Query 022229
Match_columns 300
No_of_seqs 120 out of 195
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 09:00:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022229hhsearch_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 4E-117 1E-121 804.6 21.7 275 1-292 1-279 (301)
2 PF04045 P34-Arc: Arp2/3 compl 100.0 2E-101 4E-106 710.1 14.9 230 53-291 1-233 (241)
3 PTZ00278 ARP2/3 complex subuni 93.5 0.11 2.4E-06 46.4 4.5 119 152-291 53-172 (174)
4 PF05856 ARPC4: ARP2/3 complex 92.8 0.25 5.4E-06 44.2 5.6 118 151-289 50-168 (170)
5 KOG1876 Actin-related protein 60.5 16 0.00034 32.3 4.6 120 151-290 48-167 (168)
6 PF05856 ARPC4: ARP2/3 complex 40.7 31 0.00068 31.1 3.3 48 50-108 70-125 (170)
7 PTZ00278 ARP2/3 complex subuni 38.8 21 0.00045 32.3 1.9 58 40-108 55-127 (174)
8 COG0415 PhrB Deoxyribodipyrimi 37.6 17 0.00037 37.4 1.4 15 274-288 331-345 (461)
9 PTZ00483 proliferating cell nu 35.7 1.7E+02 0.0037 27.7 7.7 104 129-244 145-261 (264)
10 PLN00057 proliferating cell nu 33.1 1.9E+02 0.0042 27.1 7.6 103 128-247 138-257 (263)
11 PTZ00113 proliferating cell nu 31.5 2.5E+02 0.0053 26.9 8.0 107 129-247 141-269 (275)
12 TIGR00590 pcna proliferating c 28.8 3E+02 0.0065 25.7 8.0 100 129-245 139-255 (259)
13 TIGR02170 thyX thymidylate syn 27.8 24 0.00052 31.9 0.5 27 263-289 55-82 (209)
14 cd00577 PCNA Proliferating Cel 24.9 3.4E+02 0.0075 23.8 7.4 52 183-244 193-246 (248)
15 COG4585 Signal transduction hi 24.4 2.3E+02 0.0051 27.1 6.6 82 9-105 282-365 (365)
16 TIGR03829 YokU_near_AblA uncha 22.6 67 0.0015 26.1 2.1 47 69-130 41-87 (89)
17 TIGR02765 crypto_DASH cryptoch 22.2 46 0.001 33.0 1.4 19 274-292 345-363 (429)
18 PHA02122 hypothetical protein 21.3 2.4E+02 0.0052 21.4 4.6 42 129-182 12-53 (65)
19 TIGR02766 crypt_chrom_pln cryp 20.6 52 0.0011 33.2 1.4 17 274-290 341-357 (475)
No 1
>KOG2826 consensus Actin-related protein Arp2/3 complex, subunit ARPC2 [Cytoskeleton]
Probab=100.00 E-value=4.4e-117 Score=804.65 Aligned_cols=275 Identities=32% Similarity=0.606 Sum_probs=258.4
Q ss_pred CcccccccHHHHHHHHHhhhc---cCCccccceEEeecCceEEEEecCCCCCceEEEEEeeCCCCCccccccCCCchHHH
Q 022229 1 MLLLQSHSRFLLEALLNRVQN---VDKATEVDYHWVEFDDVRYHVQVTMKNPHIVLLSVSLPVPPPETIFIGGLPFGAIE 77 (300)
Q Consensus 1 MilLe~~N~ii~~~L~~~~~~---~~kp~~~d~~~~DFD~v~yhis~~~~~k~~l~lSislk~~~~~~l~~~~l~~G~~e 77 (300)
||+||++|+||+++|.+++++ +.+|+++|++++|||||+|||||+++||++|++|||+||| .++ ..||+++
T Consensus 1 Mi~Le~nN~iI~etL~~kf~~~~~g~~P~sid~~vaDFDgv~yhiSnp~gdktkillSislK~y--~el----q~~Ga~~ 74 (301)
T KOG2826|consen 1 MILLEPNNRIIEETLNEKFENARAGGKPESIDVTVADFDGVLYHISNPNGDKTKILLSISLKFY--KEL----QLHGADD 74 (301)
T ss_pred CceeccccHHHHHHHHHHHHHHhccCCCcceeEEEeccCceEEEccCCCCCceEEEEEEehhhH--HHH----HHcCHHH
Confidence 999999999999999999987 4589999999999999999999999999999999999965 332 2499999
Q ss_pred HHHHhhcccccccCCCCCCcceEEEecCCCCCCChhhHHHHHHHHHhHHHHHhhchHHHHHHHhcccccccccCcceEEe
Q 022229 78 AIKAAYGNVVQILDPPRDGFNLTLKLNLSKLPPNEENKHALLVKIASVREVVLGAPLRVVLKHLASKTVASDIDQLLALV 157 (300)
Q Consensus 78 ~Lk~~Yg~~~~i~~~pE~GYdvTL~iDL~~lp~~~e~~~~li~~~s~LKrn~laApF~~~f~~l~~~~~~~~~~~~~~I~ 157 (300)
+||++||.|+ ..||+|||+||++||++||++++ ++++.+++|||||+||+|+++|+. |+++.++++.++||
