Citrus Sinensis ID: 021517

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-
Protein Sequence
MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ
Secondary Structure (PSIPRED)
cEEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHcccccEEEcccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccccHHHHHHcccccccHHHHHHHHHHHHHccccHHHHHHHHcccccccccHHHHHHHHcccccccHHHHHHHHHHccccccccHHHHHccccEEEcccccEEccHHHHHHHHHHHHHcccccccccccccccHHHHHHccccccccccccccccccccccccccccccEEEEccccccccccccccccEEEEEccccccccccccccccccccEEcccc
Secondary Structure Prediction (SSPRO)
cEEEEEEccccHHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEEccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHccEEEEcccccEEHHHHHHHHHHHHHHcccccccccEEcccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccEEEEEcccccccccccccHHHEEEEEccccHHHHHHccccccHcccEEcccc
Coil and Loop (DISEMBL)
MKVLIVFDDVTCFSQIESLigsldwltpvsRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSrhafkqnhpdvgyeELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYdslddkeknIFLDVacffqgedVDLVMKFFnasgfypeigmsvlvdksliaidshKKITMHDLLQELGREIVrqesidpanrsrlwhhediyEVLTYNTfyrssvngknkckisylqdpgfaeVKYLHwygyplkslpsnlsakklvlvevpdsdieRLWHCVKVCISYYTCGIFQ
Flexible Loop (DISEMBL)
MKVLIVFDDVTCFSQIEsligsldwltpvSRIIittrnkqvlrnwGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQEsidpanrsrlwhhEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ
Low Complexity Region (SEG)
MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ
Disordered region (IsUnstruct)
**VLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF*
Disordered Region (DISOPRED)
MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ
Disordered Region (DISEMBL)
MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ
Disordered Region (DISPRO)
MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	311	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.935	0.254	0.364	1e-49
Q9FL92	1372	Probable WRKY transcripti	no	no	0.954	0.216	0.352	7e-49
Q9FH83	1288	Probable WRKY transcripti	no	no	0.954	0.230	0.36	2e-48
O82500	1095	Putative disease resistan	no	no	0.954	0.271	0.326	1e-42
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.932	0.222	0.327	9e-40
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.938	0.154	0.309	1e-37
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.942	0.181	0.322	1e-35
Q9LVT1	623	Putative disease resistan	no	no	0.665	0.332	0.235	3e-10
Q9FKZ1	809	Probable disease resistan	no	no	0.852	0.327	0.257	8e-10
Q9FLB4	874	Putative disease resistan	no	no	0.533	0.189	0.297	3e-08

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  196 bits (499), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 117/321 (36%), Positives = 181/321 (56%), Gaps = 30/321 (9%)

Query: 2   KVLIVFDDVTCFSQ-IESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHH 60
           KVLIV DD+      +E L G LDW    SRIIITTR+K ++    +  IYE+ AL  H 
Sbjct: 295 KVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHE 352

Query: 61  AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
           +I+LF +HAF +  P+  +E+LS +V+ YA+G+PLALKV G  LH      W+SA + ++
Sbjct: 353 SIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMK 412

Query: 121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
              Y  I++ LKISYD L+ K++ +FLD+ACF +GE+ D +++   +     E G+ +L+
Sbjct: 413 NNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILI 472

Query: 181 DKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNT------ 234
           DKSL+ I  + ++ MHDL+Q++G+ IV  +  DP  RSRLW  +++ EV++ NT      
Sbjct: 473 DKSLVFISEYNQVQMHDLIQDMGKYIVNFQK-DPGERSRLWLAKEVEEVMSNNTGTMAME 531

Query: 235 -----FYRSSVNGKNKC----KISYLQDPGFAEVKYLHWY-----------GYPLKSLPS 274
                 Y S++   N+     K   + + G +   Y   Y            YP +S PS
Sbjct: 532 AIWVSSYSSTLRFSNQAVKNMKRLRVFNMGRSSTHYAIDYLPNNLRCFVCTNYPWESFPS 591

Query: 275 NLSAKKLVLVEVPDSDIERLW 295
               K LV +++  + +  LW
Sbjct: 592 TFELKMLVHLQLRHNSLRHLW 612

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  194 bits (493), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 123/349 (35%), Positives = 180/349 (51%), Gaps = 52/349 (14%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           +VL+V DDV     +ES +G  DW  P S IIIT+++K V R   V +IYE++ L    A
Sbjct: 242 RVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEA 301

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGC-FLHKREKEVWESATDKLQ 120
           ++LFS  A   +  +    E+S KV+KYA G PLAL + G   + K+     E A  KL+
Sbjct: 302 LQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLK 361

Query: 121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
                  ++ +K SYD+L+D+EKNIFLD+ACFFQGE+VD VM+     GF+P +G+ VLV
Sbjct: 362 ECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLV 421

Query: 181 DKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVL---------- 230
           +KSL+ I S  ++ MH+L+Q++GR+I+ +E+     RSRLW    I  +L          
Sbjct: 422 EKSLVTI-SENRVRMHNLIQDVGRQIINRETRQTKRRSRLWEPCSIKYLLEDKEQNENEE 480

Query: 231 TYNTFYRSSVNGK------NKCKIS-------------------YLQDPGFAEV------ 259
              TF R+ V  +      +   +S                   Y  +P    V      
Sbjct: 481 QKTTFERAQVPEEIEGMFLDTSNLSFDIKHVAFDNMLNLRLFKIYSSNPEVHHVNNFLKG 540

Query: 260 ---------KYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
                    + LHW  YPL+ LP N     LV + +P S +++LW   K
Sbjct: 541 SLSSLPNVLRLLHWENYPLQFLPQNFDPIHLVEINMPYSQLKKLWGGTK 589

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  193 bits (490), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 126/350 (36%), Positives = 181/350 (51%), Gaps = 53/350 (15%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           +VL+V DDV      ES +   DWL P S IIIT+R+KQV    G+ +IYE++ L    A
Sbjct: 248 RVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEVQGLNEKEA 307

Query: 62  IRLFSRHA-FKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREK-EVWESATDKL 119
            +LF   A  K++  +   +ELS +V+ YA G PLA+ V G  L  ++K    E+A  KL
Sbjct: 308 RQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSEMETAFLKL 367

Query: 120 QRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVL 179
           +R     I++  K +YD+L D EKNIFLD+ACFFQGE+V+ V++     GF+P + + VL
Sbjct: 368 KRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFFPHVEIDVL 427

Query: 180 VDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYN------ 233
           VDK L+ I S  ++ +H L Q++GREI+  E++    R RLW    I  +L YN      
Sbjct: 428 VDKCLVTI-SENRVWLHKLTQDIGREIINGETVQIERRRRLWEPWSIKYLLEYNEHKANG 486

Query: 234 ----TFYRSS----VNG-----------------KNKCKIS----YLQDPGF-------- 256
               TF R+     + G                 KN   +     Y  +P          
Sbjct: 487 EPKTTFKRAQGSEEIEGLFLDTSNLRFDLQPSAFKNMLNLRLLKIYCSNPEVHPVINFPT 546

Query: 257 -------AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
                   E++ LHW  YPLKSLP N   + LV + +P S +++LW   K
Sbjct: 547 GSLHSLPNELRLLHWENYPLKSLPQNFDPRHLVEINMPYSQLQKLWGGTK 596

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  173 bits (439), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 111/340 (32%), Positives = 179/340 (52%), Gaps = 43/340 (12%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVLI+ DDV    Q+++L     W    SRI++TT+NKQ+L +  +  +Y++       A
Sbjct: 290 KVLIILDDVDNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEA 349

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + +F +HAFKQ+ P    + L+ +    A  +PLAL+VLG F+  + KE WE +   L+ 
Sbjct: 350 LTIFCQHAFKQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKS 409

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASG-FYPEIGMSVLV 180
            L   + +VLK+ YD L D EK++FL +AC F G+  + + +   A+   Y   G+ VL 
Sbjct: 410 RLDGEVEKVLKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLA 469

Query: 181 DKSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNT----- 234
           DKSLI    + +I MH LL++LG+E+VR++SI +P  R  L + ++   VL+ NT     
Sbjct: 470 DKSLIQKFENGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNNTGTGTV 529

Query: 235 -------------------------------FYRSS-VNGKNKCKISYLQDPGFA---EV 259
                                          FY SS ++ K K K+  L + G +   ++
Sbjct: 530 LGISLDMCEIKEELYISEKTFEEMRNLVYLKFYMSSPIDDKMKVKLQ-LPEEGLSYLPQL 588

Query: 260 KYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
           + LHW  YPL+  PS+   + LV + +  S +++LW  V+
Sbjct: 589 RLLHWDAYPLEFFPSSFRPECLVELNMSHSKLKKLWSGVQ 628

Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  164 bits (414), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 107/327 (32%), Positives = 170/327 (51%), Gaps = 37/327 (11%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVLI+ DDV     +++L+G  +W    SRII+ T+++Q+L+   +  IYE++    H A
Sbjct: 286 KVLILLDDVDSLEFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLA 345

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + +  R AF ++ P   ++EL+ +V K A  +PL L VLG  L  R KE W     +L+ 
Sbjct: 346 LTMLCRSAFGKDSPPDDFKELAFEVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRN 405

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
            L   I++ L++SYD L  K++++FL +AC F G +V  V      +     +G ++L +
Sbjct: 406 GLNGDIMKTLRVSYDRLHQKDQDMFLYIACLFNGFEVSYVKDLLKDN-----VGFTMLTE 460

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNTFYRSSV 240
           KSLI I     I MH+LL++LGREI R +S  +P  R  L + EDI+EV+T  T   + +
Sbjct: 461 KSLIRITPDGYIEMHNLLEKLGREIDRAKSKGNPGKRRFLTNFEDIHEVVTEKTGTETLL 520

Query: 241 NGK--------------NKCKISYLQDPGFAEVKY-----------------LHWYGYPL 269
             +              +K     +++  + E+ Y                 L W   PL
Sbjct: 521 GIRLPFEEYFSTRPLLIDKESFKGMRNLQYLEIGYYGDLPQSLVYLPLKLRLLDWDDCPL 580

Query: 270 KSLPSNLSAKKLVLVEVPDSDIERLWH 296
           KSLPS   A+ LV + +  S +E+LW 
Sbjct: 581 KSLPSTFKAEYLVNLIMKYSKLEKLWE 607

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  157 bits (396), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 104/336 (30%), Positives = 171/336 (50%), Gaps = 44/336 (13%)

Query: 2    KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
            ++L++ DDV  +  +++ +G+L++  P SRII+T+RN++V     +  +YE+K L+   +
Sbjct: 920  RILVILDDVNDYRDVDTFLGTLNYFGPGSRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKS 979

Query: 62   IRLFSRHAFK-QNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
            + L  R   +    P+V Y+ LS +++K++ G P  L+    FL   ++E W   + +++
Sbjct: 980  LLLLDRGTCQIVLSPEV-YKTLSLELVKFSNGNPQVLQ----FLSSIDRE-WNKLSQEVK 1033

Query: 121  RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
                  I  + + S   LDD E+ IFLD+ACFF   D D V    +  GF   +G   LV
Sbjct: 1034 TTSPIYIPGIFEKSCCGLDDNERGIFLDIACFFNRIDKDNVAMLLDGCGFSAHVGFRGLV 1093

Query: 181  DKSLIAIDSHKKITMHDLLQELGREIVRQESID-PANRSRLWHHEDIYEVLTYNTFYRSS 239
            DKSL+ I  H  + M   +Q  GREIVRQES D P +RSRLW+ + I  V   +T   S+
Sbjct: 1094 DKSLLTISQHNLVDMLSFIQATGREIVRQESADRPGDRSRLWNADYIRHVFINDTGT-SA 1152

Query: 240  VNG---------------------------------KNKCKISYLQDPGF--AEVKYLHW 264
            + G                                 + K  +S+ Q   +  ++++ LHW
Sbjct: 1153 IEGIFLDMLNLKFDANPNVFEKMCNLRLLKLYCSKAEEKHGVSFPQGLEYLPSKLRLLHW 1212

Query: 265  YGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKV 300
              YPL SLP + + + LV + +P S  ++LW   K 
Sbjct: 1213 EYYPLSSLPKSFNPENLVELNLPSSCAKKLWKGKKA 1248

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  150 bits (379), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 112/347 (32%), Positives = 170/347 (48%), Gaps = 54/347 (15%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           ++L+V DDV      ES +  LDW    S IIIT+ +KQV     + +IY ++ L  H A
Sbjct: 272 RILVVLDDVRDSLAAESFLKRLDWFGSGSLIIITSVDKQVFAFCQINQIYTVQGLNVHEA 331

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           ++LFS+  F  N P+    +LS KV+ Y  G PLAL + G  L  ++ E+ E+A  +L+ 
Sbjct: 332 LQLFSQSVFGINEPEQNDRKLSMKVIDYVNGNPLALSIYGRELMGKKSEM-ETAFFELKH 390

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
                I +VLK +Y +L D EKNI LD+A FF+GE V+ VM+    S ++P + + VLVD
Sbjct: 391 CPPLKIQDVLKNAYSALSDNEKNIVLDIAFFFKGETVNYVMQLLEESHYFPRLAIDVLVD 450

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTF------ 235
           K ++ I S   + M++L+Q+  +EI   E I+    +R+W    I  +L Y+        
Sbjct: 451 KCVLTI-SENTVQMNNLIQDTCQEIFNGE-IETC--TRMWEPSRIRYLLEYDELEGSGET 506

Query: 236 -------------------------------YRSSVNGK-----NKCK--ISYLQDPGFA 257
                                          +++  N K     N C   IS L  P   
Sbjct: 507 KAMPKSGLVAEHIESIFLDTSNVKFDVKHDAFKNMFNLKFLKIYNSCSKYISGLNFPKGL 566

Query: 258 -----EVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
                E++ LHW  YPL+SLP +     LV + +P S + +L   VK
Sbjct: 567 DSLPYELRLLHWENYPLQSLPQDFDFGHLVKLSMPYSQLHKLGTRVK 613

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT1|DRL39_ARATH Putative disease resistance protein At5g47280 OS=Arabidopsis thaliana GN=At5g47280 PE=3 SV=1

 Score = 66.2 bits (160), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 57/242 (23%), Positives = 117/242 (48%), Gaps = 35/242 (14%)

Query: 4   LIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIR 63
           L++ DDV     ++ L+ ++    P +  ++ +++K V      R  Y+++ L  H A  
Sbjct: 86  LVILDDVRTRESLDQLMFNI----PGTTTLVVSQSKLV----DPRTTYDVELLNEHDATS 137

Query: 64  LFSRHAFKQNHPDVGYEE-LSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR- 121
           LF   AF Q     G+ + L  +V+  ++G+PL+LKVLG  L+ R +  W  A ++L R 
Sbjct: 138 LFCLSAFNQKSVPSGFSKSLVKQVVGESKGLPLSLKVLGASLNDRPETYWAIAVERLSRG 197

Query: 122 -----ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGE--DVDLVMKFF-------NA 167
                     +   ++ + ++LD K K  FLD+  F +G+   VD+++          +A
Sbjct: 198 EPVDETHESKVFAQIEATLENLDPKTKECFLDMGAFPEGKKIPVDVLINMLVKIHDLEDA 257

Query: 168 SGFYPEIG------MSVLVDKSLIAIDSHKK---ITMHDLLQELGREIVRQESIDPANRS 218
           + F   +       ++++ D + +A+ +      +T HD+L+++   +  +  +  + R 
Sbjct: 258 AAFDVLVDLANRNLLTLVKDPTFVAMGTSYYDIFVTQHDVLRDVALHLTNRGKV--SRRD 315

Query: 219 RL 220
           RL
Sbjct: 316 RL 317

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKZ1|DRL42_ARATH Probable disease resistance protein At5g66900 OS=Arabidopsis thaliana GN=At5g66900 PE=3 SV=1

 Score = 64.7 bits (156), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 79/307 (25%), Positives = 136/307 (44%), Gaps = 42/307 (13%)

Query: 3   VLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAI 62
           +L+V DDV  +   +S +       P  +I++T+R             Y +K LE   A 
Sbjct: 272 ILLVLDDV--WRGADSFLQKFQIKLPNYKILVTSR----FDFPSFDSNYRLKPLEDDDAR 325

Query: 63  RLFSRHAFK--QNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWE------S 114
            L    A +     PD  YE+L  K++K   G P+ ++V+G  L  R    W+      S
Sbjct: 326 ALLIHWASRPCNTSPD-EYEDLLQKILKRCNGFPIVIEVVGVSLKGRSLNTWKGQVESWS 384

Query: 115 ATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGED------VDLVMKFFNAS 168
             +K+    YP++LE L+ S+D+LD   K  FLD+  F + +       +D+ ++ +   
Sbjct: 385 EGEKILGKPYPTVLECLQPSFDALDPNLKECFLDMGSFLEDQKIRASVIIDMWVELYGKG 444

Query: 169 GFYPEIGMSVLVDKSLIAI-----DSHKK-------ITMHDLLQELGREIVRQESIDPAN 216
                + +  L  ++L+ +     + H+        +T HD+L+EL   I + E  +   
Sbjct: 445 SSILYMYLEDLASQNLLKLVPLGTNEHEDGFYNDFLVTQHDILRELA--ICQSEFKENLE 502

Query: 217 RSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLKSLPSNL 276
           R RL  + +I E    NTF    +N  N   +S   D  F+  K+L      +++L  NL
Sbjct: 503 RKRL--NLEILE----NTFPDWCLNTINASLLSISTDDLFSS-KWLEMDCPNVEALVLNL 555

Query: 277 SAKKLVL 283
           S+    L
Sbjct: 556 SSSDYAL 562

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score = 59.7 bits (143), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 58/195 (29%), Positives = 94/195 (48%), Gaps = 29/195 (14%)

Query: 30  SRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFK--QNHPDVGYEELSCKVM 87
           S+I  T+R+ +V    GV K  E+  L +  A  LF+R+  +  ++HP +   E++  + 
Sbjct: 285 SKIAFTSRSNEVCGKMGVDKEIEVTCLMWDDAWDLFTRNMKETLESHPKI--PEVAKSIA 342

Query: 88  KYAQGVPLALKVLG-CFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLD-DKEKNI 145
           +   G+PLAL V+G     K+  E W  A      I    IL +LK SYD L  +K K+ 
Sbjct: 343 RKCNGLPLALNVIGETMARKKSIEEWHDAVGVFSGI-EADILSILKFSYDDLKCEKTKSC 401

Query: 146 FLDVACFFQ--------------GEDVDLVMKFFNASGFYPEIGM---SVLVDKSLIAID 188
           FL  A F +              G+ + L  K  N  G Y  IG    + L+ +S    +
Sbjct: 402 FLFSALFPEDYEIGKDDLIEYWVGQGIILGSKGINYKG-YTIIGTLTRAYLLKES----E 456

Query: 189 SHKKITMHDLLQELG 203
           + +K+ MHD+++E+ 
Sbjct: 457 TKEKVKMHDVVREMA 471

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	311
255537139	1137	leucine-rich repeat-containing protein,	0.951	0.260	0.456	9e-69
359495289	1133	PREDICTED: TMV resistance protein N-like	0.958	0.263	0.441	1e-68
356528847	1137	PREDICTED: TMV resistance protein N-like	0.954	0.261	0.428	3e-66
296090597	1201	unnamed protein product [Vitis vinifera]	0.961	0.248	0.440	3e-66
357515077	1266	NBS-LRR resistance-like protein 4G [Medi	0.951	0.233	0.416	6e-66
357471111	1264	NBS-LRR resistance-like protein 4G [Medi	0.951	0.234	0.416	6e-66
359496026	1250	PREDICTED: TMV resistance protein N-like	0.954	0.237	0.433	8e-66
255561520	465	conserved hypothetical protein [Ricinus	0.945	0.632	0.437	1e-65
357468645	936	TIR-NBS-LRR RCT1 resistance protein [Med	0.945	0.314	0.421	4e-65
357507435	1134	TMV resistance protein N [Medicago trunc	0.958	0.262	0.443	4e-65

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  266 bits (680), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 154/337 (45%), Positives = 206/337 (61%), Gaps = 41/337 (12%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           +VLIV DD     Q++ L+GS DW  P SRII+T+R+KQVL    V  IYE+K L +H A
Sbjct: 290 RVLIVVDDANDSEQLDLLVGSHDWFGPGSRIIVTSRDKQVLTKI-VDDIYEVKELVHHEA 348

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           ++LF++  FK+      Y  LS  V++YA+GVPLALKVLG FL  + K  WESA DKL++
Sbjct: 349 LQLFNQTTFKKKCVPEDYSYLSDLVIEYAKGVPLALKVLGSFLFGKSKTEWESALDKLKK 408

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
             + +   VLKISYD LD +EKNIFLD+ACFF+GE V++V K  +  GF  +IG+ +LVD
Sbjct: 409 APHRATQNVLKISYDGLDAEEKNIFLDIACFFRGESVEMVTKILDGCGFSTKIGLCLLVD 468

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYN-------- 233
           KSLI I  + K+ MHDLLQE+G+EIV QES  P+ R+RLW+HEDI  V + N        
Sbjct: 469 KSLITI-LNDKVEMHDLLQEMGKEIVLQESKQPSQRTRLWNHEDILHVFSRNLGTETIEG 527

Query: 234 ---------------------------TFYRSSVNG--KNKCKISYLQ--DPGFAEVKYL 262
                                       FY+S ++G  K   KI   Q  D    E++YL
Sbjct: 528 MCLNTSMINKIELNSNAFGRMYNLRFLKFYQSYIHGGFKECTKIRLPQGLDSLSNELRYL 587

Query: 263 HWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
           HW+GYPLKSLP+ +    LV++ +P S ++RLW   K
Sbjct: 588 HWHGYPLKSLPARIHLMNLVVLVLPYSKVKRLWKGCK 624

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495289|ref|XP_002276927.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  265 bits (678), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 150/340 (44%), Positives = 207/340 (60%), Gaps = 42/340 (12%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVLIV DDV     +E LIG   W    SRIIITTRNKQ+L   GV ++Y+ + L   +A
Sbjct: 321 KVLIVIDDVNNSKILEDLIGKHGWFGIGSRIIITTRNKQLLVTHGVNEVYQAEKLNDDNA 380

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + LFSR+AFK+ HP   Y ELS  ++ YAQG+PLAL+VLG FL  + K  WES  DKL++
Sbjct: 381 VELFSRYAFKKAHPIDDYVELSQCIVVYAQGLPLALRVLGSFLFDKSKRQWESQLDKLKK 440

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
           I    I +VL++S+D L+D E++IFLD+ACFFQG D D VM+ F + GF+P+IG+ VL++
Sbjct: 441 IPKKEIQDVLRVSFDGLEDNERDIFLDIACFFQGHDKDYVMEIFRSCGFFPDIGIRVLIE 500

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNT------ 234
           KSLI++    K+ MH+LLQ++GREIVR+ S  +P  RSRLW H+D+  VLT  T      
Sbjct: 501 KSLISV-VENKLMMHNLLQKMGREIVREASPKEPGKRSRLWIHDDVNHVLTKKTGTEEVE 559

Query: 235 -------------FYRSSVNGKN-------------------KCKISYLQDPGF--AEVK 260
                        F   +    N                   KCK+ + +   F   E++
Sbjct: 560 GISLDLSSLKEINFTNEAFAPMNRLRLLKVYTLNFLMDSKREKCKVHFSRGFKFHCEELR 619

Query: 261 YLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKV 300
           +L+WY YPLKSLP++ + K LV + +P S I++LW   KV
Sbjct: 620 HLYWYEYPLKSLPNDFNLKNLVDLSMPYSQIKQLWKGTKV 659

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528847|ref|XP_003533009.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  258 bits (659), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 148/345 (42%), Positives = 210/345 (60%), Gaps = 48/345 (13%)

Query: 2   KVLIVFDDVTCFSQIESLIGS-LDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHH 60
           KV IV DDV     +E+L+G+  +WL   SR+I+TTR++ VL++ GV KI+E+K + +H+
Sbjct: 292 KVFIVLDDVNTPQLLENLVGAGAEWLGAGSRVIVTTRDRHVLKSRGVEKIHEVKEMNFHN 351

Query: 61  AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
           +++LFS +AF + +P   YEELS +VM YA+G+PLALKVLG FL  + +  W+SA  KL+
Sbjct: 352 SLKLFSLNAFGKTYPTEEYEELSKRVMVYAKGIPLALKVLGSFLRSKSENEWDSALTKLK 411

Query: 121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
           +I    I  VL++SYD LDD +KNIFLD+ACFF+G+  D V K  NA GF  +IG+  L+
Sbjct: 412 KIPNQEIQTVLRLSYDGLDDGDKNIFLDIACFFKGQKGDSVTKVLNACGFSADIGIKNLL 471

Query: 181 DKSLI--AIDSHKKIT-----MHDLLQELGREIVRQESID-PANRSRLWHHEDIYEVLTY 232
           DK+LI    D H   T     MHDL+QE+GR IVR+ESID P  RSRLW  E++ +VLT 
Sbjct: 472 DKALITTTTDMHDSTTDSCIDMHDLIQEMGRGIVREESIDNPGQRSRLWDPEEVNDVLTN 531

Query: 233 NTFYRS---------------------------------SVNGKNKCKISYLQDPGFAE- 258
           NT   +                                 S+NG  K +I+ +  P   E 
Sbjct: 532 NTGTGAIQGIWLEMSQIQDIKLSSKSFRKMPNLRLLAFQSLNGNFK-RINSVYLPKGLEF 590

Query: 259 ----VKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
               ++YL W G PL+SLPS    +KLV + +  S++++LWH V+
Sbjct: 591 LPKKLRYLGWNGCPLESLPSTFCPEKLVELSMRYSNVQKLWHGVQ 635

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090597|emb|CBI40966.3| unnamed protein product [Vitis vinifera]

 Score =  258 bits (659), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 151/343 (44%), Positives = 199/343 (58%), Gaps = 44/343 (12%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           +V IV D+V     +E L+GS DW    SRIIITTR+K++L + GVR +YE+K L +  A
Sbjct: 286 EVFIVLDNVYDQDILECLVGSHDWFGQGSRIIITTRDKRLLMSHGVRVVYEVKKLVHTEA 345

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           I    R+A KQ      + ELS  ++ YAQG+PL LKVLG FL    K  W S  DKL+ 
Sbjct: 346 IEFLGRYASKQQIVIDEFMELSNSIITYAQGLPLVLKVLGSFLFSMSKHEWRSELDKLKD 405

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
             +  I EVL+ISYD LDDKEKNIFLD+ACFF+GED D V+K  +  GF+   G+  L+D
Sbjct: 406 TPHGRIQEVLRISYDGLDDKEKNIFLDIACFFKGEDKDHVIKILDGCGFFAVCGIRGLID 465

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNT------ 234
           KSLI I ++ KI MHDLLQE+GR+I+RQ S  +P  RSRLW ++D Y VL+ NT      
Sbjct: 466 KSLITISNNDKIVMHDLLQEMGRKIIRQTSPKEPGKRSRLWIYKDAYHVLSKNTGTQEVE 525

Query: 235 -----------------------------FY------RSSVNGKNKCKISYLQDPGF--A 257
                                        FY       S    K KCK+   +D  F   
Sbjct: 526 GIFFNLSDIEEIHFTTKAFAGMDKLRLLKFYDYSPSTNSECTSKRKCKVHIPRDFKFHYN 585

Query: 258 EVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKV 300
           E++YLH +GYPL+ LP + S K LV + +  SD+++LW  +KV
Sbjct: 586 ELRYLHLHGYPLEQLPHDFSPKNLVDLSLSCSDVKQLWKGIKV 628

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357515077|ref|XP_003627827.1| NBS-LRR resistance-like protein 4G [Medicago truncatula] gi|355521849|gb|AET02303.1| NBS-LRR resistance-like protein 4G [Medicago truncatula]

 Score =  257 bits (656), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 139/334 (41%), Positives = 200/334 (59%), Gaps = 38/334 (11%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVLIV DDV    Q++ L+G+   L P SR+I+T R+K  L      +IYE+K L +H +
Sbjct: 296 KVLIVLDDVRTIEQLDFLVGAHTCLGPGSRVIVTARDKHALIERA-HEIYEVKPLNFHES 354

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           ++LFS  AFK+  PD+GY++LS  V+ YA G+PLALKVLG     + KE+W+S   KL++
Sbjct: 355 LQLFSLSAFKKVCPDIGYQQLSESVVNYAGGIPLALKVLGSLFSYKSKEIWQSTMTKLKK 414

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
           I    I  +L++SYD LDD EK IFLD+ACF  G+D   V +  +A GFY   G+  L++
Sbjct: 415 IPCREIQNILRLSYDGLDDTEKEIFLDIACFLNGKDRQHVTRLLDACGFYAVPGLETLLE 474

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNTFYRSSV 240
           K+LI   ++ ++ MH L+QE+GREIVRQES  DP  RSRL+ HE++Y+VL  N    S++
Sbjct: 475 KALITFSNNNQVQMHALIQEMGREIVRQESTKDPGRRSRLYDHEEVYDVLK-NNMGTSAI 533

Query: 241 NG---------------------------------KNKCKISYLQD-PGFA-EVKYLHWY 265
            G                                   +C +S       F+ +++YLHW 
Sbjct: 534 EGISLDVSQIKDMNLSSDIFVKMINLRFLKFYSRSGERCSVSLPAGLKSFSNKLRYLHWS 593

Query: 266 GYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
            YPLKSLPS+ S +KLV + +P+S ++RLW  V+
Sbjct: 594 AYPLKSLPSSFSPEKLVELYMPNSRVKRLWEGVQ 627

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357471111|ref|XP_003605840.1| NBS-LRR resistance-like protein 4G [Medicago truncatula] gi|355506895|gb|AES88037.1| NBS-LRR resistance-like protein 4G [Medicago truncatula]

 Score =  257 bits (656), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 139/334 (41%), Positives = 200/334 (59%), Gaps = 38/334 (11%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVLIV DDV    Q++ L+G+   L P SR+I+T R+K  L      +IYE+K L +H +
Sbjct: 296 KVLIVLDDVRTIEQLDFLVGAHTCLGPGSRVIVTARDKHALIERA-HEIYEVKPLNFHES 354

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           ++LFS  AFK+  PD+GY++LS  V+ YA G+PLALKVLG     + KE+W+S   KL++
Sbjct: 355 LQLFSLSAFKKVCPDIGYQQLSESVVNYAGGIPLALKVLGSLFSYKSKEIWQSTMTKLKK 414

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
           I    I  +L++SYD LDD EK IFLD+ACF  G+D   V +  +A GFY   G+  L++
Sbjct: 415 IPCREIQNILRLSYDGLDDTEKEIFLDIACFLNGKDRQHVTRLLDACGFYAVPGLETLLE 474

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNTFYRSSV 240
           K+LI   ++ ++ MH L+QE+GREIVRQES  DP  RSRL+ HE++Y+VL  N    S++
Sbjct: 475 KALITFSNNNQVQMHALIQEMGREIVRQESTKDPGRRSRLYDHEEVYDVLK-NNMGTSAI 533

Query: 241 NG---------------------------------KNKCKISYLQD-PGFA-EVKYLHWY 265
            G                                   +C +S       F+ +++YLHW 
Sbjct: 534 EGISLDVSQIKDMNLSSDIFVKMINLRFLKFYSRSGERCSVSLPAGLKSFSNKLRYLHWS 593

Query: 266 GYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
            YPLKSLPS+ S +KLV + +P+S ++RLW  V+
Sbjct: 594 AYPLKSLPSSFSPEKLVELYMPNSRVKRLWEGVQ 627

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496026|ref|XP_002277166.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  256 bits (655), Expect = 8e-66,   Method: Compositional matrix adjust.
 Identities = 152/351 (43%), Positives = 198/351 (56%), Gaps = 54/351 (15%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           +VLIV DD     Q+E L G  DW  P SRIIITTR+  +L   GV  +YE+  L  + A
Sbjct: 298 RVLIVLDDAHNLQQLEYLAGKHDWFGPGSRIIITTRDVHLLNKVGVNGVYEVAHLNNNDA 357

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + LFSRHAF+++HP   Y ELS   + YA+G+PLALKVLG FL  + K  W+S  DKLQ 
Sbjct: 358 VALFSRHAFEEDHPTEDYMELSNYAVSYAKGLPLALKVLGSFLFSKSKLEWKSQLDKLQI 417

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
             +  I  VL++S+D LDD E++IFLDVACFF+GED D V+K  ++ GFYP IG+ VL+D
Sbjct: 418 NPHMDIESVLRVSFDGLDDTEQDIFLDVACFFKGEDKDYVIKILDSCGFYPSIGIRVLID 477

Query: 182 KSLIAIDSHKKITMHDLLQELGREIVRQES---------IDPANRSRLWHHEDIYEVLTY 232
           KSLI +  H K+ MHDLLQE+G +IVR+ S         +DP   SRLW  ED+Y+VLT 
Sbjct: 478 KSLITV-VHNKLWMHDLLQEMGWDIVRKTSHKNPSKRRRLDPGKHSRLWLQEDVYDVLTE 536

Query: 233 NT-----------------------------------FYRSSVNG-------KNKCKISY 250
            T                                    Y S  +G           K  +
Sbjct: 537 KTGTENIEGIFLNLYGLKEIHYTTEAFAEMKKLRLLKVYNSHNSGDFEYASRNENYKRPF 596

Query: 251 LQDPGFA--EVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
            QD  F   +++YL+W+ YPLKSLPSN   K LV + +    +E LW  VK
Sbjct: 597 SQDFEFPSNKLRYLYWHRYPLKSLPSNFHPKNLVELNLCCCYVEELWKGVK 647

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561520|ref|XP_002521770.1| conserved hypothetical protein [Ricinus communis] gi|223538983|gb|EEF40580.1| conserved hypothetical protein [Ricinus communis]

 Score =  256 bits (653), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 148/338 (43%), Positives = 208/338 (61%), Gaps = 44/338 (13%)

Query: 2   KVLIVFDDVTCFSQI-ESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHH 60
           K LIV DDV    Q+ E L+         S++I+T+R++QVL+N GV +IYE+  L  + 
Sbjct: 104 KALIVLDDVNSSLQMQELLVEGRHLFGEGSKVIVTSRDRQVLKN-GVDEIYEVDGLNLNE 162

Query: 61  AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
           A++LFS + F QNHP   + +LS +V+ YA+G PLALKVLGCFL  + K+ WE A DKL+
Sbjct: 163 ALQLFSINCFNQNHPLEEFMQLSKRVIYYAKGNPLALKVLGCFLLDKSKQDWEIALDKLK 222

Query: 121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
           R     +  VL++SYD L+ ++K IFLD+ACFF+GEDV  V +  +  GFY +IG++ LV
Sbjct: 223 RTSNIGMKNVLRLSYDGLEIEDKEIFLDIACFFKGEDVCFVERILDGCGFYVDIGLNNLV 282

Query: 181 DKSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNTFYRSS 239
           DKSLI + S+ K+ MHDL+QE+G E V+QES  +P  RSRLWHHEDIY VLT NT  + +
Sbjct: 283 DKSLITV-SNGKLWMHDLIQEMGWETVQQESTGEPGERSRLWHHEDIYHVLTKNTGTK-A 340

Query: 240 VNG----------------------------------KNKCKISYLQDPGFA----EVKY 261
           V G                                  ++ CK+ +  D G +    +++Y
Sbjct: 341 VEGITLDLSETRELHLTSEAFKKMYNLRLLKFHDSDFEDFCKV-HFPDEGLSFHSNKLRY 399

Query: 262 LHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK 299
           LHWY YP KSLP N S + LV + +P S++E+LW  V+
Sbjct: 400 LHWYKYPSKSLPYNFSPENLVELNLPRSNVEQLWQGVQ 437

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357468645|ref|XP_003604607.1| TIR-NBS-LRR RCT1 resistance protein [Medicago truncatula] gi|355505662|gb|AES86804.1| TIR-NBS-LRR RCT1 resistance protein [Medicago truncatula]

 Score =  254 bits (648), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 136/323 (42%), Positives = 199/323 (61%), Gaps = 29/323 (8%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           +VL+V DDV    Q+ +L GS  W  P SRIIITTR+K +LR   V KIY MK ++   +
Sbjct: 320 RVLLVLDDVNKLDQLNALCGSCKWFAPGSRIIITTRDKHILRGNRVDKIYIMKEMDESES 379

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + LFS HAFKQ  P   + E+S  V++Y+  +PLAL+VLG +L  RE   W    +KL+R
Sbjct: 380 LELFSWHAFKQARPSKDFSEISTNVVQYSGRLPLALEVLGSYLFDREVTEWICVLEKLKR 439

Query: 122 ILYPSILEVLKISYDSL-DDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
           I    + + LKISYD L DD EK+IFLD+ACFF G D + V+   N SGF+ EIG+SVLV
Sbjct: 440 IPNDQVHQKLKISYDGLNDDTEKSIFLDIACFFIGMDRNDVIHILNGSGFFAEIGISVLV 499

Query: 181 DKSLIAIDSHKKITMHDLLQELGREIVRQES-IDPANRSRLWHHEDIYEVLTYNTFYR-- 237
           ++SL+ +D   K+ MHDLL+++GREI+R++S ++P  RSRLW H+D+ +VL+ +T  +  
Sbjct: 500 ERSLVTVDDKNKLGMHDLLRDMGREIIREKSPMEPEERSRLWFHDDVLDVLSEHTGTKAV 559

Query: 238 ---------------SSVNGKNKCKISYLQDPGFA----------EVKYLHWYGYPLKSL 272
                          S+   +N  K+  LQ  G             +K+LHW G+PL+ +
Sbjct: 560 EGLTLKMPCHSAQRFSTKTFENMKKLRLLQLSGVQLDGDFKYISRNLKWLHWNGFPLRCI 619

