
Confidence 87655555
No 11
>smart00190 IL4_13 Interleukins 4 and 13. Interleukins-4 and -13 are cytokines involved in inflammatory and immune responses. IL-4 stimulates B and T cells.
Probab=21.92 E-value=63 Score=27.22 Aligned_cols=39 Identities=15% Similarity=0.206 Sum_probs=30.0
Q ss_pred CchhHHHHHHHHHHHhhhhhhhccCcchhhhhhhhhhhhHHHHh
Q 027719 45 PSLYIFVAVFLAFASFFLHRVVIRTPRMATKMKGIYKSFKYISQ 88 (219)
Q Consensus 45 ~~~~~~~a~fl~fa~~~~h~~~~~kp~matkmkgl~Kg~k~iSq 88 (219)
+.|-+.|.|+|+.++-+.|- +++...++.|+|.|..|.|
T Consensus 5 ~qli~aL~CLl~~ts~~~~g-----~~~~~~LkEIIk~Ln~lT~ 43 (138)
T smart00190 5 PQLVPALLCLLGCTGNGPHG-----HSCDITLREIIETLNNVTQ 43 (138)
T ss_pred HHHHHHHHHHHHhcCCCCCC-----ccccchHHHHHHHHHHHcc
Confidence 34678899999999988886 2444468999988887743
Done!