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---SLAKTISLLKRNCFASVFEKYFQF---QEAGVEGEKRAVIH 145 (301)
T ss_pred HHHHHhcccc---CCCCCCccEEEEEEHHhCchhHH---HHHHHHHHhhhhHHHHHHHHHHhc---chhhhhhhheeEEE
Confidence 9999999998 67999999999999999999954 499999999999999999988754 34445567889999
Q ss_pred ccCCceEEEeecCCeeEEEeeceecCCcchhhhHHHHHHHHHHhhhcCCCCCCCccCCC-CCCcccCCCCCCCCCCCeeE
Q 022229 158 HRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSS-SPPLELKGVPSETLSANAGF 236 (300)
Q Consensus 158 YR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqVl~s~-~PPlEl~~~~~~~~~~n~gy 236 (300)
|||||+|||+|++|||||||||+|+|+||+||||||||||+||||+ +|+|||||||+ ||||||++++++++|+|+||
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 99999999988899999999
Q ss_pred EEEEecCCCCCCcchhhhhHHHhhhccccceeeeccchhhHHHHHHhHHHHHHHhh
Q 022229 237 VTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKCSEGFMHTRMRRRVESMIRVVL 292 (300)
Q Consensus 237 vTFvLFpRH~~~~~~~~ti~~i~~FR~YlHYHIKcSKaymHsRMR~Rv~~~lkvL~ 292 (300)
|||||||||++++.+++||++|++|||||||||||||||||||||+||++|||||-
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 99999999999999999999999999999999999999999999999999999984
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=1.8e-101 Score=710.08 Aligned_cols=230 Identities=42% Similarity=0.786 Sum_probs=197.0
Q ss_pred EEEEeeCCCCCccccccCCCchHHHHHHHhhcccccccCCCCCCcceEEEecCCCCCCChhhHHHHHHHHHhHHHHHhhc
Q 022229 53 LLSVSLPVPPPETIFIGGLPFGAIEAIKAAYGNVVQILDPPRDGFNLTLKLNLSKLPPNEENKHALLVKIASVREVVLGA 132 (300)
Q Consensus 53 ~lSislk~~~~~~l~~~~l~~G~~e~Lk~~Yg~~~~i~~~pE~GYdvTL~iDL~~lp~~~e~~~~li~~~s~LKrn~laA 132 (300)
+|||++|| |.+|. +||+.|+||++||++++ ++||+|||+||.+||++||+++++++++|+++|+||||||||
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--WKELQ----QYGAEEYLKREYGSYVQ--TPPESGYDVTLVIDLEKLPADEEDREELIKKISLLKRNCLAA 72 (241)
T ss_dssp EEEEE-TT--HHHHH----TTTHHHHHHHHCCCCE---ES--TTSSEEEEEETTS-----SSHHHHHHHHHTHHHHHCCH
T ss_pred CeEEEech--HHHHH----HcCHHHHHHHhcccccc--CCCCCCccEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHH
Confidence 68999994 67764 59999999999999986 689999999999999999998888999999999999999999
Q ss_pred hHHHHHHHhcccccccccCcceEEeccCCceEEEeecCCeeEEEeeceecCCcchhhhHHHHHHHHHHhhhcCCCCCCCc
Q 022229 133 PLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLC 212 (300)
Q Consensus 133 pF~~~f~~l~~~~~~~~~~~~~~I~YR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqV 212 (300)
||+++|+.+++++..+.++++++|+||+||+|||+|++|||||||||+|+|+||+||||||||||+||||+++ |+||||
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 9999999988887656577899999999999999999999999999999999999999999999999999965 999999
Q ss_pred cCCC-CCCcccCCCCCCC-CCCCeeEEEEEecCCCC-CCcchhhhhHHHhhhccccceeeeccchhhHHHHHHhHHHHHH
Q 022229 213 MWSS-SPPLELKGVPSET-LSANAGFVTFVIFPRHV-EGKKLDRTVWNLSTFHAYVSYHVKCSEGFMHTRMRRRVESMIR 289 (300)
Q Consensus 213 l~s~-~PPlEl~~~~~~~-~~~n~gyvTFvLFpRH~-~~~~~~~ti~~i~~FR~YlHYHIKcSKaymHsRMR~Rv~~~lk 289 (300)
+||+ +||+||+|+++++ .++|+|||||||||||+ +++++++|||+|++|||||||||||||||||||||+||++|||
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 9999999998887 89999999999999995 4899999999999999999999999999999999999999999