Query: 273 PSNLSAKKLVLVEVPDSDIERLW 295
           PSN   + +V +E+ +S+ + +W
Sbjct: 620 PSNFYQRNIVSIELENSNAKLVW 642

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357507435|ref|XP_003624006.1| TMV resistance protein N [Medicago truncatula] gi|87162908|gb|ABD28703.1| TIR [Medicago truncatula] gi|355499021|gb|AES80224.1| TMV resistance protein N [Medicago truncatula]

 Score =  254 bits (648), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 145/327 (44%), Positives = 195/327 (59%), Gaps = 29/327 (8%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVL+V DDV   +Q+E+L+G  DW  P SR+IITTR+K +L   GV K Y+   L  H A
Sbjct: 298 KVLLVLDDVNELNQLENLVGKQDWFGPGSRVIITTRDKHLLMTHGVHKTYKTGMLCKHDA 357

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + LF   AFK + P  GY +LS +V+ Y  G+PLAL+VLG +L+ R  +VW SA  KL+ 
Sbjct: 358 LVLFCLKAFKGDKPQEGYLDLSKEVVDYCGGLPLALEVLGSYLYGRNIDVWHSAVKKLRS 417

Query: 122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
             +P + + LKISYDSLD  EK+IFLD+ACFF+G   D V+    + G++P+IG+ +L++
Sbjct: 418 FPHPRVQDNLKISYDSLDTMEKDIFLDIACFFKGMKGDKVIDILESCGYFPQIGIQILIE 477

Query: 182 KSLIAIDS-HKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNTF---- 235
           +SLI +DS + K+ MHDLLQE+GR+IV QES  DP  RSRLW  EDI  VLT N      
Sbjct: 478 RSLITLDSVNNKLGMHDLLQEMGRDIVFQESPNDPCRRSRLWSQEDIDRVLTKNKGTEAI 537

Query: 236 ----------YRSSVNGKNKCKISYLQDPGFAE-------------VKYLHWYGYPLKSL 272
                     Y +  N +   K S L+     E             +K LHW G PLK+L
Sbjct: 538 NSIDMKLLQPYEAHWNTEAFSKTSQLKFLSLCEMQLPLGLSCLPSSLKVLHWRGCPLKTL 597

Query: 273 PSNLSAKKLVLVEVPDSDIERLWHCVK 299
           P      +LV + +  S IE+LW  VK
Sbjct: 598 PITTQLDELVDITLSHSKIEQLWQGVK 624

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	311
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.739	0.201	0.427	1.1e-49
TAIR|locus:2155347	1372	TTR1 "TOLERANT TO TOBACCO RING	0.700	0.158	0.450	3.6e-49
TAIR|locus:2158485	1288	RRS1 "RESISTANT TO RALSTONIA S	0.819	0.197	0.403	6.5e-49
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.874	0.210	0.396	1.7e-48
TAIR|locus:2081790	1253	AT3G51560 [Arabidopsis thalian	0.688	0.170	0.422	6.3e-45
TAIR|locus:2122199	1607	AT4G36140 [Arabidopsis thalian	0.697	0.135	0.418	1.3e-43
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.752	0.26	0.415	1.6e-43
TAIR|locus:2153368	697	AT5G45210 [Arabidopsis thalian	0.694	0.309	0.391	3.8e-43
TAIR|locus:2195478	1031	AT1G63870 [Arabidopsis thalian	0.742	0.224	0.363	8.7e-43
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.826	0.185	0.353	8.1e-42

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 501 (181.4 bits), Expect = 1.1e-49, Sum P(2) = 1.1e-49
 Identities = 100/234 (42%), Positives = 152/234 (64%)

Query:     2 KVLIVFDDVTCFSQ-IESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHH 60
             KVLIV DD+      +E L G LDW    SRIIITTR+K ++    +  IYE+ AL  H 
Sbjct:   295 KVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHE 352

Query:    61 AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
             +I+LF +HAF +  P+  +E+LS +V+ YA+G+PLALKV G  LH      W+SA + ++
Sbjct:   353 SIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMK 412

Query:   121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
                Y  I++ LKISYD L+ K++ +FLD+ACF +GE+ D +++   +     E G+ +L+
Sbjct:   413 NNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILI 472

Query:   181 DKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNT 234
             DKSL+ I  + ++ MHDL+Q++G+ IV  +  DP  RSRLW  +++ EV++ NT
Sbjct:   473 DKSLVFISEYNQVQMHDLIQDMGKYIVNFQK-DPGERSRLWLAKEVEEVMSNNT 525

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2155347 TTR1 "TOLERANT TO TOBACCO RINGSPOT NEPOVIRUS 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 466 (169.1 bits), Expect = 3.6e-49, Sum P(2) = 3.6e-49
 Identities = 100/222 (45%), Positives = 143/222 (64%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             +VL+V DDV     +ES +G  DW  P S IIIT+++K V R   V +IYE++ L    A
Sbjct:   242 RVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEA 301

Query:    62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFL--HKREKEVWESATDKL 119
             ++LFS  A   +  +    E+S KV+KYA G PLAL + G  L   KR  E+ E A  KL
Sbjct:   302 LQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEM-EIAFLKL 360

Query:   120 QRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVL 179
             +       ++ +K SYD+L+D+EKNIFLD+ACFFQGE+VD VM+     GF+P +G+ VL
Sbjct:   361 KECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVL 420

Query:   180 VDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLW 221
             V+KSL+ I S  ++ MH+L+Q++GR+I+ +E+     RSRLW
Sbjct:   421 VEKSLVTI-SENRVRMHNLIQDVGRQIINRETRQTKRRSRLW 461

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006952 "defense response" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009615 "response to virus" evidence=IMP

GO:0009626 "plant-type hypersensitive response" evidence=IMP

TAIR|locus:2158485 RRS1 "RESISTANT TO RALSTONIA SOLANACEARUM 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 442 (160.7 bits), Expect = 6.5e-49, Sum P(2) = 6.5e-49
 Identities = 106/263 (40%), Positives = 152/263 (57%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             +VL+V DDV      ES +   DWL P S IIIT+R+KQV    G+ +IYE++ L    A
Sbjct:   248 RVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEVQGLNEKEA 307

Query:    62 IRLFSRHA-FKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREK-EVWESATDKL 119
              +LF   A  K++  +   +ELS +V+ YA G PLA+ V G  L  ++K    E+A  KL
Sbjct:   308 RQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSEMETAFLKL 367

Query:   120 QRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVL 179
             +R     I++  K +YD+L D EKNIFLD+ACFFQGE+V+ V++     GF+P + + VL
Sbjct:   368 KRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFFPHVEIDVL 427

Query:   180 VDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFYRSS 239
             VDK L+ I S  ++ +H L Q++GREI+  E++    R RLW    I  +L YN      
Sbjct:   428 VDKCLVTI-SENRVWLHKLTQDIGREIINGETVQIERRRRLWEPWSIKYLLEYN---EHK 483

Query:   240 VNGKNKCKISYLQDPGFAEVKYL 262
              NG+ K      Q  G  E++ L
Sbjct:   484 ANGEPKTTFKRAQ--GSEEIEGL 504

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;TAS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP;TAS

GO:0003677 "DNA binding" evidence=IDA

GO:0008219 "cell death" evidence=IMP

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 505 (182.8 bits), Expect = 1.7e-48, Sum P(2) = 1.7e-48
 Identities = 115/290 (39%), Positives = 181/290 (62%)

Query:     3 VLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAI 62
             V IV DDV    Q+  L+    W  P SRII+TTR++ +L + G+  +Y++K L    A+
Sbjct:   290 VFIVLDDVDRSEQLNELVKETGWFGPGSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEAL 349

Query:    63 RLFSRHAFKQNH--PDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
             +LF  +AF++    P  G+EELS + + YA G+PLAL+VLG FL++R +  WES   +L+
Sbjct:   350 QLFCNYAFREEIILPH-GFEELSVQAVNYASGLPLALRVLGSFLYRRSQIEWESTLARLK 408

Query:   121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
                +  I+EVL++SYD LD++EK IFL ++CF+  + VD V K  +  G+  EIG+++L 
Sbjct:   409 TYPHSDIMEVLRVSYDGLDEQEKAIFLYISCFYNMKQVDYVRKLLDLCGYAAEIGITILT 468

Query:   181 DKSLIAIDSHKKITMHDLLQELGREIVRQESID-PANRSRLWHHEDIYEVLTYNTFYRSS 239
             +KSLI ++S+  + +HDLL+++GRE+VRQ++++ PA R  LW  EDI  +L+ N+  +  
Sbjct:   469 EKSLI-VESNGCVKIHDLLEQMGRELVRQQAVNNPAQRLLLWDPEDICHLLSENSGTQL- 526

Query:   240 VNG--KNKCKIS--YLQD---PGFAEVKYLHWY-----GYPLKSLPSNLS 277
             V G   N  +IS  +  D    G + +K L++Y     G     LP+ LS
Sbjct:   527 VEGISLNLSEISEVFASDRAFEGLSNLKLLNFYDLSFDGETRVHLPNGLS 576

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2081790 AT3G51560 [Arabidopsis thaliana (taxid:3702)]

 Score = 422 (153.6 bits), Expect = 6.3e-45, Sum P(2) = 6.3e-45
 Identities = 93/220 (42%), Positives = 133/220 (60%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             +VL+V DDV      ES +G  DW  P S IIIT+R+KQV     V +IYE+  L    A
Sbjct:   262 RVLVVLDDVCKPLDAESFLGGFDWFCPGSLIIITSRDKQVFSICRVDQIYEVPGLNEEEA 321

Query:    62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
             ++LFSR AF +       ++LS KV+ YA G PLAL   GC   K  K + E A  K+++
Sbjct:   322 LQLFSRCAFGKEIIHESLQKLSKKVIDYANGNPLALIFFGCMSRKNPKPI-EIAFPKVKK 380

Query:   122 ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVD 181
              L   I + +K +YDSL   EKNIFLD+AC F+GE+VD V+      GF+P + ++VLV+
Sbjct:   381 YLAHEIHDAVKSTYDSLSSNEKNIFLDIACLFRGENVDCVIHLLEGCGFFPRVEINVLVE 440

Query:   182 KSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLW 221
             K L+++ +  ++ MH+L+Q +GR+I+         RSRLW
Sbjct:   441 KCLVSM-AEGRVVMHNLIQSIGRKIINGGK----RRSRLW 475

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2122199 AT4G36140 [Arabidopsis thaliana (taxid:3702)]

 Score = 419 (152.6 bits), Expect = 1.3e-43, Sum P(2) = 1.3e-43
 Identities = 92/220 (41%), Positives = 133/220 (60%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             + L+V DDV      ES +    W  P S IIIT+R+KQV R   +  +YE+++   + A
Sbjct:   684 RTLVVLDDVHNPLVAESFLEGFHWFGPGSLIIITSRDKQVFRLCQINHVYEVQSFNENEA 743

Query:    62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKL-Q 120
             ++LFS+ AF+++  +    ELS KV+ YA G PLAL      L  +E    E+   KL Q
Sbjct:   744 LQLFSQCAFRRDINEQNLLELSLKVIDYASGNPLALSFYCRVLKGKELSEMETTFFKLKQ 803

Query:   121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
             R  Y  I ++ K SY++LDD EKNIFLD+ACFF GE+VD VM+     GF+P +G+ VLV
Sbjct:   804 RTPY-KIFDLFKSSYETLDDNEKNIFLDIACFFSGENVDYVMRLLEGCGFFPHVGIDVLV 862

Query:   181 DKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRL 220
             +  L+ I S  ++ MH ++Q+ GREI+  E++    R RL
Sbjct:   863 ENCLVTI-SENRVKMHRIIQDFGREIIDGETVQIERRRRL 901

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 439 (159.6 bits), Expect = 1.6e-43, Sum P(2) = 1.6e-43
 Identities = 98/236 (41%), Positives = 144/236 (61%)

Query:     1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHH 60
             +KVL+V DDV    Q+++L+    W    SRII+TT NKQ+LR  G+  IYE+       
Sbjct:   291 LKVLVVLDDVDKLEQLDALVKQSQWFGSGSRIIVTTENKQLLRAHGITCIYELGFPSRSD 350

Query:    61 AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
             ++++F ++AF ++    G  EL+ ++ K A  +PLALKVLG  L    K+  +SA  +L+
Sbjct:   351 SLQIFCQYAFGESSAPDGCIELATEITKLAGYLPLALKVLGSSLRGMSKDEQKSALPRLR 410

Query:   121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
               L   I  VL++ YD + DK+K IFL +AC F GE+VD V +   +SG     G+ VL 
Sbjct:   411 TSLNEDIRNVLRVGYDGIHDKDKVIFLHIACLFNGENVDYVKQILASSGLDVTFGLQVLT 470

Query:   181 DKSLIAIDS-HKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNT 234
              +SLI I   ++ ITMH+LL++LGREIV ++SI +P  R  L    +IY+VL  NT
Sbjct:   471 SRSLIHISRCNRTITMHNLLEQLGREIVCEQSIAEPGKRQFLMDASEIYDVLADNT 526

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153368 AT5G45210 [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 3.8e-43, Sum P(2) = 3.8e-43
 Identities = 87/222 (39%), Positives = 130/222 (58%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             KVL V DDV      ES +G ++ ++P S II+T+R+KQVL    V  ++E+ +L    A
Sbjct:   268 KVLFVLDDVRNLMDFESFLGGIEGVSPGSVIILTSRDKQVLHQCQVEDVFEVPSLNEEEA 327

Query:    62 IRLFSRHAFKQNHP-DVGYEELSCKVMKYAQGVPLALKVLGCFLHKREK-EVWESATDKL 119
             +RLF+R AF +  P D    ++S KV +YA G P AL   G  L K++K E  E   +K+
Sbjct:   328 VRLFARTAFHKEGPSDAKLMDVSKKVARYAGGNPKALCFYGRELEKKKKPEEMEEEFEKM 387

Query:   120 QRILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVL 179
             ++     IL + + SYD+L+D E++IFLD+ACFF GE  D VM+     GF+P +G+  L
Sbjct:   388 RQCPPQEILSLFRSSYDALNDNERSIFLDIACFFNGEPCDDVMRILEGCGFFPHVGIDRL 447

Query:   180 VDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLW 221
              ++SL+ I   K++ M   +Q+  RE + Q S     R R W
Sbjct:   448 AERSLLTISKEKRVEMQGFIQDAAREFINQTS----RRRRHW 485

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2195478 AT1G63870 [Arabidopsis thaliana (taxid:3702)]

 Score = 395 (144.1 bits), Expect = 8.7e-43, Sum P(2) = 8.7e-43
 Identities = 85/234 (36%), Positives = 134/234 (57%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             +VLI+ DDV    Q+E+L     W    SRI++TT NK++L+  G+  +Y +       A
Sbjct:   291 RVLIILDDVNHIMQLEALANETTWFGSGSRIVVTTENKEILQQHGINDLYHVGFPSDEQA 350

Query:    62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
               +  R+AF++     G+E+L+ +V K    +PL L+VLG  L  + +E WE    +L+ 
Sbjct:   351 FEILCRYAFRKTTLSHGFEKLARRVTKLCGNLPLGLRVLGSSLRGKNEEEWEEVIRRLET 410

Query:   122 IL-YPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
             IL +  I EVL++ Y SL + E+++FL +A FF   D DLV   F  +    + G+ +L 
Sbjct:   411 ILDHQDIEEVLRVGYGSLHENEQSLFLHIAVFFNYTDGDLVKAMFTDNNLDIKHGLKILA 470

Query:   181 DKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNT 234
             DKSLI I ++++I +H LLQ+ GR+ V +E  +P     L H  +I +VL Y T
Sbjct:   471 DKSLINISNNREIVIHKLLQQFGRQAVHKE--EPWKHKILIHAPEICDVLEYAT 522

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 411 (149.7 bits), Expect = 8.1e-42, Sum P(2) = 8.1e-42
 Identities = 93/263 (35%), Positives = 155/263 (58%)

Query:     2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
             K+++V DDV    Q+ +L+G   W    + I+ITTR+ ++L    V + YE+K L    A
Sbjct:   294 KIIVVLDDVDHIDQVHALVGETRWYGQGTLIVITTRDSEILSKLSVNQQYEVKCLTEPQA 353

Query:    62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLH-KREKEVWESATDKLQ 120
             ++LFS H+ ++  P      LS K+++ +  +PLA++V G  L+ K+E++ W++  DKL+
Sbjct:   354 LKLFSYHSLRKEEPTKNLLALSKKIVQISGLLPLAVEVFGSLLYDKKEEKDWQTQLDKLK 413

Query:   121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDV--DLVMKFFNASGFYPEIGMSV 178
             +    ++ +VL++S+ SLDD+EK +FLD+AC F   ++  D V+      G   E  +SV
Sbjct:   414 KTQPGNLQDVLELSFKSLDDEEKKVFLDIACLFLKMEIKKDEVVIVLKGCGLNAEAALSV 473

Query:   179 LVDKSLIAIDSHKKITMHDLLQELGREIVRQESI-DPANRSRLWHHEDIYEVLTYNTFYR 237
             L  KSL+ I ++  + MHD ++++GR++V +ES  DP  RSRLW   +I  VL  N    
Sbjct:   474 LRQKSLVKILANDTLWMHDQIRDMGRQMVLKESREDPGLRSRLWDRGEIMTVLN-NMKGT 532

Query:   238 SSVNG-KNKCKISYLQDPGFAEV 259
             SS+ G     K  + +DP   E+
Sbjct:   533 SSIRGIVLDFKKKFARDPTADEI 555

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	311
PLN03210	1153	PLN03210, PLN03210, Resistant to P	3e-53
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	7e-20

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score =  187 bits (476), Expect = 3e-53
 Identities = 113/335 (33%), Positives = 168/335 (50%), Gaps = 39/335 (11%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHA 61
           KVLI  DD+     +++L G   W    SRII+ T++K  LR  G+  IYE+       A
Sbjct: 297 KVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELA 356

Query: 62  IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQR 121
           + +F R AFK+N P  G+ EL+ +V   A  +PL L VLG +L  R+KE W     +L+ 
Sbjct: 357 LEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRN 416

Query: 122 ILYPSILEVLKISYDSLDD-KEKNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLV 180
            L   I + L++SYD L++ K+K IF  +AC F GE V+ +      S     IG+  LV
Sbjct: 417 GLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLV 476

Query: 181 DKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNT------ 234
           DKSLI +     + MH LLQE+G+EIVR +S +P  R  L   +DI +VL  NT      
Sbjct: 477 DKSLIHV-REDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVL 535

Query: 235 -------------FYRSSVNG--------------KNKCKISYLQDPGF----AEVKYLH 263
                         + ++  G                K ++ +    GF     +++ L 
Sbjct: 536 GITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLR 595

Query: 264 WYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCV 298
           W  YPL+ +PSN   + LV +++  S +E+LW  V
Sbjct: 596 WDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGV 630

syringae 6; Provisional. Length = 1153

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 87.0 bits (216), Expect = 7e-20
 Identities = 54/183 (29%), Positives = 92/183 (50%), Gaps = 10/183 (5%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVR-KIYEMKALEYHH 60
           + L+V DDV   +  + +          SR+I+TTR++ V    G   K +E+++LE   
Sbjct: 101 RFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEE 160

Query: 61  AIRLFSRHAFKQNHP-DVGYEELSCKVMKYAQGVPLALKVLGCFL-HKREKEVWESATDK 118
           +  LFS   F++  P     EE++ ++++  +G+PLALKVLG  L  K   + WE   ++
Sbjct: 161 SWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQ 220

Query: 119 LQRILYP-----SILEVLKISYDSLDDKEKNIFLDVACFFQGED--VDLVMKFFNASGFY 171
           L   L        +L +L +SYD+L    K  FL +A F +  +   + ++K + A GF 
Sbjct: 221 LNNELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Query: 172 PEI 174
              
Sbjct: 281 IPS 283

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	311
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.98
PRK04841	903	transcriptional regulator MalT; Provisional	98.86
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.51
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.46
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.0
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	97.98
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.98
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.87
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.76
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.71
PLN03150	623	hypothetical protein; Provisional	97.71
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.61
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	97.48
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.41
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	97.36
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.31
COG3903	414	Predicted ATPase [General function prediction only	97.22
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	97.17
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.14
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.12
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.09
PF05729	166	NACHT: NACHT domain	97.06
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.02
PRK06893	229	DNA replication initiation factor; Validated	97.02
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	96.98
PLN03210	1153	Resistant to P. syringae 6; Provisional	96.94
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	96.94
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	96.91
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.88
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	96.81
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.67
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.46
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.34
PLN03150	623	hypothetical protein; Provisional	96.32
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	96.18
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.16
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	95.85
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	95.78
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	95.75
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	95.74
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	95.66
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	95.5
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	95.38
COG3899	849	Predicted ATPase [General function prediction only	95.36
smart00370	26	LRR Leucine-rich repeats, outliers.	95.33
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	95.33
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	95.26
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	95.25
PRK09087	226	hypothetical protein; Validated	95.22
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.17
PF13173	128	AAA_14: AAA domain	94.8
PRK00411	394	cdc6 cell division control protein 6; Reviewed	94.76
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	94.75
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	94.71
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	94.45
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	94.33
PF07725	20	LRR_3: Leucine Rich Repeat; InterPro: IPR011713 Le	94.32
PRK05564	313	DNA polymerase III subunit delta'; Validated	94.25
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	94.17
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	94.08
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	94.05
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	93.92
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	93.61
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	93.18
PRK13342	413	recombination factor protein RarA; Reviewed	93.12
PRK08727	233	hypothetical protein; Validated	93.04
PRK09112	351	DNA polymerase III subunit delta'; Validated	92.53
PF14516	331	AAA_35: AAA-like domain	92.18
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	92.09
PRK08084	235	DNA replication initiation factor; Provisional	92.06
PRK15386	426	type III secretion protein GogB; Provisional	91.86
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	91.85
KOG4237	498	consensus Extracellular matrix protein slit, conta	91.69
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	91.38
smart00370	26	LRR Leucine-rich repeats, outliers.	91.29
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	91.29
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	91.15
PRK15386	426	type III secretion protein GogB; Provisional	90.97
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	90.5
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	90.34
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	90.03
PRK05642	234	DNA replication initiation factor; Validated	89.95
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	89.81
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	89.53
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	89.2
PRK14087	450	dnaA chromosomal replication initiation protein; P	89.01
PRK06620	214	hypothetical protein; Validated	88.93
KOG4237	498	consensus Extracellular matrix protein slit, conta	88.56
PRK05707	328	DNA polymerase III subunit delta'; Validated	87.91
PRK07940	394	DNA polymerase III subunit delta'; Validated	87.74
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	87.48
PRK12402	337	replication factor C small subunit 2; Reviewed	87.1
PRK00440	319	rfc replication factor C small subunit; Reviewed	86.46
KOG2982	418	consensus Uncharacterized conserved protein [Funct	86.12
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	85.96
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	85.53
PRK08903	227	DnaA regulatory inactivator Hda; Validated	85.48
PRK06090	319	DNA polymerase III subunit delta'; Validated	85.14
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	84.61
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	84.3
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	84.1
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	84.1
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	83.97
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	83.04
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	83.0
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	82.65
PRK08769	319	DNA polymerase III subunit delta'; Validated	81.1
PLN03025	319	replication factor C subunit; Provisional	81.04
PRK07399	314	DNA polymerase III subunit delta'; Validated	80.89
PRK04195	482	replication factor C large subunit; Provisional	80.38

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.7e-57  Score=447.46  Aligned_cols=310  Identities=23%  Similarity=0.292  Sum_probs=252.5

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHh-cCCCceEEcCCCCHHHHHHHHHHhhcCCC-CCCcc
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRN-WGVRKIYEMKALEYHHAIRLFSRHAFKQN-HPDVG   78 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~-~~~~~   78 (311)
                      |||+|||||||+..+|+.+..++|....||+|++|||++.||.. +++...++++.|+++|||.||++.+|... ...+.
T Consensus       261 krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~  340 (889)
T KOG4658|consen  261 KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPD  340 (889)
T ss_pred             CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccccccc
Confidence            79999999999999999999999988899999999999999999 78888999999999999999999998863 45566


Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHhccc-cHHHHHHHHHHHhcc-------CcccHHHHHhhhcccCchhhhhhhhhhh
Q 021517           79 YEELSCKVMKYAQGVPLALKVLGCFLHKR-EKEVWESATDKLQRI-------LYPSILEVLKISYDSLDDKEKNIFLDVA  150 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~~~~L~~~-~~~~w~~~~~~l~~~-------~~~~i~~~l~~sy~~L~~~~k~cfl~ls  150 (311)
                      +.++|++|+++|+|+|||++++|+.|+.+ +..+|+++.+.+.+.       ..+.+.+++++||+.||++.|.||+|||
T Consensus       341 i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLyca  420 (889)
T KOG4658|consen  341 IEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCA  420 (889)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhc
Confidence            89999999999999999999999999998 888999999988665       1357899999999999988999999999


Q ss_pred             cCCCCcC--HHHHHHHHHHcCCCc------------ccchHHHhhcccceecCC----CcEEeCHHHHHHHHHHHhhhc-
Q 021517          151 CFFQGED--VDLVMKFFNASGFYP------------EIGMSVLVDKSLIAIDSH----KKITMHDLLQELGREIVRQES-  211 (311)
Q Consensus       151 ~fp~~~~--~~~l~~~w~a~g~~~------------~~~~~~L~~~sl~~~~~~----~~~~mH~lv~~~~~~~~~~~~-  211 (311)
                      +||+|++  ++.|+..|+||||+.            ..|+++|++++|++....    .+|+|||+||++|..++.+.+ 
T Consensus       421 lFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~  500 (889)
T KOG4658|consen  421 LFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGK  500 (889)
T ss_pred             cCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccc
Confidence            9999976  689999999999873            456999999999998752    689999999999999999433 


Q ss_pred             ------CCCC-------------Cceeecchh-hHHHHHhhccCc-ccc-ccccCc-cccccCCC-CCC-CceeEEeeeC
Q 021517          212 ------IDPA-------------NRSRLWHHE-DIYEVLTYNTFY-RSS-VNGKNK-CKISYLQD-PGF-AEVKYLHWYG  266 (311)
Q Consensus       212 ------~~~~-------------~~~~l~~~~-~~~~~~~~~~~~-l~~-~~~~~~-~~~~lp~~-~~~-~~Lr~L~l~~  266 (311)
                            ...+             ..+++.... .+.+........ +++ +-...+ ....++.. +.. ++||||||++
T Consensus       501 ~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~  580 (889)
T KOG4658|consen  501 QEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSG  580 (889)
T ss_pred             cccceEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCC
Confidence                  1110             111111111 111111111111 211 111101 12344443 455 9999999998


Q ss_pred             C-CCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          267 Y-PLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       267 ~-~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      | .+.+||++| +|.|||||+|++|+|++||.++++|++|.||+++
T Consensus       581 ~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~  626 (889)
T KOG4658|consen  581 NSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLE  626 (889)
T ss_pred             CCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccc
Confidence            8 489999999 7999999999999999999999999999999875

>PLN03210 Resistant to P

Probab=100.00  E-value=1.5e-47  Score=393.14  Aligned_cols=309  Identities=35%  Similarity=0.601  Sum_probs=273.3

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhcCCCceEEcCCCCHHHHHHHHHHhhcCCCCCCccHH
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYE   80 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~   80 (311)
                      ||+||||||||+.++|+.+.....+.++||+||||||+..++..++++++|+++.+++++||+||+++||+...+++++.
T Consensus       296 krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~  375 (1153)
T PLN03210        296 RKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFM  375 (1153)
T ss_pred             CeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHH
Confidence            68999999999999999999877777899999999999999988888899999999999999999999998777777889


Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHHHHhccCcccHHHHHhhhcccCch-hhhhhhhhhhcCCCCcCHH
Q 021517           81 ELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDD-KEKNIFLDVACFFQGEDVD  159 (311)
Q Consensus        81 ~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~~l~~~~~~~i~~~l~~sy~~L~~-~~k~cfl~ls~fp~~~~~~  159 (311)
                      +++++|+++|+|+|||++++|++|++++..+|+.++++++...+.++..++++||+.|++ ..|.||+++|+|+.+.+.+
T Consensus       376 ~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~  455 (1153)
T PLN03210        376 ELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN  455 (1153)
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH
Confidence            999999999999999999999999999999999999999988888999999999999987 4899999999999998888


Q ss_pred             HHHHHHHHcCCCcccchHHHhhcccceecCCCcEEeCHHHHHHHHHHHhhhcCCCCCceeecchhhHHHHHhhccCc---
Q 021517          160 LVMKFFNASGFYPEIGMSVLVDKSLIAIDSHKKITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYEVLTYNTFY---  236 (311)
Q Consensus       160 ~l~~~w~a~g~~~~~~~~~L~~~sl~~~~~~~~~~mH~lv~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~---  236 (311)
                      .+..++...++.++.+++.|+++||++.. .+++.|||++|++|+++++++..++++++++|.++++.+++....+.   
T Consensus       456 ~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v  534 (1153)
T PLN03210        456 DIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKV  534 (1153)
T ss_pred             HHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCccccee
Confidence            77776666777788889999999999887 67899999999999999998877889999999999999988876654   


Q ss_pred             ----ccc-------cccc---------------------CccccccCCCCCC--CceeEEeeeCCCCCCCCCCCCCCCce
Q 021517          237 ----RSS-------VNGK---------------------NKCKISYLQDPGF--AEVKYLHWYGYPLKSLPSNLSAKKLV  282 (311)
Q Consensus       237 ----l~~-------~~~~---------------------~~~~~~lp~~~~~--~~Lr~L~l~~~~i~~lP~~i~L~~L~  282 (311)
                          +++       ++..                     ......+|+++..  ..||+|+|.+++++++|+.+.+.+|+
T Consensus       535 ~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~  614 (1153)
T PLN03210        535 LGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLV  614 (1153)
T ss_pred             eEEEeccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCc
Confidence                110       0000                     0012356777766  67999999999999999999889999


Q ss_pred             EEEcCCCCccccccccccCccccccccC
Q 021517          283 LVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       283 ~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .|+|++++++.||.+++.|++|+.++++
T Consensus       615 ~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls  642 (1153)
T PLN03210        615 KLQMQGSKLEKLWDGVHSLTGLRNIDLR  642 (1153)
T ss_pred             EEECcCccccccccccccCCCCCEEECC
Confidence            9999999999999999999999988875

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.98  E-value=4.1e-33  Score=246.93  Aligned_cols=173  Identities=29%  Similarity=0.516  Sum_probs=138.4

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhcCC-CceEEcCCCCHHHHHHHHHHhhcCCC-CCCcc
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGV-RKIYEMKALEYHHAIRLFSRHAFKQN-HPDVG   78 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~~-~~~~~l~~L~~~~a~~Lf~~~a~~~~-~~~~~   78 (311)
                      ||+||||||||+...|+.+...++....||+||||||+..++..++. ...+++++|+++||++||.+.++... ..++.
T Consensus       101 ~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~  180 (287)
T PF00931_consen  101 KRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKESESPED  180 (287)
T ss_dssp             TSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS----TT
T ss_pred             ccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            58999999999999999998888777789999999999999887754 67999999999999999999997755 34455


Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHhccc-cHHHHHHHHHHHhccC------cccHHHHHhhhcccCchhhhhhhhhhhc
Q 021517           79 YEELSCKVMKYAQGVPLALKVLGCFLHKR-EKEVWESATDKLQRIL------YPSILEVLKISYDSLDDKEKNIFLDVAC  151 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~~~~L~~~-~~~~w~~~~~~l~~~~------~~~i~~~l~~sy~~L~~~~k~cfl~ls~  151 (311)
                      ..+.+++|+++|+|+||||+++|++|+.+ +..+|+.+++++....      ..++..++.+||+.||++.|+||+|||+
T Consensus       181 ~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~f~~L~~  260 (287)
T PF00931_consen  181 LEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSALELSYDSLPDELRRCFLYLSI  260 (287)
T ss_dssp             SCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHHSSHTCCHHHHHHGGG
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceechhcCCccHHHHHhhCcC
Confidence            66789999999999999999999999765 7789999998865532      3679999999999999999999999999


Q ss_pred             CCCCcC--HHHHHHHHHHcCCCcc
Q 021517          152 FFQGED--VDLVMKFFNASGFYPE  173 (311)
Q Consensus       152 fp~~~~--~~~l~~~w~a~g~~~~  173 (311)
                      ||+++.  ++.++++|+++|++..
T Consensus       261 f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  261 FPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             SGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             CCCCceECHHHHHHHHHHCCCCcc
Confidence            999965  7899999999998764

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.86  E-value=7.9e-08  Score=98.28  Aligned_cols=199  Identities=14%  Similarity=0.154  Sum_probs=126.1

Q ss_pred             eEEEEEeCCCCHH---HHHHHHhcCCCCCCCcEEEEEeCchhHH---HhcCCCceEEcC----CCCHHHHHHHHHHhhcC
Q 021517            2 KVLIVFDDVTCFS---QIESLIGSLDWLTPVSRIIITTRNKQVL---RNWGVRKIYEMK----ALEYHHAIRLFSRHAFK   71 (311)
Q Consensus         2 r~LlVLDdv~~~~---~~~~l~~~~~~~~~gs~IlvTTR~~~va---~~~~~~~~~~l~----~L~~~~a~~Lf~~~a~~   71 (311)
                      +++|||||+...+   ..+.+...+....++.++|||||...-.   .........++.    +|+.+|+.++|....+.
T Consensus       122 ~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~  201 (903)
T PRK04841        122 PLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS  201 (903)
T ss_pred             CEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC
Confidence            6899999997643   1222222222233567888999984211   111112345566    99999999999876532


Q ss_pred             CCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHHHHhccCcccHHHHHhh-hcccCchhhhhhhhhhh
Q 021517           72 QNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKI-SYDSLDDKEKNIFLDVA  150 (311)
Q Consensus        72 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~~l~~~~~~~i~~~l~~-sy~~L~~~~k~cfl~ls  150 (311)
                      .     -..+.+.+|.+.|+|.|+++..++..++..+.. -......+.......+...+.- -++.||++.+..+...|
T Consensus       202 ~-----~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a  275 (903)
T PRK04841        202 P-----IEAAESSRLCDDVEGWATALQLIALSARQNNSS-LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCS  275 (903)
T ss_pred             C-----CCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Confidence            1     123557889999999999999988877544210 0111122221122345554433 37899999999999999


Q ss_pred             cCCCCcCHHHHHHHHHHcCCCcccchHHHhhccccee-cC--CCcEEeCHHHHHHHHHHHhh
Q 021517          151 CFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAI-DS--HKKITMHDLLQELGREIVRQ  209 (311)
Q Consensus       151 ~fp~~~~~~~l~~~w~a~g~~~~~~~~~L~~~sl~~~-~~--~~~~~mH~lv~~~~~~~~~~  209 (311)
                      +++ .++.+-+..+..  .-.....+++|.+.+++.. .+  ...|+.|++++++.+.....
T Consensus       276 ~~~-~~~~~l~~~l~~--~~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~~  334 (903)
T PRK04841        276 VLR-SMNDALIVRVTG--EENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQW  334 (903)
T ss_pred             ccc-cCCHHHHHHHcC--CCcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHHh
Confidence            986 666544433332  1123566899999999653 32  34799999999999987643

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.51  E-value=7.2e-08  Score=64.42  Aligned_cols=54  Identities=7%  Similarity=0.124  Sum_probs=48.6

Q ss_pred             CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ++|++|++++|.+..+|...  ++.+|++|++++|+|+.+|. .+..|++|++++++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~   57 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLS   57 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEET
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCc
Confidence            47999999999999999765  69999999999999999996 56999999999875

...

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=98.46  E-value=8.2e-08  Score=59.41  Aligned_cols=40  Identities=15%  Similarity=0.268  Sum_probs=35.0

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~  296 (311)
                      ++|++|++++|+|+.+|..+ +|.+|++|+|++|.|+.+|.
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            47999999999999999988 89999999999999998774

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.00  E-value=1e-06  Score=88.63  Aligned_cols=75  Identities=17%  Similarity=0.166  Sum_probs=62.3

Q ss_pred             ccccccc-CccccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCC-CccccccccccCccccccccCC
Q 021517          237 RSSVNGK-NKCKISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDS-DIERLWHCVKVCISYYTCGIFQ  311 (311)
Q Consensus       237 l~~~~~~-~~~~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~-~i~~LP~~i~~L~~L~~l~i~q  311 (311)
                      +++++-. .....++|.+|+. -|||||+|++|.+..||.++ +|+.|+|||+..| .+...|..+..|.+||+|.+++
T Consensus       573 LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  573 LRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPR  651 (889)
T ss_pred             eEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeec
Confidence            4444433 3456789999999 99999999999999999999 8999999999998 4556666666699999998764

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=97.98  E-value=1.2e-06  Score=82.47  Aligned_cols=65  Identities=11%  Similarity=0.123  Sum_probs=60.6

Q ss_pred             cccccCCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          246 CKISYLQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       246 ~~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+.|..+.. +++-+|+|++++|+++|.++  +|.-|-+|||+++.+..||..|.+|.+||||+++
T Consensus       114 qL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls  181 (1255)
T KOG0444|consen  114 QLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLS  181 (1255)
T ss_pred             hhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcC
Confidence            35588999999 99999999999999999997  8999999999999999999999999999999875

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=97.98  E-value=6.1e-07  Score=71.46  Aligned_cols=62  Identities=15%  Similarity=0.112  Sum_probs=55.0

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      ..+|+.+.. ..||-|.|..++++.+|..+ +|.+||.|.++.+++-+||++|+.|+.|+-|.|
T Consensus       117 ~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhi  180 (264)
T KOG0617|consen  117 NSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHI  180 (264)
T ss_pred             ccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhc
Confidence            367888887 88888888888889999999 899999999999999999999999999987765

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=97.87  E-value=2.4e-06  Score=68.16  Aligned_cols=64  Identities=13%  Similarity=0.082  Sum_probs=57.2

Q ss_pred             ccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|..|.. ++|.+|++.++.|+++|.+| .|.+|+.|++.-+.+..+|.+.+.+.-|+.|++.
T Consensus        45 l~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldlt  110 (264)
T KOG0617|consen   45 LTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLT  110 (264)
T ss_pred             eeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhcc
Confidence            4577888888 99999999999999999999 7999999999889999999999999999988763

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=97.76  E-value=5.7e-06  Score=74.14  Aligned_cols=61  Identities=13%  Similarity=0.062  Sum_probs=54.0

Q ss_pred             ccccCCCCCC--CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccc
Q 021517          247 KISYLQDPGF--AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCG  308 (311)
Q Consensus       247 ~~~lp~~~~~--~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~  308 (311)
                      ...+|..++.  .+|.+|||+.++++++|..+ .|++|.+|||+++.|..||-++++| +|+.|-
T Consensus       240 i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~  303 (565)
T KOG0472|consen  240 IEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLA  303 (565)
T ss_pred             HHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehh
Confidence            4567777764  99999999999999999999 5899999999999999999999999 777653

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.71  E-value=1.8e-05  Score=48.87  Aligned_cols=32  Identities=16%  Similarity=0.082  Sum_probs=28.0

Q ss_pred             CCceEEEcCCCCccccccccccCccccccccC
Q 021517          279 KKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       279 ~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|+|++|+|+++|..+++|++|++|+++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~   32 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLS   32 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEET
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEec
Confidence            47999999999999999999999999999875

...

