Query 023031
Match_columns 288
No_of_seqs 124 out of 197
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 07:57:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023031.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023031hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2826 Actin-related protein 100.0 1E-110 2E-115 755.7 20.4 271 1-288 1-279 (301)
2 PF04045 P34-Arc: Arp2/3 compl 100.0 2.3E-95 5E-100 665.0 13.8 227 53-288 1-234 (241)
3 PF05856 ARPC4: ARP2/3 complex 92.5 0.42 9.1E-06 42.3 6.5 106 151-277 50-158 (170)
4 PTZ00278 ARP2/3 complex subuni 82.7 1.9 4.2E-05 38.3 4.3 116 151-287 52-172 (174)
5 PTZ00483 proliferating cell nu 66.6 54 0.0012 30.8 9.7 104 129-244 145-261 (264)
6 PTZ00113 proliferating cell nu 54.1 1.2E+02 0.0027 28.6 9.8 107 129-247 141-269 (275)
7 PF05856 ARPC4: ARP2/3 complex 41.2 50 0.0011 29.5 4.7 48 50-108 70-125 (170)
8 PLN00057 proliferating cell nu 39.8 3.1E+02 0.0067 25.5 10.1 102 129-247 139-257 (263)
9 PHA03383 PCNA-like protein; Pr 35.1 3.2E+02 0.007 25.6 9.4 99 129-244 146-260 (262)
10 PTZ00278 ARP2/3 complex subuni 34.3 39 0.00085 30.2 2.9 48 50-108 72-127 (174)
11 PF02747 PCNA_C: Proliferating 31.2 2.4E+02 0.0051 23.1 7.0 95 132-243 16-127 (128)
12 cd00577 PCNA Proliferating Cel 28.9 3.9E+02 0.0085 23.3 9.3 52 183-244 193-246 (248)
13 KOG1876 Actin-related protein 20.5 1.5E+02 0.0034 25.9 4.0 115 151-285 48-166 (168)
No 1
>KOG2826 consensus Actin-related protein Arp2/3 complex, subunit ARPC2 [Cytoskeleton]
Probab=100.00 E-value=1e-110 Score=755.73 Aligned_cols=271 Identities=30% Similarity=0.558 Sum_probs=257.4
Q ss_pred CcccCcccHHHHHHHHHhhhc---cCCCcceeeEEeecCceEEEEecCCCCCceEEEEEEeCCCCCCccccCCCCccHHH
Q 023031 1 MLLLQSHSRFLLEALLNRVQN---VDKATEVDYHWVEFDDVRYHVQVTMKNPHIVLLSVSLPVPPPETIFIGGLPFGAIE 77 (288)
Q Consensus 1 MilLe~~N~ii~~~L~~~~~~---~~kp~~vd~~~~DFDgv~yhis~~~~~k~~l~vSis~~~~~~e~~~~~~l~~G~~e 77 (288)
||+||++|++|+++|.+++++ ++||.++|++++|||||+|||||+++||++++||||+|| |.++..||+++
T Consensus 1 Mi~Le~nN~iI~etL~~kf~~~~~g~~P~sid~~vaDFDgv~yhiSnp~gdktkillSislK~------y~elq~~Ga~~ 74 (301)
T KOG2826|consen 1 MILLEPNNRIIEETLNEKFENARAGGKPESIDVTVADFDGVLYHISNPNGDKTKILLSISLKF------YKELQLHGADD 74 (301)
T ss_pred CceeccccHHHHHHHHHHHHHHhccCCCcceeEEEeccCceEEEccCCCCCceEEEEEEehhh------HHHHHHcCHHH
Confidence 999999999999999999998 368999999999999999999999999999999999998 44566799999
Q ss_pred HHHHhhcccccccCCCCCCcceEEEEcCCCCCCChhhHHHHHHHHHHHHHHHhchhHHHHHHHHhcccccccccceeEEe
Q 023031 78 AIKAAYGNVVQILDPPRDGFNLTLKLNLSKLPPNEENKHALLVKIASVREVVLGAPLRVVLKHLASKTVASDIDQLLALV 157 (288)
Q Consensus 78 ~Lk~~Yg~~~~~~~~pe~Gy~~tL~idl~~lp~~~~~~~~li~~~a~lk~~~~aapF~~~f~~l~~~~~~~~~~~~~~i~ 157 (288)
+||++||.++ ..||+|||+||.+||++||++.+ ++++.+++|||||++++|+++|+.++++. ++.+.++|+
T Consensus 75 LLk~~yg~~~---~epE~Gyn~slli~L~~lpa~~~---~l~~~i~~lkrn~~as~F~k~f~~Q~~~~---e~~~r~~I~ 145 (301)