Q ss_pred Hh
Q 022229 290 VV 291 (300)
Q Consensus 290 vL 291 (300)
||
T Consensus 232 vL 233 (241)
T PF04045_consen 232 VL 233 (241)
T ss_dssp HH
T ss_pred HH
Confidence 98
No 3
>PTZ00278 ARP2/3 complex subunit; Provisional
Probab=93.49 E-value=0.11 Score=46.43 Aligned_cols=119 Identities=19% Similarity=0.348 Sum_probs=96.2
Q ss_pred cceEEeccCCceEEEeecCCeeEEEeeceecCCcchhhhHHHHHHHHHHhhhcCCCCCCCccCCCCCCcccCCCCCCCCC
Q 022229 152 QLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSSSPPLELKGVPSETLS 231 (300)
Q Consensus 152 ~~~~I~YR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqVl~s~~PPlEl~~~~~~~~~ 231 (300)
.++.|...++|.+.|.|+-+.|.|.|...-.|+-++++++-|+. |.-.|-. +=+| ||-.|-
T Consensus 53 ~pl~I~Rne~E~clIE~SiNSvRiSi~ikqaDeie~iL~~kf~~-Fl~~RAe-----~F~I---------LRrkPv---- 113 (174)
T PTZ00278 53 NPIYIVRSEKEKCLIEPSINSVRISFSFKKSDELDVIIARKFVS-FLAQRAE-----QFVI---------LRRKPI---- 113 (174)
T ss_pred CcEEEEEcCCceEEEEcccceEEEEEEehhhChHHHHHHHHHHH-HHHhhhh-----ceeE---------EeecCc----
Confidence 67899999999999999999999999999999999999999987 5554432 1111 222221
Q ss_pred CCeeE-EEEEecCCCCCCcchhhhhHHHhhhccccceeeeccchhhHHHHHHhHHHHHHHh
Q 022229 232 ANAGF-VTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKCSEGFMHTRMRRRVESMIRVV 291 (300)
Q Consensus 232 ~n~gy-vTFvLFpRH~~~~~~~~ti~~i~~FR~YlHYHIKcSKaymHsRMR~Rv~~~lkvL 291 (300)
.|| |||.+---|++.=...+-|+.|.+|=.=.-=-|.--|-.+.+|=|.=.++|++-+
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 7899999999865667899999999888888888999999999999999999865
No 4
>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=92.76 E-value=0.25 Score=44.19 Aligned_cols=118 Identities=20% Similarity=0.323 Sum_probs=83.5
Q ss_pred CcceEEeccCCceEEEeecCCeeEEEeeceecCCcchhhhHHHHHHHHHHhhhcCCCCCCCccCCCCCCcccCCCCCCCC
Q 022229 151 DQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSSSPPLELKGVPSETL 230 (300)
Q Consensus 151 ~~~~~I~YR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqVl~s~~PPlEl~~~~~~~~ 230 (300)
-+++.|...+.|.++|.|+-+.|.|.+...-.|+-++++.+-|+. |.-.|-. +=+| ||-.|-
T Consensus 50 l~pl~I~Rne~E~clIE~SiNSvRvSi~ikq~Deie~iL~~kf~r-Fl~~RAe-----~F~I---------LRRkPv--- 111 (170)
T PF05856_consen 50 LNPLVISRNEKEKCLIEPSINSVRVSIKIKQADEIERILCHKFTR-FLMQRAE-----NFFI---------LRRKPV--- 111 (170)
T ss_dssp ---EEEESSSS-EEEEEEBSSEEEEEEE----SCHHHHHHHHHHH-HHHHCTT-----TSTT---------B-SS-----
T ss_pred cCceeeccCCCceEEEEcccceEEEEEEecccChHHHHHHHHHHH-HHHhhhh-----hhee---------eeecCc---
Confidence 367899999999999999999999999999999999999999976 5555432 1111 222111
Q ss_pred CCCeeE-EEEEecCCCCCCcchhhhhHHHhhhccccceeeeccchhhHHHHHHhHHHHHH
Q 022229 231 SANAGF-VTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKCSEGFMHTRMRRRVESMIR 289 (300)
Q Consensus 231 ~~n~gy-vTFvLFpRH~~~~~~~~ti~~i~~FR~YlHYHIKcSKaymHsRMR~Rv~~~lk 289 (300)
-|| |||.+--.|++.--+.+-|+.|.+|=.=+-=-|.--|--+-+|=|.=.++|++
T Consensus 112 ---~GYDISFLIt~~h~e~m~k~kLidFIi~FmeeiDkeIs~mKl~~naRaR~~A~~fl~ 168 (170)
T PF05856_consen 112 ---EGYDISFLITNFHTEQMGKHKLIDFIITFMEEIDKEISEMKLSLNARARIVAEEFLK 168 (170)
T ss_dssp ---TTSSEEEEEECCHHHHSTHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHC
T ss_pred ---CCCceeeeeechhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 144 89999999998656678899999997777677777777788888877777765
No 5
>KOG1876 consensus Actin-related protein Arp2/3 complex, subunit ARPC4 [Cytoskeleton]
Probab=60.49 E-value=16 Score=32.31 Aligned_cols=120 Identities=18% Similarity=0.270 Sum_probs=91.5
Q ss_pred CcceEEeccCCceEEEeecCCeeEEEeeceecCCcchhhhHHHHHHHHHHhhhcCCCCCCCccCCCCCCcccCCCCCCCC
Q 022229 151 DQLLALVHRPKESFFLIPQAEKVTVVFPMRFNDSIDTVLATSFLQEFVEARRTAGLNNAPLCMWSSSPPLELKGVPSETL 230 (300)
Q Consensus 151 ~~~~~I~YR~~E~iyi~~~~DrVTViFst~F~D~~D~vigkvFLQEFvdaRr~~~~~~APqVl~s~~PPlEl~~~~~~~~ 230 (300)
.++++|.-.+.|.+-|.|+-..|.+.....=-|+-.+|+.+-|++ |...|-. |=+||-. -|-
T Consensus 48 l~pv~isRNe~Ek~LIE~SiNSvRiSi~vKQaDEiE~IL~~KF~r-Fl~~RAe-----~F~iLRR---------kPv--- 109 (168)
T KOG1876|consen 48 LTPVVISRNEQEKVLIEPSINSVRISIAVKQADEIERILCHKFTR-FLMMRAE-----AFFILRR---------KPV--- 109 (168)
T ss_pred hCceEeecccccceeEecccceEEEEEeecchHHHHHHHHHHHHH-HHHHhhh-----hheeeee---------CCc---
Confidence 467899888899999999999998888888889999999999987 7766643 3333322 111
Q ss_pred CCCeeEEEEEecCCCCCCcchhhhhHHHhhhccccceeeeccchhhHHHHHHhHHHHHHH
Q 022229 231 SANAGFVTFVIFPRHVEGKKLDRTVWNLSTFHAYVSYHVKCSEGFMHTRMRRRVESMIRV 290 (300)
Q Consensus 231 ~~n~gyvTFvLFpRH~~~~~~~~ti~~i~~FR~YlHYHIKcSKaymHsRMR~Rv~~~lkv 290 (300)
.+-.|+|.+-.-|.+.-..-+-++.+.-|-.=..--|.=+|.++..|-|--.++|++.
T Consensus 110 --~gy~IsfLItn~hte~m~k~Klvdf~iefmeeidkeiSemkl~~n~rar~~ae~fl~~ 167 (168)
T KOG1876|consen 110 --QGYDISFLITNFHTEQMYKHKLVDFIIEFMEEIDKEISEMKLFLNARARQVAEEFLKR 167 (168)
T ss_pred --CccchhhhhhccchHHHHhchhHHHHHHHHHHHhhhhhhhccccchhhHHhHHHHHhc
Confidence 0123899999999764333355666777776677789999999999999999999885
No 6
>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=40.71 E-value=31 Score=31.10 Aligned_cols=48 Identities=8% Similarity=0.204 Sum_probs=27.9
Q ss_pred ceEEEEEeeCCCCCccccccCCCchHHHHHHHhhcccc--------cccCCCCCCcceEEEecCCCC
Q 022229 50 HIVLLSVSLPVPPPETIFIGGLPFGAIEAIKAAYGNVV--------QILDPPRDGFNLTLKLNLSKL 108 (300)
Q Consensus 50 ~~l~lSislk~~~~~~l~~~~l~~G~~e~Lk~~Yg~~~--------~i~~~pE~GYdvTL~iDL~~l 108 (300)
|-+.|||.+|- .+ -....|-++|-.++ -..-.|=+|||+|.+|.-..+
T Consensus 70 NSvRvSi~ikq-------~D----eie~iL~~kf~rFl~~RAe~F~ILRRkPv~GYDISFLIt~~h~ 125 (170)
T PF05856_consen 70 NSVRVSIKIKQ-------AD----EIERILCHKFTRFLMQRAENFFILRRKPVEGYDISFLITNFHT 125 (170)
T ss_dssp SEEEEEEE-----------S----CHHHHHHHHHHHHHHHCTTTSTTB-SS--TTSSEEEEEECCHH
T ss_pred ceEEEEEEecc-------cC----hHHHHHHHHHHHHHHhhhhhheeeeecCcCCCceeeeeechhh
Confidence 67889999982 11 23445555554443 223568899999999988765
No 7
>PTZ00278 ARP2/3 complex subunit; Provisional
Probab=38.75 E-value=21 Score=32.28 Aligned_cols=58 Identities=14% Similarity=0.179 Sum_probs=35.4
Q ss_pred EEEecCCCCC-------ceEEEEEeeCCCCCccccccCCCchHHHHHHHhh--------cccccccCCCCCCcceEEEec
Q 022229 40 YHVQVTMKNP-------HIVLLSVSLPVPPPETIFIGGLPFGAIEAIKAAY--------GNVVQILDPPRDGFNLTLKLN 104 (300)
Q Consensus 40 yhis~~~~~k-------~~l~lSislk~~~~~~l~~~~l~~G~~e~Lk~~Y--------g~~~~i~~~pE~GYdvTL~iD 104 (300)
-+|+-+++++ |-+.||+.+|- -++ .+..|-++| +.+.-..-.|=+|||+|.+|.