>PLN03150 hypothetical protein; Provisional

Probab=97.71  E-value=1.8e-05  Score=77.55  Aligned_cols=62  Identities=11%  Similarity=0.167  Sum_probs=54.2

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..+.. ++|++|+|++|.+. .+|+++ +|.+|++|+|++|++. .+|.++++|.+|++|+++
T Consensus       433 ~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        433 FIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             cCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            56777777 99999999999986 888888 7999999999999887 789999999999998874

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.61  E-value=5.1e-05  Score=50.43  Aligned_cols=45  Identities=13%  Similarity=0.220  Sum_probs=37.9

Q ss_pred             ccccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCc
Q 021517          247 KISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDI  291 (311)
Q Consensus       247 ~~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i  291 (311)
                      ...+|.. +.. ++|++|++++|.+..+|+..  ++.+|++|++++|+|
T Consensus        13 l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen   13 LTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             ESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            3466754 455 99999999999999999765  799999999999975

...

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=97.48  E-value=5.1e-05  Score=39.31  Aligned_cols=22  Identities=5%  Similarity=0.146  Sum_probs=15.7

Q ss_pred             CceEEEcCCCCccccccccccC
Q 021517          280 KLVLVEVPDSDIERLWHCVKVC  301 (311)
Q Consensus       280 ~L~~L~L~~~~i~~LP~~i~~L  301 (311)
                      +|++|||++|+++++|.++++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            4777888887777777776654

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.41  E-value=0.00049  Score=62.18  Aligned_cols=156  Identities=13%  Similarity=0.092  Sum_probs=95.5

Q ss_pred             CcEEEEEeCchhHHHhc--CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhcc
Q 021517           29 VSRIIITTRNKQVLRNW--GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHK  106 (311)
Q Consensus        29 gs~IlvTTR~~~va~~~--~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~  106 (311)
                      .+-|..|||...+....  .....+++++++.++..+++.+.+...+..  -..+.+..|++.|+|.|-.+..+...+. 
T Consensus       151 ~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~ia~~~~G~pR~a~~~l~~~~-  227 (328)
T PRK00080        151 FTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVE--IDEEGALEIARRSRGTPRIANRLLRRVR-  227 (328)
T ss_pred             ceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHcCCCchHHHHHHHHHH-
Confidence            45566777755443322  123478999999999999999887543221  2235788999999999954444443221 


Q ss_pred             ccHHHHHHHHH--HHhccCcccHHHHHhhhcccCchhhhhhhh-hhhcCCCC-cCHHHHHHHHHHcCCCcccchH-HHhh
Q 021517          107 REKEVWESATD--KLQRILYPSILEVLKISYDSLDDKEKNIFL-DVACFFQG-EDVDLVMKFFNASGFYPEIGMS-VLVD  181 (311)
Q Consensus       107 ~~~~~w~~~~~--~l~~~~~~~i~~~l~~sy~~L~~~~k~cfl-~ls~fp~~-~~~~~l~~~w~a~g~~~~~~~~-~L~~  181 (311)
                          .|.....  .+....-......+...+..|++..+..+. ....|+.+ +..+.+...+..+....+..++ .|++
T Consensus       228 ----~~a~~~~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~  303 (328)
T PRK00080        228 ----DFAQVKGDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQ  303 (328)
T ss_pred             ----HHHHHcCCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHH
Confidence                2211110  000000122334556777888888777775 66677655 4567776666555555555667 8999


Q ss_pred             cccceecCCC
Q 021517          182 KSLIAIDSHK  191 (311)
Q Consensus       182 ~sl~~~~~~~  191 (311)
                      .+|++....|
T Consensus       304 ~~li~~~~~g  313 (328)
T PRK00080        304 QGFIQRTPRG  313 (328)
T ss_pred             cCCcccCCch
Confidence            9999866544

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=97.36  E-value=9.4e-05  Score=76.46  Aligned_cols=62  Identities=11%  Similarity=0.098  Sum_probs=42.6

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..+.. ++|++|+|++|.+. .+|..+ ++.+|++|+|++|++. .+|.++++|++|++|+++
T Consensus       179 ~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~  244 (968)
T PLN00113        179 KIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLV  244 (968)
T ss_pred             cCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECc
Confidence            45666666 77777777777654 566666 6777777777777655 577777777777777653

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=97.31  E-value=3.1e-05  Score=76.08  Aligned_cols=60  Identities=18%  Similarity=0.143  Sum_probs=53.7

Q ss_pred             ccCCCCCCCceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccccccCccccccc
Q 021517          249 SYLQDPGFAEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCVKVCISYYTCG  308 (311)
Q Consensus       249 ~lp~~~~~~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~  308 (311)
                      .+|--.+++|||+|+|++|.+.++|.+.  +|..|+.|+|+|++++.||.++.++..|+||.
T Consensus       375 c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~  436 (1081)
T KOG0618|consen  375 CFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLR  436 (1081)
T ss_pred             chhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHh
Confidence            4444444599999999999999999987  79999999999999999999999999999885

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.22  E-value=0.00027  Score=63.92  Aligned_cols=205  Identities=19%  Similarity=0.224  Sum_probs=136.6

Q ss_pred             CeEEEEEeCCCCHHH-HHHHHhcCCCCCCCcEEEEEeCchhHHHhcCCCceEEcCCCCHH-HHHHHHHHhhcCCCC---C
Q 021517            1 MKVLIVFDDVTCFSQ-IESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYH-HAIRLFSRHAFKQNH---P   75 (311)
Q Consensus         1 kr~LlVLDdv~~~~~-~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~~~~~~~l~~L~~~-~a~~Lf~~~a~~~~~---~   75 (311)
                      +|.++|+||..+... -..+...+..+.+.-.|+.|+|....   +..+..+.+++|+.. ++.++|...+.....   -
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l  164 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWL  164 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccceee
Confidence            466888999876643 22333333334455578899987642   244567888888876 789998877743221   1


Q ss_pred             CccHHHHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHH----HHhccC------cccHHHHHhhhcccCchhhhhh
Q 021517           76 DVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATD----KLQRIL------YPSILEVLKISYDSLDDKEKNI  145 (311)
Q Consensus        76 ~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~----~l~~~~------~~~i~~~l~~sy~~L~~~~k~c  145 (311)
                      .......+.+|.+..+|.|++|..+++..+.....+-...++    .++...      .......+.+||.-|..-.+--
T Consensus       165 ~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~~~  244 (414)
T COG3903         165 TDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWERAL  244 (414)
T ss_pred             cCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHHHH
Confidence            334456788999999999999999999998775444333322    222221      2457789999999999999999


Q ss_pred             hhhhhcCCCCcCHHHHHHHHHHcCCCc--c-----cchHHHhhcccceecC---CCcEEeCHHHHHHHHHHHhhh
Q 021517          146 FLDVACFFQGEDVDLVMKFFNASGFYP--E-----IGMSVLVDKSLIAIDS---HKKITMHDLLQELGREIVRQE  210 (311)
Q Consensus       146 fl~ls~fp~~~~~~~l~~~w~a~g~~~--~-----~~~~~L~~~sl~~~~~---~~~~~mH~lv~~~~~~~~~~~  210 (311)
                      |.-++.|...|..+  ...|.+-|-..  .     ..+..+++.+++....   .-.|+.-+-++.|+..+..+.
T Consensus       245 ~~rLa~~~g~f~~~--l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~  317 (414)
T COG3903         245 FGRLAVFVGGFDLG--LALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRS  317 (414)
T ss_pred             hcchhhhhhhhccc--HHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999888765  33444433221  2     2366788888887665   235677777777777665443

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=97.17  E-value=0.00023  Score=73.64  Aligned_cols=62  Identities=8%  Similarity=0.083  Sum_probs=53.2

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..++. ++|++|+|++|.+. .+|..+ ++.+|++|+|++|++. .+|.++++|++|++|+++
T Consensus       203 ~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~  268 (968)
T PLN00113        203 QIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLY  268 (968)
T ss_pred             cCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECc
Confidence            56778888 99999999999875 788888 7999999999999775 788899999999988775

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=97.14  E-value=0.00022  Score=58.08  Aligned_cols=53  Identities=13%  Similarity=0.125  Sum_probs=17.7

Q ss_pred             CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc--ccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i  309 (311)
                      +.|+.|++++|.|+++++.+  .+.+|+.|+|++++|..+-.  .+..+++|+.|.+
T Consensus        64 ~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L  120 (175)
T PF14580_consen   64 PRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSL  120 (175)
T ss_dssp             TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-
T ss_pred             hhhhhcccCCCCCCccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeec
Confidence            66666666666666665444  35666666666665555432  2334444554444

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.12  E-value=0.0059  Score=54.46  Aligned_cols=154  Identities=15%  Similarity=0.073  Sum_probs=94.3

Q ss_pred             CcEEEEEeCchhHHHhc--CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhcc
Q 021517           29 VSRIIITTRNKQVLRNW--GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHK  106 (311)
Q Consensus        29 gs~IlvTTR~~~va~~~--~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~  106 (311)
                      .+-|..||+...+....  .....+.+++++.++..+++.+.+.....  .-..+....|++.|+|.|-.+..++..+  
T Consensus       130 ~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~--~~~~~al~~ia~~~~G~pR~~~~ll~~~--  205 (305)
T TIGR00635       130 FTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNV--EIEPEAALEIARRSRGTPRIANRLLRRV--  205 (305)
T ss_pred             eEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCC--CcCHHHHHHHHHHhCCCcchHHHHHHHH--
Confidence            45566777765443332  12346899999999999999988753222  1223567889999999996655444432  


Q ss_pred             ccHHHHHHHHHHHhcc--C---cccHHHHHhhhcccCchhhhhhhh-hhhcCCCC-cCHHHHHHHHHHcCCCcccchH-H
Q 021517          107 REKEVWESATDKLQRI--L---YPSILEVLKISYDSLDDKEKNIFL-DVACFFQG-EDVDLVMKFFNASGFYPEIGMS-V  178 (311)
Q Consensus       107 ~~~~~w~~~~~~l~~~--~---~~~i~~~l~~sy~~L~~~~k~cfl-~ls~fp~~-~~~~~l~~~w~a~g~~~~~~~~-~  178 (311)
                           |... ......  .   -......+...|..++++.+..+. ..+.+..+ +..+.+...........+..++ .
T Consensus       206 -----~~~a-~~~~~~~it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~  279 (305)
T TIGR00635       206 -----RDFA-QVRGQKIINRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPY  279 (305)
T ss_pred             -----HHHH-HHcCCCCcCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHH
Confidence                 1110 000000  0   011222356678889888877665 55666544 5566777666655555666677 6


Q ss_pred             HhhcccceecCCCc
Q 021517          179 LVDKSLIAIDSHKK  192 (311)
Q Consensus       179 L~~~sl~~~~~~~~  192 (311)
                      |++.+|+.....|.
T Consensus       280 Li~~~li~~~~~g~  293 (305)
T TIGR00635       280 LLQIGFLQRTPRGR  293 (305)
T ss_pred             HHHcCCcccCCchh
Confidence            99999998665443

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.09  E-value=0.0019  Score=63.55  Aligned_cols=197  Identities=14%  Similarity=0.144  Sum_probs=119.8

Q ss_pred             eEEEEEeCCCCHHH---HHHHHhcCCCCCCCcEEEEEeCchhHHHhcC---CCceEEcC----CCCHHHHHHHHHHhhcC
Q 021517            2 KVLIVFDDVTCFSQ---IESLIGSLDWLTPVSRIIITTRNKQVLRNWG---VRKIYEMK----ALEYHHAIRLFSRHAFK   71 (311)
Q Consensus         2 r~LlVLDdv~~~~~---~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~---~~~~~~l~----~L~~~~a~~Lf~~~a~~   71 (311)
                      +..+||||..-..+   -+.+...+....++-..|||||+.--.....   .+...+++    .++.+|+-++|......
T Consensus       130 pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l  209 (894)
T COG2909         130 PLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSL  209 (894)
T ss_pred             ceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCC
Confidence            56899999874432   2222222333346788999999974322110   01122333    58999999999876521


Q ss_pred             CCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhccc-cHHHHHHHHHHHhccCcccHHH-HHhhhcccCchhhhhhhhhh
Q 021517           72 QNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKR-EKEVWESATDKLQRILYPSILE-VLKISYDSLDDKEKNIFLDV  149 (311)
Q Consensus        72 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-~~~~w~~~~~~l~~~~~~~i~~-~l~~sy~~L~~~~k~cfl~l  149 (311)
                           +--..-++.+.+...|.+-|+..++=.+++. +.+.-...+.-   . ...+.. ...-=++.||++.+..++-+
T Consensus       210 -----~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~LsG---~-~~~l~dYL~eeVld~Lp~~l~~FLl~~  280 (894)
T COG2909         210 -----PLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLSG---A-ASHLSDYLVEEVLDRLPPELRDFLLQT  280 (894)
T ss_pred             -----CCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhccc---h-HHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                 1122457788999999999999999888843 33322221110   0 011111 11223678999999999999


Q ss_pred             hcCCCCcCHHHHHHHHHHcCCCcccchHHHhhcccceec---CCCcEEeCHHHHHHHHHHHhhh
Q 021517          150 ACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAID---SHKKITMHDLLQELGREIVRQE  210 (311)
Q Consensus       150 s~fp~~~~~~~l~~~w~a~g~~~~~~~~~L~~~sl~~~~---~~~~~~mH~lv~~~~~~~~~~~  210 (311)
                      |+++.--  ++|......++ .....+++|.+++|+-..   ..+.|+.|.++.+|.+.....+
T Consensus       281 svl~~f~--~eL~~~Ltg~~-ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~  341 (894)
T COG2909         281 SVLSRFN--DELCNALTGEE-NGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRE  341 (894)
T ss_pred             HhHHHhh--HHHHHHHhcCC-cHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccc
Confidence            9885321  23333222211 122348999999988632   2779999999999998876654

>PF05729 NACHT: NACHT domain

Probab=97.06  E-value=0.0016  Score=52.14  Aligned_cols=69  Identities=20%  Similarity=0.364  Sum_probs=48.3

Q ss_pred             CeEEEEEeCCCCHHH---------HHHHHhc-CCC-CCCCcEEEEEeCchhH---HHhcCCCceEEcCCCCHHHHHHHHH
Q 021517            1 MKVLIVFDDVTCFSQ---------IESLIGS-LDW-LTPVSRIIITTRNKQV---LRNWGVRKIYEMKALEYHHAIRLFS   66 (311)
Q Consensus         1 kr~LlVLDdv~~~~~---------~~~l~~~-~~~-~~~gs~IlvTTR~~~v---a~~~~~~~~~~l~~L~~~~a~~Lf~   66 (311)
                      +++++|+|++++...         +..+... ++. ..++++++||||....   .........+++.+|++++..+++.
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLR  160 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHH
Confidence            478999999986533         2222222 221 2468999999999876   3333444689999999999999987


Q ss_pred             Hhh
Q 021517           67 RHA   69 (311)
Q Consensus        67 ~~a   69 (311)
                      ++.
T Consensus       161 ~~f  163 (166)
T PF05729_consen  161 KYF  163 (166)
T ss_pred             HHh
Confidence            654

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=97.02  E-value=8.5e-05  Score=66.81  Aligned_cols=64  Identities=16%  Similarity=0.159  Sum_probs=55.1

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|+.-++..|+-|.+..+.|+.+|..+  +|.+|-+||||.++++++|.+|+.|++|..|+++
T Consensus       218 i~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlS  283 (565)
T KOG0472|consen  218 IRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLS  283 (565)
T ss_pred             cccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhccc
Confidence            346674444488888888888899999888  5999999999999999999999999999999875

>PRK06893 DNA replication initiation factor; Validated

Probab=97.02  E-value=0.0026  Score=54.35  Aligned_cols=95  Identities=14%  Similarity=0.221  Sum_probs=61.4

Q ss_pred             EEEEeCCCCH---HHHHH-HHhcCCCC-CCCcEEEE-EeCc---------hhHHHhcCCCceEEcCCCCHHHHHHHHHHh
Q 021517            4 LIVFDDVTCF---SQIES-LIGSLDWL-TPVSRIII-TTRN---------KQVLRNWGVRKIYEMKALEYHHAIRLFSRH   68 (311)
Q Consensus         4 LlVLDdv~~~---~~~~~-l~~~~~~~-~~gs~Ilv-TTR~---------~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~   68 (311)
                      +||+||+|..   ..|+. +...+... ..|+.+|| |+..         +++...++....+++++++.++.++++.+.
T Consensus        94 lLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~  173 (229)
T PRK06893         94 LVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRN  173 (229)
T ss_pred             EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHH
Confidence            7999999964   34552 22222211 23555655 4443         466666676779999999999999999999


Q ss_pred             hcCCCCCCccHHHHHHHHHHHhCCCchHHHHH
Q 021517           69 AFKQNHPDVGYEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        69 a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  100 (311)
                      ++...-.  --.++..-|++.+.|..-++..+
T Consensus       174 a~~~~l~--l~~~v~~~L~~~~~~d~r~l~~~  203 (229)
T PRK06893        174 AYQRGIE--LSDEVANFLLKRLDRDMHTLFDA  203 (229)
T ss_pred             HHHcCCC--CCHHHHHHHHHhccCCHHHHHHH
Confidence            8654321  12356677788887766554433

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=96.98  E-value=0.00017  Score=68.53  Aligned_cols=61  Identities=10%  Similarity=-0.043  Sum_probs=42.5

Q ss_pred             ccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCcccccc
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTC  307 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l  307 (311)
                      ...+|+.+.. .+||-|+|+++.|++|.-.+ .-.+|++|+|+.+.++.||..+++|++|+.|
T Consensus       234 Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kL  296 (1255)
T KOG0444|consen  234 LPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKL  296 (1255)
T ss_pred             CCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHHH
Confidence            3445555555 77777777777777776666 4667777777777777777777777777654

>PLN03210 Resistant to P

Probab=96.94  E-value=0.00082  Score=70.67  Aligned_cols=61  Identities=13%  Similarity=0.146  Sum_probs=29.8

Q ss_pred             ccCCCCCC-CceeEEeeeCCC-CCCCCCCCCCCCceEEEcCCC-CccccccccccCcccccccc
Q 021517          249 SYLQDPGF-AEVKYLHWYGYP-LKSLPSNLSAKKLVLVEVPDS-DIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~-i~~lP~~i~L~~L~~L~L~~~-~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+|.++.. ++|++|+|+++. +..+|..-.+.+|++|+|++| .+.++|.+|++|++|++|++
T Consensus       625 ~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L  688 (1153)
T PLN03210        625 KLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDM  688 (1153)
T ss_pred             ccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEeC
Confidence            34444444 555555555443 444443114555555555554 45555555555555555443

syringae 6; Provisional

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=96.94  E-value=0.00042  Score=56.43  Aligned_cols=54  Identities=7%  Similarity=0.054  Sum_probs=26.0

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccc-cCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVK-VCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~-~L~~L~~l~i~  310 (311)
                      .+|+.|+|++|.|++++.--.|.+|++|+|+++.|+.++.++. .+++|++|.++
T Consensus        42 ~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~   96 (175)
T PF14580_consen   42 DKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLS   96 (175)
T ss_dssp             TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-T
T ss_pred             cCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEECc
Confidence            7899999999999999742289999999999999999987664 68899888764

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=96.91  E-value=0.00014  Score=71.54  Aligned_cols=63  Identities=11%  Similarity=0.159  Sum_probs=48.5

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...|..+.. .+|+.|+++.|-|.+.|.++ ++.+|+||+|.++.+..+|.++..|++|+.|+++
T Consensus        58 ~~fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS  122 (1081)
T KOG0618|consen   58 SSFPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLS  122 (1081)
T ss_pred             ccCCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccc
Confidence            355666666 78888888888888888777 7888888888888888888888888888877764

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=96.88  E-value=0.00029  Score=36.40  Aligned_cols=19  Identities=37%  Similarity=0.695  Sum_probs=17.7

Q ss_pred             ceeEEeeeCCCCCCCCCCC
Q 021517          258 EVKYLHWYGYPLKSLPSNL  276 (311)
Q Consensus       258 ~Lr~L~l~~~~i~~lP~~i  276 (311)
                      +|++||+++|+++++|+++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~   19 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSF   19 (22)
T ss_dssp             TESEEEETSSEESEEGTTT
T ss_pred             CccEEECCCCcCEeCChhh
Confidence            5899999999999999987

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=96.81  E-value=0.0079  Score=50.88  Aligned_cols=97  Identities=23%  Similarity=0.240  Sum_probs=53.1

Q ss_pred             CeEEEEEeCCCCHH-----------HHHHHHhcCCCCCCCcEEEEEeCchhHHHh--------cCCCceEEcCCCCHHHH
Q 021517            1 MKVLIVFDDVTCFS-----------QIESLIGSLDWLTPVSRIIITTRNKQVLRN--------WGVRKIYEMKALEYHHA   61 (311)
Q Consensus         1 kr~LlVLDdv~~~~-----------~~~~l~~~~~~~~~gs~IlvTTR~~~va~~--------~~~~~~~~l~~L~~~~a   61 (311)
                      ++.+||+||+....           .+..+........+. .+|+++.+..+...        .+....+.+++++.+++
T Consensus       118 ~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~  196 (234)
T PF01637_consen  118 KKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV-SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEA  196 (234)
T ss_dssp             CCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE-EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHH
T ss_pred             CcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc-eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHH
Confidence            35899999997655           123333332223333 45555555555443        12334599999999999


Q ss_pred             HHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHH
Q 021517           62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKV   99 (311)
Q Consensus        62 ~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~   99 (311)
                      ++++...+-....- +.-.+...+|...+||.|..|..
T Consensus       197 ~~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  197 REFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             HHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            99999875332111 12345679999999999987753

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.67  E-value=0.063  Score=46.77  Aligned_cols=103  Identities=13%  Similarity=0.157  Sum_probs=66.2

Q ss_pred             CeEEEEEeCCCCHH--HHHHHHhcC---CCCCCCcEEEEEeCchhHHHhcC----------CCceEEcCCCCHHHHHHHH
Q 021517            1 MKVLIVFDDVTCFS--QIESLIGSL---DWLTPVSRIIITTRNKQVLRNWG----------VRKIYEMKALEYHHAIRLF   65 (311)
Q Consensus         1 kr~LlVLDdv~~~~--~~~~l~~~~---~~~~~gs~IlvTTR~~~va~~~~----------~~~~~~l~~L~~~~a~~Lf   65 (311)
                      ++.+||+||++...  .++.+....   ........|++|.... ......          ....+++++++.+|..+++
T Consensus       123 ~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l  201 (269)
T TIGR03015       123 KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREETREYI  201 (269)
T ss_pred             CCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHH
Confidence            46799999998753  455544221   1112233455665433 221111          1246789999999999998


Q ss_pred             HHhhcCCCC--CCccHHHHHHHHHHHhCCCchHHHHHHHHh
Q 021517           66 SRHAFKQNH--PDVGYEELSCKVMKYAQGVPLALKVLGCFL  104 (311)
Q Consensus        66 ~~~a~~~~~--~~~~~~~~~~~i~~~c~glPLai~~~~~~L  104 (311)
                      ...+...+.  ...-..+..+.|.+.|+|.|..|..++..+
T Consensus       202 ~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       202 EHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            877643221  122234788999999999999999988876

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=96.46  E-value=0.0015  Score=31.37  Aligned_cols=16  Identities=13%  Similarity=0.262  Sum_probs=6.4

Q ss_pred             CceEEEcCCCCccccc
Q 021517          280 KLVLVEVPDSDIERLW  295 (311)
Q Consensus       280 ~L~~L~L~~~~i~~LP  295 (311)
                      +|++|+|++|++++||
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555554

...

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=96.34  E-value=0.0018  Score=31.08  Aligned_cols=17  Identities=29%  Similarity=0.425  Sum_probs=11.9

Q ss_pred             CceeEEeeeCCCCCCCC
Q 021517          257 AEVKYLHWYGYPLKSLP  273 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP  273 (311)
                      ++||+|++++|++++||
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            47999999999999988

...

>PLN03150 hypothetical protein; Provisional

Probab=96.32  E-value=0.0029  Score=62.21  Aligned_cols=53  Identities=11%  Similarity=0.128  Sum_probs=48.6

Q ss_pred             ceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          258 EVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       258 ~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      .+..|+|+++.+. .+|.+| +|.+|++|+|++|++. .+|.++++|.+|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs  474 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLS  474 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECC
Confidence            4889999999976 889999 8999999999999987 899999999999999885

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=96.18  E-value=0.0021  Score=64.00  Aligned_cols=52  Identities=27%  Similarity=0.181  Sum_probs=41.4

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|++|++++|.+.++|...  .+|++|+|++|+|+.||.++++|.+|+.+++.
T Consensus       402 s~L~~LdLS~N~LssIP~l~--~~L~~L~Ls~NqLt~LP~sl~~L~~L~~LdLs  453 (788)
T PRK15387        402 SELKELMVSGNRLTSLPMLP--SGLLSLSVYRNQLTRLPESLIHLSSETTVNLE  453 (788)
T ss_pred             cCCCEEEccCCcCCCCCcch--hhhhhhhhccCcccccChHHhhccCCCeEECC
Confidence            46777777777777777543  46788999999999999999999999988774

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=96.16  E-value=0.0016  Score=64.43  Aligned_cols=54  Identities=15%  Similarity=0.141  Sum_probs=44.9

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccc--cccccCccccccccCC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLW--HCVKVCISYYTCGIFQ  311 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP--~~i~~L~~L~~l~i~q  311 (311)
                      ++|++||+++|+++.+ ..| +|+|||+|.+++=.+..-+  ..+-+|++|++|||++
T Consensus       173 pNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~  229 (699)
T KOG3665|consen  173 PNLRSLDISGTNISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISR  229 (699)
T ss_pred             CccceeecCCCCccCc-HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccc
Confidence            8999999999999988 677 7999999999886666533  3577899999999875

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=95.85  E-value=0.0034  Score=54.74  Aligned_cols=63  Identities=6%  Similarity=-0.023  Sum_probs=39.5

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..+.++++. +.+|+|+++.|+|..+-+--.|.+|+.|||+++.+.++-.-=.+|-|.++|.+.
T Consensus       297 ~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La  360 (490)
T KOG1259|consen  297 TQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLA  360 (490)
T ss_pred             hhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehh
Confidence            355566666 777888888877776665226777777777777665554333444455555443

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=95.78  E-value=0.0031  Score=58.37  Aligned_cols=60  Identities=18%  Similarity=0.157  Sum_probs=29.8

Q ss_pred             ccCCCCCC-C-ceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccc
Q 021517          249 SYLQDPGF-A-EVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCG  308 (311)
Q Consensus       249 ~lp~~~~~-~-~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~  308 (311)
                      .+|..+.. . +|+.|+++++.+..+|..+ .+.+|+.|+++.|.+.++|...+++.+|+.+.
T Consensus       130 ~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~  192 (394)
T COG4886         130 DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLD  192 (394)
T ss_pred             cCccccccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhhee
Confidence            34444444 2 4555555555555555444 45555555555555555555444444444443

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=95.75  E-value=0.0018  Score=50.13  Aligned_cols=50  Identities=10%  Similarity=0.069  Sum_probs=25.0

Q ss_pred             ceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCcccccc
Q 021517          258 EVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTC  307 (311)
Q Consensus       258 ~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l  307 (311)
                      .+..|+|.++.|..+|..+ .+.-|+.|+++.+.+...|.-|-.|++|-.|
T Consensus        78 t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~L  128 (177)
T KOG4579|consen   78 TATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDML  128 (177)
T ss_pred             hhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHh
Confidence            4445555555555555554 4555555555555555555544444444433

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=95.74  E-value=0.0022  Score=60.39  Aligned_cols=64  Identities=17%  Similarity=0.080  Sum_probs=50.1

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +..+|..++.-=|++|-+++++++.+|..| .+.+|..||.+.|.|..||..++.|.+|+.|.++
T Consensus       133 lS~lp~~lC~lpLkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vr  197 (722)
T KOG0532|consen  133 LSHLPDGLCDLPLKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVR  197 (722)
T ss_pred             hhcCChhhhcCcceeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHh
Confidence            346777777766788888888888888888 5777888888888888888888888888777653

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=95.66  E-value=0.011  Score=59.02  Aligned_cols=58  Identities=19%  Similarity=0.220  Sum_probs=37.3

Q ss_pred             ccCCCCCCCceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGFAEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..+. .+|++|++++|.++++|..+ ..+|+.|+|++|++..+|.++.  .+|++|+++
T Consensus       213 sLP~~l~-~nL~~L~Ls~N~LtsLP~~l-~~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~Ls  270 (754)
T PRK15370        213 SLPENLQ-GNIKTLYANSNQLTSIPATL-PDTIQEMELSINRITELPERLP--SALQSLDLF  270 (754)
T ss_pred             cCChhhc-cCCCEEECCCCccccCChhh-hccccEEECcCCccCcCChhHh--CCCCEEECc
Confidence            4444332 46777777777777777655 1257777787777777777664  366666653

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=95.50  E-value=0.0045  Score=54.00  Aligned_cols=53  Identities=13%  Similarity=0.120  Sum_probs=49.4

Q ss_pred             CceeEEeeeCCCCCCCCCCCC-CCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNLS-AKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~-L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..|..|||++|.|+.+-+|++ +..++.|+|+++.|...-+ +..|.+|++|+++
T Consensus       284 q~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n-La~L~~L~~LDLS  337 (490)
T KOG1259|consen  284 QELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN-LAELPQLQLLDLS  337 (490)
T ss_pred             hhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh-hhhcccceEeecc
Confidence            789999999999999999996 7899999999999999876 8999999999886

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=95.38  E-value=0.012  Score=58.73  Aligned_cols=40  Identities=25%  Similarity=0.380  Sum_probs=21.6

Q ss_pred             ceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCcccccccc
Q 021517          258 EVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCV  298 (311)
Q Consensus       258 ~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i  298 (311)
                      .|++|++++|++..+|..+. .+|++|+|++|+++.+|..+
T Consensus       263 ~L~~L~Ls~N~L~~LP~~l~-~sL~~L~Ls~N~Lt~LP~~l  302 (754)
T PRK15370        263 ALQSLDLFHNKISCLPENLP-EELRYLSVYDNSIRTLPAHL  302 (754)
T ss_pred             CCCEEECcCCccCccccccC-CCCcEEECCCCccccCcccc
Confidence            45555555555555555441 24556666665555555443

>COG3899 Predicted ATPase [General function prediction only]

Probab=95.36  E-value=0.12  Score=52.61  Aligned_cols=202  Identities=13%  Similarity=0.156  Sum_probs=121.7

Q ss_pred             CeEEEEEeCCCCHHH-----HHHHHhcCCCCC-CCcEEEEEeCchhHHHh----cCCCceEEcCCCCHHHHHHHHHHhhc
Q 021517            1 MKVLIVFDDVTCFSQ-----IESLIGSLDWLT-PVSRIIITTRNKQVLRN----WGVRKIYEMKALEYHHAIRLFSRHAF   70 (311)
Q Consensus         1 kr~LlVLDdv~~~~~-----~~~l~~~~~~~~-~gs~IlvTTR~~~va~~----~~~~~~~~l~~L~~~~a~~Lf~~~a~   70 (311)
                      |+..+|+||+.-.+.     .+.+......+. ....|..+.........    -.....+.|.||+..+.-.+......
T Consensus       154 ~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~  233 (849)
T COG3899         154 HPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLG  233 (849)
T ss_pred             CCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhC
Confidence            578999999964432     333333221000 11133333333222111    12336899999999999999988773


Q ss_pred             CCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhccc-------cHHHHHHHHHHHhccC-cccHHHHHhhhcccCchhh
Q 021517           71 KQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKR-------EKEVWESATDKLQRIL-YPSILEVLKISYDSLDDKE  142 (311)
Q Consensus        71 ~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-------~~~~w~~~~~~l~~~~-~~~i~~~l~~sy~~L~~~~  142 (311)
                      ...   ....+....|+++-+|.|+-+..+-..+...       +...|..-..++.... .+++...+..-.+.||...
T Consensus       234 ~~~---~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t  310 (849)
T COG3899         234 CTK---LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTT  310 (849)
T ss_pred             Ccc---cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHH
Confidence            322   2334678899999999999999888888652       3444544333333222 1335666888899999999


Q ss_pred             hhhhhhhhcCCCCcCHHHHHHHHHHcCCCcccchHHHhhcccceecC--------CCc--E-EeCHHHHHHHHH
Q 021517          143 KNIFLDVACFFQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDS--------HKK--I-TMHDLLQELGRE  205 (311)
Q Consensus       143 k~cfl~ls~fp~~~~~~~l~~~w~a~g~~~~~~~~~L~~~sl~~~~~--------~~~--~-~mH~lv~~~~~~  205 (311)
                      +..+-..|++...|+.+.|..++...+...-..+-.....+++.+..        ...  | -.|+.+++.|-.
T Consensus       311 ~~Vl~~AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~  384 (849)
T COG3899         311 REVLKAAACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYN  384 (849)
T ss_pred             HHHHHHHHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhc
Confidence            99999999998888877776666543322222233333444444321        111  1 467777777654

>smart00370 LRR Leucine-rich repeats, outliers

Probab=95.33  E-value=0.01  Score=31.81  Aligned_cols=22  Identities=9%  Similarity=0.069  Sum_probs=17.7

Q ss_pred             CCCceEEEcCCCCccccccccc
Q 021517          278 AKKLVLVEVPDSDIERLWHCVK  299 (311)
Q Consensus       278 L~~L~~L~L~~~~i~~LP~~i~  299 (311)
                      |.+|++|+|.+|.|+.+|.++.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHHc
Confidence            5678889998888988887653

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=95.33  E-value=0.01  Score=31.81  Aligned_cols=22  Identities=9%  Similarity=0.069  Sum_probs=17.7

Q ss_pred             CCCceEEEcCCCCccccccccc
Q 021517          278 AKKLVLVEVPDSDIERLWHCVK  299 (311)
Q Consensus       278 L~~L~~L~L~~~~i~~LP~~i~  299 (311)
                      |.+|++|+|.+|.|+.+|.++.
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHHc
Confidence            5678889998888988887653

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=95.26  E-value=0.0047  Score=58.25  Aligned_cols=62  Identities=13%  Similarity=0.135  Sum_probs=56.6

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      -.+|..++. ..|-||||+.+.+..+|..++..-|+.|-+++++++.||.+|+-+..|.+|+.
T Consensus       111 r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lpLkvli~sNNkl~~lp~~ig~~~tl~~ld~  173 (722)
T KOG0532|consen  111 RTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLPLKVLIVSNNKLTSLPEEIGLLPTLAHLDV  173 (722)
T ss_pred             eecchhhhhhhHHHHhhhccchhhcCChhhhcCcceeEEEecCccccCCcccccchhHHHhhh
Confidence            367888888 99999999999999999999888899999999999999999998888888764

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=95.25  E-value=0.012  Score=54.33  Aligned_cols=55  Identities=15%  Similarity=0.163  Sum_probs=50.7

Q ss_pred             CceeEEeeeCCCCCCCCCCCC-CC-CceEEEcCCCCccccccccccCccccccccCC
Q 021517          257 AEVKYLHWYGYPLKSLPSNLS-AK-KLVLVEVPDSDIERLWHCVKVCISYYTCGIFQ  311 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~-L~-~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~q  311 (311)
                      ..+..|++.++.+.++|..+. +. +|+.|+++++.+..+|..++.+++|+.|++.+
T Consensus       116 ~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~  172 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSF  172 (394)
T ss_pred             cceeEEecCCcccccCccccccchhhcccccccccchhhhhhhhhccccccccccCC
Confidence            679999999999999999995 64 99999999999999999999999999998753

>PRK09087 hypothetical protein; Validated

Probab=95.22  E-value=0.44  Score=40.59  Aligned_cols=92  Identities=9%  Similarity=0.087  Sum_probs=59.4

Q ss_pred             EEEEeCCCC----HHHHHHHHhcCCCCCCCcEEEEEeCc---------hhHHHhcCCCceEEcCCCCHHHHHHHHHHhhc
Q 021517            4 LIVFDDVTC----FSQIESLIGSLDWLTPVSRIIITTRN---------KQVLRNWGVRKIYEMKALEYHHAIRLFSRHAF   70 (311)
Q Consensus         4 LlVLDdv~~----~~~~~~l~~~~~~~~~gs~IlvTTR~---------~~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~   70 (311)
                      +|++||+..    .+.+-.+.....  ..|..||+||+.         .+....+....++++++++.++-.+++.+.+-
T Consensus        90 ~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087         90 PVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             eEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHH
Confidence            688999953    233323332222  246679999873         44555556667999999999999999998883