T KOG2826|consen 75 LLKRVYGSYL---SEPEPGYNVSLLIDLAELPADKE---SLAKTISLLKRNCFASVFEKYFQFQEAGV---EGEKRAVIH 145 (301)
T ss_pred HHHHHhcccc---CCCCCCccEEEEEEHHhCchhHH---HHHHHHHHhhhhHHHHHHHHHHhcchhhh---hhhheeEEE
Confidence 9999999997 67999999999999999999844 68899999999999999999999888774 355789999
Q ss_pred ccCCceEEEeecCCeeEEEeeceecCCccchhhhHHHHHHHHHhhhcCCCCCCCcccCC-CCCcccCCCCCCCCCCCeeE
Q 023031 158 HRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSS-SPPLELKGVPSETLSANAGF 236 (288)
Q Consensus 158 yR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqvl~s~-~PPlEL~~~~~~~~~~n~gy 236 (288)
|||||+|||+|++|||||||||+|+|+||+||||||||||+||||+ +|+|||||||+ ||||||++++++++|+|+||
T Consensus 146 YRddEti~i~~k~DRVTvvFsTiF~de~D~I~GKVFlQEf~e~Rra--~qtAPqVLfShrePPLElkd~~~~~vgdn~gy 223 (301)
T KOG2826|consen 146 YRDDETIYIEPKNDRVTVVFSTIFRDEDDVIIGKVFLQEFVEGRRA--SQTAPQVLFSHREPPLELKDLYDARVGDNIGY 223 (301)
T ss_pred eccCceEEEecCCCeEEEEEEEeeccCCceeehHHHHHHHHHHHhh--hccccHHHhhcCCCCchhhhcCCcccccccce
Confidence 9999999999999999999999999999999999999999999997 89999999997 99999999999999999999
Q ss_pred EEEEecCCCCCCcchhhhHHHHhhhhhhhhhhhcc--cccchh--hcHHHHhhhcC
Q 023031 237 VTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKV--GFLINR--SILSSLSQTLA 288 (288)
Q Consensus 237 VTFvLFprH~~~~~~~~ti~~i~~FR~YlHYHIKc--aYmHsR--~Rv~~~lkvL~ 288 (288)
|||||||||++++.+++||++||+||||||||||| |||||| +||++|||||+
T Consensus 224 iTFVLFpRH~~k~~rd~tI~~i~~FRdylHyHIKcSKaYmHsRMR~k~~dFlKVLN 279 (301)
T KOG2826|consen 224 ITFVLFPRHTNKETRDNTINLIHLFRDYLHYHIKCSKAYMHSRMRAKTSDFLKVLN 279 (301)
T ss_pred EEEEEecccCCchhccchhHHHHHHHHHhhhhhhhhHHHHHHHHHHhHHHHHHHHh
Confidence 99999999999999999999999999999999999 999999 77999999996
No 2
>PF04045 P34-Arc: Arp2/3 complex, 34 kD subunit p34-Arc; InterPro: IPR007188 Arp2/3 protein complex has been implicated in the control of actin polymerisation in cells. The human complex consists of seven subunits, which include the actin related Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc []. This family represents the p34-Arc subunit.; GO: 0030833 regulation of actin filament polymerization, 0005856 cytoskeleton; PDB: 2P9L_D 2P9I_D 2P9U_D 3DXM_D 2P9N_D 1TYQ_D 3DXK_D 1K8K_D 2P9S_D 1U2V_D ....
Probab=100.00 E-value=2.3e-95 Score=664.97 Aligned_cols=227 Identities=38% Similarity=0.712 Sum_probs=195.5
Q ss_pred EEEEEeCCCCCCccccCCCCccHHHHHHHhhcccccccCCCCCCcceEEEEcCCCCCCChhhHHHHHHHHHHHHHHHhch
Q 023031 53 LLSVSLPVPPPETIFIGGLPFGAIEAIKAAYGNVVQILDPPRDGFNLTLKLNLSKLPPNEENKHALLVKIASVREVVLGA 132 (288)
Q Consensus 53 ~vSis~~~~~~e~~~~~~l~~G~~e~Lk~~Yg~~~~~~~~pe~Gy~~tL~idl~~lp~~~~~~~~li~~~a~lk~~~~aa 132 (288)
+|||++|| |.++.+||+.|+|+++||++++ ++||+|||+||.+||++||++++++.++|+++|+||||+|||
T Consensus 1 lvSi~~~~------~~~l~~~G~~e~l~~~Yg~~~~--~~pe~Gy~~tL~idl~~lp~~~~~~~~~i~~is~LKr~~~aa 72 (241)
T PF04045_consen 1 LVSISLKC------WKELQQYGAEEYLKREYGSYVQ--TPPESGYDVTLVIDLEKLPADEEDREELIKKISLLKRNCLAA 72 (241)