T Consensus 55 l~I~Rne~E~clIE~SiNSvRiSi~ikq--aDe---------ie~iL~~kf~~Fl~~RAe~F~ILRrkPv~GYDISFLIt 123 (174)
T PTZ00278 55 IYIVRSEKEKCLIEPSINSVRISFSFKK--SDE---------LDVIIARKFVSFLAQRAEQFVILRRKPIPGYDISFLIT 123 (174)
T ss_pred EEEEEcCCceEEEEcccceEEEEEEehh--hCh---------HHHHHHHHHHHHHHhhhhceeEEeecCcCCCChhhhhh
Confidence 4566544454 66888988882 111 223333444 333323356889999999998
Q ss_pred CCCC
Q 022229 105 LSKL 108 (300)
Q Consensus 105 L~~l 108 (300)
-...
T Consensus 124 n~H~ 127 (174)
T PTZ00278 124 NFHT 127 (174)
T ss_pred hhhH
Confidence 7775
No 8
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=37.60 E-value=17 Score=37.40 Aligned_cols=15 Identities=53% Similarity=0.935 Sum_probs=14.0
Q ss_pred hhhHHHHHHhHHHHH
Q 022229 274 GFMHTRMRRRVESMI 288 (300)
Q Consensus 274 aymHsRMR~Rv~~~l 288 (300)
+|||.|||-=|++||
T Consensus 331 G~MHNR~RMivAsFL 345 (461)
T COG0415 331 GYMHNRMRMIVASFL 345 (461)
T ss_pred CCcchHHHHHHHHHH
Confidence 799999999999987
No 9
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=35.73 E-value=1.7e+02 Score=27.74 Aligned_cols=104 Identities=21% Similarity=0.223 Sum_probs=63.5
Q ss_pred HhhchHHHHHHHhcccccccccCcceEEeccCCceEEEeecCCe--eEEEee-------ceecCCcchhhhHHHHHHHHH
Q 022229 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEK--VTVVFP-------MRFNDSIDTVLATSFLQEFVE 199 (300)
Q Consensus 129 ~laApF~~~f~~l~~~~~~~~~~~~~~I~YR~~E~iyi~~~~Dr--VTViFs-------t~F~D~~D~vigkvFLQEFvd 199 (300)
+-++.|+++.+.++.= ++.+.|.- +++.+++.+++|. ..+.++ ..-+++..-.|+--.|-.|..
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 4477888777766531 12455555 4566777777763 444443 112233345567778888886
Q ss_pred HhhhcCCCCCCCcc--CCCCCCcccCCCCC--CCCCCCeeEEEEEecCC
Q 022229 200 ARRTAGLNNAPLCM--WSSSPPLELKGVPS--ETLSANAGFVTFVIFPR 244 (300)
Q Consensus 200 aRr~~~~~~APqVl--~s~~PPlEl~~~~~--~~~~~n~gyvTFvLFpR 244 (300)
| .+-|..|. ++.+-|+.|+=--+ ....++.||++|-|=||
T Consensus 218 a-----~~lsd~V~i~l~~~~Pl~ley~i~~~~~~~~~~G~l~fyLAPr 261 (264)
T PTZ00483 218 A-----TSLADEVSINLSAGIPLSVKFNFKDPLTDLQDSSFINFYLAPN 261 (264)
T ss_pred c-----ccCCCeEEEEEcCCCCEEEEEEecccccCCCCceEEEEEEccc
Confidence 6 34567774 66788887654210 01235789999999998
No 10
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=33.09 E-value=1.9e+02 Score=27.08 Aligned_cols=103 Identities=17% Similarity=0.299 Sum_probs=65.5
Q ss_pred HHhhchHHHHHHHhcccccccccCcceEEeccCCceEEEeecCC--eeEEEee-----------c--eecCCcchhhhHH
Q 022229 128 VVLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAE--KVTVVFP-----------M--RFNDSIDTVLATS 192 (300)
Q Consensus 128 n~laApF~~~f~~l~~~~~~~~~~~~~~I~YR~~E~iyi~~~~D--rVTViFs-----------t--~F~D~~D~vigkv 192 (300)
.+.++.|+++.+.+..= ++.+.|.- +++.+++.+.+| ++.+.++ . .-+++....++--
T Consensus 138 ~m~s~~f~~~~kdl~~v------sd~v~i~~-~~~~~~f~~~Gd~g~~~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~ 210 (263)