Q ss_pred             CCCCCCccHHHHHHHHHHHhCCCchHHHH
Q 021517           71 KQNHPDVGYEELSCKVMKYAQGVPLALKV   99 (311)
Q Consensus        71 ~~~~~~~~~~~~~~~i~~~c~glPLai~~   99 (311)
                      ...-  .--+++..-|++.+.|..-++..
T Consensus       168 ~~~~--~l~~ev~~~La~~~~r~~~~l~~  194 (226)
T PRK09087        168 DRQL--YVDPHVVYYLVSRMERSLFAAQT  194 (226)
T ss_pred             HcCC--CCCHHHHHHHHHHhhhhHHHHHH
Confidence            3221  12235667777777776665553

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.17  E-value=0.42  Score=43.81  Aligned_cols=93  Identities=11%  Similarity=0.109  Sum_probs=61.0

Q ss_pred             eEEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCch-hHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+||+...+  ....++..+..-..++.+|++|.+. .+...+ .....+.+.+++.++..+++......    ..
T Consensus       142 ~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~----~~  217 (365)
T PRK07471        142 WRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD----LP  217 (365)
T ss_pred             CEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc----CC
Confidence            3578999998553  4666666654434566666666665 333332 33468999999999999999875411    11


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~  100 (311)
                        ......++..++|.|.....+
T Consensus       218 --~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        218 --DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             --HHHHHHHHHHcCCCHHHHHHH
Confidence              122267899999999865544

>PF13173 AAA_14: AAA domain

Probab=94.80  E-value=0.042  Score=42.22  Aligned_cols=60  Identities=22%  Similarity=0.236  Sum_probs=46.4

Q ss_pred             eEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhc------CCCceEEcCCCCHHHH
Q 021517            2 KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNW------GVRKIYEMKALEYHHA   61 (311)
Q Consensus         2 r~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~------~~~~~~~l~~L~~~~a   61 (311)
                      +.+|++|++.....|......+-+..+..+|++|+.+......-      |....++|.||+..|-
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            46899999999999888887776656678999999988776431      2224689999988763

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=94.76  E-value=0.81  Score=42.28  Aligned_cols=179  Identities=12%  Similarity=0.063  Sum_probs=98.2

Q ss_pred             eEEEEEeCCCCHH------HHHHHHhcCCCCCCCc--EEEEEeCchhHHHhcC-------CCceEEcCCCCHHHHHHHHH
Q 021517            2 KVLIVFDDVTCFS------QIESLIGSLDWLTPVS--RIIITTRNKQVLRNWG-------VRKIYEMKALEYHHAIRLFS   66 (311)
Q Consensus         2 r~LlVLDdv~~~~------~~~~l~~~~~~~~~gs--~IlvTTR~~~va~~~~-------~~~~~~l~~L~~~~a~~Lf~   66 (311)
                      ..+||||+++...      .+..+...... ..++  .+|.++....+.....       ....+.+++++.++..+++.
T Consensus       139 ~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~  217 (394)
T PRK00411        139 VLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILK  217 (394)
T ss_pred             EEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHH
Confidence            4789999998753      34444433221 1233  3566666554433221       12467999999999999998


Q ss_pred             HhhcC---CCCC-CccHHHHHHHHHHHhCCCchHHHHHHHHh--c---cc---cHHHHHHHHHHHhccCcccHHHHHhhh
Q 021517           67 RHAFK---QNHP-DVGYEELSCKVMKYAQGVPLALKVLGCFL--H---KR---EKEVWESATDKLQRILYPSILEVLKIS  134 (311)
Q Consensus        67 ~~a~~---~~~~-~~~~~~~~~~i~~~c~glPLai~~~~~~L--~---~~---~~~~w~~~~~~l~~~~~~~i~~~l~~s  134 (311)
                      ..+-.   .... ++.+..+++......|..+.|+..+-.+.  +   +.   +.+....+.+...       .....-.
T Consensus       218 ~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~-------~~~~~~~  290 (394)
T PRK00411        218 DRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSE-------IVHLSEV  290 (394)
T ss_pred             HHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHH-------HHHHHHH
Confidence            87622   1122 22233344444343566777777664432  1   11   4556665555441       2233446


Q ss_pred             cccCchhhhhhhhhhhcC-C---CCcCHHHHHHH----HHHcCCCc------ccchHHHhhcccceec
Q 021517          135 YDSLDDKEKNIFLDVACF-F---QGEDVDLVMKF----FNASGFYP------EIGMSVLVDKSLIAID  188 (311)
Q Consensus       135 y~~L~~~~k~cfl~ls~f-p---~~~~~~~l~~~----w~a~g~~~------~~~~~~L~~~sl~~~~  188 (311)
                      +..||.+.|..+..++.. .   .......+...    -...|..+      -.+++.|.+.|++...
T Consensus       291 ~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        291 LRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             HhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHhcCCeEEE
Confidence            788999988766555432 2   22333333321    11223322      2468899999999864

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=94.75  E-value=0.0058  Score=60.47  Aligned_cols=61  Identities=11%  Similarity=0.145  Sum_probs=48.0

Q ss_pred             ccCCCCCC--CceeEEeeeCCCC--CCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGF--AEVKYLHWYGYPL--KSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~--~~Lr~L~l~~~~i--~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..|..++.  |.||.|.+.|-.+  ..+-.-. ++.+|..||+++|+|+.| .+|++|+|||+|-++
T Consensus       138 ~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mr  203 (699)
T KOG3665|consen  138 GWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMR  203 (699)
T ss_pred             cHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHHhcc
Confidence            34555666  8999999998764  2333333 699999999999999999 899999999988553

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=94.71  E-value=0.035  Score=55.55  Aligned_cols=19  Identities=37%  Similarity=0.445  Sum_probs=12.3

Q ss_pred             CceeEEeeeCCCCCCCCCC
Q 021517          257 AEVKYLHWYGYPLKSLPSN  275 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~  275 (311)
                      ++|++|+|++|.++++|..
T Consensus       242 ~~Lk~LdLs~N~LtsLP~l  260 (788)
T PRK15387        242 PELRTLEVSGNQLTSLPVL  260 (788)
T ss_pred             CCCcEEEecCCccCcccCc
Confidence            5666777777666666643

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=94.45  E-value=0.0068  Score=57.47  Aligned_cols=60  Identities=13%  Similarity=0.091  Sum_probs=49.1

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ++.-.+ ..|++|+|+.|.|++||++-  .|..|+.|+|+++.|..|-++ ..-|.+|++|+++
T Consensus       310 ~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr  373 (873)
T KOG4194|consen  310 IDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLR  373 (873)
T ss_pred             cchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCc
Confidence            344455 89999999999999999764  799999999999999999875 4567788888775

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=94.33  E-value=0.038  Score=52.64  Aligned_cols=53  Identities=13%  Similarity=0.135  Sum_probs=41.4

Q ss_pred             CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccccccccc-Ccccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHCVKV-CISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~i~~-L~~L~~l~i  309 (311)
                      .++++|+|.+|.|+.+-.. + +|..|.+|.|+.+.|+.||.-+-+ |.+|+.|++
T Consensus       173 ~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdL  228 (873)
T KOG4194|consen  173 VNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDL  228 (873)
T ss_pred             CCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhc
Confidence            7888888888888877654 4 688888888888888888865544 888887765

>PF07725 LRR_3: Leucine Rich Repeat; InterPro: IPR011713 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=94.32  E-value=0.033  Score=27.79  Aligned_cols=20  Identities=45%  Similarity=0.825  Sum_probs=17.8

Q ss_pred             CceEEEcCCCCccccccccc
Q 021517          280 KLVLVEVPDSDIERLWHCVK  299 (311)
Q Consensus       280 ~L~~L~L~~~~i~~LP~~i~  299 (311)
                      +|..|+++++++++||.+++
T Consensus         1 ~LVeL~m~~S~lekLW~G~k   20 (20)
T PF07725_consen    1 NLVELNMPYSKLEKLWEGVK   20 (20)
T ss_pred             CcEEEECCCCChHHhcCccC
Confidence            58899999999999999863

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by the IPR001611 from INTERPRO model.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=94.25  E-value=0.47  Score=42.49  Aligned_cols=89  Identities=13%  Similarity=0.178  Sum_probs=61.1

Q ss_pred             EEEEeCC--CCHHHHHHHHhcCCCCCCCcEEEEEeCchhHH-Hhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCccH
Q 021517            4 LIVFDDV--TCFSQIESLIGSLDWLTPVSRIIITTRNKQVL-RNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGY   79 (311)
Q Consensus         4 LlVLDdv--~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va-~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~   79 (311)
                      ++|+||+  .+.+.++.++..+.+...++.+|++|.+.+.. ..+ .-...+.+.++++++....+.+...+      ..
T Consensus        96 v~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~~~------~~  169 (313)
T PRK05564         96 VIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKYND------IK  169 (313)
T ss_pred             EEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHhcC------CC
Confidence            4555555  46667999998888777888888888765432 222 23468999999999998877654311      11


Q ss_pred             HHHHHHHHHHhCCCchHHH
Q 021517           80 EELSCKVMKYAQGVPLALK   98 (311)
Q Consensus        80 ~~~~~~i~~~c~glPLai~   98 (311)
                      .+.+..++..++|.|.-+.
T Consensus       170 ~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        170 EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HHHHHHHHHHcCCCHHHHH
Confidence            2446788999999886544

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=94.17  E-value=0.29  Score=41.36  Aligned_cols=96  Identities=16%  Similarity=0.185  Sum_probs=57.0

Q ss_pred             EEEEeCCCCHH---HH-HHHHhcCCC-CCCCcEEEEEeCchh---------HHHhcCCCceEEcCCCCHHHHHHHHHHhh
Q 021517            4 LIVFDDVTCFS---QI-ESLIGSLDW-LTPVSRIIITTRNKQ---------VLRNWGVRKIYEMKALEYHHAIRLFSRHA   69 (311)
Q Consensus         4 LlVLDdv~~~~---~~-~~l~~~~~~-~~~gs~IlvTTR~~~---------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a   69 (311)
                      +||+||++...   .| +.+...+.. ...+.++|+||+...         +...+.....+++++++.++-..++...+
T Consensus        93 lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~  172 (226)
T TIGR03420        93 LVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRA  172 (226)
T ss_pred             EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHH
Confidence            78999998653   22 233332221 123347889887532         22233334578999999999999987755


Q ss_pred             cCCCCCCccHHHHHHHHHHHhCCCchHHHHHH
Q 021517           70 FKQNHPDVGYEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        70 ~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  101 (311)
                      -...-  .--.+..+.+++.+.|.|..+..+-
T Consensus       173 ~~~~~--~~~~~~l~~L~~~~~gn~r~L~~~l  202 (226)
T TIGR03420       173 ARRGL--QLPDEVADYLLRHGSRDMGSLMALL  202 (226)
T ss_pred             HHcCC--CCCHHHHHHHHHhccCCHHHHHHHH
Confidence            22111  1122455667777888877666554

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=94.08  E-value=0.38  Score=39.48  Aligned_cols=86  Identities=16%  Similarity=0.270  Sum_probs=59.6

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCch-hHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+||+...  +.++.+...+....+.+.+|++|++. .+...+ .....+++.+++.++..+.+.+.  +   .+ 
T Consensus        97 ~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~--g---i~-  170 (188)
T TIGR00678        97 RRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ--G---IS-  170 (188)
T ss_pred             eEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc--C---CC-
Confidence            447899998754  34677777766555566677777654 332222 22358999999999998888776  2   11 


Q ss_pred             cHHHHHHHHHHHhCCCch
Q 021517           78 GYEELSCKVMKYAQGVPL   95 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPL   95 (311)
                        .+.+..|++.++|.|.
T Consensus       171 --~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       171 --EEAAELLLALAGGSPG  186 (188)
T ss_pred             --HHHHHHHHHHcCCCcc
Confidence              3568899999999885

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=94.05  E-value=0.03  Score=52.31  Aligned_cols=54  Identities=9%  Similarity=-0.044  Sum_probs=32.5

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccc
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCG  308 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~  308 (311)
                      +.. .+|++|+++++.|.++...-+|.+|+.|++.+|.|..++. ...|.+|+.++
T Consensus       114 l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l~~N~i~~~~~-~~~l~~L~~l~  168 (414)
T KOG0531|consen  114 LSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLSGNLISDISG-LESLKSLKLLD  168 (414)
T ss_pred             hhhhhcchheeccccccccccchhhccchhhheeccCcchhccC-Cccchhhhccc
Confidence            444 6677777777776666543356667777777766666653 44455555444

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=93.92  E-value=0.018  Score=51.30  Aligned_cols=60  Identities=12%  Similarity=0.095  Sum_probs=45.3

Q ss_pred             CCCCCC-CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCcc-----ccccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIE-----RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~-----~LP~~i~~L~~L~~l~i~  310 (311)
                      +..+.. .+|++|++++|.+.     .++..+ .+.+|++|+|++|.+.     .++..+.++++|++|+++
T Consensus       158 ~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls  229 (319)
T cd00116         158 AKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLG  229 (319)
T ss_pred             HHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecC
Confidence            334444 78999999999876     344445 5679999999998764     566677888899999876

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=93.61  E-value=0.023  Score=50.56  Aligned_cols=54  Identities=22%  Similarity=0.266  Sum_probs=38.6

Q ss_pred             CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCccc-----cccccc-cCccccccccC
Q 021517          257 AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIER-----LWHCVK-VCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~~-----LP~~i~-~L~~L~~l~i~  310 (311)
                      .+|++|++++|.+.     .++..+ ++.+|++|++++|.+..     +...+. +..+|+++++.
T Consensus       193 ~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~  258 (319)
T cd00116         193 CNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLS  258 (319)
T ss_pred             CCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEcc
Confidence            79999999999874     455566 68999999999998774     222221 24677777653

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=93.18  E-value=0.028  Score=54.82  Aligned_cols=57  Identities=18%  Similarity=0.154  Sum_probs=47.0

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+.. ++|+-|||+.|.+..+|.-= .=.+|+.|+||+|.+++|- +|.+|++|++|+++
T Consensus       204 ~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~l~tL~-gie~LksL~~LDls  262 (1096)
T KOG1859|consen  204 NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNALTTLR-GIENLKSLYGLDLS  262 (1096)
T ss_pred             HHHhcccccccccccchhccccccchhhhhheeeeecccHHHhhh-hHHhhhhhhccchh
Confidence            3444 88999999999999998654 3345999999999999986 69999999999874

>PRK13342 recombination factor protein RarA; Reviewed

Probab=93.12  E-value=0.96  Score=42.26  Aligned_cols=99  Identities=18%  Similarity=0.192  Sum_probs=61.8

Q ss_pred             CeEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEE--EeCchh--HHHh-cCCCceEEcCCCCHHHHHHHHHHhhcCCC
Q 021517            1 MKVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIII--TTRNKQ--VLRN-WGVRKIYEMKALEYHHAIRLFSRHAFKQN   73 (311)
Q Consensus         1 kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~Ilv--TTR~~~--va~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~   73 (311)
                      ++.+|++|+++..  .+.+.+...+.   .|..++|  ||.+..  +... .+-...+.+.+++.++...++.+.+....
T Consensus        92 ~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~  168 (413)
T PRK13342         92 RRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALEDKE  168 (413)
T ss_pred             CceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHHHhh
Confidence            3578999999865  45666766654   3444444  344432  1111 12236899999999999999988653211


Q ss_pred             CCC-ccHHHHHHHHHHHhCCCchHHHHHHH
Q 021517           74 HPD-VGYEELSCKVMKYAQGVPLALKVLGC  102 (311)
Q Consensus        74 ~~~-~~~~~~~~~i~~~c~glPLai~~~~~  102 (311)
                      ... .-..+....|++.|+|.|..+..+..
T Consensus       169 ~~~i~i~~~al~~l~~~s~Gd~R~aln~Le  198 (413)
T PRK13342        169 RGLVELDDEALDALARLANGDARRALNLLE  198 (413)
T ss_pred             cCCCCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            111 22346677889999999876654443

>PRK08727 hypothetical protein; Validated

Probab=93.04  E-value=0.67  Score=39.61  Aligned_cols=93  Identities=11%  Similarity=0.055  Sum_probs=56.3

Q ss_pred             EEEEEeCCCCHH---HHH-HHHhcCCC-CCCCcEEEEEeCch---------hHHHhcCCCceEEcCCCCHHHHHHHHHHh
Q 021517            3 VLIVFDDVTCFS---QIE-SLIGSLDW-LTPVSRIIITTRNK---------QVLRNWGVRKIYEMKALEYHHAIRLFSRH   68 (311)
Q Consensus         3 ~LlVLDdv~~~~---~~~-~l~~~~~~-~~~gs~IlvTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~   68 (311)
                      -+||+||+....   .|. .+...+.. ...|..||+||+..         ++...+.....+++++++.++-.+++.+.
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~  174 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRER  174 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHH
Confidence            379999997432   233 22222211 12456799999852         22233334568999999999999999987


Q ss_pred             hcCCCCCCccHHHHHHHHHHHhCCCchHH
Q 021517           69 AFKQNHPDVGYEELSCKVMKYAQGVPLAL   97 (311)
Q Consensus        69 a~~~~~~~~~~~~~~~~i~~~c~glPLai   97 (311)
                      +....-  .-..+...-|++.++|-.-++
T Consensus       175 a~~~~l--~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        175 AQRRGL--ALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHcCC--CCCHHHHHHHHHhCCCCHHHH
Confidence            743221  122356667777777655443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=92.53  E-value=0.89  Score=41.47  Aligned_cols=95  Identities=12%  Similarity=0.159  Sum_probs=60.8

Q ss_pred             eEEEEEeCCCCHH--HHHHHHhcCCCCCCCcE-EEEEeCchhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCFS--QIESLIGSLDWLTPVSR-IIITTRNKQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~-IlvTTR~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|++....  ..+.++..+.....++. |++|++...+...+ +-...+.+.+++.++..+.+...... ..   
T Consensus       142 ~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~-~~---  217 (351)
T PRK09112        142 WRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS-QG---  217 (351)
T ss_pred             ceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc-cC---
Confidence            3579999998654  35566655543334444 45555544443333 23368999999999999999874311 11   


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~  100 (311)
                      -..+....+++.++|.|.....+
T Consensus       218 ~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        218 SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHH
Confidence            11345678999999999865543

>PF14516 AAA_35: AAA-like domain

Probab=92.18  E-value=5.2  Score=36.14  Aligned_cols=54  Identities=15%  Similarity=0.191  Sum_probs=42.9

Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhccc
Q 021517           48 RKIYEMKALEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKR  107 (311)
Q Consensus        48 ~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~  107 (311)
                      ...+.|++++.+|...|...+-..   ..   ....++|...+||+|.-+..++..+...
T Consensus       193 g~~i~L~~Ft~~ev~~L~~~~~~~---~~---~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  193 GQPIELPDFTPEEVQELAQRYGLE---FS---QEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             ccceeCCCCCHHHHHHHHHhhhcc---CC---HHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            357899999999999998876421   11   1238899999999999999999999764

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=92.09  E-value=0.54  Score=43.68  Aligned_cols=63  Identities=21%  Similarity=0.263  Sum_probs=50.4

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhc------CCCceEEcCCCCHHHHHHH
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNW------GVRKIYEMKALEYHHAIRL   64 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~------~~~~~~~l~~L~~~~a~~L   64 (311)
                      ++..|+||.|.....|+.....+.+.++. +|++|+-+......-      |-...+++-|||..|-..+
T Consensus        94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373          94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            46789999999999999998888776666 899999887664432      3346889999999998765

>PRK08084 DNA replication initiation factor; Provisional

Probab=92.06  E-value=1.1  Score=38.26  Aligned_cols=93  Identities=16%  Similarity=0.206  Sum_probs=56.5

Q ss_pred             EEEEeCCCCH---HHHHHHH-hcCCCC-CCC-cEEEEEeCch---------hHHHhcCCCceEEcCCCCHHHHHHHHHHh
Q 021517            4 LIVFDDVTCF---SQIESLI-GSLDWL-TPV-SRIIITTRNK---------QVLRNWGVRKIYEMKALEYHHAIRLFSRH   68 (311)
Q Consensus         4 LlVLDdv~~~---~~~~~l~-~~~~~~-~~g-s~IlvTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~   68 (311)
                      +|++||+...   ..|+... ..+... ..| .++|+||+..         ++...+....++++++++.++-.+++.++
T Consensus       100 lliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~  179 (235)
T PRK08084        100 LVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLR  179 (235)
T ss_pred             EEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHH
Confidence            7899999754   3343222 111110 123 3799999754         33444555679999999999999998876


Q ss_pred             hcCCCCCCccHHHHHHHHHHHhCCCchHHH
Q 021517           69 AFKQNHPDVGYEELSCKVMKYAQGVPLALK   98 (311)
Q Consensus        69 a~~~~~~~~~~~~~~~~i~~~c~glPLai~   98 (311)
                      +-..+  -.--+++..-|++.+.|..-++.
T Consensus       180 a~~~~--~~l~~~v~~~L~~~~~~d~r~l~  207 (235)
T PRK08084        180 ARLRG--FELPEDVGRFLLKRLDREMRTLF  207 (235)
T ss_pred             HHHcC--CCCCHHHHHHHHHhhcCCHHHHH
Confidence            63322  11223566667777776554443

>PRK15386 type III secretion protein GogB; Provisional

Probab=91.86  E-value=0.19  Score=46.57  Aligned_cols=52  Identities=19%  Similarity=0.155  Sum_probs=39.5

Q ss_pred             ccccCCCCCC-CceeEEeeeCCC-CCCCCCCCCCCCceEEEcCCC-CccccccccccCc
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYP-LKSLPSNLSAKKLVLVEVPDS-DIERLWHCVKVCI  302 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~-i~~lP~~i~L~~L~~L~L~~~-~i~~LP~~i~~L~  302 (311)
                      ...+|   .. .+|+.|.+++|. +..+|..+ ..+|++|++++| ++..||.++..|.
T Consensus        64 L~sLP---~LP~sLtsL~Lsnc~nLtsLP~~L-P~nLe~L~Ls~Cs~L~sLP~sLe~L~  118 (426)
T PRK15386         64 IESLP---VLPNELTEITIENCNNLTTLPGSI-PEGLEKLTVCHCPEISGLPESVRSLE  118 (426)
T ss_pred             CcccC---CCCCCCcEEEccCCCCcccCCchh-hhhhhheEccCcccccccccccceEE
Confidence            44555   23 679999999874 78888766 357899999998 8999998876554

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=91.85  E-value=0.12  Score=44.28  Aligned_cols=53  Identities=15%  Similarity=0.176  Sum_probs=28.4

Q ss_pred             CceeEEeeeCC--CC-CCCCCCC-CCCCceEEEcCCCCccccccc---cccCccccccccC
Q 021517          257 AEVKYLHWYGY--PL-KSLPSNL-SAKKLVLVEVPDSDIERLWHC---VKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~--~i-~~lP~~i-~L~~L~~L~L~~~~i~~LP~~---i~~L~~L~~l~i~  310 (311)
                      ++|++|+++.|  .+ ..++-.. ++.+|++|+|++++|+- +++   ..+|.||..|++|
T Consensus        65 p~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~-lstl~pl~~l~nL~~Ldl~  124 (260)
T KOG2739|consen   65 PKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKD-LSTLRPLKELENLKSLDLF  124 (260)
T ss_pred             chhhhhcccCCcccccccceehhhhCCceeEEeecCCcccc-ccccchhhhhcchhhhhcc
Confidence            56666666666  32 3444444 45666777776665554 332   3344445455443

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=91.69  E-value=0.022  Score=51.56  Aligned_cols=61  Identities=10%  Similarity=-0.049  Sum_probs=44.8

Q ss_pred             ccccCCCCCC--CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCC-CCccccccc-cccCcccccc
Q 021517          247 KISYLQDPGF--AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPD-SDIERLWHC-VKVCISYYTC  307 (311)
Q Consensus       247 ~~~lp~~~~~--~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~-~~i~~LP~~-i~~L~~L~~l  307 (311)
                      ...+|+..+.  +.||.|||++|.|+.+-+. + .|..|-.|-+-+ ++|++||++ .++|..||-|
T Consensus        79 I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrL  145 (498)
T KOG4237|consen   79 ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRL  145 (498)
T ss_pred             cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHH
Confidence            4567766544  9999999999999877654 5 688776655545 799999975 4667776654

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.38  E-value=2.8  Score=40.24  Aligned_cols=94  Identities=13%  Similarity=0.137  Sum_probs=62.5

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeC-chhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTR-NKQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR-~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|+++..  ..++.+...+......+.+|++|. ...+...+ .....+++.+++.++....+.+.+-..+... 
T Consensus       117 ~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i-  195 (504)
T PRK14963        117 RKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREA-  195 (504)
T ss_pred             CeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCC-
Confidence            458899999855  457777777765445555555554 34443333 2346899999999999999988774322211 


Q ss_pred             cHHHHHHHHHHHhCCCchHH
Q 021517           78 GYEELSCKVMKYAQGVPLAL   97 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai   97 (311)
                       ..+....|++.++|.+--+
T Consensus       196 -~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        196 -EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             -CHHHHHHHHHHcCCCHHHH
Confidence             2356788999999988544

>smart00370 LRR Leucine-rich repeats, outliers

Probab=91.29  E-value=0.11  Score=27.70  Aligned_cols=20  Identities=25%  Similarity=0.353  Sum_probs=17.7

Q ss_pred             CceeEEeeeCCCCCCCCCCC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL  276 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i  276 (311)
                      .+|++|+|++|.++.+|..+
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            46899999999999999864

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=91.29  E-value=0.11  Score=27.70  Aligned_cols=20  Identities=25%  Similarity=0.353  Sum_probs=17.7

Q ss_pred             CceeEEeeeCCCCCCCCCCC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL  276 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i  276 (311)
                      .+|++|+|++|.++.+|..+
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            46899999999999999864

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=91.15  E-value=2  Score=41.24  Aligned_cols=94  Identities=15%  Similarity=0.218  Sum_probs=63.4

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEE-EEeCchhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRII-ITTRNKQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~Il-vTTR~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|+++..  ..++.+...+....+.+.+| +||+...+...+ .....+++.+++.++....+.+.+-..+... 
T Consensus       129 ~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~i-  207 (507)
T PRK06645        129 HKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKT-  207 (507)
T ss_pred             cEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCC-
Confidence            457999999864  45888877766544555554 566666665544 2335789999999999999988874322211 


Q ss_pred             cHHHHHHHHHHHhCCCchHH
Q 021517           78 GYEELSCKVMKYAQGVPLAL   97 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai   97 (311)
                       ..+....|++.++|.+--+
T Consensus       208 -e~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        208 -DIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             -CHHHHHHHHHHcCCCHHHH
Confidence             2345677888999977433

>PRK15386 type III secretion protein GogB; Provisional

Probab=90.97  E-value=0.17  Score=46.79  Aligned_cols=49  Identities=12%  Similarity=0.109  Sum_probs=35.1

Q ss_pred             cccCCCCCCCceeEEeeeCC-CCCCCCCCCCCCCceEEEcCCC---CccccccccccCc
Q 021517          248 ISYLQDPGFAEVKYLHWYGY-PLKSLPSNLSAKKLVLVEVPDS---DIERLWHCVKVCI  302 (311)
Q Consensus       248 ~~lp~~~~~~~Lr~L~l~~~-~i~~lP~~i~L~~L~~L~L~~~---~i~~LP~~i~~L~  302 (311)
                      ..+|+.+. ..|++|++++| .+.++|++     |++|+++++   .+..||+++..|.
T Consensus        86 tsLP~~LP-~nLe~L~Ls~Cs~L~sLP~s-----Le~L~L~~n~~~~L~~LPssLk~L~  138 (426)
T PRK15386         86 TTLPGSIP-EGLEKLTVCHCPEISGLPES-----VRSLEIKGSATDSIKNVPNGLTSLS  138 (426)
T ss_pred             ccCCchhh-hhhhheEccCcccccccccc-----cceEEeCCCCCcccccCcchHhhee
Confidence            34454332 78999999999 68888876     444555553   5889999988774

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=90.50  E-value=0.013  Score=45.40  Aligned_cols=52  Identities=13%  Similarity=0.112  Sum_probs=43.1

Q ss_pred             cccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccc
Q 021517          246 CKISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHC  297 (311)
Q Consensus       246 ~~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~  297 (311)
                      ....+|..+.. +.||.|+++.|++...|.-| .|.+|-+|+..++.+.++|-.
T Consensus        88 eisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen   88 EISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             hhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            34577877766 89999999999999999888 899999999988888888754

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=90.34  E-value=0.13  Score=48.13  Aligned_cols=40  Identities=20%  Similarity=0.197  Sum_probs=19.5

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCcccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~  296 (311)
                      ..|+.|++++|.|..++..=.|..|++|+++++.+..++.
T Consensus       140 ~~L~~L~l~~N~i~~~~~~~~l~~L~~l~l~~n~i~~ie~  179 (414)
T KOG0531|consen  140 TLLKELNLSGNLISDISGLESLKSLKLLDLSYNRIVDIEN  179 (414)
T ss_pred             cchhhheeccCcchhccCCccchhhhcccCCcchhhhhhh
Confidence            3355555555555444332235555555555555554444

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=90.03  E-value=5.1  Score=40.25  Aligned_cols=96  Identities=16%  Similarity=0.176  Sum_probs=64.0

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++|||++....  .++.++..+..-....++|+||.+.. +...+ +-...+.+..++.++..+.+.+.+...+-  .-
T Consensus       121 KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI--~i  198 (830)
T PRK07003        121 KVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI--AF  198 (830)
T ss_pred             eEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC--CC
Confidence            368899998664  47888777655455677777776653 32222 23468999999999999999887633221  11


Q ss_pred             HHHHHHHHHHHhCCCc-hHHHHH
Q 021517           79 YEELSCKVMKYAQGVP-LALKVL  100 (311)
Q Consensus        79 ~~~~~~~i~~~c~glP-Lai~~~  100 (311)
                      ..+....|++.++|.. -|+..+
T Consensus       199 d~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        199 EPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             CHHHHHHHHHHcCCCHHHHHHHH
Confidence            2356778889998865 455443

>PRK05642 DNA replication initiation factor; Validated

Probab=89.95  E-value=2.6  Score=36.07  Aligned_cols=95  Identities=15%  Similarity=0.211  Sum_probs=56.7

Q ss_pred             EEEEeCCCCH---HHHHH-HHhcCCC-CCCCcEEEEEeCchhH---------HHhcCCCceEEcCCCCHHHHHHHHHHhh
Q 021517            4 LIVFDDVTCF---SQIES-LIGSLDW-LTPVSRIIITTRNKQV---------LRNWGVRKIYEMKALEYHHAIRLFSRHA   69 (311)
Q Consensus         4 LlVLDdv~~~---~~~~~-l~~~~~~-~~~gs~IlvTTR~~~v---------a~~~~~~~~~~l~~L~~~~a~~Lf~~~a   69 (311)
                      +||+||+...   ..|+. +...+.. ...|..||+||+...-         ...++...++++++++.++-.+.+..++
T Consensus       100 ~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka  179 (234)
T PRK05642        100 LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA  179 (234)
T ss_pred             EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence            6889999633   23433 3333221 1246679998875332         1122334678999999999999998766


Q ss_pred             cCCCCCCccHHHHHHHHHHHhCCCchHHHHH
Q 021517           70 FKQNHPDVGYEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        70 ~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  100 (311)
                      ....-.  -..++..-|++.+.|..-++..+
T Consensus       180 ~~~~~~--l~~ev~~~L~~~~~~d~r~l~~~  208 (234)
T PRK05642        180 SRRGLH--LTDEVGHFILTRGTRSMSALFDL  208 (234)
T ss_pred             HHcCCC--CCHHHHHHHHHhcCCCHHHHHHH
Confidence            432211  11366677777777765544433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.81  E-value=3.5  Score=37.76  Aligned_cols=94  Identities=13%  Similarity=0.131  Sum_probs=61.9

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCch-hHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++|+|++....  .++.+...+.......++|++|.+. .+...+ +-...+++.+++.++..+.+...+-..+..  -
T Consensus       121 kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~--i  198 (363)
T PRK14961        121 KVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESID--T  198 (363)
T ss_pred             eEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCC--C
Confidence            489999998665  4777777765545566666666543 333332 223689999999999998888765332211  1


Q ss_pred             HHHHHHHHHHHhCCCchHHH
Q 021517           79 YEELSCKVMKYAQGVPLALK   98 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~   98 (311)
                      ..+.+..|++.++|.|-.+.
T Consensus       199 ~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        199 DEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             CHHHHHHHHHHcCCCHHHHH
Confidence            23556778999999885433

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=89.53  E-value=16  Score=33.19  Aligned_cols=182  Identities=14%  Similarity=0.117  Sum_probs=94.3

Q ss_pred             CeEEEEEeCCCCHH-----HHHHHHhcC-CCCC--CCcEEEEEeCchhHHHhcC------C-CceEEcCCCCHHHHHHHH
Q 021517            1 MKVLIVFDDVTCFS-----QIESLIGSL-DWLT--PVSRIIITTRNKQVLRNWG------V-RKIYEMKALEYHHAIRLF   65 (311)
Q Consensus         1 kr~LlVLDdv~~~~-----~~~~l~~~~-~~~~--~gs~IlvTTR~~~va~~~~------~-~~~~~l~~L~~~~a~~Lf   65 (311)
                      ++++||||+++...     .+..+.... ....  ....+|.+|..........      . ...+.+++.+.++..+++
T Consensus       129 ~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il  208 (365)
T TIGR02928       129 DSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDIL  208 (365)
T ss_pred             CeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHH
Confidence            35789999998762     133333221 1111  2234455554443322211      1 246899999999999999


Q ss_pred             HHhhc---CCCCCCccHHHHHHHHHHHhCCCch-HHHHHHHHh--c---c---ccHHHHHHHHHHHhccCcccHHHHHhh
Q 021517           66 SRHAF---KQNHPDVGYEELSCKVMKYAQGVPL-ALKVLGCFL--H---K---REKEVWESATDKLQRILYPSILEVLKI  133 (311)
Q Consensus        66 ~~~a~---~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~~L--~---~---~~~~~w~~~~~~l~~~~~~~i~~~l~~  133 (311)
                      ..++-   .....+++..+.+..++....|.|- |+..+-.+.  +   +   -+.+..+.+.+.+.       .....-
T Consensus       209 ~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~-------~~~~~~  281 (365)
T TIGR02928       209 ENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIE-------KDRLLE  281 (365)
T ss_pred             HHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH-------HHHHHH
Confidence            98863   1112233333455566777778884 333322211  1   1   14445554444431       223344


Q ss_pred             hcccCchhhhhhhhhhhcCC--C--CcCHHHHHHHHH--H--cCCCc------ccchHHHhhcccceecC
Q 021517          134 SYDSLDDKEKNIFLDVACFF--Q--GEDVDLVMKFFN--A--SGFYP------EIGMSVLVDKSLIAIDS  189 (311)
Q Consensus       134 sy~~L~~~~k~cfl~ls~fp--~--~~~~~~l~~~w~--a--~g~~~------~~~~~~L~~~sl~~~~~  189 (311)
                      +...||.+.+..+..++..-  .  .+...++...+.  +  .|..+      ..+++.|...|++....
T Consensus       282 ~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~~~  351 (365)
T TIGR02928       282 LIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCEDIGVDPLTQRRISDLLNELDMLGLVEAEE  351 (365)
T ss_pred             HHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHhcCCeEEEE
Confidence            66788888886665544221  1  123344443221  1  23222      34578888888888653

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=89.20  E-value=4.8  Score=36.48  Aligned_cols=97  Identities=13%  Similarity=0.130  Sum_probs=62.6

Q ss_pred             EEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++|+|++...  ...+.+...+......+.+|++|.+.+ +...+ .....+++.++++++..+.+...+-..+...  
T Consensus       119 ~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i--  196 (355)
T TIGR02397       119 KVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKI--  196 (355)
T ss_pred             eEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCC--
Confidence            47889998654  456677666654445666666665443 33322 2235788999999999888887663222111  


Q ss_pred             HHHHHHHHHHHhCCCchHHHHHH
Q 021517           79 YEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~~  101 (311)
                      ..+.+..+++.++|.|..+....
T Consensus       197 ~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       197 EDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             CHHHHHHHHHHcCCChHHHHHHH
Confidence            13667888999999886655443

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=89.01  E-value=2.5  Score=40.01  Aligned_cols=99  Identities=13%  Similarity=0.172  Sum_probs=62.1

Q ss_pred             EEEEeCCCCHH---H-HHHHHhcCCC-CCCCcEEEEEeCch---------hHHHhcCCCceEEcCCCCHHHHHHHHHHhh
Q 021517            4 LIVFDDVTCFS---Q-IESLIGSLDW-LTPVSRIIITTRNK---------QVLRNWGVRKIYEMKALEYHHAIRLFSRHA   69 (311)
Q Consensus         4 LlVLDdv~~~~---~-~~~l~~~~~~-~~~gs~IlvTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a   69 (311)
                      +||+||+....   . .+.+...+.. ...|..||+|+...         .+...+...-++.+++++.++-.+++.+.+
T Consensus       209 vLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~  288 (450)
T PRK14087        209 VLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEI  288 (450)
T ss_pred             EEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHH
Confidence            78999996432   2 2333322221 12445788886643         223334445688999999999999999887


Q ss_pred             cCCCCCCccHHHHHHHHHHHhCCCchHHHHHHH
Q 021517           70 FKQNHPDVGYEELSCKVMKYAQGVPLALKVLGC  102 (311)
Q Consensus        70 ~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  102 (311)
                      -..+-...-..++..-|++.++|.|-.+..+..
T Consensus       289 ~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~  321 (450)
T PRK14087        289 KNQNIKQEVTEEAINFISNYYSDDVRKIKGSVS  321 (450)
T ss_pred             HhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHH
Confidence            332211123357788899999999877665543