T ss_dssp EEEEE-TT------HHHHHTTTHHHHHHHHCCCCE---ES--TTSSEEEEEETTS-----SSHHHHHHHHHTHHHHHCCH
T ss_pred CeEEEech------HHHHHHcCHHHHHHHhcccccc--CCCCCCccEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHH
Confidence 69999998 7889999999999999999986 689999999999999999998888999999999999999999
Q ss_pred hHHHHHHHHhcccccccccceeEEeccCCceEEEeecCCeeEEEeeceecCCccchhhhHHHHHHHHHhhhcCCCCCCCc
Q 023031 133 PLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLC 212 (288)
Q Consensus 133 pF~~~f~~l~~~~~~~~~~~~~~i~yR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqv 212 (288)
||+++|+.++++...+.++++++|+||+||+|||+|++|||||||||+|+|+||+||||||||||+||||+++ ++||||
T Consensus 73 pF~~~f~~~~~~~~~~~~~~~~~i~YR~~E~iyi~~~~DrVTVIFst~F~D~~D~vigkvFLQEFvdaRr~~~-~~APqv 151 (241)
T PF04045_consen 73 PFEKAFDEQASLSEEPPGEKPAVIHYRDDETIYIKPSKDRVTVIFSTRFKDEDDRVIGKVFLQEFVDARRRSR-QTAPQV 151 (241)
T ss_dssp HHHHHHCHHHCT-----TTT-EEEEECTTEEEEEEEESSEEEEEEEEE-SSCCHHHHHHHHHHHHHTGGGT---TTS-EE
T ss_pred HHHHHHHHHHhCCccccCCceEEEEeCCCceEEEEeCCCEEEEEEEEEEcCCCCeEeeHHHHHHHHHhccccC-CCCCce
Confidence 9999999999887655567899999999999999999999999999999999999999999999999999965 999999
Q ss_pred ccCC-CCCcccCCCCCCC-CCCCeeEEEEEecCCCC-CCcchhhhHHHHhhhhhhhhhhhcc--cccchh--hcHHHHhh
Q 023031 213 MWSS-SPPLELKGVPSET-LSANAGFVTFVIFPRHV-EGKKLDRTVWNLSTFHAYVSYHVKV--GFLINR--SILSSLSQ 285 (288)
Q Consensus 213 l~s~-~PPlEL~~~~~~~-~~~n~gyVTFvLFprH~-~~~~~~~ti~~i~~FR~YlHYHIKc--aYmHsR--~Rv~~~lk 285 (288)
+||+ +||+||+|+++++ .++|+|||||||||||+ +++++++|||+|++||||||||||| |||||| +||++|||
T Consensus 152 lfS~~~PPlEl~~~~~~~~~~~n~gyvTFvLfprH~~~~~~~~~ti~~l~~FR~YlhYHIKcsKaymHsRMR~Rv~~~lk 231 (241)
T PF04045_consen 152 LFSHREPPLELRGVPGARNLGDNVGYVTFVLFPRHFVTPERRDNTIWHLQTFRNYLHYHIKCSKAYMHSRMRKRVESFLK 231 (241)
T ss_dssp EEECSS--CGGTT-TT----STTEEEEEEEEEHHHGHSTTTHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eccCCCCChhHcCCCCccccCCCeEEEEEEEeccccCcchhHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence 9998 9999999999988 89999999999999995 5899999999999999999999999 999999 88999999
Q ss_pred hcC
Q 023031 286 TLA 288 (288)
Q Consensus 286 vL~ 288 (288)
||+
T Consensus 232 vLn 234 (241)
T PF04045_consen 232 VLN 234 (241)
T ss_dssp HHH
T ss_pred HHH
Confidence 995
No 3
>PF05856 ARPC4: ARP2/3 complex 20 kDa subunit (ARPC4); InterPro: IPR008384 This family consists of several eukaryotic ARP2/3 complex 20 kDa subunit (P20-ARC) proteins. The Arp2/3 protein complex has been implicated in the control of actin polymerisation in cells. The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3 it has been suggested that the complex promotes actin assembly in lamellipodia and may participate in lamellipodial protrusion [].; GO: 0030041 actin filament polymerization, 0005856 cytoskeleton; PDB: 3DWL_K 1K8K_F 1U2V_F 2P9S_F 2P9U_F 2P9N_F 3DXK_F 1TYQ_F 3RSE_F 2P9I_F ....