T PLN00057 138 RMPSAEFQRICKDLSSI------GDTVVISV-TKEGVKFSTSGDIGTANIVLRQNTTVDKPEEKTVIEMQEPVSLTFALR 210 (263)
T ss_pred EEEHHHHHHHHHHHHHc------CCEEEEEE-eCCEEEEEEEecCcEEEEEEecCCCCCCccceEEEEecCceEEEEhHH
Confidence 35577888888776631 13456665 455677777664 4555553 1 1223445567777
Q ss_pred HHHHHHHHhhhcCCCCCCCcc--CCCCCCcccCCCCCCCCCCCeeEEEEEecCCCCC
Q 022229 193 FLQEFVEARRTAGLNNAPLCM--WSSSPPLELKGVPSETLSANAGFVTFVIFPRHVE 247 (300)
Q Consensus 193 FLQEFvdaRr~~~~~~APqVl--~s~~PPlEl~~~~~~~~~~n~gyvTFvLFpRH~~ 247 (300)
.|-.|+.| .+-|-.|. ++.+-|+.|+=- . .+.|+++|.|=||=-+
T Consensus 211 YL~~~~Ka-----~~ls~~V~i~~~~~~Pl~l~y~----l-~~~g~l~f~LAPri~~ 257 (263)
T PLN00057 211 YLNSFTKA-----TPLSDTVTLSLSKELPVVVEYK----I-AEMGYIRYYLAPKIEE 257 (263)
T ss_pred HHHHhhcc-----ccCCCeEEEEEcCCCCEEEEEE----e-CCCeEEEEEEcCCCCC
Confidence 78777765 34566774 557889987762 2 3589999999998643
No 11
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=31.46 E-value=2.5e+02 Score=26.90 Aligned_cols=107 Identities=17% Similarity=0.236 Sum_probs=66.4
Q ss_pred HhhchHHHHHHHhcccccccccCcceEEeccCCceEEEeecCCe--eEEEee-------------ceecCCcchhhhHHH
Q 022229 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEK--VTVVFP-------------MRFNDSIDTVLATSF 193 (300)
Q Consensus 129 ~laApF~~~f~~l~~~~~~~~~~~~~~I~YR~~E~iyi~~~~Dr--VTViFs-------------t~F~D~~D~vigkvF 193 (300)
+-++.|+++.+.++.=. +.++|.- +++.+++.+++|. ..+.++ +..+.+.-..|+--.
T Consensus 141 m~s~~f~~i~rdl~~vg------d~V~i~~-~~~~v~f~a~Gd~g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~ysl~Y 213 (275)
T PTZ00113 141 LSSKELTNICRQMNEFS------DTVKIEI-DSNSIKFTTQGDLGDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKY 213 (275)
T ss_pred EEHHHHHHHHHHHHHcC------CEEEEEE-eCCEEEEEEeccCcEEEEEEecCCCCCCccceEEEEecCceeeEEhHHH
Confidence 44778888887765421 2355555 4566887877763 333332 234455566888889
Q ss_pred HHHHHHHhhhcCCCCCCCc--cCCCCCCcccCCCCC-----CCCCCCeeEEEEEecCCCCC
Q 022229 194 LQEFVEARRTAGLNNAPLC--MWSSSPPLELKGVPS-----ETLSANAGFVTFVIFPRHVE 247 (300)
Q Consensus 194 LQEFvdaRr~~~~~~APqV--l~s~~PPlEl~~~~~-----~~~~~n~gyvTFvLFpRH~~ 247 (300)
|-.|..|.. -|..| .|+.+-|+.|+=--+ .+-..+.|+++|.|=||=-.
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 999987643 45666 467788887653110 00112579999999998643
No 12
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.79 E-value=3e+02 Score=25.71 Aligned_cols=100 Identities=15% Similarity=0.272 Sum_probs=65.4
Q ss_pred HhhchHHHHHHHhcccccccccCcceEEeccCCceEEEeecCC--eeEEEeece-------------ecCCcchhhhHHH
Q 022229 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAE--KVTVVFPMR-------------FNDSIDTVLATSF 193 (300)
Q Consensus 129 ~laApF~~~f~~l~~~~~~~~~~~~~~I~YR~~E~iyi~~~~D--rVTViFst~-------------F~D~~D~vigkvF 193 (300)
+.++.|+++.+.++.= ++.+.|.-- ++.+++.+++| ++.+.++-. -+++....++--.