>PRK06620 hypothetical protein; Validated

Probab=88.93  E-value=5.6  Score=33.48  Aligned_cols=87  Identities=6%  Similarity=0.034  Sum_probs=51.0

Q ss_pred             EEEEeCCCCHHH--HHHHHhcCCCCCCCcEEEEEeCchh-------HHHhcCCCceEEcCCCCHHHHHHHHHHhhcCCCC
Q 021517            4 LIVFDDVTCFSQ--IESLIGSLDWLTPVSRIIITTRNKQ-------VLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNH   74 (311)
Q Consensus         4 LlVLDdv~~~~~--~~~l~~~~~~~~~gs~IlvTTR~~~-------va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~   74 (311)
                      ++++||+...++  +-.+...+.  ..|..||+|++...       ....+...-++++++++.++-..++.+.+-...-
T Consensus        88 ~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l  165 (214)
T PRK06620         88 AFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSV  165 (214)
T ss_pred             EEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCC
Confidence            688999975432  222221221  34668999997432       2333444558999999999988888777632111


Q ss_pred             CCccHHHHHHHHHHHhCCCc
Q 021517           75 PDVGYEELSCKVMKYAQGVP   94 (311)
Q Consensus        75 ~~~~~~~~~~~i~~~c~glP   94 (311)
                        .--+++..-|++.+.|.-
T Consensus       166 --~l~~ev~~~L~~~~~~d~  183 (214)
T PRK06620        166 --TISRQIIDFLLVNLPREY  183 (214)
T ss_pred             --CCCHHHHHHHHHHccCCH
Confidence              112355666666665544

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=88.56  E-value=0.19  Score=45.70  Aligned_cols=59  Identities=12%  Similarity=0.074  Sum_probs=42.5

Q ss_pred             cccccCCCCCCCceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccc-cccccCcccc
Q 021517          246 CKISYLQDPGFAEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLW-HCVKVCISYY  305 (311)
Q Consensus       246 ~~~~lp~~~~~~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP-~~i~~L~~L~  305 (311)
                      ...++|.++.. .--.+.|..|.|++||+..  .|++|+.|||++++|..+- ....-|.+|-
T Consensus        57 GL~eVP~~LP~-~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~  118 (498)
T KOG4237|consen   57 GLTEVPANLPP-ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLL  118 (498)
T ss_pred             CcccCcccCCC-cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhh
Confidence            34566666554 2234677889999999987  5999999999999999874 4444444443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=87.91  E-value=3.6  Score=37.19  Aligned_cols=91  Identities=11%  Similarity=0.185  Sum_probs=59.2

Q ss_pred             EEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCch-hHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCccH
Q 021517            4 LIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGY   79 (311)
Q Consensus         4 LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~   79 (311)
                      ++|+|+++..  +..+.++..+..-..++.+|+||.+. .+...+ +-...+.+.+++.+++.+.+.... +.     ..
T Consensus       109 v~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-~~-----~~  182 (328)
T PRK05707        109 VVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-PE-----SD  182 (328)
T ss_pred             EEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-cc-----CC
Confidence            4567999854  44666666654444566677777665 444333 334679999999999998887653 11     11


Q ss_pred             HHHHHHHHHHhCCCchHHHHH
Q 021517           80 EELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        80 ~~~~~~i~~~c~glPLai~~~  100 (311)
                      .+.+..++..++|.|.....+
T Consensus       183 ~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        183 ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             hHHHHHHHHHcCCCHHHHHHH
Confidence            234567788999999755443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=87.74  E-value=4.3  Score=37.64  Aligned_cols=91  Identities=13%  Similarity=0.200  Sum_probs=59.4

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCc-hhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRN-KQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~-~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++|+|++....  ..+.+...+....+++.+|++|.+ ..+...+ +-...+.+.+++.++..+.+.... +   .+  
T Consensus       119 kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~-~---~~--  192 (394)
T PRK07940        119 RIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD-G---VD--  192 (394)
T ss_pred             EEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc-C---CC--
Confidence            367889998653  355666655444456656665555 4444333 334689999999999998887443 1   11  


Q ss_pred             HHHHHHHHHHHhCCCchHHHHH
Q 021517           79 YEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~  100 (311)
                       .+.+..++..++|.|.....+
T Consensus       193 -~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        193 -PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             -HHHHHHHHHHcCCCHHHHHHH
Confidence             355778899999999754433

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=87.48  E-value=0.35  Score=25.88  Aligned_cols=18  Identities=17%  Similarity=0.213  Sum_probs=14.6

Q ss_pred             CCceEEEcCCCCcccccc
Q 021517          279 KKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       279 ~~L~~L~L~~~~i~~LP~  296 (311)
                      .+|++|+++++++++||+
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            367888888888888886

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=87.10  E-value=4.4  Score=36.35  Aligned_cols=94  Identities=14%  Similarity=0.082  Sum_probs=57.6

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -+||+||+....  ..+.+...+......+++|+||.... +.... .....+++.+++.++....+...+-..+..  -
T Consensus       127 ~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~  204 (337)
T PRK12402        127 KTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--Y  204 (337)
T ss_pred             cEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--C
Confidence            379999997542  34444444433344567877775432 22222 223578899999999998888876332211  1


Q ss_pred             HHHHHHHHHHHhCCCchHHH
Q 021517           79 YEELSCKVMKYAQGVPLALK   98 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~   98 (311)
                      ..+....+++.++|.+-.+.
T Consensus       205 ~~~al~~l~~~~~gdlr~l~  224 (337)
T PRK12402        205 DDDGLELIAYYAGGDLRKAI  224 (337)
T ss_pred             CHHHHHHHHHHcCCCHHHHH
Confidence            23567788888888765443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=86.46  E-value=15  Score=32.63  Aligned_cols=93  Identities=9%  Similarity=0.125  Sum_probs=57.5

Q ss_pred             EEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++++|++...  +..+.+...+......+++|+++.... +.... .....+++.+++.++....+...+-..+..  -
T Consensus       104 ~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~~~~~~--i  181 (319)
T PRK00440        104 KIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIE--I  181 (319)
T ss_pred             eEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHHHcCCC--C
Confidence            47899998754  334555555444445567777764321 21111 122478999999999988888877432221  1


Q ss_pred             HHHHHHHHHHHhCCCchHH
Q 021517           79 YEELSCKVMKYAQGVPLAL   97 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai   97 (311)
                      ..+....+++.++|.+--+
T Consensus       182 ~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        182 TDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             CHHHHHHHHHHcCCCHHHH
Confidence            2356778889999887543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.12  E-value=0.68  Score=40.80  Aligned_cols=49  Identities=16%  Similarity=0.124  Sum_probs=33.0

Q ss_pred             CceeEEeeeCCC----CCCCCCCCCCCCceEEEcCCCC--ccccccccccCcccccc
Q 021517          257 AEVKYLHWYGYP----LKSLPSNLSAKKLVLVEVPDSD--IERLWHCVKVCISYYTC  307 (311)
Q Consensus       257 ~~Lr~L~l~~~~----i~~lP~~i~L~~L~~L~L~~~~--i~~LP~~i~~L~~L~~l  307 (311)
                      ++|++|+|+.|+    |.++|  ..+.+|++|-|.||.  -+.+-+....|+.++-|
T Consensus        97 P~l~~LNls~N~L~s~I~~lp--~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtel  151 (418)
T KOG2982|consen   97 PALTTLNLSCNSLSSDIKSLP--LPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTEL  151 (418)
T ss_pred             ccceEeeccCCcCCCccccCc--ccccceEEEEEcCCCCChhhhhhhhhcchhhhhh
Confidence            788999998885    56666  567788888888873  34444555555544443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=85.96  E-value=3.1  Score=40.99  Aligned_cols=97  Identities=12%  Similarity=0.084  Sum_probs=64.1

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcE-EEEEeCchhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSR-IIITTRNKQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~-IlvTTR~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      .-++|+|+++..  +.++.++..+..-..+++ |++||....+...+ +-...+.+..++.++..+.+.+.+...+..  
T Consensus       125 ~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~--  202 (700)
T PRK12323        125 FKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA--  202 (700)
T ss_pred             ceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC--
Confidence            347899999865  457888877654444554 56666556665443 224689999999999999888776322211  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~  100 (311)
                      ...+....|++.++|.|.....+
T Consensus       203 ~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        203 HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHH
Confidence            12245678899999998644433

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=85.53  E-value=4.5  Score=34.20  Aligned_cols=89  Identities=11%  Similarity=0.163  Sum_probs=47.2

Q ss_pred             EEEEeCCCCHH---HHHHH-HhcCCC-CCCCcEEEEEeCch---------hHHHhcCCCceEEcCCCCHHHHHHHHHHhh
Q 021517            4 LIVFDDVTCFS---QIESL-IGSLDW-LTPVSRIIITTRNK---------QVLRNWGVRKIYEMKALEYHHAIRLFSRHA   69 (311)
Q Consensus         4 LlVLDdv~~~~---~~~~l-~~~~~~-~~~gs~IlvTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~a   69 (311)
                      +|++||+....   .|+.. ...+.. ...|.+||+|++..         +....+...-++++++++.++-.+++.+.+
T Consensus       100 lL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a  179 (219)
T PF00308_consen  100 LLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKA  179 (219)
T ss_dssp             EEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHH
T ss_pred             EEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHH
Confidence            68999997542   23221 111110 12566899999553         222333445689999999999999999888


Q ss_pred             cCCCCCCccHHHHHHHHHHHhCCCc
Q 021517           70 FKQNHPDVGYEELSCKVMKYAQGVP   94 (311)
Q Consensus        70 ~~~~~~~~~~~~~~~~i~~~c~glP   94 (311)
                      -...-.  --.+++.-|++.+.+..
T Consensus       180 ~~~~~~--l~~~v~~~l~~~~~~~~  202 (219)
T PF00308_consen  180 KERGIE--LPEEVIEYLARRFRRDV  202 (219)
T ss_dssp             HHTT----S-HHHHHHHHHHTTSSH
T ss_pred             HHhCCC--CcHHHHHHHHHhhcCCH
Confidence            432221  12245555555555443

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=85.48  E-value=6.7  Score=33.11  Aligned_cols=99  Identities=17%  Similarity=0.130  Sum_probs=55.4

Q ss_pred             EEEEeCCCCHH--HHHHHHhcCCCC-CCCc-EEEEEeCchhHHH--------hcCCCceEEcCCCCHHHHHHHHHHhhcC
Q 021517            4 LIVFDDVTCFS--QIESLIGSLDWL-TPVS-RIIITTRNKQVLR--------NWGVRKIYEMKALEYHHAIRLFSRHAFK   71 (311)
Q Consensus         4 LlVLDdv~~~~--~~~~l~~~~~~~-~~gs-~IlvTTR~~~va~--------~~~~~~~~~l~~L~~~~a~~Lf~~~a~~   71 (311)
                      +||+||+....  .-+.+...+... ..|. .||+|++......        .+.....++++++++++-..++.+.+-.
T Consensus        93 ~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~  172 (227)
T PRK08903         93 LYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAAE  172 (227)
T ss_pred             EEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHH
Confidence            68999997442  222232222111 1333 4677766543221        2222368899999998877776654321


Q ss_pred             CCCCCccHHHHHHHHHHHhCCCchHHHHHHHHh
Q 021517           72 QNHPDVGYEELSCKVMKYAQGVPLALKVLGCFL  104 (311)
Q Consensus        72 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L  104 (311)
                      ..  ..--.+....+++.+.|.+..+..+-..+
T Consensus       173 ~~--v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        173 RG--LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             cC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            11  11123566777778888887776665544

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=85.14  E-value=14  Score=33.18  Aligned_cols=87  Identities=16%  Similarity=0.277  Sum_probs=58.9

Q ss_pred             EEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCc-hhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCccH
Q 021517            4 LIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRN-KQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGY   79 (311)
Q Consensus         4 LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~-~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~   79 (311)
                      .+|+|++....  ..+.++..+..-.+++.+|++|.+ ..+..++ +-...+.+.+++.+++.+.+....    . +   
T Consensus       111 V~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~----~-~---  182 (319)
T PRK06090        111 LFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG----I-T---  182 (319)
T ss_pred             EEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC----C-c---
Confidence            67889988654  467777666554566666665554 4555554 334689999999999999886531    1 1   


Q ss_pred             HHHHHHHHHHhCCCchHHHHH
Q 021517           80 EELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        80 ~~~~~~i~~~c~glPLai~~~  100 (311)
                        .+..++..++|.|+....+
T Consensus       183 --~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        183 --VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             --hHHHHHHHcCCCHHHHHHH
Confidence              1356788999999866544

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=84.61  E-value=0.95  Score=37.62  Aligned_cols=38  Identities=13%  Similarity=0.238  Sum_probs=23.0

Q ss_pred             CceeEEeeeCCCCCCCCCCC-C-CCCceEEEcCCCCcccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-S-AKKLVLVEVPDSDIERL  294 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~-L~~L~~L~L~~~~i~~L  294 (311)
                      +.|..|.|.+|+|..+-+.+ . +.+|++|.|.+++|.+|
T Consensus        64 ~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l  103 (233)
T KOG1644|consen   64 PRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQEL  103 (233)
T ss_pred             cccceEEecCCcceeeccchhhhccccceEEecCcchhhh
Confidence            56666666666666666666 3 55566666666555544

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=84.30  E-value=13  Score=36.67  Aligned_cols=101  Identities=10%  Similarity=0.102  Sum_probs=64.8

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCc-hhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRN-KQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~-~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|++...  +.++.+...+........+|++|.+ ..+...+ .-...+++.+++.++....+...+...+..  
T Consensus       120 ~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~--  197 (624)
T PRK14959        120 YKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVD--  197 (624)
T ss_pred             ceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCC--
Confidence            458899999755  4467777766443345555555544 4444332 223578999999999998888766432211  


Q ss_pred             cHHHHHHHHHHHhCCCc-hHHHHHHHHh
Q 021517           78 GYEELSCKVMKYAQGVP-LALKVLGCFL  104 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glP-Lai~~~~~~L  104 (311)
                      -..+.+..|++.++|.+ -|+..+..++
T Consensus       198 id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        198 YDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            12356778888999855 6777766544

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=84.10  E-value=3.9  Score=37.47  Aligned_cols=88  Identities=17%  Similarity=0.297  Sum_probs=53.1

Q ss_pred             EEEEEeCCCCH-------------H---HHHHHHhcCCC--CCCCcEEEEEeCchhHHH-----hcCCCceEEcCCCCHH
Q 021517            3 VLIVFDDVTCF-------------S---QIESLIGSLDW--LTPVSRIIITTRNKQVLR-----NWGVRKIYEMKALEYH   59 (311)
Q Consensus         3 ~LlVLDdv~~~-------------~---~~~~l~~~~~~--~~~gs~IlvTTR~~~va~-----~~~~~~~~~l~~L~~~   59 (311)
                      .+|++||++..             +   .+..+...+..  ...+.+||.||...+...     ....+..+.++..+.+
T Consensus       217 ~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~  296 (364)
T TIGR01242       217 SIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFE  296 (364)
T ss_pred             cEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHH
Confidence            58999998753             1   13333333221  124567888887543221     1123568899999999


Q ss_pred             HHHHHHHHhhcCCCCCC-ccHHHHHHHHHHHhCCCc
Q 021517           60 HAIRLFSRHAFKQNHPD-VGYEELSCKVMKYAQGVP   94 (311)
Q Consensus        60 ~a~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~c~glP   94 (311)
                      +..++|..++.+..... .+    ...+++.+.|..
T Consensus       297 ~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       297 GRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             HHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence            99999998875433222 22    345666676664

Many proteins may score above the trusted cutoff because an internal

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=84.10  E-value=0.81  Score=42.30  Aligned_cols=53  Identities=11%  Similarity=0.135  Sum_probs=40.1

Q ss_pred             CceeEEeeeCCCCC--CCCCC------CCCCCceEEEcCCCCcccccc--ccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLK--SLPSN------LSAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~--~lP~~------i~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i  309 (311)
                      +.|+.|+++.|++.  .+|+.      ..+..|+||++..++|.+.|+  .+..|.+|+++.+
T Consensus       271 ~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~  333 (505)
T KOG3207|consen  271 PGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRI  333 (505)
T ss_pred             cchhhhhccccCcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhc
Confidence            89999999999875  34554      258899999999999987773  4555666676653

>smart00365 LRR_SD22 Leucine-rich repeat, SDS22-like subfamily

Probab=83.97  E-value=0.86  Score=24.40  Aligned_cols=17  Identities=12%  Similarity=0.368  Sum_probs=13.0

Q ss_pred             CCCceEEEcCCCCcccc
Q 021517          278 AKKLVLVEVPDSDIERL  294 (311)
Q Consensus       278 L~~L~~L~L~~~~i~~L  294 (311)
                      |.+|++|+|+.++|+.+
T Consensus         1 L~~L~~L~L~~NkI~~I   17 (26)
T smart00365        1 LTNLEELDLSQNKIKKI   17 (26)
T ss_pred             CCccCEEECCCCcccee
Confidence            56788888888877644

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=83.04  E-value=1.1  Score=37.25  Aligned_cols=63  Identities=16%  Similarity=0.007  Sum_probs=48.9

Q ss_pred             cccccCCCCCC--CceeEEeeeCCCCCCCCCCC---CCCCceEEEcCCCCcccccc----ccccCccccccc
Q 021517          246 CKISYLQDPGF--AEVKYLHWYGYPLKSLPSNL---SAKKLVLVEVPDSDIERLWH----CVKVCISYYTCG  308 (311)
Q Consensus       246 ~~~~lp~~~~~--~~Lr~L~l~~~~i~~lP~~i---~L~~L~~L~L~~~~i~~LP~----~i~~L~~L~~l~  308 (311)
                      ....+.+.+..  ++|..|.|.+|+|..|-+--   .+..|+||.+=++.+++.+.    -|.+|++|++|+
T Consensus        75 rIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LD  146 (233)
T KOG1644|consen   75 RITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLD  146 (233)
T ss_pred             cceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecCCchhcccCceeEEEEecCcceEee
Confidence            34456666666  88999999999877665432   57899999999998888776    478899999887

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=83.00  E-value=0.63  Score=24.10  Aligned_cols=15  Identities=13%  Similarity=0.341  Sum_probs=9.3

Q ss_pred             CCCceEEEcCCCCcc
Q 021517          278 AKKLVLVEVPDSDIE  292 (311)
Q Consensus       278 L~~L~~L~L~~~~i~  292 (311)
                      +++|++|+|++|+|.
T Consensus         1 ~~~L~~L~l~~n~i~   15 (24)
T PF13516_consen    1 NPNLETLDLSNNQIT   15 (24)
T ss_dssp             -TT-SEEE-TSSBEH
T ss_pred             CCCCCEEEccCCcCC
Confidence            357888888888765

...

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=82.65  E-value=0.14  Score=50.25  Aligned_cols=47  Identities=11%  Similarity=0.082  Sum_probs=40.4

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccc
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~  296 (311)
                      .+..++.. ++|+.|||++|++.+.- .+ .|.+|+.|||++|.++.+|.
T Consensus       178 ~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L~~vp~  226 (1096)
T KOG1859|consen  178 LMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCLRHVPQ  226 (1096)
T ss_pred             hHHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccchhccccc
Confidence            44566777 89999999999988876 55 79999999999999999996

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=81.10  E-value=11  Score=33.89  Aligned_cols=90  Identities=13%  Similarity=0.174  Sum_probs=58.1

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCc-hhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRN-KQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~-~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      =++|+|+++...  .-+.++..+..-..++.+|++|.+ ..+...+ +-...+.+.+++.+++.+.+....     .+  
T Consensus       115 kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~-----~~--  187 (319)
T PRK08769        115 QVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG-----VS--  187 (319)
T ss_pred             EEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC-----CC--
Confidence            478899998654  345555554433456666666654 4454443 334688999999999988886531     11  


Q ss_pred             HHHHHHHHHHHhCCCchHHHHH
Q 021517           79 YEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~  100 (311)
                       ...+..++..++|.|+....+
T Consensus       188 -~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        188 -ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             -hHHHHHHHHHcCCCHHHHHHH
Confidence             233667899999999865443

>PLN03025 replication factor C subunit; Provisional

Probab=81.04  E-value=17  Score=32.58  Aligned_cols=91  Identities=10%  Similarity=0.155  Sum_probs=55.6

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCch-hHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++|+|+++...  ..+.+...+......+++++++... .+.... .....+++.+++.++....+...+-..+..-  
T Consensus       101 kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~egi~i--  178 (319)
T PLN03025        101 KIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVPY--  178 (319)
T ss_pred             EEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHHHHHHHHcCCCC--
Confidence            479999998653  3344444333334556777766442 222211 1224789999999999998887773322211  


Q ss_pred             HHHHHHHHHHHhCCCch
Q 021517           79 YEELSCKVMKYAQGVPL   95 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPL   95 (311)
                      ..+....|++.++|..-
T Consensus       179 ~~~~l~~i~~~~~gDlR  195 (319)
T PLN03025        179 VPEGLEAIIFTADGDMR  195 (319)
T ss_pred             CHHHHHHHHHHcCCCHH
Confidence            13567788888988763

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=80.89  E-value=19  Score=32.31  Aligned_cols=94  Identities=16%  Similarity=0.156  Sum_probs=59.0

Q ss_pred             eEEEEEeCCCCHH--HHHHHHhcCCCCCCCcEEEEEeCchhHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            2 KVLIVFDDVTCFS--QIESLIGSLDWLTPVSRIIITTRNKQVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         2 r~LlVLDdv~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      +=++|+|++....  ..+.++..+..-.+..-|++|+....+...+ +-...+.+.++++++..+.+.......     .
T Consensus       125 ~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~-----~  199 (314)
T PRK07399        125 RKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE-----I  199 (314)
T ss_pred             ceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc-----c
Confidence            3468899987553  4666666554333333455555555554444 334689999999999999998764211     1


Q ss_pred             HHHHHHHHHHHhCCCchHHHHH
Q 021517           79 YEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~  100 (311)
                      .......++..++|.|..+..+
T Consensus       200 ~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        200 LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             chhHHHHHHHHcCCCHHHHHHH
Confidence            1111357889999999765543

>PRK04195 replication factor C large subunit; Provisional

Probab=80.38  E-value=52  Score=31.44  Aligned_cols=99  Identities=14%  Similarity=0.120  Sum_probs=60.0

Q ss_pred             eEEEEEeCCCCHH------HHHHHHhcCCCCCCCcEEEEEeCch-hHHH-hc-CCCceEEcCCCCHHHHHHHHHHhhcCC
Q 021517            2 KVLIVFDDVTCFS------QIESLIGSLDWLTPVSRIIITTRNK-QVLR-NW-GVRKIYEMKALEYHHAIRLFSRHAFKQ   72 (311)
Q Consensus         2 r~LlVLDdv~~~~------~~~~l~~~~~~~~~gs~IlvTTR~~-~va~-~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~   72 (311)
                      +-+||+|+++...      .+..+...+.  ..+..||+|+.+. .... .. .....+.+.+++.++....+.+.+...
T Consensus        99 ~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~e  176 (482)
T PRK04195         99 RKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRICRKE  176 (482)
T ss_pred             CeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhccceEEEecCCCHHHHHHHHHHHHHHc
Confidence            5689999998642      2555555444  2334466666432 1111 11 234578999999999998888776432


Q ss_pred             CCCCccHHHHHHHHHHHhCCCchHHHHHHHHh
Q 021517           73 NHPDVGYEELSCKVMKYAQGVPLALKVLGCFL  104 (311)
Q Consensus        73 ~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L  104 (311)
                      +..-  ..+....|++.++|..-.+......+
T Consensus       177 gi~i--~~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        177 GIEC--DDEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             CCCC--CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            2211  13667889999999776554433333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	311
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-27
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-13

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  111 bits (278), Expect = 1e-27
 Identities = 36/237 (15%), Positives = 75/237 (31%), Gaps = 33/237 (13%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNW-GVRKIYEMKALEYHH 60
             L VFDDV    Q E++           R ++TTR+ ++        +  E+ +LE   
Sbjct: 244 NTLFVFDDV---VQEETI---RWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 297

Query: 61  AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQ 120
                  +       +   E++  K ++ + G P  L +       +  E      +KL+
Sbjct: 298 CYDFLEAYGMPMPVGEK-EEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLE 356

Query: 121 RIL-----------YPSILEVLKISYDSLDDKEKNIFLDVACFFQGED--VDLVMKFFNA 167
                         Y S+   L+   + L D++++          G D  V L       
Sbjct: 357 SRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPV 416

Query: 168 SGFYPEIG---------MSVLVDKSLIAIDSHKKIT---MHDLLQELGREIVRQESI 212
                E           +  L  +  +       +    +  ++    + +V  ++I
Sbjct: 417 DICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTI 473

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  102 bits (257), Expect = 1e-24
 Identities = 43/227 (18%), Positives = 84/227 (37%), Gaps = 29/227 (12%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWG--VRKIYEMKALEYH 59
           + L++ DDV            L       +I++TTR+K V  +       +    +L   
Sbjct: 237 RSLLILDDV-------WDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289

Query: 60  HAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKL 119
             + + S         D    E +  ++K  +G PL + ++G  L       WE    +L
Sbjct: 290 KGLEILSLFVN-MKKAD--LPEQAHSIIKECKGSPLVVSLIGALLRDFPNR-WEYYLKQL 345

Query: 120 QRIL-----------YPSILEVLKISYDSLDDKEKNIFLDVACFFQGE--DVDLVMKFFN 166
           Q              Y ++ E + IS + L +  K+ + D++   +       ++   ++
Sbjct: 346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWD 405

Query: 167 ASGFYPEIGMSVLVDKSLIAIDSHKKIT---MHDLLQELGREIVRQE 210
                 E  +   V+KSL+  D + K     +HDL  +   E    +
Sbjct: 406 METEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQ 452

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  102 bits (255), Expect = 2e-24
 Identities = 43/285 (15%), Positives = 95/285 (33%), Gaps = 59/285 (20%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEM------KA 55
             L+V  +V    Q      + +      +I++TTR KQV           +        
Sbjct: 245 NCLLVLLNV----QNAKAWNAFN---LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 56  LEYHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESA 115
           L       L  ++       D   ++L  +V+      P  L ++   + +     W   
Sbjct: 298 LTPDEVKSLLLKYL------DCRPQDLPREVLT---TNPRRLSIIAESI-RDGLATW--- 344

Query: 116 TDKLQRILYPSILEVLKISYDSLDDKE-KNIFLDVACFFQGEDVD-----LVMKFFNASG 169
            D  + +    +  +++ S + L+  E + +F  ++ F            L + +F+   
Sbjct: 345 -DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF--PPSAHIPTILLSLIWFDVIK 401

Query: 170 FYPEIGMSVLVDKSLIAIDSHK-KITMHDLLQELGREIVRQESIDPANRSRLWHHEDIYE 228
               + ++ L   SL+     +  I++  +  EL  ++         N   L  H  I +
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL--------ENEYAL--HRSIVD 451

Query: 229 VLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWY-GYPLKSL 272
              YN       +      +           +Y + + G+ LK++
Sbjct: 452 --HYNIPKTFDSDDLIPPYLD----------QYFYSHIGHHLKNI 484

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.3 bits (101), Expect = 8e-05
 Identities = 48/358 (13%), Positives = 113/358 (31%), Gaps = 86/358 (24%)

Query: 15  QIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQNH 74
           +I+ +I S D ++   R+  T  +KQ      V+K  E + L  ++   L S    +Q  
Sbjct: 50  EIDHIIMSKDAVSGTLRLFWTLLSKQ---EEMVQKFVE-EVLRINYKF-LMSPIKTEQRQ 104

Query: 75  PDVGYEELSCKVMKYAQGVPLALKVLGCFLH-KREKEVWE--SATDKLQR----ILY--- 124
           P +       +  +      +  K      +  R +   +   A  +L+     ++    
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAK-----YNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159

Query: 125 ---PSIL--EVLKISYDSLDDKEKNIF-LDVACFFQGEDVDLVMKFFNASGFYPEIGMSV 178
               + +  +V   SY      +  IF L++         + V++            +  
Sbjct: 160 GSGKTWVALDVCL-SYKVQCKMDFKIFWLNLK---NCNSPETVLEMLQK--------LLY 207

Query: 179 LVDKSLIAIDSHK---KITMHDLLQELGREIVRQES-------IDPANRSRLWHHEDIY- 227
            +D +  +   H    K+ +H +  EL R +++ +        +     ++ W+  ++  
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAEL-RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC 266

Query: 228 --EVLTYNTFYRSSVNGKNKCKISYLQ-DPGF--AEVKYL--HWYGYPLKSLPSNLSAKK 280
              + T        ++      IS           EVK L   +     + LP       
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR--EVLT 324

Query: 281 ---LVLVEVPDS--------------DIERLWHCVKVCIS----------YYTCGIFQ 311
                L  + +S              + ++L   ++  ++          +    +F 
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP 382

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.6 bits (94), Expect = 5e-04
 Identities = 43/325 (13%), Positives = 92/325 (28%), Gaps = 85/325 (26%)

Query: 14  SQIESLIGSLDWLTP--VSRIIITTRNKQVLRNWGVRK-----IYEMK-----ALEYHHA 61
            Q + L           VSR+    + +Q L    +R      I  +       +    A
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE--LRPAKNVLIDGVLGSGKTWV----A 167

Query: 62  IRLFSRHAFKQNHPD------VGYEELSCKVMKYAQGVPLALKVLGCFL---HKREKEVW 112
           + +   +  +           +        V++  Q +   +              K   
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227

Query: 113 ESATDKLQRIL----YPSILEVLKISYDSLDD-KEKNIF--LDVAC-------------F 152
            S   +L+R+L    Y + L VL        + +    +   +++C             F
Sbjct: 228 HSIQAELRRLLKSKPYENCLLVL-------LNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280

Query: 153 FQGEDVDLVMKFFNASGFYPEIGMSVLVDKSLIAIDS--HKKITMHDLLQELGREIVRQE 210
                   +    ++    P+   S+L+            + +T +     +  E +R  
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR-- 338

Query: 211 SIDPANRSRLWHHEDIYEVLTYNTFYRSSVNGKNKCKISYLQDPGFAEVKYLHWYGYPLK 270
             D       W H +  ++    T   SS+N         + +P  AE + +      L 
Sbjct: 339 --DGLATWDNWKHVNCDKL---TTIIESSLN---------VLEP--AEYRKMFDR---LS 379

Query: 271 SLPSNLSAKKLVLVEVPDSDIERLW 295
             P +          +P   +  +W
Sbjct: 380 VFPPS--------AHIPTILLSLIW 396

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 69.1 bits (169), Expect = 4e-13
 Identities = 42/229 (18%), Positives = 86/229 (37%), Gaps = 33/229 (14%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNW--GVRKIYEMKALEYH 59
           + L++ DDV        ++ + D      +I++TTR+K V  +       +     L   
Sbjct: 237 RSLLILDDV----WDPWVLKAFD---NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289

Query: 60  HAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKL 119
             + + S      N         +  ++K  +G PL + ++G  L +     W     +L
Sbjct: 290 KGLEILSL---FVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL-RDFPNRWAYYLRQL 345

Query: 120 QR-----------ILYPSILEVLKISYDSLDDKEKNIFLDVACFFQGEDVDL----VMKF 164
           Q              Y ++ E + IS + L +  K+ + D++     +DV +    +   
Sbjct: 346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSIL--QKDVKVPTKVLCVL 403

Query: 165 FNASGFYPEIGMSVLVDKSLIAID---SHKKITMHDLLQELGREIVRQE 210
           ++      E  +   V+KSL+  +         +HDL  +   E  R +
Sbjct: 404 WDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ 452

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	311
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.97
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.96
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.95
2fna_A	357	Conserved hypothetical protein; structural genomic	98.79
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.77
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.44
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.42
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.4
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.39
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.34
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.33
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.29
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.24
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.24
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.21
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.21
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.14
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.13
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.1
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.1
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.08
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.07
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.06
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.05
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.03
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.03
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.02
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.02
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.02
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	98.01
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	97.99
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	97.98
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	97.98
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	97.97
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.96
3m19_A	251	Variable lymphocyte receptor A diversity region; a	97.96
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	97.95
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	97.92
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	97.92
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	97.9
3m19_A	251	Variable lymphocyte receptor A diversity region; a	97.89
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	97.85
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	97.84
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	97.82
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	97.82
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	97.82
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	97.8
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	97.8
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	97.78
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	97.77
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	97.76
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.76
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.76
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	97.75
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	97.75
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.75
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.75
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	97.75
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	97.74
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	97.73
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.73
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	97.73
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.73
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	97.72
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	97.72
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.72
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.72
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	97.71
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.71
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.7
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.7
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	97.69
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	97.68
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	97.68
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	97.68
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	97.68
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	97.67
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.67
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.67
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	97.67
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	97.67
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	97.66
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.66
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.66
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	97.65
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	97.65
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	97.64
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.64
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	97.63
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.61
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	97.61
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	97.61
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	97.59
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	97.59
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.59
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.59
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.58
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	97.58
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	97.56
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.56
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	97.55
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	97.54
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	97.53
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	97.52
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	97.52
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.5
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.49
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	97.49
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.49
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	97.48
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.48
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.48
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	97.48
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	97.48
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.47
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.46
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	97.45
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	97.45
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	97.45
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	97.43
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.4
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.37
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	97.35
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	97.32
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	97.3
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.27
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	97.26
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.25
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	97.22
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.19
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.17
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	97.15
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.11
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.91
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.9
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.88
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	96.85
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	96.8
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.75
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	96.75
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	96.69
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	96.62
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	96.6
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	96.3
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.74
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	95.62
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	94.94
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.92
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	94.89
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	94.75
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	94.68
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	94.64
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	94.36
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	94.12
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	93.97
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	93.91
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	93.72
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	93.57
2chq_A	319	Replication factor C small subunit; DNA-binding pr	93.37
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	93.1
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	92.74
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	92.37
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	91.67
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	91.57
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	91.41
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	91.35
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	91.29
3bos_A	242	Putative DNA replication factor; P-loop containing	91.18
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	89.27
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	89.04
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	88.39
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	86.33
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	85.84
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	85.16
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	82.24
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	81.54
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	80.03

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=5.8e-37  Score=293.27  Aligned_cols=201  Identities=15%  Similarity=0.134  Sum_probs=164.7

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhcC-CCceEEcCCCCHHHHHHHHHHhhcCCCCCCccH
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWG-VRKIYEMKALEYHHAIRLFSRHAFKQNHPDVGY   79 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~-~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~   79 (311)
                      |||||||||||+.+++ .+..     .+||+||||||++.++..++ ...+|+|++|+.++||+||.+.+|+... ++++
T Consensus       243 kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~  315 (549)
T 2a5y_B          243 PNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKE  315 (549)
T ss_dssp             TTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHH
T ss_pred             CcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhH
Confidence            4999999999999876 2221     27999999999999999876 4468999999999999999999987543 4678


Q ss_pred             HHHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHH-HHhccCcccHHHHHhhhcccCchhhhhhhh-----------
Q 021517           80 EELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATD-KLQRILYPSILEVLKISYDSLDDKEKNIFL-----------  147 (311)
Q Consensus        80 ~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~-~l~~~~~~~i~~~l~~sy~~L~~~~k~cfl-----------  147 (311)
                      .+++++|+++|+|+||||+++|+.|+.++. +|...+. .++.....++..++.+||+.||+++|.||+           
T Consensus       316 ~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~  394 (549)
T 2a5y_B          316 EDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALA  394 (549)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTT
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhcccHHHHHHHHhcccccccHHHHHHHhccchhhhhHhh
Confidence            889999999999999999999999987743 3322222 333335567999999999999999999999           


Q ss_pred             hhhcCCCCcCHHHHHHHHHHc--CCCcc-----------cchHHHhhcccceecC---CCcEEeCHHHHHHHHHHHhhhc
Q 021517          148 DVACFFQGEDVDLVMKFFNAS--GFYPE-----------IGMSVLVDKSLIAIDS---HKKITMHDLLQELGREIVRQES  211 (311)
Q Consensus       148 ~ls~fp~~~~~~~l~~~w~a~--g~~~~-----------~~~~~L~~~sl~~~~~---~~~~~mH~lv~~~~~~~~~~~~  211 (311)
                      |||+||++++++  +.+|+|+  |++..           .++++|+++||++...   .++|+|||+||+||++++.+++
T Consensus       395 ~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          395 FAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             GGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             heeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            999999998877  8999999  77742           2699999999999865   3479999999999998887664

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.97  E-value=1.1e-31  Score=278.29  Aligned_cols=199  Identities=20%  Similarity=0.304  Sum_probs=171.2

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHh-cCCCceEEcCC-CCHHHHHHHHHHhhcCCCCCCcc
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRN-WGVRKIYEMKA-LEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~-~~~~~~~~l~~-L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      |||||||||||+.++|+.+       ++||+||||||++.++.. .+....+.+++ |+++||++||...++..   .+.
T Consensus       236 ~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~---~~~  305 (1249)
T 3sfz_A          236 PRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK---KED  305 (1249)
T ss_dssp             CSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC---STT
T ss_pred             CCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC---hhh
Confidence            4999999999999887764       578999999999999855 45667899996 99999999999998543   234


Q ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHHHHhccC-----------cccHHHHHhhhcccCchhhhhhhh
Q 021517           79 YEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRIL-----------YPSILEVLKISYDSLDDKEKNIFL  147 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~~l~~~~-----------~~~i~~~l~~sy~~L~~~~k~cfl  147 (311)
                      +.+.+++|+++|+|+||||+++|++|+.++ ..|+.+++.+....           .+.+..++.+||+.||++.|.||+
T Consensus       306 ~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~  384 (1249)
T 3sfz_A          306 LPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYT  384 (1249)
T ss_dssp             CCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHH
T ss_pred             CcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHH
Confidence            456799999999999999999999999875 47988888876543           145899999999999999999999