Probab=92.45 E-value=0.42 Score=42.34 Aligned_cols=106 Identities=21% Similarity=0.314 Sum_probs=69.4
Q ss_pred cceeEEeccCCceEEEeecCCeeEEEeeceecCCccchhhhHHHHHHHHHhhhcCCCCCCCcccCCCCCcccCCCCCCCC
Q 023031 151 DQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSSSPPLELKGVPSETL 230 (288)
Q Consensus 151 ~~~~~i~yR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqvl~s~~PPlEL~~~~~~~~ 230 (288)
-.|+.|...+.|..+|.|+-+.|.|.+.....|+-++++.+-|+. |.-.|-. +=++| |-.|-
T Consensus 50 l~pl~I~Rne~E~clIE~SiNSvRvSi~ikq~Deie~iL~~kf~r-Fl~~RAe-----~F~IL---------RRkPv--- 111 (170)
T PF05856_consen 50 LNPLVISRNEKEKCLIEPSINSVRVSIKIKQADEIERILCHKFTR-FLMQRAE-----NFFIL---------RRKPV--- 111 (170)
T ss_dssp ---EEEESSSS-EEEEEEBSSEEEEEEE----SCHHHHHHHHHHH-HHHHCTT-----TSTTB----------SS-----
T ss_pred cCceeeccCCCceEEEEcccceEEEEEEecccChHHHHHHHHHHH-HHHhhhh-----hheee---------eecCc---
Confidence 357777778899999999999999999999999999999999987 4444432 11112 11111
Q ss_pred CCCeeE-EEEEecCCCCCCcchhhhHHHHhhhhhhhhhhhcc--cccchh
Q 023031 231 SANAGF-VTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKV--GFLINR 277 (288)
Q Consensus 231 ~~n~gy-VTFvLFprH~~~~~~~~ti~~i~~FR~YlHYHIKc--aYmHsR 277 (288)
-|| |||.+--.|++.--+.+-|+.|.+|=.=+-=-|.- -.+-+|
T Consensus 112 ---~GYDISFLIt~~h~e~m~k~kLidFIi~FmeeiDkeIs~mKl~~naR 158 (170)
T PF05856_consen 112 ---EGYDISFLITNFHTEQMGKHKLIDFIITFMEEIDKEISEMKLSLNAR 158 (170)
T ss_dssp ---TTSSEEEEEECCHHHHSTHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
T ss_pred ---CCCceeeeeechhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 144 89999999998766678999999886544433433 444555
No 4
>PTZ00278 ARP2/3 complex subunit; Provisional
Probab=82.72 E-value=1.9 Score=38.29 Aligned_cols=116 Identities=18% Similarity=0.315 Sum_probs=82.9
Q ss_pred cceeEEeccCCceEEEeecCCeeEEEeeceecCCccchhhhHHHHHHHHHhhhcCCCCCCCcccCCCCCcccCCCCCCCC
Q 023031 151 DQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSSSPPLELKGVPSETL 230 (288)
Q Consensus 151 ~~~~~i~yR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqvl~s~~PPlEL~~~~~~~~ 230 (288)
-.++.|...++|...|.|+-+.|.|.|...-.|+-++++++-|+. |.-.|-. +=++| |-.|-
T Consensus 52 l~pl~I~Rne~E~clIE~SiNSvRiSi~ikqaDeie~iL~~kf~~-Fl~~RAe-----~F~IL---------RrkPv--- 113 (174)
T PTZ00278 52 LNPIYIVRSEKEKCLIEPSINSVRISFSFKKSDELDVIIARKFVS-FLAQRAE-----QFVIL---------RRKPI--- 113 (174)
T ss_pred cCcEEEEEcCCceEEEEcccceEEEEEEehhhChHHHHHHHHHHH-HHHhhhh-----ceeEE---------eecCc---
Confidence 356777778899999999999999999999999999999999987 4444422 11112 11111
Q ss_pred CCCeeE-EEEEecCCCCCCcchhhhHHHHhhhhhhhhhhhcc--cccchhhc-HH-HHhhhc
Q 023031 231 SANAGF-VTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKV--GFLINRSI-LS-SLSQTL 287 (288)
Q Consensus 231 ~~n~gy-VTFvLFprH~~~~~~~~ti~~i~~FR~YlHYHIKc--aYmHsR~R-v~-~~lkvL 287 (288)
.|| |||.+---|++.-.+.+-|+.|.+|=.=.-=-|.- -.+-+|.| |+ +|++-+
T Consensus 114 ---~GYDISFLItn~H~e~m~k~kLidFIi~FmeeiDkeIsemKL~~NaRaR~~A~~fl~~f 172 (174)
T PTZ00278 114 ---PGYDISFLITNFHTENMFKHKLIDFIIDFMEDIDKDISDMKLNVNTRARIAAPEFFKAL 172 (174)
T ss_pred ---CCCChhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence 244 89999999998766778999999887655555544 56666644 22 566544
No 5
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=66.57 E-value=54 Score=30.83 Aligned_cols=104 Identities=21% Similarity=0.226 Sum_probs=60.9
Q ss_pred HhchhHHHHHHHHhcccccccccceeEEeccCCceEEEeecCCe--eEEEee-------ceecCCccchhhhHHHHHHHH
Q 023031 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEK--VTVVFP-------MRFNDSIDTVLATSFLQEFVE 199 (288)
Q Consensus 129 ~~aapF~~~f~~l~~~~~~~~~~~~~~i~yR~~E~iyi~~~~Dr--VTViFs-------t~F~D~~D~vigkvFLQEFvd 199 (288)
+-++.|+++.+.++.= ++.+.|.- +++.+++.+++|. ..+.++ ..-+++..-.|+--.|-.|..