T Consensus 139 m~s~~f~~~~kdl~~v------~d~v~i~~~-~~~~~f~~~Gd~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~y~l~Y 211 (259)
T TIGR00590 139 MPSSEFARICRDLSQF------SDSVVISCT-KEGVKFSAKGDIGSGNVKLKQTSDTDKEEEAVTIEMKEPVTLTFAIKY 211 (259)
T ss_pred EEHHHHHHHHHHHHHc------CCEEEEEEe-CCEEEEEEEecccEEEEEEecCCCCCCCcceEEEEecCceeeeeeHHH
Confidence 4577888888877641 124566553 46677777774 566666522 2234455678888
Q ss_pred HHHHHHHhhhcCCCCCCCcc--CCCCCCcccCCCCCCCCCCCeeEEEEEecCCC
Q 022229 194 LQEFVEARRTAGLNNAPLCM--WSSSPPLELKGVPSETLSANAGFVTFVIFPRH 245 (300)
Q Consensus 194 LQEFvdaRr~~~~~~APqVl--~s~~PPlEl~~~~~~~~~~n~gyvTFvLFpRH 245 (300)
|-.|..|- +-|-+|. ++.+-|+.|+=- . .+.|+++|.|=||=
T Consensus 212 L~~~~Ka~-----~ls~~V~l~~~~~~Pl~l~y~----i-~~~g~l~f~lAPri 255 (259)
T TIGR00590 212 LNLFTKAT-----PLSDRVTLSMSNDVPLVVEYK----I-KDMGFLRFFLAPKI 255 (259)
T ss_pred HHHhhhhc-----cCCCeEEEEEcCCCCEEEEEE----e-CCCeEEEEEEcCcc
Confidence 88888763 3466664 557889987752 1 24699999999984
No 13
>TIGR02170 thyX thymidylate synthase, flavin-dependent. Two forms of microbial thymidylate synthase are known: ThyA (2.1.1.45) and ThyX (2.1.1.148). This model describes ThyX, a homotetrameric flavoprotein. Both enzymes convert dUMP to dTMP. Under oxygen-limiting conditions, thyX can complement a thyA mutation.
Probab=27.80 E-value=24 Score=31.92 Aligned_cols=27 Identities=30% Similarity=0.377 Sum_probs=23.8
Q ss_pred cccceeee-ccchhhHHHHHHhHHHHHH
Q 022229 263 AYVSYHVK-CSEGFMHTRMRRRVESMIR 289 (300)
Q Consensus 263 ~YlHYHIK-cSKaymHsRMR~Rv~~~lk 289 (300)
..++++|+ ||++-.|.=||.|+.+|.+
T Consensus 55 ~~~tF~i~g~sr~~~~ql~RHR~~s~~~ 82 (209)
T TIGR02170 55 ASFTFHVKGASRSVAAQLTRHRIASYSV 82 (209)
T ss_pred eEEEEEEEeecHHHHHHHHHHhcCceee
Confidence 57889999 9999999999999987654
No 14
>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=24.86 E-value=3.4e+02 Score=23.83 Aligned_cols=52 Identities=25% Similarity=0.432 Sum_probs=34.1
Q ss_pred CCcchhhhHHHHHHHHHHhhhcCCCCCCCccCC--CCCCcccCCCCCCCCCCCeeEEEEEecCC
Q 022229 183 DSIDTVLATSFLQEFVEARRTAGLNNAPLCMWS--SSPPLELKGVPSETLSANAGFVTFVIFPR 244 (300)
Q Consensus 183 D~~D~vigkvFLQEFvdaRr~~~~~~APqVl~s--~~PPlEl~~~~~~~~~~n~gyvTFvLFpR 244 (300)
++....|.--+|.++..+ +..+..|... ..-|+-|+... .+.|+++|.|.|+
T Consensus 193 ~~~~~~fn~~yL~~~l~~-----~~~s~~v~i~~~~~~p~~i~~~~-----~~~~~~~f~lap~ 246 (248)
T cd00577 193 EPVSSTYSLKYLKDFTKA-----APLSDKVTLSFGSDGPLSLEFKI-----ADGGHLTFYLAPK 246 (248)
T ss_pred CceEEEEhHHHHHHHhhh-----cccCCeEEEEEcCCCCEEEEEEc-----CCCcEEEEEEccc
Confidence 455555655555555444 5546677655 34688888754 2389999999997
No 15
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=24.41 E-value=2.3e+02 Score=27.07 Aligned_cols=82 Identities=32% Similarity=0.437 Sum_probs=47.7
Q ss_pred HHHHHHHHHhhhccCCccccceEEeecCc-eEEEEecCCCCCceEEEEEeeCCCCCccccccCCC-chHHHHHHHhhccc
Q 022229 9 RFLLEALLNRVQNVDKATEVDYHWVEFDD-VRYHVQVTMKNPHIVLLSVSLPVPPPETIFIGGLP-FGAIEAIKAAYGNV 86 (300)
Q Consensus 9 ~ii~~~L~~~~~~~~kp~~~d~~~~DFD~-v~yhis~~~~~k~~l~lSislk~~~~~~l~~~~l~-~G~~e~Lk~~Yg~~ 86 (300)
|++||.|+|.+.= .++.++.+.+.-=|+ ++-.|+. +.+. .. .+... ++.. .|-.|-.+..=|.+