Q ss_pred             hhhcCCCCcC--HHHHHHHHHHcCCCcccchHHHhhcccceecCCC---cEEeCHHHHHHHHHHHhhh
Q 021517          148 DVACFFQGED--VDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSHK---KITMHDLLQELGREIVRQE  210 (311)
Q Consensus       148 ~ls~fp~~~~--~~~l~~~w~a~g~~~~~~~~~L~~~sl~~~~~~~---~~~mH~lv~~~~~~~~~~~  210 (311)
                      |||+||+++.  .+.++.+|.+++..++.++++|+++||++...++   +|+||++||+|+++.+.++
T Consensus       385 ~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          385 DLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            9999999864  6899999988877788899999999999987655   4999999999999987665

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.96  E-value=1.6e-29  Score=249.08  Aligned_cols=180  Identities=16%  Similarity=0.187  Sum_probs=149.6

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhcCCCceEEcC------CCCHHHHHHHHHHhhcCCCC
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEMK------ALEYHHAIRLFSRHAFKQNH   74 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~~~~~~~l~------~L~~~~a~~Lf~~~a~~~~~   74 (311)
                      ||+||||||||+.++|+.+.       +||+||||||++.++..+.....|+++      +|+.+|||+||++.. +.. 
T Consensus       244 KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-  314 (1221)
T 1vt4_I          244 ENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-  314 (1221)
T ss_dssp             SSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-
T ss_pred             CCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-
Confidence            68999999999999998762       689999999999998755443456666      899999999999984 322 


Q ss_pred             CCccHHHHHHHHHHHhCCCchHHHHHHHHhccc--cHHHHHHHHHHHhccCcccHHHHHhhhcccCchhh-hhhhhhhhc
Q 021517           75 PDVGYEELSCKVMKYAQGVPLALKVLGCFLHKR--EKEVWESATDKLQRILYPSILEVLKISYDSLDDKE-KNIFLDVAC  151 (311)
Q Consensus        75 ~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~--~~~~w~~~~~~l~~~~~~~i~~~l~~sy~~L~~~~-k~cfl~ls~  151 (311)
                       .   .++..++   |+|+||||+++|+.|+.+  +..+|+..       ....+..++.+||+.||++. |.||++||+
T Consensus       315 -~---eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAI  380 (1221)
T 1vt4_I          315 -P---QDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSV  380 (1221)
T ss_dssp             -T---TTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTS
T ss_pred             -H---HHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhC
Confidence             1   2333443   999999999999999987  77889764       34679999999999999999 999999999


Q ss_pred             CCCCcC--HHHHHHHHHHcCC-CcccchHHHhhcccceecC-CCcEEeCHHHHHHH
Q 021517          152 FFQGED--VDLVMKFFNASGF-YPEIGMSVLVDKSLIAIDS-HKKITMHDLLQELG  203 (311)
Q Consensus       152 fp~~~~--~~~l~~~w~a~g~-~~~~~~~~L~~~sl~~~~~-~~~~~mH~lv~~~~  203 (311)
                      ||+++.  .+.++.+|+++|. .++.++++|+++||++... .++|+|||++++++
T Consensus       381 FPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             SCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             CCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence            999865  5779999998863 3567899999999999864 57899999999865

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.95  E-value=9.8e-28  Score=231.44  Aligned_cols=195  Identities=21%  Similarity=0.308  Sum_probs=159.6

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhcCCCceEEc---CCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEM---KALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~~~~~~~l---~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      |++||||||||+.+.++.+       ++|++||||||+..++..++ ...+++   ++|+.+||++||...++..   ..
T Consensus       236 ~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~  304 (591)
T 1z6t_A          236 PRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK---KA  304 (591)
T ss_dssp             TTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC---GG
T ss_pred             CCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC---cc
Confidence            4799999999998776543       46899999999999887654 234554   5899999999999998652   22


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHHHHhccC-----------cccHHHHHhhhcccCchhhhhhh
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRIL-----------YPSILEVLKISYDSLDDKEKNIF  146 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~~l~~~~-----------~~~i~~~l~~sy~~L~~~~k~cf  146 (311)
                      ...+.+.+|+++|+|+||||+.+|+.++... ..|..+++.+....           ..++..++..||+.||++.|.||
T Consensus       305 ~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l  383 (591)
T 1z6t_A          305 DLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYY  383 (591)
T ss_dssp             GSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHH
T ss_pred             cccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHH
Confidence            2345789999999999999999999998764 36888888876532           24688999999999999999999


Q ss_pred             hhhhcCCCCcC--HHHHHHHHHHcCCCcccchHHHhhcccceecCC---CcEEeCHHHHHHHHHHH
Q 021517          147 LDVACFFQGED--VDLVMKFFNASGFYPEIGMSVLVDKSLIAIDSH---KKITMHDLLQELGREIV  207 (311)
Q Consensus       147 l~ls~fp~~~~--~~~l~~~w~a~g~~~~~~~~~L~~~sl~~~~~~---~~~~mH~lv~~~~~~~~  207 (311)
                      ++||+||+++.  .+.+..+|.+++...+.++++|+++||++...+   .+|+||+++|++++...
T Consensus       384 ~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          384 TDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             HHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            99999998754  678889998765556778999999999986643   37999999999999873

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.79  E-value=2.2e-08  Score=89.52  Aligned_cols=190  Identities=16%  Similarity=0.142  Sum_probs=114.7

Q ss_pred             eEEEEEeCCCCHH-----HHHHHHhcCCCCCCCcEEEEEeCchhHHHhc-----------CC-CceEEcCCCCHHHHHHH
Q 021517            2 KVLIVFDDVTCFS-----QIESLIGSLDWLTPVSRIIITTRNKQVLRNW-----------GV-RKIYEMKALEYHHAIRL   64 (311)
Q Consensus         2 r~LlVLDdv~~~~-----~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~-----------~~-~~~~~l~~L~~~~a~~L   64 (311)
                      +++||+||++...     +|..+...+....++.++|+|+|........           +. ...+.+.+|+.+++.++
T Consensus       138 ~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~  217 (357)
T 2fna_A          138 NVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEF  217 (357)
T ss_dssp             CEEEEEETGGGGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHH
T ss_pred             CeEEEEECHHHhhccCchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHH
Confidence            6899999997642     2222222211112467899999987542211           11 25789999999999999


Q ss_pred             HHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhccc-cHHHHH-HHHHHHhccCcccHHHHHh-hhc--ccCc
Q 021517           65 FSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKR-EKEVWE-SATDKLQRILYPSILEVLK-ISY--DSLD  139 (311)
Q Consensus        65 f~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-~~~~w~-~~~~~l~~~~~~~i~~~l~-~sy--~~L~  139 (311)
                      +...........+..    ..|++.|+|.|+++..++..+... +...|. .+.+...    ..+...+. +.+  ..++
T Consensus       218 l~~~~~~~~~~~~~~----~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~l~  289 (357)
T 2fna_A          218 LRRGFQEADIDFKDY----EVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAK----KLILKEFENFLHGREIAR  289 (357)
T ss_dssp             HHHHHHHHTCCCCCH----HHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH----HHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHcCCCCCcH----HHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHH----HHHHHHHHHHhhcccccc
Confidence            987542111122222    789999999999999998876432 333332 1111110    11111111 111  1688


Q ss_pred             hhhhhhhhhhhcCCCCcCHHHHHHHHH-HcC--CC---cccchHHHhhcccceecCCCcEE-eCHHHHHHH
Q 021517          140 DKEKNIFLDVACFFQGEDVDLVMKFFN-ASG--FY---PEIGMSVLVDKSLIAIDSHKKIT-MHDLLQELG  203 (311)
Q Consensus       140 ~~~k~cfl~ls~fp~~~~~~~l~~~w~-a~g--~~---~~~~~~~L~~~sl~~~~~~~~~~-mH~lv~~~~  203 (311)
                      +..+..+..+|+-  . ....+..... ..|  ..   ...+++.|++.+++...+ +.|+ .|++++++.
T Consensus       290 ~~~~~~l~~la~g--~-~~~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~~-~~y~f~~~~~~~~l  356 (357)
T 2fna_A          290 KRYLNIMRTLSKC--G-KWSDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKEG-EKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHHHTTC--B-CHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEESS-SCEEESSHHHHHHT
T ss_pred             HHHHHHHHHHHcC--C-CHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEecC-CEEEecCHHHHHhh
Confidence            8889999999882  2 5455543321 223  22   245799999999998774 6676 578888764

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.77  E-value=8.5e-08  Score=85.45  Aligned_cols=189  Identities=13%  Similarity=0.161  Sum_probs=115.1

Q ss_pred             eEEEEEeCCCCHH--------H-HHHHHhcCCCCCCCcEEEEEeCchhHHHhc-----------CC-CceEEcCCCCHHH
Q 021517            2 KVLIVFDDVTCFS--------Q-IESLIGSLDWLTPVSRIIITTRNKQVLRNW-----------GV-RKIYEMKALEYHH   60 (311)
Q Consensus         2 r~LlVLDdv~~~~--------~-~~~l~~~~~~~~~gs~IlvTTR~~~va~~~-----------~~-~~~~~l~~L~~~~   60 (311)
                      +++||+||++...        . +..+..... ..++.++|+|++...+....           +. ...+.+.+|+.+|
T Consensus       129 ~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~-~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e  207 (350)
T 2qen_A          129 EFIVAFDEAQYLRFYGSRGGKELLALFAYAYD-SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDT  207 (350)
T ss_dssp             CEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH-HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHH
T ss_pred             CEEEEEeCHHHHhccCccchhhHHHHHHHHHH-hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHH
Confidence            6899999998743        2 333332221 12477899999886542211           11 2479999999999


Q ss_pred             HHHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhcc-ccHHHH-HHHHHHHhccCcccHHHHHhhhcccC
Q 021517           61 AIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHK-REKEVW-ESATDKLQRILYPSILEVLKISYDSL  138 (311)
Q Consensus        61 a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~-~~~~~w-~~~~~~l~~~~~~~i~~~l~~sy~~L  138 (311)
                      +.+++.......+..  -..+.+..|.+.|+|.|+++..++..+.. .+...+ ..+.+..        ...+.-.+..+
T Consensus       208 ~~~~l~~~~~~~~~~--~~~~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~l~~l  277 (350)
T 2qen_A          208 SVEFLKRGFREVNLD--VPENEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMKRTLEVA--------KGLIMGELEEL  277 (350)
T ss_dssp             HHHHHHHHHHTTTCC--CCHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHHHHHHHH--------HHHHHHHHHHH
Confidence            999998754221111  12356789999999999999999876532 222222 1111111        11111112222


Q ss_pred             ---chhhhhhhhhhhcCCCCcCHHHHHHHHHHc--CCC---cccchHHHhhcccceecCCCcEEe-CHHHHHHHH
Q 021517          139 ---DDKEKNIFLDVACFFQGEDVDLVMKFFNAS--GFY---PEIGMSVLVDKSLIAIDSHKKITM-HDLLQELGR  204 (311)
Q Consensus       139 ---~~~~k~cfl~ls~fp~~~~~~~l~~~w~a~--g~~---~~~~~~~L~~~sl~~~~~~~~~~m-H~lv~~~~~  204 (311)
                         ++..+..+..+|.  .......+.......  |..   ...+++.|.+.+++... .+.|++ |++++++.+
T Consensus       278 ~~~~~~~~~~l~~la~--g~~~~~~l~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          278 RRRSPRYVDILRAIAL--GYNRWSLIRDYLAVKGTKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHCHHHHHHHHHHHT--TCCSHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             HhCChhHHHHHHHHHh--CCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence               6778888888887  234555665554322  232   24569999999999877 466665 788887753

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.44  E-value=2.5e-07  Score=74.42  Aligned_cols=60  Identities=10%  Similarity=0.149  Sum_probs=53.1

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|..+  +|.+|++|+|++|.|+.+|.+ +.+|.+|++|++.
T Consensus        50 ~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~  113 (174)
T 2r9u_A           50 PGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYLY  113 (174)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECC
T ss_pred             HHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCCCEEEeC
Confidence            556667 99999999999999999875  699999999999999999986 8899999998875

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=98.42  E-value=1e-07  Score=84.75  Aligned_cols=63  Identities=10%  Similarity=0.036  Sum_probs=46.3

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..+|..++. ++|++|+|++|.+..+|..+ ++.+|++|+|++|.++.+|.++++|++|++|+++
T Consensus        94 ~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~  158 (328)
T 4fcg_A           94 PQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIR  158 (328)
T ss_dssp             SSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEE
T ss_pred             hhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECC
Confidence            356666666 77777777777777777777 6777777777777777777777777777777653

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.40  E-value=1.5e-07  Score=92.51  Aligned_cols=65  Identities=17%  Similarity=0.061  Sum_probs=59.4

Q ss_pred             cccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          246 CKISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       246 ~~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ....+|..+.. ++|++|+|++|.+..+|.+| +|.+|++|+|++|.|+.+|.++++|.+|++|+++
T Consensus       258 ~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~  324 (727)
T 4b8c_D          258 SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE  324 (727)
T ss_dssp             CCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSCCCCCCSSTTSCTTCCCEECT
T ss_pred             cCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCCCCccChhhhcCCCccEEeCC
Confidence            34478888877 99999999999999999999 7999999999999999999999999999999875

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.39  E-value=2e-06  Score=78.35  Aligned_cols=180  Identities=10%  Similarity=0.075  Sum_probs=104.3

Q ss_pred             CeEEEEEeCCCCH--------HHHHHHHhcCCCC---C--CCcEEEEEeCchhHHHhc---------CCCceEEcCCCCH
Q 021517            1 MKVLIVFDDVTCF--------SQIESLIGSLDWL---T--PVSRIIITTRNKQVLRNW---------GVRKIYEMKALEY   58 (311)
Q Consensus         1 kr~LlVLDdv~~~--------~~~~~l~~~~~~~---~--~gs~IlvTTR~~~va~~~---------~~~~~~~l~~L~~   58 (311)
                      ++++||+||++..        +.+..+...+...   +  .+..+|+||+...+....         .....+.+++++.
T Consensus       138 ~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~  217 (412)
T 1w5s_A          138 HYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKS  217 (412)
T ss_dssp             CEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCH
T ss_pred             CeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCH
Confidence            4789999999864        3344433332211   2  344588888766543211         1122399999999


Q ss_pred             HHHHHHHHHhh---cCCCCCCccHHHHHHHHHHHhC------CCchHHHHHHHHh---c---cc---cHHHHHHHHHHHh
Q 021517           59 HHAIRLFSRHA---FKQNHPDVGYEELSCKVMKYAQ------GVPLALKVLGCFL---H---KR---EKEVWESATDKLQ  120 (311)
Q Consensus        59 ~~a~~Lf~~~a---~~~~~~~~~~~~~~~~i~~~c~------glPLai~~~~~~L---~---~~---~~~~w~~~~~~l~  120 (311)
                      ++++++|...+   +....   -..+....|++.|+      |.|..+..+....   +   +.   +...+..+.....
T Consensus       218 ~e~~~ll~~~~~~~~~~~~---~~~~~~~~i~~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~  294 (412)
T 1w5s_A          218 RELYTILEQRAELGLRDTV---WEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENE  294 (412)
T ss_dssp             HHHHHHHHHHHHHHBCTTS---CCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcCCCCC---CChHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence            99999997654   32211   12356788999999      9997655544322   1   11   2333433333211


Q ss_pred             ccCcccHHHHHhhhcccCchhhhhhhhhhhcCC----CCcCHHHHHHHH-----HHcCCC------cccchHHHhhcccc
Q 021517          121 RILYPSILEVLKISYDSLDDKEKNIFLDVACFF----QGEDVDLVMKFF-----NASGFY------PEIGMSVLVDKSLI  185 (311)
Q Consensus       121 ~~~~~~i~~~l~~sy~~L~~~~k~cfl~ls~fp----~~~~~~~l~~~w-----~a~g~~------~~~~~~~L~~~sl~  185 (311)
                      .      ...+.-++..||++.+.++..++.+.    ..+....+...+     ...|..      ...+++.|.+.+++
T Consensus       295 ~------~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli  368 (412)
T 1w5s_A          295 A------ASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLV  368 (412)
T ss_dssp             -----------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSE
T ss_pred             c------cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCE
Confidence            0      23445577889999999998888653    223444444333     222321      13568999999999


Q ss_pred             eecC
Q 021517          186 AIDS  189 (311)
Q Consensus       186 ~~~~  189 (311)
                      ....
T Consensus       369 ~~~~  372 (412)
T 1w5s_A          369 DAKP  372 (412)
T ss_dssp             EEEC
T ss_pred             Eeec
Confidence            8753

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.34  E-value=6.8e-07  Score=71.89  Aligned_cols=63  Identities=8%  Similarity=-0.036  Sum_probs=54.6

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ...+|..+. .+|++|+|+++.+..+|. .+ ++.+|++|+|++|+|+.+|.++ .+|.+|++|+++
T Consensus        24 l~~iP~~~~-~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           24 LASVPAGIP-TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             CSSCCSCCC-TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCccCCCcC-CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECC
Confidence            346676554 899999999999999955 56 7999999999999999999885 899999999875

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.33  E-value=6.2e-07  Score=71.78  Aligned_cols=62  Identities=11%  Similarity=0.078  Sum_probs=53.8

Q ss_pred             cc-CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          249 SY-LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       249 ~l-p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      .+ |..+.. ++|++|+|++|.+..+|..+  +|.+|++|+|++|+|+.+|.+ +.+|.+|++|+++
T Consensus        44 ~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  110 (170)
T 3g39_A           44 KLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWLL  110 (170)
T ss_dssp             CCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             ccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccCEeCHHHhcCCCCCCEEEeC
Confidence            44 555666 99999999999999999875  699999999999999999985 8899999998875

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.29  E-value=1.1e-06  Score=73.90  Aligned_cols=54  Identities=13%  Similarity=0.039  Sum_probs=32.7

Q ss_pred             CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|+|++|.+..+|..+  .+.+|++|+|++|+|+.+|.++.++.+|++|+++
T Consensus        88 ~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~  143 (229)
T 3e6j_A           88 TQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALD  143 (229)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECC
T ss_pred             CCcCEEECCCCcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECC
Confidence            66666666666666665543  4666666666666666666666666666665543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.24  E-value=2.7e-07  Score=90.73  Aligned_cols=64  Identities=14%  Similarity=0.164  Sum_probs=58.4

Q ss_pred             ccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|..++. ++|++|+|++|.+..+|.+| +|.+|++|+|++|.|+.+|.++++|.+|++|+++
T Consensus       236 l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~  301 (727)
T 4b8c_D          236 IFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFF  301 (727)
T ss_dssp             CSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECC
T ss_pred             CCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECC
Confidence            4467777777 99999999999999999999 8999999999999999999999999999999875

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.24  E-value=1.5e-06  Score=69.52  Aligned_cols=63  Identities=11%  Similarity=0.067  Sum_probs=54.0

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ...+|..+. ..|++|+|+++.+..+|. .+ ++.+|++|+|++|+|+.+|.++ .+|.+|++|+++
T Consensus        21 l~~ip~~~~-~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           21 LASVPTGIP-TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             CSSCCSCCC-TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             cCccCccCC-CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            345676553 899999999999999954 56 7999999999999999999875 899999999875

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.21  E-value=1e-06  Score=68.63  Aligned_cols=59  Identities=14%  Similarity=0.108  Sum_probs=40.1

Q ss_pred             CCCCC-CceeEEeeeCCCCCC-CCCCC-CCCCceEEEcCCCCccccc--cccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKS-LPSNL-SAKKLVLVEVPDSDIERLW--HCVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~-lP~~i-~L~~L~~L~L~~~~i~~LP--~~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|++++|.+.. +|..+ ++.+|++|+|++|.++.+|  ..++++++|++|+++
T Consensus        58 ~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~  121 (149)
T 2je0_A           58 ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLF  121 (149)
T ss_dssp             TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECT
T ss_pred             hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCc
Confidence            34444 677777777777766 55555 4777777777777777765  667777777777664

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.21  E-value=8.4e-07  Score=84.72  Aligned_cols=59  Identities=17%  Similarity=0.103  Sum_probs=34.7

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+|. ++. ++|++|+|++|.+..+|..+ +|.+|++|+|++|.|+.+| ++++|++|++|++
T Consensus       455 ~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~L  515 (567)
T 1dce_A          455 VLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLL  515 (567)
T ss_dssp             SCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEEC
T ss_pred             CCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEEC
Confidence            3444 444 56666666666666666655 4666666666666666665 5566666655554

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.14  E-value=2.8e-06  Score=70.92  Aligned_cols=53  Identities=11%  Similarity=0.120  Sum_probs=28.6

Q ss_pred             CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccccc-cccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i  309 (311)
                      ++|++|+|++|.+..+|. .+ .+.+|++|+|++|.|+.+|.+ +..+.+|+++++
T Consensus       104 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  159 (220)
T 2v9t_B          104 FSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHL  159 (220)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEe
Confidence            555555555555555533 23 455555555555555555543 455555555554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.13  E-value=2.4e-06  Score=69.86  Aligned_cols=58  Identities=16%  Similarity=0.075  Sum_probs=43.8

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      .+.. ++|++|+|++|.+..+|.. + +|.+|++|+|++|.|+.+|.+ +..|.+|+++++.
T Consensus        73 ~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  134 (193)
T 2wfh_A           73 SFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIG  134 (193)
T ss_dssp             TTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECC
T ss_pred             HccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeC
Confidence            3555 7888888888888877764 4 688888888888888888874 6678888877664

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.13  E-value=1.3e-06  Score=83.41  Aligned_cols=64  Identities=6%  Similarity=0.006  Sum_probs=58.0

Q ss_pred             cccccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccc--ccccccCccccccccC
Q 021517          246 CKISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERL--WHCVKVCISYYTCGIF  310 (311)
Q Consensus       246 ~~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~L--P~~i~~L~~L~~l~i~  310 (311)
                      ....+|..++. ++|++|+|++|.++.+| .+ +|.+|++|+|++|.|+.+  |.++++|++|++|+++
T Consensus       474 ~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~  541 (567)
T 1dce_A          474 RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQ  541 (567)
T ss_dssp             CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECT
T ss_pred             cccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEec
Confidence            34578888888 99999999999999999 78 799999999999999999  8999999999999875

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.10  E-value=1.7e-06  Score=68.82  Aligned_cols=59  Identities=10%  Similarity=0.064  Sum_probs=47.8

Q ss_pred             CCCCC-CceeEEeeeCCCCCC-CCCCC-CCCCceEEEcCCCCccccc--cccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKS-LPSNL-SAKKLVLVEVPDSDIERLW--HCVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~-lP~~i-~L~~L~~L~L~~~~i~~LP--~~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|++++|.+.. +|..+ ++.+|++|+|++|.++.+|  ..+.++++|++|+++
T Consensus        65 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~  128 (168)
T 2ell_A           65 SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLF  128 (168)
T ss_dssp             SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECC
T ss_pred             hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEee
Confidence            45555 889999999998887 55555 5889999999999888887  688888888888775

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.10  E-value=3.2e-06  Score=68.89  Aligned_cols=60  Identities=10%  Similarity=0.038  Sum_probs=42.9

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|.. + ++.+|++|+|++|.|+.+ |..+..+.+|++|++.
T Consensus        71 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  134 (192)
T 1w8a_A           71 PNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             TTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECT
T ss_pred             HhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeC
Confidence            455666 7777777777777777665 4 577777777777777766 5667777777777664

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.08  E-value=3e-06  Score=70.69  Aligned_cols=60  Identities=17%  Similarity=0.177  Sum_probs=49.7

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccc-cccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLW-HCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP-~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|..+  .+.+|++|+|++|.|+.+| ..+.++.+|++|+++
T Consensus        73 ~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  136 (220)
T 2v9t_B           73 PDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLY  136 (220)
T ss_dssp             TTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             HHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECC
Confidence            566777 88999999999988888875  5889999999999888884 568888888888775

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.08  E-value=2.1e-06  Score=68.92  Aligned_cols=57  Identities=12%  Similarity=0.010  Sum_probs=33.7

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc--ccccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i  309 (311)
                      .+.. ++|++|++++|.+..+|+.+  .+.+|++|+|++|.|..+|.  .++++++|++|++
T Consensus        59 ~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l  120 (176)
T 1a9n_A           59 GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCI  120 (176)
T ss_dssp             CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEEC
T ss_pred             ccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEe
Confidence            3444 56666666666666666544  36666666666666666665  5556666665554

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.07  E-value=2.1e-06  Score=68.17  Aligned_cols=61  Identities=13%  Similarity=0.085  Sum_probs=47.7

Q ss_pred             cCCCCCC-CceeEEeeeCCCCCCCC--CCC-CCCCceEEEcCCCCcccccc----ccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLKSLP--SNL-SAKKLVLVEVPDSDIERLWH----CVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~~lP--~~i-~L~~L~~L~L~~~~i~~LP~----~i~~L~~L~~l~i~  310 (311)
                      +|..+.. ++|++|++++|.+..+|  ..+ ++.+|++|+|++|.+..+|.    .+..+++|++|+++
T Consensus        87 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  155 (168)
T 2ell_A           87 LDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGY  155 (168)
T ss_dssp             CCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTE
T ss_pred             HHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCC
Confidence            4444443 78888888888888887  566 68888888888888888887    78888888888764

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.06  E-value=1.3e-06  Score=67.96  Aligned_cols=53  Identities=15%  Similarity=0.169  Sum_probs=30.2

Q ss_pred             CceeEEeeeCCCCCCCC--CCC-CCCCceEEEcCCCCcccccc----ccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLP--SNL-SAKKLVLVEVPDSDIERLWH----CVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP--~~i-~L~~L~~L~L~~~~i~~LP~----~i~~L~~L~~l~i  309 (311)
                      ++|++|++++|.+..+|  ..+ ++.+|++|+|++|.++.+|.    .++.+++|++|++
T Consensus        88 ~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           88 PNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             TTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             CCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccC
Confidence            55666666666555544  444 45566666666665555554    4555555555554

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.05  E-value=7.9e-06  Score=65.44  Aligned_cols=63  Identities=13%  Similarity=0.081  Sum_probs=48.2

Q ss_pred             cccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          248 ISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ..+|.. +.. ++|++|++++|.+..+|...  ++.+|++|+|++|.++.+|.++ .++++|+++++.
T Consensus        65 ~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~  132 (177)
T 2o6r_A           65 QSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLH  132 (177)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             eEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEec
Confidence            345544 445 88888888888888888764  5888888888888888888775 678888888764

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.03  E-value=6e-06  Score=69.24  Aligned_cols=60  Identities=13%  Similarity=0.058  Sum_probs=52.4

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|...  ++.+|++|+|++|.|+.+|.+ +..|.+|++|+++
T Consensus        57 ~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls  120 (229)
T 3e6j_A           57 PGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMC  120 (229)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             HHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEecc
Confidence            555666 99999999999999999775  699999999999999999976 4889999998875

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.03  E-value=4.7e-06  Score=67.93  Aligned_cols=63  Identities=13%  Similarity=0.129  Sum_probs=53.3

Q ss_pred             cccCCC--CCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          248 ISYLQD--PGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~--~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ..++..  +.. ++|++|+|++|.+..+ |..+ ++.+|++|+|++|+|+.+|.. +.+|++|++|+++
T Consensus        42 ~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  110 (192)
T 1w8a_A           42 GRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLY  110 (192)
T ss_dssp             CSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECC
T ss_pred             CccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECC
Confidence            345543  555 9999999999999988 5667 799999999999999999876 8899999999875

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=98.02  E-value=3.7e-06  Score=80.62  Aligned_cols=53  Identities=13%  Similarity=0.187  Sum_probs=28.3

Q ss_pred             CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccccccc-cccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i  309 (311)
                      ++|++|+|++|+++.+|.. + +|.+|++|+|++|+++.+|.. +++|++|++|++
T Consensus       100 ~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~L  155 (635)
T 4g8a_A          100 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNV  155 (635)
T ss_dssp             TTCCEEECTTCCCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEEC
T ss_pred             CCCCEEEccCCcCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeecc
Confidence            5555555555555555543 2 455555555555555555542 455555555554

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.02  E-value=8.9e-06  Score=66.91  Aligned_cols=54  Identities=15%  Similarity=0.120  Sum_probs=33.8

Q ss_pred             CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ++|++|++++|.+..+|...  ++.+|++|+|++|.++.+|.. +.++.+|+++++.
T Consensus       100 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~  156 (208)
T 2o6s_A          100 TQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH  156 (208)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             cCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEec
Confidence            66666666666666666553  466666666666666666654 4566666666553

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.02  E-value=7.4e-06  Score=65.63  Aligned_cols=62  Identities=13%  Similarity=0.127  Sum_probs=53.3

Q ss_pred             ccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          249 SYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      .+|.. +.. ++|++|+++++.+..+|...  .+.+|++|+|++|.++.+|.. +.++.+|++|++.
T Consensus        42 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~  108 (177)
T 2o6r_A           42 SLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALD  108 (177)
T ss_dssp             CCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             EeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEECc
Confidence            45544 455 99999999999999999875  699999999999999999986 5889999999875

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=98.01  E-value=1.6e-06  Score=76.45  Aligned_cols=61  Identities=15%  Similarity=0.100  Sum_probs=34.3

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCc-ccccccc
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCI-SYYTCGI  309 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~-~L~~l~i  309 (311)
                      .+|..+.. ++|++|++++|.+. .+|..+ ++.+|++|+|++|.+. .+|.+++++. +|++|++
T Consensus       116 ~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L  181 (313)
T 1ogq_A          116 AIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTI  181 (313)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEEC
T ss_pred             cCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEEC
Confidence            34444444 55666666655554 455555 4566666666665555 5555565555 5555554

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=97.99  E-value=6.4e-06  Score=68.67  Aligned_cols=57  Identities=12%  Similarity=0.074  Sum_probs=39.0

Q ss_pred             CCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|+|++|.+..+ |..+ ++.+|++|+|++|.|+.+ |..+.+|.+|++|++.
T Consensus       101 ~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  161 (220)
T 2v70_A          101 FKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLL  161 (220)
T ss_dssp             GTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             hcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEec
Confidence            444 7777777777777766 3445 577777777777777777 5667777777777654

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=97.98  E-value=2.4e-06  Score=75.83  Aligned_cols=62  Identities=13%  Similarity=0.018  Sum_probs=42.5

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCC-CccccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDS-DIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~-~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..+.. ++|++|++++|.+..+|..+ ++.+|++|+|++| ....+|..++++.+|++|+++
T Consensus       197 ~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~  261 (328)
T 4fcg_A          197 SLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK  261 (328)
T ss_dssp             CCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECT
T ss_pred             cchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECC
Confidence            55666655 77777777777777777766 5777777777775 455667777777777776654

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=97.98  E-value=9.2e-06  Score=66.30  Aligned_cols=64  Identities=5%  Similarity=0.001  Sum_probs=55.5

Q ss_pred             ccccCCCCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ...+|..+.. ++|++|+|++|.+..+|.. + +|.+|++|+|++|.|+.+|. .+.+|.+|++|+++
T Consensus        43 i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~  110 (193)
T 2wfh_A           43 FTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLH  110 (193)
T ss_dssp             CCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECC
T ss_pred             CchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECC
Confidence            3467766777 9999999999999999865 5 79999999999999999986 58999999999875

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=97.97  E-value=3.8e-06  Score=67.33  Aligned_cols=53  Identities=9%  Similarity=0.116  Sum_probs=48.4

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ++|++|++++|.+..+ +.+ .+.+|++|+|++|.|+.+|.++ +++++|++|+++
T Consensus        42 ~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~   96 (176)
T 1a9n_A           42 DQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILT   96 (176)
T ss_dssp             TCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECC
T ss_pred             CCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECC
Confidence            5999999999999998 567 7999999999999999999887 899999998875

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.96  E-value=5.6e-06  Score=73.75  Aligned_cols=57  Identities=14%  Similarity=0.068  Sum_probs=32.9

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+.. .+|++|+|++|.+..+|+. + +|.+|++|+|++|+|..+|.++....+|++|.+
T Consensus        51 ~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~L~~l~l  110 (347)
T 2ifg_A           51 DLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVL  110 (347)
T ss_dssp             GSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCEEEC
T ss_pred             HhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeCHHHcccCCceEEEe
Confidence            3444 6666666666666655543 3 466666666666666666655544434555554

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=97.96  E-value=9.7e-06  Score=68.83  Aligned_cols=62  Identities=16%  Similarity=0.187  Sum_probs=42.0

Q ss_pred             ccCCC-CCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          249 SYLQD-PGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      .+|.. +.. ++|++|+|++|.+..+|.. + ++.+|++|+|++|.++.+|. .+.++.+|+++++.
T Consensus       121 ~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  187 (251)
T 3m19_A          121 SLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLF  187 (251)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEee
Confidence            44444 344 7777777777777777763 4 57777777777777777775 46677777777654

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=97.95  E-value=6e-06  Score=68.82  Aligned_cols=63  Identities=8%  Similarity=-0.016  Sum_probs=54.0

Q ss_pred             cccCC-CCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          248 ISYLQ-DPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~-~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      ..++. .+.. ++|++|+|++|.+..+|.. + .+.+|++|+|++|+|+.+ |..+.++.+|++|+++
T Consensus        70 ~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  137 (220)
T 2v70_A           70 TDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLY  137 (220)
T ss_dssp             CEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECT
T ss_pred             CEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECC
Confidence            34444 5666 9999999999999999887 5 799999999999999998 6789999999999875

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=97.92  E-value=1.3e-05  Score=65.95  Aligned_cols=63  Identities=14%  Similarity=0.168  Sum_probs=49.7

Q ss_pred             cccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          248 ISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ..+|.. +.. ++|++|++++|.+..+|..+  ++.+|++|+|++|.++.+|.. +.++.+|++|+++
T Consensus        65 ~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  132 (208)
T 2o6s_A           65 QSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLY  132 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECC
Confidence            345554 345 88999999999888888764  688999999998888888876 5788888888764

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=97.92  E-value=1.6e-05  Score=69.17  Aligned_cols=63  Identities=21%  Similarity=0.136  Sum_probs=46.1

Q ss_pred             cccC-CCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          248 ISYL-QDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp-~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ..+| ..+.. ++|++|+|++|.+..+|..+  .+.+|++|+|++|.++.+|.++ .+|.+|++|+++
T Consensus       113 ~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~  180 (290)
T 1p9a_G          113 TSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ  180 (290)
T ss_dssp             CCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             cccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECC
Confidence            3444 34555 78888888888888887765  5888888888888888888765 668888877764

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=97.90  E-value=1.1e-05  Score=77.20  Aligned_cols=60  Identities=13%  Similarity=-0.030  Sum_probs=43.3

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCC-CCC-CCCCceEEEcCCCCcc--ccccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLP-SNL-SAKKLVLVEVPDSDIE--RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP-~~i-~L~~L~~L~L~~~~i~--~LP~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|++++|.+..+| ..+ ++.+|++|+|++|.+.  .+|..+++|++|++|+++
T Consensus        97 p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls  161 (606)
T 3vq2_A           97 PGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLS  161 (606)
T ss_dssp             TTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECC
T ss_pred             hhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEcc
Confidence            556666 77777777777777776 445 6777777777777776  467777778888777664

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=97.89  E-value=1.5e-05  Score=67.63  Aligned_cols=63  Identities=19%  Similarity=0.157  Sum_probs=50.6

Q ss_pred             cccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          248 ISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ..+|.. +.. ++|++|+|++|.+..+|..+  ++.+|++|+|++|+++.+|. .++++++|++|+++
T Consensus        96 ~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  163 (251)
T 3m19_A           96 ASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLS  163 (251)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             cccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECC
Confidence            344443 455 88999999999998888875  58999999999999999887 58888999888775

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=97.85  E-value=2.3e-05  Score=68.12  Aligned_cols=64  Identities=9%  Similarity=-0.026  Sum_probs=55.8

Q ss_pred             ccccCCCC-CC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDP-GF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~-~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|... .. ++|++|+|++|.+.++|..+  ++.+|++|+|++|.++.+|.++..+.+|+++.++
T Consensus       136 l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~  203 (290)
T 1p9a_G          136 LKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (290)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             CCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeC
Confidence            34556554 45 99999999999999999886  5999999999999999999999999999988764

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=97.84  E-value=9.3e-06  Score=77.78  Aligned_cols=53  Identities=13%  Similarity=0.066  Sum_probs=25.4

Q ss_pred             CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccccccc-cccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i  309 (311)
                      ++|++|+|++|.|+.+|+. | +|.+|++|+|++|+|+.+|.+ +.+|.+|++|++
T Consensus        76 ~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~L  131 (635)
T 4g8a_A           76 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  131 (635)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEEC
T ss_pred             CCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEEC
Confidence            4555555555555544432 3 355555555555555555432 344555554443

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=97.82  E-value=2.3e-05  Score=67.29  Aligned_cols=63  Identities=10%  Similarity=0.006  Sum_probs=42.0

Q ss_pred             cccCCCC-CC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          248 ISYLQDP-GF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~~-~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ..+|..+ .. ++|++|+++++.+..+|..+  ++.+|++|+|++|.++.+|.. ++++++|++|+++
T Consensus        74 ~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls  141 (270)
T 2o6q_A           74 QTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLG  141 (270)
T ss_dssp             SCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECC
Confidence            3455443 33 77777777777777777654  577777777777777777654 4677777777654

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=97.82  E-value=2.5e-05  Score=68.91  Aligned_cols=55  Identities=11%  Similarity=0.102  Sum_probs=35.9