T Consensus 145 m~s~~f~~i~kdl~~v------sD~v~i~~-~~~~v~f~a~Gd~~~~~~~l~~~~~~v~~~~~~~v~~~fsl~YL~~f~K 217 (264)
T PTZ00483 145 MNSKKFQEFAKYLHSI------GDTVSISM-KKDEMRLETEGEGIKASKQFHNDVGDVRVTSTESLSQEFATRYLVLFSK 217 (264)
T ss_pred EEHHHHHHHHHHHHHc------CCEEEEEE-ECCEEEEEEeecCcEEEEEEccCCCceEEEecCcchheehHHHHHHhhc
Confidence 3466777777776542 12344444 4566777777763 444443 112233344566667777776
Q ss_pred HhhhcCCCCCCCcc--cCCCCCcccCCCCC--CCCCCCeeEEEEEecCC
Q 023031 200 ARRTAGLNNAPLCM--WSSSPPLELKGVPS--ETLSANAGFVTFVIFPR 244 (288)
Q Consensus 200 aRr~~~~~~APqvl--~s~~PPlEL~~~~~--~~~~~n~gyVTFvLFpr 244 (288)
|- +-|..|. ++.+-|+.|+=-=+ ....++.||++|-|=||
T Consensus 218 a~-----~lsd~V~i~l~~~~Pl~ley~i~~~~~~~~~~G~l~fyLAPr 261 (264)
T PTZ00483 218 AT-----SLADEVSINLSAGIPLSVKFNFKDPLTDLQDSSFINFYLAPN 261 (264)
T ss_pred cc-----cCCCeEEEEEcCCCCEEEEEEecccccCCCCceEEEEEEccc
Confidence 53 3466664 66677876654200 01125789999999998
No 6
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=54.14 E-value=1.2e+02 Score=28.65 Aligned_cols=107 Identities=17% Similarity=0.241 Sum_probs=64.9
Q ss_pred HhchhHHHHHHHHhcccccccccceeEEeccCCceEEEeecCCe--eEEEee-------------ceecCCccchhhhHH
Q 023031 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEK--VTVVFP-------------MRFNDSIDTVLATSF 193 (288)
Q Consensus 129 ~~aapF~~~f~~l~~~~~~~~~~~~~~i~yR~~E~iyi~~~~Dr--VTViFs-------------t~F~D~~D~vigkvF 193 (288)
+-++.|+++++.++.= +..+.|.- +++.+++.+++|. ..+.++ +..+.+.-..|+--.
T Consensus 141 m~s~~f~~i~rdl~~v------gd~V~i~~-~~~~v~f~a~Gd~g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~ysl~Y 213 (275)
T PTZ00113 141 LSSKELTNICRQMNEF------SDTVKIEI-DSNSIKFTTQGDLGDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKY 213 (275)
T ss_pred EEHHHHHHHHHHHHHc------CCEEEEEE-eCCEEEEEEeccCcEEEEEEecCCCCCCccceEEEEecCceeeEEhHHH
Confidence 4467788888777642 12344443 4567888877763 333332 234455566788888
Q ss_pred HHHHHHHhhhcCCCCCCCc--ccCCCCCcccCCC-CC----CCCCCCeeEEEEEecCCCCC
Q 023031 194 LQEFVEARRTAGLNNAPLC--MWSSSPPLELKGV-PS----ETLSANAGFVTFVIFPRHVE 247 (288)
Q Consensus 194 LQEFvdaRr~~~~~~APqv--l~s~~PPlEL~~~-~~----~~~~~n~gyVTFvLFprH~~ 247 (288)
|-.|..|.. -|..| .|+.+-|+.|+=- .+ .+-..+.|+++|.|=||=-.
T Consensus 214 L~~f~Ka~~-----ls~~V~l~l~~d~Pl~ley~i~~~~~~~~~~~~~G~l~fyLAPkie~ 269 (275)
T PTZ00113 214 LNMFAKSGC-----LSDVVTLGLSDNRPIEVKYEIKDTSPDARHTHKLGEVKFFLAPKMDD 269 (275)
T ss_pred HHHhhcccc-----CCCeEEEEEcCCCCEEEEEEeccccccccccCCccEEEEEEcCccCc
Confidence 888886543 35555 5677888766532 10 01112579999999998643
No 7
>PF05856 ARPC4: ARP2/3 complex 20 kDa subunit (ARPC4); InterPro: IPR008384 This family consists of several eukaryotic ARP2/3 complex 20 kDa subunit (P20-ARC) proteins. The Arp2/3 protein complex has been implicated in the control of actin polymerisation in cells. The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3 it has been suggested that the complex promotes actin assembly in lamellipodia and may participate in lamellipodial protrusion [].; GO: 0030041 actin filament polymerization, 0005856 cytoskeleton; PDB: 3DWL_K 1K8K_F 1U2V_F 2P9S_F 2P9U_F 2P9N_F 3DXK_F 1TYQ_F 3RSE_F 2P9I_F ....