T Consensus 282 rivQEaltN~~rH-a~A~~v~V~l~~~~~~l~l~V~D--nG~G-------f~---~~~~~-~~~GL~~mreRv~~lgG~l 347 (365)
T COG4585 282 RIVQEALTNAIRH-AQATEVRVTLERTDDELRLEVID--NGVG-------FD---PDKEG-GGFGLLGMRERVEALGGTL 347 (365)
T ss_pred HHHHHHHHHHHhc-cCCceEEEEEEEcCCEEEEEEEE--CCcC-------CC---ccccC-CCcchhhHHHHHHHcCCEE
Confidence 7889999887753 245566666543333 4444432 2211 11 11111 1122 57788888887877
Q ss_pred ccccCCCCCCcceEEEecC
Q 022229 87 VQILDPPRDGFNLTLKLNL 105 (300)
Q Consensus 87 ~~i~~~pE~GYdvTL~iDL 105 (300)
. +...|..|..+++.+.+
T Consensus 348 ~-i~S~~g~Gt~i~i~lPl 365 (365)
T COG4585 348 T-IDSAPGQGTTVTITLPL 365 (365)
T ss_pred E-EEecCCCceEEEEecCC
Confidence 6 54667889999988754
No 16
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=22.65 E-value=67 Score=26.07 Aligned_cols=47 Identities=15% Similarity=0.216 Sum_probs=31.1
Q ss_pred cCCCchHHHHHHHhhcccccccCCCCCCcceEEEecCCCCCCChhhHHHHHHHHHhHHHHHh
Q 022229 69 GGLPFGAIEAIKAAYGNVVQILDPPRDGFNLTLKLNLSKLPPNEENKHALLVKIASVREVVL 130 (300)
Q Consensus 69 ~~l~~G~~e~Lk~~Yg~~~~i~~~pE~GYdvTL~iDL~~lp~~~e~~~~li~~~s~LKrn~l 130 (300)
++-.|=.++.+++.=.. =++||-.+||..-.. .+|.+.=.+||||.|
T Consensus 41 CGe~y~~dev~~eIE~~--------------l~l~~~~~~p~~~~y-~~lm~~~~~lk~nyf 87 (89)
T TIGR03829 41 CGMEYQDDTTVKEIEDQ--------------LLLVDTKKLPDETTY-EELMKMPRLLKRNYF 87 (89)
T ss_pred CCcEeecHHHHHHHHhh--------------hEEeecccCCccccH-HHHhhcHHHHhhccc
Confidence 33345556666554433 356899999976322 447788888999987
No 17
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=22.16 E-value=46 Score=32.97 Aligned_cols=19 Identities=42% Similarity=0.585 Sum_probs=16.1
Q ss_pred hhhHHHHHHhHHHHHHHhh
Q 022229 274 GFMHTRMRRRVESMIRVVL 292 (300)
Q Consensus 274 aymHsRMR~Rv~~~lkvL~ 292 (300)
+|||-|||-=|++||--.|
T Consensus 345 G~mhnr~Rm~vAsFl~k~L 363 (429)
T TIGR02765 345 GFMSNRGRQNVASFLVKDL 363 (429)
T ss_pred CCCCHHHHHHHHHHHHHcc
Confidence 6999999999999986543
No 18
>PHA02122 hypothetical protein
Probab=21.29 E-value=2.4e+02 Score=21.36 Aligned_cols=42 Identities=14% Similarity=0.267 Sum_probs=28.1
Q ss_pred HhhchHHHHHHHhcccccccccCcceEEeccCCceEEEeecCCeeEEEeeceec
Q 022229 129 VLGAPLRVVLKHLASKTVASDIDQLLALVHRPKESFFLIPQAEKVTVVFPMRFN 182 (300)
Q Consensus 129 ~laApF~~~f~~l~~~~~~~~~~~~~~I~YR~~E~iyi~~~~DrVTViFst~F~ 182 (300)
+|.-.||.||-+|= +++.+..+.=.||++ +|-|.|-|++.-.
T Consensus 12 vm~~vfe~afi~l~----g~~~~~iiihs~~~~--------gd~v~vn~e~~~n 53 (65)
T PHA02122 12 VMNRVFEEAFIGLL----GDGCENIIIHSFKDD--------GDEVIVNFELVVN 53 (65)
T ss_pred HHHHHHHHHHHHhh----CCCCCcEEEEeeccC--------CCEEEEEEEEEEC
Confidence 56677888886653 334445555567886 6788888887644
No 19
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=20.63 E-value=52 Score=33.21 Aligned_cols=17 Identities=35% Similarity=0.620 Sum_probs=14.6
Q ss_pred hhhHHHHHHhHHHHHHH
Q 022229 274 GFMHTRMRRRVESMIRV 290 (300)
Q Consensus 274 aymHsRMR~Rv~~~lkv 290 (300)
+|||-|||-=|++||--
T Consensus 341 GwmhnR~Rm~vAsfl~k 357 (475)
T TIGR02766 341 GWLHDRIRVVVSSFFVK 357 (475)
T ss_pred CCCcHHHHHHHHHHHHc
Confidence 57999999999999743
Done!