Q ss_pred             CCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+.. ++|++|++++|.+..+ |..+ ++.+|++|+|++|.++++|.++.  .+|++|++
T Consensus        71 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~L~l  128 (330)
T 1xku_A           71 DFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELRV  128 (330)
T ss_dssp             TTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTCCEEEC
T ss_pred             hhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCCccChhhc--ccccEEEC
Confidence            4555 6777777777776666 5556 57777777777777777776654  45665554

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=97.82  E-value=1.1e-05  Score=70.98  Aligned_cols=62  Identities=11%  Similarity=0.116  Sum_probs=51.3

Q ss_pred             ccCCCCCCCceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGFAEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|.....++|++|+|++|.+..+|..+ .+.+|++|+|++|.++.+|..+..+++|++++++
T Consensus       183 ~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~  245 (317)
T 3o53_A          183 DVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLR  245 (317)
T ss_dssp             EEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECT
T ss_pred             ccccccccccCCEEECCCCcCCcchhhhcccCcccEEECcCCcccchhhHhhcCCCCCEEEcc
Confidence            4444443488999999999999888888 7899999999999999999988889999888775

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=97.80  E-value=2.2e-05  Score=70.96  Aligned_cols=59  Identities=17%  Similarity=0.170  Sum_probs=40.3

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|++++|.+..+|..+  ++.+|++|+|++|.+..+|. .++++++|++|+++
T Consensus       111 ~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  173 (390)
T 3o6n_A          111 HVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS  173 (390)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECC
T ss_pred             HHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECC
Confidence            33455 77777777777777777664  47777777777777777654 46777777777654

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=97.80  E-value=2e-05  Score=75.48  Aligned_cols=60  Identities=13%  Similarity=0.112  Sum_probs=46.5

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccccc-cccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLW-HCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP-~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+ |..+ +|.+|++|+|++|.+..+| ..+++|++|++|+++
T Consensus        73 ~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  136 (606)
T 3vq2_A           73 DKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVA  136 (606)
T ss_dssp             TTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECC
T ss_pred             HHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCC
Confidence            445666 8888888888888777 6667 6888888888888888877 678888888888764

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=97.78  E-value=3.8e-05  Score=65.86  Aligned_cols=57  Identities=16%  Similarity=0.121  Sum_probs=44.9

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|+|++|.+..+|...  .+.+|++|+|++|.++.+|.. +.++++|++|+++
T Consensus       129 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  189 (270)
T 2o6q_A          129 FDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLD  189 (270)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             hCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECC
Confidence            455 88888888888888888764  688888888888888888864 6778888888764

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=97.77  E-value=1.6e-05  Score=64.91  Aligned_cols=60  Identities=8%  Similarity=0.060  Sum_probs=43.2

Q ss_pred             cCCCCCC-CceeEEeeeCCCCCC-CCCCC-CCCCceEEEcCCCC-ccccccccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLKS-LPSNL-SAKKLVLVEVPDSD-IERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~~-lP~~i-~L~~L~~L~L~~~~-i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .|..+.. ++|++|++++|.+.. .|..+ ++.+|++|+|++|. +..+| .+.++++|++|+++
T Consensus       104 ~~~~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~  167 (197)
T 4ezg_A          104 KIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQ  167 (197)
T ss_dssp             GSCCCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECT
T ss_pred             cChhhcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECC
Confidence            4566666 778888888777764 55556 67778888888776 77777 57777777777664

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=97.76  E-value=1e-05  Score=66.02  Aligned_cols=59  Identities=8%  Similarity=0.022  Sum_probs=51.1

Q ss_pred             cCCCCCC-CceeEEeeeCCC-CCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYP-LKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~-i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .|..+.. ++|++|++++|. +..+| .+ ++.+|++|+|++|.++.+| .+.++++|++|+++
T Consensus       128 ~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~~~-~l~~l~~L~~L~l~  189 (197)
T 4ezg_A          128 ILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAF  189 (197)
T ss_dssp             GHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBCCCCCT-TGGGCSSCCEEEEC
T ss_pred             hHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCCCcChH-HhccCCCCCEEEee
Confidence            4555666 899999999998 99998 56 7999999999999999998 79999999998874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.76  E-value=0.00016  Score=60.16  Aligned_cols=101  Identities=13%  Similarity=0.077  Sum_probs=71.4

Q ss_pred             eEEEEEeCCCC--HHHHHHHHhcCCCCCCCcEEEEEeCchhHH-Hh-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTC--FSQIESLIGSLDWLTPVSRIIITTRNKQVL-RN-WGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~--~~~~~~l~~~~~~~~~gs~IlvTTR~~~va-~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +.+||+||++.  .+.++.+...+.....+..+|+||+..... .. ......+++++++.++..+++...+......  
T Consensus       127 ~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~--  204 (250)
T 1njg_A          127 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--  204 (250)
T ss_dssp             SEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC--
T ss_pred             ceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC--
Confidence            57999999965  556777776665445678889888765421 11 1223589999999999999999877432211  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHHHHh
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLGCFL  104 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~~~L  104 (311)
                      -..+....|++.|+|.|..+..+...+
T Consensus       205 ~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          205 HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            123567889999999999888766543

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.76  E-value=2.7e-05  Score=74.74  Aligned_cols=58  Identities=17%  Similarity=0.166  Sum_probs=43.1

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      .++. ++|++|+|++|.+..+|..+  ++.+|++|+|++|.+..+|. .++++++|++|+++
T Consensus       118 ~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  179 (597)
T 3oja_B          118 VFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS  179 (597)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECT
T ss_pred             HHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECc
Confidence            3455 78888888888888887765  57888888888887777765 47778888877764

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=97.75  E-value=8.2e-06  Score=71.76  Aligned_cols=60  Identities=13%  Similarity=0.115  Sum_probs=29.8

Q ss_pred             cCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCcccccccc
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGI  309 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i  309 (311)
                      +|..+.. ++|++|+|++|.+. .+|..+ ++.+|++|+|++|.+. .+|..+.++++|++|++
T Consensus        93 ~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L  156 (313)
T 1ogq_A           93 IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITF  156 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEEC
T ss_pred             CChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEEC
Confidence            3444444 55555555555544 444444 4555555555555444 44555555555555444

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=97.75  E-value=2.6e-05  Score=73.88  Aligned_cols=59  Identities=15%  Similarity=0.004  Sum_probs=47.1

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccc--cccccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIER--LWHCVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~--LP~~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|++++|.+..+|. .+ ++.+|++|+|++|.++.  +|.++++|++|++|+++
T Consensus        94 ~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~  157 (570)
T 2z63_A           94 GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLS  157 (570)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECT
T ss_pred             hhhcCccccccccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCc
Confidence            45666 888888888888888876 46 68888888888888875  68888888888888764

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=97.75  E-value=1e-05  Score=76.06  Aligned_cols=59  Identities=12%  Similarity=0.130  Sum_probs=49.6

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccc--cccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIER--LWHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~--LP~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|.. .+.+|++|+|++|.++.  +|..+++|++|++|+++
T Consensus        62 ~~~~~~l~~L~~L~Ls~N~l~~lp~~-~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~  123 (520)
T 2z7x_B           62 ISVFKFNQELEYLDLSHNKLVKISCH-PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLS  123 (520)
T ss_dssp             GGGGTTCTTCCEEECCSSCCCEEECC-CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEE
T ss_pred             hHHhhcccCCCEEecCCCceeecCcc-ccCCccEEeccCCccccccchhhhccCCcceEEEec
Confidence            566777 8899999999998888888 88899999999998886  56888999999888764

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=97.75  E-value=3.7e-07  Score=74.86  Aligned_cols=59  Identities=10%  Similarity=-0.035  Sum_probs=37.7

Q ss_pred             cCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +| .+.. ++|++|++++|.+..+|..+ .+.+|++|+|++|.++.+| +++++.+|++|+++
T Consensus        63 l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l~  123 (198)
T 1ds9_A           63 IS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMS  123 (198)
T ss_dssp             CC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEEES
T ss_pred             cc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCC-ccccCCCCCEEECC
Confidence            44 4444 66777777777666666655 4566777777777666666 46666666666553

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=97.75  E-value=2.3e-05  Score=70.28  Aligned_cols=62  Identities=8%  Similarity=0.003  Sum_probs=40.8

Q ss_pred             ccCC-CCCC-CceeEEeeeCCCCCCCC-CCC-CCCCceEEEcCCCCcccccccc----ccCccccccccC
Q 021517          249 SYLQ-DPGF-AEVKYLHWYGYPLKSLP-SNL-SAKKLVLVEVPDSDIERLWHCV----KVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~-~~~~-~~Lr~L~l~~~~i~~lP-~~i-~L~~L~~L~L~~~~i~~LP~~i----~~L~~L~~l~i~  310 (311)
                      .+|. .+.. .+|++|+|++|.+..++ ..+ +|.+|++|+|++|.|+.+|..+    .++.+|++|+++
T Consensus       102 ~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~  171 (361)
T 2xot_A          102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLS  171 (361)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECC
T ss_pred             cCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECC
Confidence            4444 3444 77777777777777664 445 5777777777777777777765    567777777664

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=97.74  E-value=3.5e-05  Score=66.19  Aligned_cols=62  Identities=15%  Similarity=0.188  Sum_probs=46.8

Q ss_pred             ccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          249 SYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      .+|.. +.. ++|++|++++|.+..+|..+  ++.+|++|+|++|+++.+|.. ++++++|++|+++
T Consensus       123 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~  189 (272)
T 3rfs_A          123 SLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLY  189 (272)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             ccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECC
Confidence            44443 455 88888888888888887764  588888888888888888765 4778888888764

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=97.73  E-value=1.3e-05  Score=79.20  Aligned_cols=62  Identities=10%  Similarity=0.167  Sum_probs=46.4

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..++. +.|++|+|++|.+. .+|.++ +|.+|++|||++|++. .+|.++++|++|++|+++
T Consensus       647 ~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls  712 (768)
T 3rgz_A          647 YIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS  712 (768)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECC
T ss_pred             cCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECc
Confidence            55666666 77777888777765 777777 6778888888877776 677777888877777764

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=97.73  E-value=1.8e-05  Score=75.33  Aligned_cols=59  Identities=14%  Similarity=0.103  Sum_probs=45.0

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccc--cccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLW--HCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP--~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|.. .+.+|++|+|++|.+..+|  ..+++|++|++|+++
T Consensus        93 ~~~~~~l~~L~~L~Ls~N~l~~lp~~-~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~  154 (562)
T 3a79_B           93 FHVFLFNQDLEYLDVSHNRLQNISCC-PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLS  154 (562)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCEECSC-CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEE
T ss_pred             HHHhCCCCCCCEEECCCCcCCccCcc-ccccCCEEECCCCCccccCchHhhcccCcccEEecC
Confidence            455666 7888888888888888877 7888888888888877765  678888888877654

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=97.73  E-value=1.8e-05  Score=74.79  Aligned_cols=58  Identities=14%  Similarity=0.040  Sum_probs=35.0

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccc--cccccccCcccccccc
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIER--LWHCVKVCISYYTCGI  309 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~--LP~~i~~L~~L~~l~i  309 (311)
                      ..+.. ++|++|+|++|.+..+|.. + ++.+|++|+|++|.++.  .|..+++|++|++|++
T Consensus        68 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L  130 (549)
T 2z81_A           68 DAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRI  130 (549)
T ss_dssp             TTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEE
T ss_pred             hhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEEC
Confidence            34444 6666666666666666654 4 56666666666666663  3455666666666654

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=97.73  E-value=1.9e-05  Score=69.84  Aligned_cols=59  Identities=8%  Similarity=-0.016  Sum_probs=40.8

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|++++|.+..+|. .+ .+.+|++|+|++|.++.+|.++.++++|++|+++
T Consensus       211 ~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~  272 (332)
T 2ft3_A          211 EDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLH  272 (332)
T ss_dssp             TSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBCCTTGGGCTTCCEEECC
T ss_pred             HHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCeecChhhhcCccCCEEECC
Confidence            44555 677777777777776665 34 5777777777777777777777777777777654

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=97.72  E-value=3.9e-05  Score=65.86  Aligned_cols=63  Identities=13%  Similarity=0.030  Sum_probs=52.7

Q ss_pred             cccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          248 ISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ..+|.. +.. ++|++|++++|.+..+|...  ++.+|++|+|++|.++.+|.. +.++++|++|++.
T Consensus       146 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  213 (272)
T 3rfs_A          146 QSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH  213 (272)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEcc
Confidence            345554 455 99999999999999998875  699999999999999999876 5889999998874

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=97.72  E-value=1.5e-05  Score=71.17  Aligned_cols=56  Identities=11%  Similarity=0.030  Sum_probs=30.4

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccccc--ccccCcccccccc
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGI  309 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i  309 (311)
                      +.. ++|++|++++|.+..+|.. + ++.+|++|+|++|.++.+|.  .+.++++|++|++
T Consensus        96 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l  156 (353)
T 2z80_A           96 FSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRV  156 (353)
T ss_dssp             TTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEE
T ss_pred             cCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEEC
Confidence            444 5555555555555555554 3 45555555555555555554  4555555555543

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=97.72  E-value=1.8e-05  Score=75.18  Aligned_cols=60  Identities=17%  Similarity=0.231  Sum_probs=51.0

Q ss_pred             ccC-CCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYL-QDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp-~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+| ..+.. ++|++|+|++|.+..+ |..+ +|.+|++|+|++|.++.+|..  .|.+|++|+++
T Consensus        66 ~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~Ls  129 (562)
T 3a79_B           66 ELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLRHLDLS  129 (562)
T ss_dssp             CCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCSEEECC
T ss_pred             ccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcCCccCcc--ccccCCEEECC
Confidence            344 46777 9999999999999888 4557 799999999999999999988  89999999875

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=97.72  E-value=3.6e-05  Score=68.00  Aligned_cols=55  Identities=11%  Similarity=0.039  Sum_probs=31.2

Q ss_pred             CCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+.. ++|++|++++|.+..+ |..+ ++.+|++|+|++|.++.+|..+.  .+|++|++
T Consensus        73 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~L~l  130 (332)
T 2ft3_A           73 DFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVELRI  130 (332)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCCEEEC
T ss_pred             HhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcCCccCcccc--ccCCEEEC
Confidence            4444 6666666666665555 3344 46666666666666666665554  45555544

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=97.71  E-value=2.6e-05  Score=68.39  Aligned_cols=59  Identities=10%  Similarity=0.114  Sum_probs=43.7

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .++. +.. ++|++|++++|.+..+| .+ ++.+|++|+|++|.++.+|. +.++++|++|+++
T Consensus        77 ~~~~-~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~  137 (308)
T 1h6u_A           77 DLAP-LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLD  137 (308)
T ss_dssp             CCGG-GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECTTSCCCCCGG-GTTCTTCCEEECC
T ss_pred             CChh-HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEECCCCCCCCchh-hcCCCCCCEEECC
Confidence            4444 555 78888888888877776 45 68888888888888888775 7888888877764

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=97.71  E-value=1.6e-05  Score=69.73  Aligned_cols=62  Identities=10%  Similarity=0.037  Sum_probs=36.1

Q ss_pred             ccCCCC--CC-CceeEEeeeCCCCCCCCCCC-CC-----CCceEEEcCCCCccccc-cccccCccccccccC
Q 021517          249 SYLQDP--GF-AEVKYLHWYGYPLKSLPSNL-SA-----KKLVLVEVPDSDIERLW-HCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~--~~-~~Lr~L~l~~~~i~~lP~~i-~L-----~~L~~L~L~~~~i~~LP-~~i~~L~~L~~l~i~  310 (311)
                      .+|..+  .. ++|++|+|++|.+..+|..+ .+     .+|++|+|++|.+..+| ..++++++|++|+++
T Consensus       110 ~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls  181 (312)
T 1wwl_A          110 TAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLS  181 (312)
T ss_dssp             CCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECC
T ss_pred             hhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECC
Confidence            344444  33 66666666666666655555 34     56666666666666665 456666666666553

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=97.70  E-value=4.1e-05  Score=65.75  Aligned_cols=53  Identities=17%  Similarity=0.084  Sum_probs=28.5

Q ss_pred             CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccc--cccccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIER--LWHCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~--LP~~i~~L~~L~~l~i  309 (311)
                      ++|++|++++|.+..+|. .+ ++.+|++|+|++|.++.  +|..++++++|++|++
T Consensus       100 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~L  156 (276)
T 2z62_A          100 SSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL  156 (276)
T ss_dssp             TTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEEC
T ss_pred             ccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEEC
Confidence            555555555555555544 23 45555555555555554  4555555555555544

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.70  E-value=2.3e-05  Score=69.72  Aligned_cols=63  Identities=11%  Similarity=-0.048  Sum_probs=55.5

Q ss_pred             ccccCCCCCC-CceeEEeeeC-CCCCCCCC-CC-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYG-YPLKSLPS-NL-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~-~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ...+|. +.. .+|++|+|++ +.+..+|. .+ +|.+|++|+|++|+|+.+|. .+.+|.+|++|+|+
T Consensus        21 l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           21 LDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             CTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            456888 877 8999999997 89999995 56 79999999999999999987 46999999999886

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=97.69  E-value=4.5e-05  Score=68.96  Aligned_cols=57  Identities=12%  Similarity=0.142  Sum_probs=33.4

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccccccc-ccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i  309 (311)
                      .+.. ++|++|+|++|.+..+|.. + ++.+|++|+|++|.++.+|.++ +++++|++|++
T Consensus        88 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L  148 (390)
T 3o6n_A           88 AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSM  148 (390)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             hccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEEC
Confidence            4444 6666666666666655443 3 4666666666666666666554 55666666554

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=97.68  E-value=4.9e-05  Score=65.60  Aligned_cols=57  Identities=14%  Similarity=0.127  Sum_probs=39.2

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+|.. + ++.+|++|+|++|.+..+ |..+.++++|++|+++
T Consensus       149 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  209 (285)
T 1ozn_A          149 FRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF  209 (285)
T ss_dssp             TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             hccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCC
Confidence            444 6777777777777777664 4 577777777777777666 6667777777777654

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=97.68  E-value=3.3e-05  Score=68.92  Aligned_cols=63  Identities=11%  Similarity=0.050  Sum_probs=53.7

Q ss_pred             cccCC-CCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          248 ISYLQ-DPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~-~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ..+|. .+.. ++|++|++++|.+..++. .+ ++.+|++|+|++|+++.+|.+ ++++++|++|+++
T Consensus        65 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  132 (353)
T 2z80_A           65 TYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL  132 (353)
T ss_dssp             CEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECT
T ss_pred             cccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECC
Confidence            34555 5666 999999999999998865 57 799999999999999999987 8899999999875

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=97.68  E-value=4.2e-05  Score=68.59  Aligned_cols=53  Identities=11%  Similarity=0.139  Sum_probs=28.7

Q ss_pred             CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccc-ccccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i  309 (311)
                      ++|++|+|++|.+..+|.. + +|.+|++|+|++|.|..+ |..+.+|.+|++|++
T Consensus        88 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L  143 (361)
T 2xot_A           88 PNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYL  143 (361)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEEC
Confidence            5555555555555555543 2 455555555555555555 344555555555544

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=97.68  E-value=4.8e-05  Score=65.65  Aligned_cols=60  Identities=15%  Similarity=0.051  Sum_probs=48.8

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|++++|.+..+|.. + ++.+|++|+|++|+++.+|.. +.++++|++|+++
T Consensus       122 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  185 (285)
T 1ozn_A          122 PGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLH  185 (285)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             HhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECC
Confidence            455666 8899999999888888876 4 688899999999888888874 7888888888765

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=97.67  E-value=3.3e-05  Score=73.23  Aligned_cols=60  Identities=12%  Similarity=0.068  Sum_probs=49.4

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|. .+ ++.+|++|+|++|+++.+|. .+++|++|++|+++
T Consensus        69 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~  132 (570)
T 2z63_A           69 DGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVA  132 (570)
T ss_dssp             TTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECC
T ss_pred             cccccCchhCCEEeCcCCcCCccCHhhhcCccccccccccccccccCCCccccccccccEEecC
Confidence            345666 899999999999888874 56 69999999999999998886 68899999988875

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=97.67  E-value=2.5e-05  Score=73.31  Aligned_cols=57  Identities=9%  Similarity=0.061  Sum_probs=43.8

Q ss_pred             CCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|+|++|.+..+ |..+ +|.+|++|+|++|+|+.+|..  .+.+|++|+++
T Consensus        39 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~L~   98 (520)
T 2z7x_B           39 SDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHLDLS   98 (520)
T ss_dssp             HHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSEEECC
T ss_pred             hhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCceeecCcc--ccCCccEEecc
Confidence            34555 7888888888888777 5566 688888888888888888877  78888887764

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=97.67  E-value=3.3e-05  Score=71.71  Aligned_cols=60  Identities=12%  Similarity=0.040  Sum_probs=44.1

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+|..+  ++.+|++|+|++|.+..+ |..+.++.+|++|+++
T Consensus        73 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~  136 (477)
T 2id5_A           73 PGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVG  136 (477)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEEC
T ss_pred             hhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECC
Confidence            556666 78888888888887777654  578888888888877776 4467777788777664

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=97.67  E-value=2.3e-05  Score=69.18  Aligned_cols=57  Identities=5%  Similarity=-0.053  Sum_probs=32.2

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+.. ++|++|++++|.+..+|. .+ ++.+|++|+|++|.+..+|.++.++++|++|++
T Consensus       211 ~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l  270 (330)
T 1xku_A          211 SLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYL  270 (330)
T ss_dssp             GGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEEC
T ss_pred             HhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCccCChhhccCCCcCEEEC
Confidence            3444 556666666665555544 33 455666666666666666665666666655554

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=97.67  E-value=2.4e-05  Score=75.69  Aligned_cols=61  Identities=20%  Similarity=0.171  Sum_probs=48.1

Q ss_pred             cCCCCC--C-CceeEEeeeCCC-CCCCCCCC-CCCCceEEEcCCCC-cc--ccccccccC------ccccccccC
Q 021517          250 YLQDPG--F-AEVKYLHWYGYP-LKSLPSNL-SAKKLVLVEVPDSD-IE--RLWHCVKVC------ISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~--~-~~Lr~L~l~~~~-i~~lP~~i-~L~~L~~L~L~~~~-i~--~LP~~i~~L------~~L~~l~i~  310 (311)
                      +|..++  . ++|++|+|++|. ...+|..+ +|.+|++|+|++|+ ++  .+|.++++|      ++|++|+++
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~  313 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIG  313 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECC
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECC
Confidence            788887  6 888888888887 45788888 68888888888886 77  488888776      788887764

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=97.66  E-value=3.2e-05  Score=66.23  Aligned_cols=58  Identities=19%  Similarity=0.123  Sum_probs=39.8

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+| .+.. ++|++|+|++|.+..+|. + ++.+|++|+|++|+++.+|....  .+|++|++.
T Consensus        55 ~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~N~l~~l~~~~~--~~L~~L~L~  114 (263)
T 1xeu_A           55 SLA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNRNRLKNLNGIPS--ACLSRLFLD  114 (263)
T ss_dssp             CCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSCCSCCTTCCC--SSCCEEECC
T ss_pred             cch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCCCccCCcCcccc--CcccEEEcc
Confidence            344 3444 777777777777777776 6 67777777777777777775333  667766654

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=97.66  E-value=3.3e-05  Score=73.92  Aligned_cols=60  Identities=12%  Similarity=-0.007  Sum_probs=38.1

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+ |..+ ++.+|++|+|++|.++.+ |..++++++|++|+++
T Consensus        74 ~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~  137 (606)
T 3t6q_A           74 EDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLG  137 (606)
T ss_dssp             TTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECC
T ss_pred             hhhccCccccCeeeCCCCcccccChhhhcccccccEeeccccCcccCCcchhccCCcccEEECC
Confidence            445555 6677777776666554 4455 566777777776666666 4566666777666653

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=97.66  E-value=3.8e-05  Score=65.93  Aligned_cols=58  Identities=12%  Similarity=0.099  Sum_probs=39.8

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      .+.. ++|++|++++|.+..+|. .+ ++.+|++|++++|++..+|. .++++++|++|+++
T Consensus        71 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  132 (276)
T 2z62_A           71 AYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVA  132 (276)
T ss_dssp             TTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECC
T ss_pred             HccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECc
Confidence            4555 777777777777776663 34 57777777777777777765 57777777777654

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=97.65  E-value=3.7e-05  Score=66.82  Aligned_cols=55  Identities=16%  Similarity=0.068  Sum_probs=39.1

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+|. + ++.+|++|+|++|.++.+| ++.++++|++|+++
T Consensus        86 l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~  142 (291)
T 1h6t_A           86 LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLG  142 (291)
T ss_dssp             GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECC
T ss_pred             cccCCCCCEEECCCCcCCCChh-hccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEcc
Confidence            444 777777777777777665 5 6777777777777777764 57777777777664

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=97.65  E-value=4.1e-05  Score=66.74  Aligned_cols=53  Identities=11%  Similarity=0.018  Sum_probs=23.8

Q ss_pred             CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccc-ccccccC-cccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERL-WHCVKVC-ISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~L-P~~i~~L-~~L~~l~i  309 (311)
                      ++|++|++++|.+..+|.. + ++.+|++|+|++|.+... |..+.++ .+|++|++
T Consensus       199 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L  255 (306)
T 2z66_A          199 SSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL  255 (306)
T ss_dssp             TTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEEC
T ss_pred             CCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEc
Confidence            4455555555544444432 2 344555555555444432 2334444 24444443

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=97.64  E-value=3.4e-05  Score=76.31  Aligned_cols=62  Identities=13%  Similarity=0.062  Sum_probs=56.6

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|..++. ..|++|||++|.+. .+|..| +|..|++|+|++|.+. .+|.++++|++|++|+++
T Consensus       623 ~~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs  688 (768)
T 3rgz_A          623 HTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLS  688 (768)
T ss_dssp             ECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECC
T ss_pred             cCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECC
Confidence            45667777 99999999999986 899999 8999999999999998 899999999999999986

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=97.64  E-value=3.9e-05  Score=76.64  Aligned_cols=60  Identities=7%  Similarity=-0.020  Sum_probs=37.2

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccc-cccc--cccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIER-LWHC--VKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~-LP~~--i~~L~~L~~l~i~  310 (311)
                      |..+.. ++|++|+|++|.+..+ |..+ +|.+|++|+|++|.+.. +|.+  +++|++|++|+++
T Consensus        66 ~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls  131 (844)
T 3j0a_A           66 KEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLS  131 (844)
T ss_dssp             TTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEE
T ss_pred             HHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECC
Confidence            445555 6677777776666655 5555 56667777776666654 4444  6666666666553

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=97.63  E-value=4.8e-05  Score=66.69  Aligned_cols=56  Identities=11%  Similarity=0.018  Sum_probs=47.6

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+.. ++|++|++++|.+..+|. + ++.+|++|+|++|.+..+|. ++++.+|++|+++
T Consensus       102 ~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~  159 (308)
T 1h6u_A          102 AIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIG  159 (308)
T ss_dssp             GGTTCTTCCEEECTTSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECC
T ss_pred             hhcCCCCCCEEECCCCCCCCchh-hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEcc
Confidence            3555 899999999999988876 6 79999999999999999887 8888999888775

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.61  E-value=6.1e-05  Score=72.21  Aligned_cols=57  Identities=12%  Similarity=0.141  Sum_probs=32.0

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccccc-ccCcccccccc
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGI  309 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i  309 (311)
                      .+.. ++|++|+|++|.+..+|+..  ++.+|++|+|++|.+..+|.++ +++++|++|++
T Consensus        94 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L  154 (597)
T 3oja_B           94 AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSM  154 (597)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             HhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEe
Confidence            4444 55666666666555555443  4556666666666666665553 55555555554

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=97.61  E-value=5e-05  Score=70.15  Aligned_cols=59  Identities=17%  Similarity=0.063  Sum_probs=46.4

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|+|++|.+..+|...  ++.+|++|+|++|.++.+|. .+.++++|++|++.
T Consensus       117 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  179 (452)
T 3zyi_A          117 GAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLG  179 (452)
T ss_dssp             TTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECC
T ss_pred             hhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCC
Confidence            45555 88888888888888888764  58888888888888888876 57788888887764

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=97.61  E-value=4.6e-05  Score=67.59  Aligned_cols=55  Identities=9%  Similarity=0.065  Sum_probs=36.1

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+| .+ ++.+|++|+|++|.+..+|. +.++++|++|++.
T Consensus        84 ~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~  140 (347)
T 4fmz_A           84 LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLG  140 (347)
T ss_dssp             GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECT
T ss_pred             hhcCCcCCEEEccCCcccCch-HHcCCCcCCEEECcCCcccCchh-hccCCceeEEECC
Confidence            444 66777777777666665 34 57777777777777777665 6666677666553

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.59  E-value=3.5e-05  Score=72.11  Aligned_cols=62  Identities=11%  Similarity=0.116  Sum_probs=49.2

Q ss_pred             ccCCCCCCCceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGFAEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|.....++|++|+|++|.+..+|+.+ .+.+|++|+|++|.+..+|..++.+++|+++++.
T Consensus       183 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l~  245 (487)
T 3oja_A          183 DVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLR  245 (487)
T ss_dssp             EEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECT
T ss_pred             cccccccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecCCcCcccchhhccCCCCCEEEcC
Confidence            3344333388888888888888888888 7888888888888888888888888888888764

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=97.59  E-value=5.3e-05  Score=69.78  Aligned_cols=58  Identities=9%  Similarity=-0.004  Sum_probs=33.8

Q ss_pred             CCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCccc-cccc--cccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIER-LWHC--VKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~-LP~~--i~~L~~L~~l~i~  310 (311)
                      .+.. ++|++|+|++|.+..+ |..+ ++.+|++|+|++|++.. .|..  ++++++|++|+++
T Consensus        74 ~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~  137 (455)
T 3v47_A           74 TFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLR  137 (455)
T ss_dssp             TTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECC
T ss_pred             cccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECC
Confidence            3444 6666666666666554 4455 56666666666666654 3333  6666666666553

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=97.59  E-value=4.7e-05  Score=70.66  Aligned_cols=54  Identities=7%  Similarity=0.031  Sum_probs=36.4

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      +.. ++|++|++++|.+..+|. + ++.+|++|+|++|.++.+|. +.++++|++|++
T Consensus        86 ~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l  141 (466)
T 1o6v_A           86 LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLEL  141 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEE
T ss_pred             hhccccCCEEECCCCccccChh-hcCCCCCCEEECCCCCCCCChH-HcCCCCCCEEEC
Confidence            444 667777777776666665 5 57777777777777777765 667777776655

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=97.59  E-value=6.7e-05  Score=65.75  Aligned_cols=55  Identities=15%  Similarity=0.126  Sum_probs=50.1

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|+|++|.++.+|..+. .+|++|+|++|+|+.+|. +.++++|++|++.
T Consensus       249 ~~~l~~L~~L~Ls~N~l~~ip~~~~-~~L~~L~Ls~N~l~~~p~-~~~l~~L~~L~L~  304 (312)
T 1wwl_A          249 CDWPSQLNSLNLSFTGLKQVPKGLP-AKLSVLDLSYNRLDRNPS-PDELPQVGNLSLK  304 (312)
T ss_dssp             CCCCTTCCEEECTTSCCSSCCSSCC-SEEEEEECCSSCCCSCCC-TTTSCEEEEEECT
T ss_pred             hhhcCCCCEEECCCCccChhhhhcc-CCceEEECCCCCCCCChh-HhhCCCCCEEecc
Confidence            344 899999999999999999887 899999999999999988 9999999999875

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=97.58  E-value=7e-05  Score=69.54  Aligned_cols=53  Identities=15%  Similarity=0.057  Sum_probs=31.3

Q ss_pred             CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccc-cccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLW-HCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP-~~i~~L~~L~~l~i  309 (311)
                      ++|++|+|++|.+..++. .+ ++.+|++|+|++|.+..++ ..+.++.+|++|++
T Consensus       104 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  159 (477)
T 2id5_A          104 SNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTL  159 (477)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEE
T ss_pred             CCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEEC
Confidence            666666666666655433 34 4666666666666665553 35566666666554

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=97.58  E-value=7.4e-05  Score=69.00  Aligned_cols=63  Identities=11%  Similarity=0.152  Sum_probs=45.7

Q ss_pred             cccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCC-Ccccccc-ccccCccccccccC
Q 021517          248 ISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDS-DIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~-~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ..+|.. +.. ++|++|+|++|.+..+|...  ++.+|++|+|+++ .+..+|. .+.++.+|++|+++
T Consensus       136 ~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~  204 (452)
T 3zyi_A          136 TVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLG  204 (452)
T ss_dssp             SBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECT
T ss_pred             CccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECC
Confidence            345544 555 78888888888888887744  6888888888874 7777776 47778888877764

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=97.56  E-value=4.4e-05  Score=66.52  Aligned_cols=62  Identities=15%  Similarity=0.057  Sum_probs=51.5

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      .+|..+.. ++|++|++++|.+..+ |..+ ++.+|++|+|++|.+..+|. .+.++.+|++|+++
T Consensus       166 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  231 (306)
T 2z66_A          166 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYS  231 (306)
T ss_dssp             EECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECT
T ss_pred             cchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECC
Confidence            36777777 8999999999998877 4566 79999999999999988876 67888899988775

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=97.56  E-value=9e-05  Score=70.65  Aligned_cols=59  Identities=12%  Similarity=0.026  Sum_probs=49.4

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCCCC-CCCCc-------eEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPSNL-SAKKL-------VLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~~i-~L~~L-------~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|. +. ++|++|+|++|.++.+|. + +  +|       ++|+|++|.|+.+|.++.+|++|++|++.
T Consensus       172 L~~lp~-l~-~~L~~L~Ls~N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~  238 (571)
T 3cvr_A          172 LTFLPE-LP-ESLEALDVSTNLLESLPA-VPV--RNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILE  238 (571)
T ss_dssp             CSCCCC-CC-TTCCEEECCSSCCSSCCC-CC----------CCEEEECCSSCCCCCCGGGGGSCTTEEEECC
T ss_pred             CCCcch-hh-CCCCEEECcCCCCCchhh-HHH--hhhcccccceEEecCCCcceecCHHHhcCCCCCEEEee
Confidence            344666 44 899999999999999999 7 4  66       99999999999999999999999999875

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=97.55  E-value=3.1e-05  Score=75.18  Aligned_cols=63  Identities=8%  Similarity=0.092  Sum_probs=43.0

Q ss_pred             cccCC-CCCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccc-cccccCccccccccC
Q 021517          248 ISYLQ-DPGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLW-HCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~-~~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP-~~i~~L~~L~~l~i~  310 (311)
                      ..+|. .+.. ++|++|+|++|.+..+|. .+ ++.+|++|+|++|.+...| ..++++++|++|++.
T Consensus        86 ~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  153 (680)
T 1ziw_A           86 SQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLS  153 (680)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECC
T ss_pred             CccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEcc
Confidence            34554 3555 777777777777777764 45 6777777777777766654 456777777777654

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=97.54  E-value=4.5e-05  Score=76.29  Aligned_cols=61  Identities=13%  Similarity=0.083  Sum_probs=33.8

Q ss_pred             cCCCCC--C-CceeEEeeeCCC-CCCCCCCC-CCCCceEEEcCCCC-ccc--cccccccCc-------cccccccC
Q 021517          250 YLQDPG--F-AEVKYLHWYGYP-LKSLPSNL-SAKKLVLVEVPDSD-IER--LWHCVKVCI-------SYYTCGIF  310 (311)
Q Consensus       250 lp~~~~--~-~~Lr~L~l~~~~-i~~lP~~i-~L~~L~~L~L~~~~-i~~--LP~~i~~L~-------~L~~l~i~  310 (311)
                      +|..++  . ++|++|+|++|. ...+|..+ +|.+|++|+|++|+ ++.  +|.++++|.       +|++|+++
T Consensus       481 iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls  556 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMG  556 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEee
Confidence            555554  4 556666666555 34555555 46666666666554 552  555555554       55555543

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=97.53  E-value=6.8e-05  Score=72.51  Aligned_cols=52  Identities=12%  Similarity=0.064  Sum_probs=27.9

Q ss_pred             ceeEEeeeCCCCCCCCCCC---CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          258 EVKYLHWYGYPLKSLPSNL---SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       258 ~Lr~L~l~~~~i~~lP~~i---~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      +|++|+|++|.+..+|..+   .+.+|++|+|++|.++.+|.++.++++|++|++
T Consensus       489 ~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L  543 (636)
T 4eco_A          489 LLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGI  543 (636)
T ss_dssp             GCCEEECCSSCCCBCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCSSCCEEEC
T ss_pred             CccEEECcCCcCCccChhhhhccCCCcCEEECCCCCCCCcChhhhcCCCCCEEEC
Confidence            5555555555555555544   355555555555555555555555555555544

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=97.52  E-value=4.1e-05  Score=72.33  Aligned_cols=53  Identities=13%  Similarity=0.139  Sum_probs=24.9

Q ss_pred             CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccccc-cccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i  309 (311)
                      ++|++|++++|.+..+|. .+ ++.+|++|+|++|.+..+|.. +++|++|++|++
T Consensus        50 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  105 (549)
T 2z81_A           50 ANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL  105 (549)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEEC
T ss_pred             CcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEEC
Confidence            445555555544444442 23 344555555555444444443 444444444443

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=97.52  E-value=6.3e-05  Score=63.13  Aligned_cols=64  Identities=14%  Similarity=0.076  Sum_probs=49.9

Q ss_pred             ccccCC-CCCC-CceeEEeeeCCC-CCCCCCC-C-CCCCceEEEcCC-CCcccccc-ccccCccccccccC
Q 021517          247 KISYLQ-DPGF-AEVKYLHWYGYP-LKSLPSN-L-SAKKLVLVEVPD-SDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~-~~~~-~~Lr~L~l~~~~-i~~lP~~-i-~L~~L~~L~L~~-~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ...+|. .+.. ++|++|++++++ ++.+|.. + ++.+|++|+|++ +.++.+|. .+.++++|++|++.
T Consensus        43 l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~  113 (239)
T 2xwt_C           43 LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIF  113 (239)
T ss_dssp             CSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEE
T ss_pred             ceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCC
Confidence            345555 4555 899999999997 8888874 4 789999999988 78988885 56788888888763