Probab=41.18 E-value=50 Score=29.45 Aligned_cols=48 Identities=8% Similarity=0.204 Sum_probs=27.7
Q ss_pred ceEEEEEEeCCCCCCccccCCCCccHHHHHHHhhcccc--------cccCCCCCCcceEEEEcCCCC
Q 023031 50 HIVLLSVSLPVPPPETIFIGGLPFGAIEAIKAAYGNVV--------QILDPPRDGFNLTLKLNLSKL 108 (288)
Q Consensus 50 ~~l~vSis~~~~~~e~~~~~~l~~G~~e~Lk~~Yg~~~--------~~~~~pe~Gy~~tL~idl~~l 108 (288)
|-+.|||.++- .|. -+..|-++|-.++ ...-.|=+|||+|.+|.-..+
T Consensus 70 NSvRvSi~ikq-------~De----ie~iL~~kf~rFl~~RAe~F~ILRRkPv~GYDISFLIt~~h~ 125 (170)
T PF05856_consen 70 NSVRVSIKIKQ-------ADE----IERILCHKFTRFLMQRAENFFILRRKPVEGYDISFLITNFHT 125 (170)
T ss_dssp SEEEEEEE-----------SC----HHHHHHHHHHHHHHHCTTTSTTB-SS--TTSSEEEEEECCHH
T ss_pred ceEEEEEEecc-------cCh----HHHHHHHHHHHHHHhhhhhheeeeecCcCCCceeeeeechhh
Confidence 67899999993 122 2455556655444 223568899999999986644
No 8
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=39.79 E-value=3.1e+02 Score=25.47 Aligned_cols=102 Identities=17% Similarity=0.311 Sum_probs=61.8
Q ss_pred HhchhHHHHHHHHhcccccccccceeEEeccCCceEEEeecCC--eeEEEeec-------------eecCCccchhhhHH
Q 023031 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAE--KVTVVFPM-------------RFNDSIDTVLATSF 193 (288)
Q Consensus 129 ~~aapF~~~f~~l~~~~~~~~~~~~~~i~yR~~E~iyi~~~~D--rVTViFst-------------~F~D~~D~vigkvF 193 (288)
+.++.|+++++.+..= +..+.|.- +++.+++.+.+| ++.+.++. .-+++....++--.
T Consensus 139 m~s~~f~~~~kdl~~v------sd~v~i~~-~~~~~~f~~~Gd~g~~~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~Y 211 (263)
T PLN00057 139 MPSAEFQRICKDLSSI------GDTVVISV-TKEGVKFSTSGDIGTANIVLRQNTTVDKPEEKTVIEMQEPVSLTFALRY 211 (263)
T ss_pred EEHHHHHHHHHHHHHc------CCEEEEEE-eCCEEEEEEEecCcEEEEEEecCCCCCCccceEEEEecCceEEEEhHHH
Confidence 4466777787776531 23445544 455677777664 45555531 12233345566666
Q ss_pred HHHHHHHhhhcCCCCCCCcc--cCCCCCcccCCCCCCCCCCCeeEEEEEecCCCCC
Q 023031 194 LQEFVEARRTAGLNNAPLCM--WSSSPPLELKGVPSETLSANAGFVTFVIFPRHVE 247 (288)
Q Consensus 194 LQEFvdaRr~~~~~~APqvl--~s~~PPlEL~~~~~~~~~~n~gyVTFvLFprH~~ 247 (288)
|-.|..|. +-|-.|. ++.+-|+.|+=- . ++.|+++|.|=||==+
T Consensus 212 L~~~~Ka~-----~ls~~V~i~~~~~~Pl~l~y~----l-~~~g~l~f~LAPri~~ 257 (263)
T PLN00057 212 LNSFTKAT-----PLSDTVTLSLSKELPVVVEYK----I-AEMGYIRYYLAPKIEE 257 (263)
T ss_pred HHHhhccc-----cCCCeEEEEEcCCCCEEEEEE----e-CCCeEEEEEEcCCCCC
Confidence 76666543 4456664 556889888763 1 3589999999998643
No 9
>PHA03383 PCNA-like protein; Provisional
Probab=35.11 E-value=3.2e+02 Score=25.56 Aligned_cols=99 Identities=14% Similarity=0.172 Sum_probs=56.2
Q ss_pred HhchhHHHHHHHHhcccccccccceeEEeccCCceEEEe----ecCCe--eEEEee-------cee-cCCccchhhhHHH
Q 023031 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLI----PQAEK--VTVVFP-------MRF-NDSIDTVLATSFL 194 (288)
Q Consensus 129 ~~aapF~~~f~~l~~~~~~~~~~~~~~i~yR~~E~iyi~----~~~Dr--VTViFs-------t~F-~D~~D~vigkvFL 194 (288)
+-++.|+++.+.++.= ++.+.|.- +++.++.. +.+|. ..+.+. +.. +++.-..|+--.|
T Consensus 146 m~s~~f~~i~kdl~~i------gD~v~i~~-~~~~v~f~~~~~~~Gd~~~~~~~~~~~~~~~v~~~~~~~~~~~ysl~YL 218 (262)
T PHA03383 146 LPSNYFQRLCRDMSNI------TDDLEITK-KGKEVSFRSDYTCVTDFASQETIIGDSDNGQITCNESPDYTGKFSLKYL 218 (262)
T ss_pred EEHHHHHHHHHHHHHc------CCeEEEEE-eCCEEEEEEcccccccccceEEEecCCCCCceEEecCCceEEEEeHHHH
Confidence 3466777777766542 12344433 34456666 44432 222221 011 2234567777777
Q ss_pred HHHHHHhhhcCCCCCCCcc--cCCCCCcccCCCCCCCCCCCeeEEEEEecCC
Q 023031 195 QEFVEARRTAGLNNAPLCM--WSSSPPLELKGVPSETLSANAGFVTFVIFPR 244 (288)
Q Consensus 195 QEFvdaRr~~~~~~APqvl--~s~~PPlEL~~~~~~~~~~n~gyVTFvLFpr 244 (288)
-.|..|. +-|.+|. |+.+-|+.|.=- . ++.||++|.|=||
T Consensus 219 ~~~~Ka~-----~ls~~V~i~l~~d~Pl~ley~----i-~~~G~l~fyLAPr 260 (262)
T PHA03383 219 TSFTKAS-----GMSSSVEIYLKESNPLILKYN----V-GSLGNLKFVIAPK 260 (262)
T ss_pred HHhhccc-----cCCCeEEEEEcCCCCEEEEEE----e-CCCcEEEEEEccc
Confidence 7777654 3466664 566778877642 1 2469999999997
No 10
>PTZ00278 ARP2/3 complex subunit; Provisional
Probab=34.32 E-value=39 Score=30.20 Aligned_cols=48 Identities=15% Similarity=0.189 Sum_probs=30.2
Q ss_pred ceEEEEEEeCCCCCCccccCCCCccHHHHHHHhhcccc--------cccCCCCCCcceEEEEcCCCC
Q 023031 50 HIVLLSVSLPVPPPETIFIGGLPFGAIEAIKAAYGNVV--------QILDPPRDGFNLTLKLNLSKL 108 (288)
Q Consensus 50 ~~l~vSis~~~~~~e~~~~~~l~~G~~e~Lk~~Yg~~~--------~~~~~pe~Gy~~tL~idl~~l 108 (288)
|-+.|||.++- .|++ +..|-++|-.++ ...-.|=+|||+|.+|--...
T Consensus 72 NSvRiSi~ikq-------aDei----e~iL~~kf~~Fl~~RAe~F~ILRrkPv~GYDISFLItn~H~ 127 (174)
T PTZ00278 72 NSVRISFSFKK-------SDEL----DVIIARKFVSFLAQRAEQFVILRRKPIPGYDISFLITNFHT 127 (174)
T ss_pred ceEEEEEEehh-------hChH----HHHHHHHHHHHHHhhhhceeEEeecCcCCCChhhhhhhhhH
Confidence 57889999983 1222 333444443333 233568899999999986655
No 11
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=31.22 E-value=2.4e+02 Score=23.13 Aligned_cols=95 Identities=18% Similarity=0.327 Sum_probs=52.7
Q ss_pred hhHHHHHHHHhcccccccccceeEEeccCCceEEEeecCC--eeEEEeec-e-e-----------cCCccchhhhHHHHH
Q 023031 132 APLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAE--KVTVVFPM-R-F-----------NDSIDTVLATSFLQE 196 (288)
Q Consensus 132 apF~~~f~~l~~~~~~~~~~~~~~i~yR~~E~iyi~~~~D--rVTViFst-~-F-----------~D~~D~vigkvFLQE 196 (288)
.-|+++++.++.= ++.+.|.-.+ +.+.+...+| +..|.+.- . . +++...-|+-=.|.-
T Consensus 16 ~~f~~~~kdl~~v------~d~v~i~~~~-~~~~f~~~Gd~~~~~v~~~~~~~~~~~~~~~~i~~~~~~~~~fsl~YL~~ 88 (128)
T PF02747_consen 16 SEFKKICKDLSSV------GDTVTISADK-DSVIFSAEGDIGSAEVEFKETESSEDDEELIEIEVKEPVSSSFSLDYLND 88 (128)
T ss_dssp HHHHHHHHHHHTT------CSEEEEEEET-TEEEEEEEESSEEEEEEEEEEEEETTCTCESEEEESSEEEEEEEHHHHHH
T ss_pred HHHHHHHHHHHhc------CCEEEEEEeC-CEEEEEEEeccCcEEEEEeeccccccccccceeeeccceeeEEeHHHHHh
Confidence 3456666665432 2344554443 4566666665 34455531 1 1 122223577778888
Q ss_pred HHHHhhhcCCCCCCCc--ccCCCCCcccCCCCCCCCCCCeeEEEEEecC
Q 023031 197 FVEARRTAGLNNAPLC--MWSSSPPLELKGVPSETLSANAGFVTFVIFP 243 (288)
Q Consensus 197 FvdaRr~~~~~~APqv--l~s~~PPlEL~~~~~~~~~~n~gyVTFvLFp 243 (288)
|..+- +-|..| -++.+-|+.|+=- . ++.|+++|.|=|
T Consensus 89 ~~Ka~-----~ls~~V~l~l~~~~Pl~l~f~----~-~~~g~l~f~LAP 127 (128)
T PF02747_consen 89 FSKAA-----PLSDEVTLELGEDMPLKLEFE----L-ADGGSLKFYLAP 127 (128)
T ss_dssp HGGGG-----GTTSEEEEEEETTSEEEEEEE----E-TTTEEEEEEE-B
T ss_pred hhccc-----cCCceEEEEEcCCCCEEEEEE----e-CCCeEEEEEEcC
Confidence 87432 345566 4667889988842 1 235999999876
No 12
>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].
Probab=28.95 E-value=3.9e+02 Score=23.30 Aligned_cols=52 Identities=19% Similarity=0.362 Sum_probs=32.9
Q ss_pred CCccchhhhHHHHHHHHHhhhcCCCCCCCcccC--CCCCcccCCCCCCCCCCCeeEEEEEecCC
Q 023031 183 DSIDTVLATSFLQEFVEARRTAGLNNAPLCMWS--SSPPLELKGVPSETLSANAGFVTFVIFPR 244 (288)
Q Consensus 183 D~~D~vigkvFLQEFvdaRr~~~~~~APqvl~s--~~PPlEL~~~~~~~~~~n~gyVTFvLFpr 244 (288)
++....|.--+|. ++.|. +..+..|... ..-|+-|+...+ +.|+++|.|.|+
T Consensus 193 ~~~~~~fn~~yL~---~~l~~--~~~s~~v~i~~~~~~p~~i~~~~~-----~~~~~~f~lap~ 246 (248)
T cd00577 193 EPVSSTYSLKYLK---DFTKA--APLSDKVTLSFGSDGPLSLEFKIA-----DGGHLTFYLAPK 246 (248)
T ss_pred CceEEEEhHHHHH---HHhhh--cccCCeEEEEEcCCCCEEEEEEcC-----CCcEEEEEEccc
Confidence 4555555555555 44444 4446677554 245888887532 389999999996
No 13
>KOG1876 consensus Actin-related protein Arp2/3 complex, subunit ARPC4 [Cytoskeleton]
Probab=20.53 E-value=1.5e+02 Score=25.92 Aligned_cols=115 Identities=17% Similarity=0.238 Sum_probs=75.8
Q ss_pred cceeEEeccCCceEEEeecCCeeEEEeeceecCCccchhhhHHHHHHHHHhhhcCCCCCCCcccCCCCCcccCCCCCCCC
Q 023031 151 DQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSSSPPLELKGVPSETL 230 (288)
Q Consensus 151 ~~~~~i~yR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqvl~s~~PPlEL~~~~~~~~ 230 (288)
..++.|.-.+.|..-|.|+-..|.+.....=.|+-.+|+.+-|++ |...|-. |=+||-. -|-.
T Consensus 48 l~pv~isRNe~Ek~LIE~SiNSvRiSi~vKQaDEiE~IL~~KF~r-Fl~~RAe-----~F~iLRR---------kPv~-- 110 (168)
T KOG1876|consen 48 LTPVVISRNEQEKVLIEPSINSVRISIAVKQADEIERILCHKFTR-FLMMRAE-----AFFILRR---------KPVQ-- 110 (168)
T ss_pred hCceEeecccccceeEecccceEEEEEeecchHHHHHHHHHHHHH-HHHHhhh-----hheeeee---------CCcC--
Confidence 456777777799999999999999888888889999999999998 6666633 3333332 1111
Q ss_pred CCCeeEEEEEecCCCCCCcchhhhHHHHhhhhhhhhhhhcc--cccchhhcH--HHHhh
Q 023031 231 SANAGFVTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKV--GFLINRSIL--SSLSQ 285 (288)
Q Consensus 231 ~~n~gyVTFvLFprH~~~~~~~~ti~~i~~FR~YlHYHIKc--aYmHsR~Rv--~~~lk 285 (288)
+-.|+|.+-.-|.+.-..-+-++.+.-|-.=..--|.- .++..|.|+ ++|++
T Consensus 111 ---gy~IsfLItn~hte~m~k~Klvdf~iefmeeidkeiSemkl~~n~rar~~ae~fl~ 166 (168)
T KOG1876|consen 111 ---GYDISFLITNFHTEQMYKHKLVDFIIEFMEEIDKEISEMKLFLNARARQVAEEFLK 166 (168)
T ss_pred ---ccchhhhhhccchHHHHhchhHHHHHHHHHHHhhhhhhhccccchhhHHhHHHHHh
Confidence 13389999989987433335555555555444444444 556666442 24554
Done!