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=97.50  E-value=4.8e-05  Score=75.97  Aligned_cols=61  Identities=13%  Similarity=0.053  Sum_probs=44.5

Q ss_pred             cCCCCCC-CceeEEeeeCCCCCC-CCCC--C-CCCCceEEEcCCCCccccc--cccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLKS-LPSN--L-SAKKLVLVEVPDSDIERLW--HCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~~-lP~~--i-~L~~L~~L~L~~~~i~~LP--~~i~~L~~L~~l~i~  310 (311)
                      .|..+.. ++|++|+|++|.+.. +|..  + +|.+|++|+|++|.+..++  ..+++|++|++|+++
T Consensus        89 ~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls  156 (844)
T 3j0a_A           89 HPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFS  156 (844)
T ss_dssp             CTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEE
T ss_pred             CHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECC
Confidence            3666777 888888888888764 5554  5 6888888888888777764  467888888877653

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=97.49  E-value=0.0001  Score=70.44  Aligned_cols=57  Identities=19%  Similarity=0.106  Sum_probs=44.2

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+|..+ ++.+|++|+|++|.+..+ |..+.++++|++|++.
T Consensus       274 ~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  333 (606)
T 3t6q_A          274 FHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIK  333 (606)
T ss_dssp             TTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECC
T ss_pred             hccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECC
Confidence            555 88888888888888888888 688888888888887776 4567777777777654

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=97.49  E-value=5.8e-05  Score=66.35  Aligned_cols=54  Identities=6%  Similarity=-0.023  Sum_probs=49.8

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|++++|.+..+|....+.+|++|+|++|.++.+|.++..+++|++|+++
T Consensus       169 ~~L~~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~  222 (317)
T 3o53_A          169 DTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLR  222 (317)
T ss_dssp             TTCCEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECT
T ss_pred             CcCCEEECCCCcCcccccccccccCCEEECCCCcCCcchhhhcccCcccEEECc
Confidence            889999999999999987778999999999999999999999999999999875

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.49  E-value=0.0061  Score=54.54  Aligned_cols=172  Identities=16%  Similarity=0.058  Sum_probs=101.9

Q ss_pred             EEEEEeCCCCHHH-------HHHHHhcCCCCCCCcEEEEEeCchhHHH----hc--CCCceEEcCCCCHHHHHHHHHHhh
Q 021517            3 VLIVFDDVTCFSQ-------IESLIGSLDWLTPVSRIIITTRNKQVLR----NW--GVRKIYEMKALEYHHAIRLFSRHA   69 (311)
Q Consensus         3 ~LlVLDdv~~~~~-------~~~l~~~~~~~~~gs~IlvTTR~~~va~----~~--~~~~~~~l~~L~~~~a~~Lf~~~a   69 (311)
                      .+|||||++....       +..+....    .+..||+||+......    ..  .....+.+++++.++..++|...+
T Consensus       135 ~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~  210 (384)
T 2qby_B          135 AIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYA  210 (384)
T ss_dssp             EEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHH
T ss_pred             CEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHH
Confidence            3899999986543       22333222    6778999998753211    11  112389999999999999999875


Q ss_pred             c---CCCCCCccHHHHHHHHHHHhC---CCch-HHHHHHHHh--c---c-ccHHHHHHHHHHHhccCcccHHHHHhhhcc
Q 021517           70 F---KQNHPDVGYEELSCKVMKYAQ---GVPL-ALKVLGCFL--H---K-REKEVWESATDKLQRILYPSILEVLKISYD  136 (311)
Q Consensus        70 ~---~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~~~~L--~---~-~~~~~w~~~~~~l~~~~~~~i~~~l~~sy~  136 (311)
                      .   .....++   +....+++.|+   |.|. |+..+....  +   . -+.+.+..+++...       ...+.-++.
T Consensus       211 ~~~~~~~~~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i~~~~v~~~~~~~~-------~~~~~~~~~  280 (384)
T 2qby_B          211 EYGLIKGTYDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKEHVDKAIVDYE-------QERLIEAVK  280 (384)
T ss_dssp             HHTSCTTSCCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCCCHHHHHHHHHHHH-------HHHHHHHHH
T ss_pred             HhhcccCCcCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh-------cchHHHHHH
Confidence            3   2222233   44566777777   8776 444333322  2   1 26677777666542       234566778


Q ss_pred             cCchhhhhhhhhhhcCCCCcCH-HHHHHHHHHcCCCc------ccchHHHhhcccceec
Q 021517          137 SLDDKEKNIFLDVACFFQGEDV-DLVMKFFNASGFYP------EIGMSVLVDKSLIAID  188 (311)
Q Consensus       137 ~L~~~~k~cfl~ls~fp~~~~~-~~l~~~w~a~g~~~------~~~~~~L~~~sl~~~~  188 (311)
                      .|+++.+..+..++....+-+. +....+-...|...      ..+++.|.+.+++...
T Consensus       281 ~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          281 ALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             SSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             cCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCEEEE
Confidence            8888888777766661110111 12222222333221      3457889999999875

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=97.48  E-value=7.2e-05  Score=68.83  Aligned_cols=59  Identities=15%  Similarity=0.102  Sum_probs=45.3

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|+|++|.+..+|.. + ++.+|++|+|++|.|..+|. .+.++.+|++|++.
T Consensus       106 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~  168 (440)
T 3zyj_A          106 GAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLG  168 (440)
T ss_dssp             GGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECC
T ss_pred             hhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCC
Confidence            34555 7888888888888888874 4 68888888888888888876 57778888887764

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=97.48  E-value=1.5e-06  Score=71.23  Aligned_cols=61  Identities=8%  Similarity=-0.046  Sum_probs=38.2

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccc--ccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i~  310 (311)
                      .+|..+.. ++|++|++++|.+..+| .+ ++.+|++|+|++|.+..+|.  .+.++++|+++++.
T Consensus        84 ~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~  148 (198)
T 1ds9_A           84 KIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLA  148 (198)
T ss_dssp             SCSSHHHHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEEC
T ss_pred             cccchhhcCCcCCEEECcCCcCCcCC-ccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEec
Confidence            34444444 66777777777666666 45 56667777777766666654  56666666666553

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=97.48  E-value=6.8e-05  Score=69.53  Aligned_cols=53  Identities=11%  Similarity=0.122  Sum_probs=31.7

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccc
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCG  308 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~  308 (311)
                      +.. ++|++|++++|.+..+|. + ++.+|++|+|++|.+..+|. ++++.+|++|.
T Consensus       108 ~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~  162 (466)
T 1o6v_A          108 LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELSSNTISDISA-LSGLTSLQQLS  162 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEEEEEEECCCGG-GTTCTTCSEEE
T ss_pred             hcCCCCCCEEECCCCCCCCChH-HcCCCCCCEEECCCCccCCChh-hccCCcccEee
Confidence            444 666666666666666654 4 56666666666666666553 56666666554

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=97.48  E-value=5.7e-05  Score=75.51  Aligned_cols=53  Identities=4%  Similarity=0.046  Sum_probs=24.5

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCC-ceEEEcCCCCccccccccccCcc--cccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKK-LVLVEVPDSDIERLWHCVKVCIS--YYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~-L~~L~L~~~~i~~LP~~i~~L~~--L~~l~i  309 (311)
                      ++|++|+|++|.+..+|.++ ++.+ |++|+|++|.+..+|..+..+..  |++|++
T Consensus       595 ~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~L  651 (876)
T 4ecn_A          595 VKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDF  651 (876)
T ss_dssp             SEESEEECCSSCCSCCCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEEC
T ss_pred             CcceEEECcCCccccchHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEEC
Confidence            44444444444444444444 3444 44444444444444444444332  444443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=97.48  E-value=8.4e-05  Score=63.60  Aligned_cols=61  Identities=11%  Similarity=-0.085  Sum_probs=51.5

Q ss_pred             ccccCCCCCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|. +.. ++|++|++++|.+..+|.... .+|++|+|++|.++.+| ++.++.+|++|+++
T Consensus        75 i~~~~~-l~~l~~L~~L~L~~N~l~~l~~~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls  136 (263)
T 1xeu_A           75 ISDLSP-LKDLTKLEELSVNRNRLKNLNGIPS-ACLSRLFLDNNELRDTD-SLIHLKNLEILSIR  136 (263)
T ss_dssp             CCCCGG-GTTCSSCCEEECCSSCCSCCTTCCC-SSCCEEECCSSCCSBSG-GGTTCTTCCEEECT
T ss_pred             cCCChh-hccCCCCCEEECCCCccCCcCcccc-CcccEEEccCCccCCCh-hhcCcccccEEECC
Confidence            334555 666 999999999999999987557 89999999999999987 59999999999875

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=97.47  E-value=9.6e-05  Score=68.53  Aligned_cols=53  Identities=15%  Similarity=0.102  Sum_probs=36.2

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+|  + ++.+|++|+|++|.++.+|  ++++++|++|++.
T Consensus        81 ~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~L~~N~l~~l~--~~~l~~L~~L~l~  135 (457)
T 3bz5_A           81 LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLNCA  135 (457)
T ss_dssp             CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEECCSSCCSCCC--CTTCTTCCEEECT
T ss_pred             cccCCCCCEEECcCCCCceee--cCCCCcCCEEECCCCcCCeec--CCCCCcCCEEECC
Confidence            444 67777777777776665  5 5777777777777777765  6777777776653

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=97.46  E-value=0.00014  Score=70.03  Aligned_cols=52  Identities=27%  Similarity=0.203  Sum_probs=47.8

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|++++|.+..+|.  .+.+|++|+|++|+|+.+|.++++|++|++|++.
T Consensus       241 ~~L~~L~Ls~N~L~~lp~--~~~~L~~L~Ls~N~L~~lp~~l~~l~~L~~L~L~  292 (622)
T 3g06_A          241 SELKELMVSGNRLTSLPM--LPSGLLSLSVYRNQLTRLPESLIHLSSETTVNLE  292 (622)
T ss_dssp             TTCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCCSCCGGGGGSCTTCEEECC
T ss_pred             CcCcEEECCCCCCCcCCc--ccccCcEEeCCCCCCCcCCHHHhhccccCEEEec
Confidence            789999999999999988  6788999999999999999999999999999875

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=97.45  E-value=7.6e-05  Score=68.69  Aligned_cols=59  Identities=7%  Similarity=0.015  Sum_probs=37.6

Q ss_pred             CCCCC-CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ..+.. ++|++|+|++|.+..+ |..+ ++.+|++|+|++|+++.+|.++ .++++|++|++.
T Consensus       341 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  403 (455)
T 3v47_A          341 RMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLH  403 (455)
T ss_dssp             GGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             hHhcCcccCCEEECCCCcccccChhhccccccccEEECCCCccccCCHhHhccCCcccEEEcc
Confidence            34444 6677777777766655 4455 5777777777777777776543 566677666653

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=97.45  E-value=0.0001  Score=67.82  Aligned_cols=64  Identities=11%  Similarity=0.098  Sum_probs=49.4

Q ss_pred             ccccCC-CCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCC-Ccccccc-ccccCccccccccC
Q 021517          247 KISYLQ-DPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDS-DIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~-~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~-~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ...+|. .+.. ++|++|+|++|.+..+|...  ++.+|++|+|+++ .+..+|. .+.+|.+|++|+++
T Consensus       124 l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~  193 (440)
T 3zyj_A          124 LTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLA  193 (440)
T ss_dssp             CSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECT
T ss_pred             CCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCC
Confidence            345554 3555 88999999999988888754  6889999999885 7888876 57888888888764

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=97.45  E-value=8.9e-05  Score=71.25  Aligned_cols=55  Identities=15%  Similarity=0.057  Sum_probs=44.6

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|+|++|.+..+| .+ +|.+|++|+|++|.+..+| ++.+|.+|++|+++
T Consensus        83 l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls  139 (605)
T 1m9s_A           83 LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLG  139 (605)
T ss_dssp             GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEECTTSCCCCCG-GGGGCTTCSEEECC
T ss_pred             hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEEecCCCCCCCc-cccCCCccCEEECC
Confidence            444 88888888888888877 56 7888888888888888876 58888888888775

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=97.43  E-value=0.0001  Score=64.06  Aligned_cols=59  Identities=10%  Similarity=0.026  Sum_probs=49.3

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+|. +.. ++|++|++++|.+..+| .+ ++.+|++|+|++|.++.+ ..++++++|++|+++
T Consensus       104 ~~~~-l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~  164 (291)
T 1h6t_A          104 DLSS-LKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLE  164 (291)
T ss_dssp             CGGG-GTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECC
T ss_pred             CChh-hccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEcc
Confidence            3443 566 99999999999999885 45 799999999999999998 479999999998875

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=97.40  E-value=0.00018  Score=69.32  Aligned_cols=38  Identities=24%  Similarity=0.276  Sum_probs=27.2

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCcccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~  296 (311)
                      ++|++|+|++|.++.+|.  .+.+|++|+|++|+++.+|.
T Consensus        81 ~~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l~~l~~  118 (622)
T 3g06_A           81 PELRTLEVSGNQLTSLPV--LPPGLLELSIFSNPLTHLPA  118 (622)
T ss_dssp             TTCCEEEECSCCCSCCCC--CCTTCCEEEECSCCCCCCCC
T ss_pred             CCCCEEEcCCCcCCcCCC--CCCCCCEEECcCCcCCCCCC
Confidence            677777777777777776  56667777777777777766

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.37  E-value=0.00015  Score=63.44  Aligned_cols=58  Identities=12%  Similarity=0.065  Sum_probs=49.0

Q ss_pred             CCCCCC----CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          251 LQDPGF----AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~----~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      |..+..    ++|++|+|++|.++.+|..+. .+|++|+|++|+|+.+|. ...+++|+.|++.
T Consensus       241 p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~-~~L~~L~Ls~N~l~~~~~-~~~l~~L~~L~L~  302 (310)
T 4glp_A          241 NPSAPRCMWSSALNSLNLSFAGLEQVPKGLP-AKLRVLDLSSNRLNRAPQ-PDELPEVDNLTLD  302 (310)
T ss_dssp             CSCCSSCCCCTTCCCEECCSSCCCSCCSCCC-SCCSCEECCSCCCCSCCC-TTSCCCCSCEECS
T ss_pred             hhhHHhccCcCcCCEEECCCCCCCchhhhhc-CCCCEEECCCCcCCCCch-hhhCCCccEEECc
Confidence            555544    599999999999999998884 789999999999999986 7888999988875

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=97.35  E-value=0.00016  Score=64.01  Aligned_cols=56  Identities=5%  Similarity=-0.060  Sum_probs=38.4

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+|. + ++.+|++|++++|.....+..+.++++|++|++.
T Consensus       106 ~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~  163 (347)
T 4fmz_A          106 LQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVT  163 (347)
T ss_dssp             GTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECC
T ss_pred             HcCCCcCCEEECcCCcccCchh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEec
Confidence            444 777788887777777776 5 6777777787777333334447777777777654

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=97.32  E-value=0.0003  Score=68.21  Aligned_cols=56  Identities=13%  Similarity=-0.048  Sum_probs=27.4

Q ss_pred             CCC-CceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCccccccc---cccCcccccccc
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERLWHC---VKVCISYYTCGI  309 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~LP~~---i~~L~~L~~l~i  309 (311)
                      +.. ++|++|++++|.+..+|. .+ ++.+|++|+|++|.++.+|..   ..++.+|++|++
T Consensus       117 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L  178 (680)
T 1ziw_A          117 FVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLEL  178 (680)
T ss_dssp             TTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEEC
T ss_pred             ccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEEC
Confidence            444 555555555555544432 23 455555555555555555432   123345555544

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.30  E-value=0.00012  Score=68.51  Aligned_cols=61  Identities=5%  Similarity=-0.029  Sum_probs=53.7

Q ss_pred             cCCCCC-C-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          250 YLQDPG-F-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~-~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .|..+. . ++|++|+|++|.+..+|....+.+|++|+|++|.++.+|.++..+.+|++|+++
T Consensus       160 ~~~~l~~~l~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls  222 (487)
T 3oja_A          160 NFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLR  222 (487)
T ss_dssp             EGGGGGGGTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECT
T ss_pred             ChHHHhhhCCcccEEecCCCccccccccccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEec
Confidence            455554 4 899999999999999987778999999999999999999999999999999875

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=97.27  E-value=0.00018  Score=66.67  Aligned_cols=58  Identities=10%  Similarity=-0.004  Sum_probs=50.2

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..+| .+.. ++|++|++++|.+..+|  + ++.+|++|+|++|.++.+|  ++++++|++|+++
T Consensus        55 ~~~~-~l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~L~  114 (457)
T 3bz5_A           55 TDMT-GIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCD  114 (457)
T ss_dssp             CCCT-TGGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEECC
T ss_pred             ccCh-hhcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee--cCCCCcCCEEECC
Confidence            3455 4666 99999999999999987  7 7999999999999999986  8999999999875

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=97.26  E-value=0.00023  Score=68.40  Aligned_cols=59  Identities=10%  Similarity=0.028  Sum_probs=50.7

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      .+| .+.. ++|++|+|++|.+..+|. + .|.+|++|+|++|.+..+ ..+++|.+|++|+++
T Consensus       101 ~l~-~l~~l~~L~~L~Ls~N~l~~l~~-l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls  161 (605)
T 1m9s_A          101 DLS-SLKDLKKLKSLSLEHNGISDING-LVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLE  161 (605)
T ss_dssp             CCT-TSTTCTTCCEEECTTSCCCCCGG-GGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECC
T ss_pred             CCh-hhccCCCCCEEEecCCCCCCCcc-ccCCCccCEEECCCCccCCc-hhhcccCCCCEEECc
Confidence            344 5666 999999999999998864 6 899999999999999999 579999999999875

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.25  E-value=0.00016  Score=63.16  Aligned_cols=52  Identities=8%  Similarity=0.039  Sum_probs=45.5

Q ss_pred             CceeEEeeeCCCCCCC-CCCC-CC---CCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSL-PSNL-SA---KKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~l-P~~i-~L---~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|+|++|.+..+ |+.+ .+   .+|++|+|++|.++.+|.++.  ++|++|+++
T Consensus       224 ~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~--~~L~~L~Ls  280 (310)
T 4glp_A          224 VQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGLP--AKLRVLDLS  280 (310)
T ss_dssp             CCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCCC--SCCSCEECC
T ss_pred             CCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCchhhhhc--CCCCEEECC
Confidence            8899999999999887 8877 54   699999999999999999886  788888775

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=97.22  E-value=0.00043  Score=64.03  Aligned_cols=57  Identities=14%  Similarity=0.037  Sum_probs=35.9

Q ss_pred             ccCCCCCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          249 SYLQDPGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+| .++. ++|++|++++|.+..+|..+  .+|++|+|++|.++.+| +++++++|++|++
T Consensus       145 ~lp-~~~~l~~L~~L~l~~N~l~~lp~~~--~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l  202 (454)
T 1jl5_A          145 KLP-ELQNSSFLKIIDVDNNSLKKLPDLP--PSLEFIAAGNNQLEELP-ELQNLPFLTAIYA  202 (454)
T ss_dssp             SCC-CCTTCTTCCEEECCSSCCSCCCCCC--TTCCEEECCSSCCSSCC-CCTTCTTCCEEEC
T ss_pred             CCc-ccCCCCCCCEEECCCCcCcccCCCc--ccccEEECcCCcCCcCc-cccCCCCCCEEEC
Confidence            355 3555 67777777777666666544  35666666666666666 4666666666655

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.19  E-value=0.0039  Score=55.58  Aligned_cols=180  Identities=13%  Similarity=0.060  Sum_probs=99.4

Q ss_pred             eEEEEEeCCCCHH------HHHHHHhcCCC-CCCCcEEEEEeCchhHHHhcC------C-CceEEcCCCCHHHHHHHHHH
Q 021517            2 KVLIVFDDVTCFS------QIESLIGSLDW-LTPVSRIIITTRNKQVLRNWG------V-RKIYEMKALEYHHAIRLFSR   67 (311)
Q Consensus         2 r~LlVLDdv~~~~------~~~~l~~~~~~-~~~gs~IlvTTR~~~va~~~~------~-~~~~~l~~L~~~~a~~Lf~~   67 (311)
                      +.+||+|+++...      .+..+...+.. ...+..+|+||+.......+.      . ...+.+++++.++..+++..
T Consensus       129 ~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~  208 (386)
T 2qby_A          129 QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTK  208 (386)
T ss_dssp             CEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHH
T ss_pred             eEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHH
Confidence            6799999997643      34444433311 134556788888664432221      1 14899999999999999988


Q ss_pred             hhcCCCCCCccHHHHHHHHHHHhC---CCchHHHH-HHHHhc-----c--c-cHHHHHHHHHHHhccCcccHHHHHhhhc
Q 021517           68 HAFKQNHPDVGYEELSCKVMKYAQ---GVPLALKV-LGCFLH-----K--R-EKEVWESATDKLQRILYPSILEVLKISY  135 (311)
Q Consensus        68 ~a~~~~~~~~~~~~~~~~i~~~c~---glPLai~~-~~~~L~-----~--~-~~~~w~~~~~~l~~~~~~~i~~~l~~sy  135 (311)
                      .+........-..+....+++.++   |.|..+.. +.....     +  . +.+.+..+++...       ...+.-++
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~  281 (386)
T 2qby_A          209 RAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIE-------RDRVRDII  281 (386)
T ss_dssp             HHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHH-------HHHHHHHH
T ss_pred             HHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh-------hchHHHHH
Confidence            652111111112345666777777   99874433 322221     1  1 4555555554432       23455567


Q ss_pred             ccCchhhhhhhhhhhcCCC-C---cCHHHHHHH----HHHcCCCc------ccchHHHhhcccceec
Q 021517          136 DSLDDKEKNIFLDVACFFQ-G---EDVDLVMKF----FNASGFYP------EIGMSVLVDKSLIAID  188 (311)
Q Consensus       136 ~~L~~~~k~cfl~ls~fp~-~---~~~~~l~~~----w~a~g~~~------~~~~~~L~~~sl~~~~  188 (311)
                      ..+|...+..+..++...+ +   +....+.+.    -..-|..+      ..+++.|...+++...
T Consensus       282 ~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          282 LTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             HTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTCCCCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             HcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCEEEE
Confidence            7888888777766664221 2   223333221    12223221      3568889999999764

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=97.17  E-value=0.0003  Score=62.61  Aligned_cols=59  Identities=14%  Similarity=0.149  Sum_probs=27.8

Q ss_pred             ccCCCCCC-CceeEEeeeC-CCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCcccccc
Q 021517          249 SYLQDPGF-AEVKYLHWYG-YPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTC  307 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~-~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l  307 (311)
                      .+|..+.. .+|+.|++.+ +.++.+|..+  ++.+|++|||++|+|+.+|.+ +.+|++|+.+
T Consensus       168 ~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~~~~L~~L~~l  231 (350)
T 4ay9_X          168 EIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRAR  231 (350)
T ss_dssp             EECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSSCTTCCEEECT
T ss_pred             CCChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChhhhccchHhhhc
Confidence            34444444 4555555543 3355555433  355555555555555555532 3344444433

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=97.15  E-value=0.00052  Score=57.44  Aligned_cols=57  Identities=11%  Similarity=-0.046  Sum_probs=36.3

Q ss_pred             CCC-Ccee-EEeeeCCCCCCCCCCC-CCCCceEEEcCCC-Ccccccc-ccccC-ccccccccC
Q 021517          254 PGF-AEVK-YLHWYGYPLKSLPSNL-SAKKLVLVEVPDS-DIERLWH-CVKVC-ISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr-~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~-~i~~LP~-~i~~L-~~L~~l~i~  310 (311)
                      +.. ++|+ +|+++++.+..+|..+ ...+|++|+|++| .++.+|. .+..+ .+|++|+++
T Consensus       151 ~~~l~~L~~~L~l~~n~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~  213 (239)
T 2xwt_C          151 FQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVS  213 (239)
T ss_dssp             TTTTBSSEEEEECCSCCCCEECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECT
T ss_pred             ccchhcceeEEEcCCCCCcccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECC
Confidence            444 6677 7777777766776655 4466777777776 3776654 35566 666666654

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=97.11  E-value=0.0037  Score=55.98  Aligned_cols=201  Identities=12%  Similarity=0.072  Sum_probs=112.0

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCC----CCcEEEEEeCchhHHHhcC-------CCceEEcCCCCHHHHHHHHHHh
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLT----PVSRIIITTRNKQVLRNWG-------VRKIYEMKALEYHHAIRLFSRH   68 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~----~gs~IlvTTR~~~va~~~~-------~~~~~~l~~L~~~~a~~Lf~~~   68 (311)
                      +.+||||+++..  +....+...+....    .+..||+||+.........       ....+.+++++.++..+++...
T Consensus       126 ~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~  205 (389)
T 1fnn_A          126 YMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDR  205 (389)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHH
T ss_pred             eEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHH
Confidence            578999999764  44666655543211    3667888888765433321       1136999999999999999887


Q ss_pred             hcCCCCCCccHHHHHHHHHHHh---------CCCchHHHHHHHH-hc-----cc---cHHHHHHHHHHHhccCcccHHHH
Q 021517           69 AFKQNHPDVGYEELSCKVMKYA---------QGVPLALKVLGCF-LH-----KR---EKEVWESATDKLQRILYPSILEV  130 (311)
Q Consensus        69 a~~~~~~~~~~~~~~~~i~~~c---------~glPLai~~~~~~-L~-----~~---~~~~w~~~~~~l~~~~~~~i~~~  130 (311)
                      +........-..+....+++.+         +|.|-.+..+... ..     +.   +.+....+......       ..
T Consensus       206 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~~~-------~~  278 (389)
T 1fnn_A          206 AKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLF-------GI  278 (389)
T ss_dssp             HHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSC-------CC
T ss_pred             HHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHhh-------hh
Confidence            5321111112235677888888         7887544433222 21     11   33333333333221       11


Q ss_pred             HhhhcccCchhhhhhhhhhhcCC---C--CcCHHHHHHHHH----HcCCCc------ccchHHHhhcccceecCC-----
Q 021517          131 LKISYDSLDDKEKNIFLDVACFF---Q--GEDVDLVMKFFN----ASGFYP------EIGMSVLVDKSLIAIDSH-----  190 (311)
Q Consensus       131 l~~sy~~L~~~~k~cfl~ls~fp---~--~~~~~~l~~~w~----a~g~~~------~~~~~~L~~~sl~~~~~~-----  190 (311)
                      +.-.+..|+.+.+.++..++.+.   .  ......+...+.    ..|...      ..++++|.+.+++.....     
T Consensus       279 ~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g  358 (389)
T 1fnn_A          279 SEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEG  358 (389)
T ss_dssp             CHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC-----
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCC
Confidence            22335667888887777777543   2  233344444332    223221      245899999999987532     


Q ss_pred             --CcE-------EeCHHHHHHHHHHHhh
Q 021517          191 --KKI-------TMHDLLQELGREIVRQ  209 (311)
Q Consensus       191 --~~~-------~mH~lv~~~~~~~~~~  209 (311)
                        +.+       ..|+++..+...+..+
T Consensus       359 ~~g~~~~~~l~~~~~~v~~~~~~~~~~~  386 (389)
T 1fnn_A          359 VRGRTTLISIGTEPLDTLEAVITKLIKE  386 (389)
T ss_dssp             ----CEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             CCCceeEEEeCCCHHHHHHHHHHHHHHH
Confidence              222       2445666555555444

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.91  E-value=0.034  Score=49.44  Aligned_cols=177  Identities=14%  Similarity=0.061  Sum_probs=99.6

Q ss_pred             CeEEEEEeCCCCHHH-------HHHHHhcCCCC--CCCcEEEEEeCchhH--------HHhcCCCceEEcCCCCHHHHHH
Q 021517            1 MKVLIVFDDVTCFSQ-------IESLIGSLDWL--TPVSRIIITTRNKQV--------LRNWGVRKIYEMKALEYHHAIR   63 (311)
Q Consensus         1 kr~LlVLDdv~~~~~-------~~~l~~~~~~~--~~gs~IlvTTR~~~v--------a~~~~~~~~~~l~~L~~~~a~~   63 (311)
                      ++.+|||||++....       +..+.......  ..+..+|.||+....        ...++ ...+.+++++.++..+
T Consensus       130 ~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~r~~-~~~i~l~~l~~~~~~~  208 (387)
T 2v1u_A          130 GIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLG-EVELVFPPYTAPQLRD  208 (387)
T ss_dssp             SEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCSTTSSSSCHHHHTTTT-SEECCBCCCCHHHHHH
T ss_pred             CeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCchHhhhCHHHHhcCC-CeEEeeCCCCHHHHHH
Confidence            367999999986532       33333322211  345577888876532        22221 1478999999999999


Q ss_pred             HHHHhhc---CCCCCCccHHHHHHHHHHHhC---CCch-HHHHHHHHhc-----c--c-cHHHHHHHHHHHhccCcccHH
Q 021517           64 LFSRHAF---KQNHPDVGYEELSCKVMKYAQ---GVPL-ALKVLGCFLH-----K--R-EKEVWESATDKLQRILYPSIL  128 (311)
Q Consensus        64 Lf~~~a~---~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~~~~L~-----~--~-~~~~w~~~~~~l~~~~~~~i~  128 (311)
                      ++...+.   .....++   +....+++.++   |.|- |+..+..+..     +  . +.+.+..+++...       .
T Consensus       209 il~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~  278 (387)
T 2v1u_A          209 ILETRAEEAFNPGVLDP---DVVPLCAALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSARAEIE-------R  278 (387)
T ss_dssp             HHHHHHHHHBCTTTBCS---SHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHHH-------H
T ss_pred             HHHHHHHhhccCCCCCH---HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHh-------h
Confidence            9998752   2222233   34566777777   9993 3333332221     1  1 5666666665432       2


Q ss_pred             HHHhhhcccCchhhhhhhhhhh-cCCCC--cCHHHHHHH----HHHcCCCc------ccchHHHhhcccceec
Q 021517          129 EVLKISYDSLDDKEKNIFLDVA-CFFQG--EDVDLVMKF----FNASGFYP------EIGMSVLVDKSLIAID  188 (311)
Q Consensus       129 ~~l~~sy~~L~~~~k~cfl~ls-~fp~~--~~~~~l~~~----w~a~g~~~------~~~~~~L~~~sl~~~~  188 (311)
                      ..+.-++..|+.+.+..+..++ ++...  +....+.+.    ....|..+      ..+++.|...|+++..
T Consensus       279 ~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          279 DRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLGLEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             chHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence            2355567888988887776666 33311  223333332    22233221      3458888899999874

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.90  E-value=0.0067  Score=52.78  Aligned_cols=101  Identities=8%  Similarity=0.082  Sum_probs=65.2

Q ss_pred             CeEEEEEeCCCC--HHHHHHHHhcCCCCCCCcEEEEEeCchhH-HHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCC
Q 021517            1 MKVLIVFDDVTC--FSQIESLIGSLDWLTPVSRIIITTRNKQV-LRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPD   76 (311)
Q Consensus         1 kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gs~IlvTTR~~~v-a~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~   76 (311)
                      ++.++|+||++.  .+.++.+...+.....++.+|+||+...- ...+ .....+++.+++.++..+++...+...+.. 
T Consensus       107 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~-  185 (323)
T 1sxj_B          107 KHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVK-  185 (323)
T ss_dssp             CCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-
T ss_pred             CceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHHHHHHHcCCC-
Confidence            367999999986  34455555444333467788888876432 1111 233589999999999999998876322111 


Q ss_pred             ccHHHHHHHHHHHhCCCchH-HHHHHHH
Q 021517           77 VGYEELSCKVMKYAQGVPLA-LKVLGCF  103 (311)
Q Consensus        77 ~~~~~~~~~i~~~c~glPLa-i~~~~~~  103 (311)
                       -..+....+++.|+|.|.. +..+...
T Consensus       186 -~~~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          186 -YTNDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             -BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence             1235678899999999954 4444433

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=96.88  E-value=0.00041  Score=59.43  Aligned_cols=34  Identities=29%  Similarity=0.308  Sum_probs=15.7

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCC--CceEEEcCCCCc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAK--KLVLVEVPDSDI  291 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~--~L~~L~L~~~~i  291 (311)
                      ++|++|+|++|.+..+. .+ .|.  +|++|+|++|.+
T Consensus       196 ~~L~~L~Ls~N~i~~~~-~l~~l~~l~L~~L~L~~Npl  232 (267)
T 3rw6_A          196 PNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGNSL  232 (267)
T ss_dssp             TTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTSTT
T ss_pred             CCCCEEECCCCccCCch-hhhhcccCCcceEEccCCcC
Confidence            45555555555554442 22 222  555555555544

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=96.85  E-value=0.0013  Score=62.70  Aligned_cols=41  Identities=27%  Similarity=0.297  Sum_probs=25.1

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCcccccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKV  300 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~  300 (311)
                      ++|++|+|++|.+..+|. +. .+|++|+|++|+|+.+|. +.+
T Consensus       160 ~~L~~L~Ls~N~L~~lp~-l~-~~L~~L~Ls~N~L~~lp~-~~~  200 (571)
T 3cvr_A          160 TSLEVLSVRNNQLTFLPE-LP-ESLEALDVSTNLLESLPA-VPV  200 (571)
T ss_dssp             TTCCEEECCSSCCSCCCC-CC-TTCCEEECCSSCCSSCCC-CC-
T ss_pred             CCcCEEECCCCCCCCcch-hh-CCCCEEECcCCCCCchhh-HHH
Confidence            566666666666666666 54 566666666666666666 443

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=96.80  E-value=0.0013  Score=58.43  Aligned_cols=61  Identities=13%  Similarity=0.090  Sum_probs=46.3

Q ss_pred             ccccCCCC-CC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCC-CccccccccccCcccccccc
Q 021517          247 KISYLQDP-GF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDS-DIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       247 ~~~lp~~~-~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~-~i~~LP~~i~~L~~L~~l~i  309 (311)
                      ...+|.+. .. ++|++|++++|+++++|... +.+|+.|.+.++ +++.||. +.+|.+|+.+.+
T Consensus       190 l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~-~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l  253 (350)
T 4ay9_X          190 LEELPNDVFHGASGPVILDISRTRIHSLPSYG-LENLKKLRARSTYNLKKLPT-LEKLVALMEASL  253 (350)
T ss_dssp             CCCCCTTTTTTEECCSEEECTTSCCCCCCSSS-CTTCCEEECTTCTTCCCCCC-TTTCCSCCEEEC
T ss_pred             ccCCCHHHhccCcccchhhcCCCCcCccChhh-hccchHhhhccCCCcCcCCC-chhCcChhhCcC
Confidence            45677664 55 99999999999999999875 334444444444 7999995 899999998765

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.75  E-value=0.0044  Score=50.48  Aligned_cols=99  Identities=9%  Similarity=0.027  Sum_probs=65.5

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchhHH-Hh-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQVL-RN-WGVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~va-~~-~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +.+||+||++..  +..+.+...+.....++++|+||+..... .. ......+.+.+++.++..+++...+...+..  
T Consensus       103 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~--  180 (226)
T 2chg_A          103 FKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVK--  180 (226)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--
T ss_pred             ceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHHHHHHcCCC--
Confidence            578999999764  34555555444345677889988765321 11 1222488999999999999998876432211  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLGC  102 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~~  102 (311)
                      -..+....+++.++|.|..+..+..
T Consensus       181 ~~~~~~~~l~~~~~g~~r~l~~~l~  205 (226)
T 2chg_A          181 ITEDGLEALIYISGGDFRKAINALQ  205 (226)
T ss_dssp             BCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            1235677888999999986554443

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=96.75  E-value=0.002  Score=59.56  Aligned_cols=38  Identities=16%  Similarity=0.114  Sum_probs=17.7

Q ss_pred             ceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccc
Q 021517          258 EVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       258 ~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~  296 (311)
                      .|++|++++|.+..+|. + ++.+|++|++++|.++.+|.
T Consensus       216 ~L~~L~l~~n~l~~lp~-~~~l~~L~~L~l~~N~l~~l~~  254 (454)
T 1jl5_A          216 SLESIVAGNNILEELPE-LQNLPFLTTIYADNNLLKTLPD  254 (454)
T ss_dssp             TCCEEECCSSCCSSCCC-CTTCTTCCEEECCSSCCSSCCS
T ss_pred             cccEEECcCCcCCcccc-cCCCCCCCEEECCCCcCCcccc
Confidence            44444444444444442 3 44445555555544444444

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=96.69  E-value=0.00021  Score=62.94  Aligned_cols=61  Identities=13%  Similarity=0.153  Sum_probs=43.6

Q ss_pred             cCCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCC-Ccc--ccccccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDS-DIE--RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~-~i~--~LP~~i~~L~~L~~l~i~  310 (311)
                      +|..+.. ++|++|++++|.+. ..|..+ ++.+|++|+|++| .++  .+|..+.++++|++|++.
T Consensus       110 ~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~  176 (336)
T 2ast_B          110 LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLS  176 (336)
T ss_dssp             HHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECC
T ss_pred             HHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCC
Confidence            4455555 78888888888765 456666 6788888888887 676  377777778888877764

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=96.62  E-value=0.00032  Score=63.17  Aligned_cols=54  Identities=6%  Similarity=-0.013  Sum_probs=33.2

Q ss_pred             CceeEEeeeCCCCCC-----CCCCC-CCCCceEEEcCCCCcc-----ccccccccC---------ccccccccC
Q 021517          257 AEVKYLHWYGYPLKS-----LPSNL-SAKKLVLVEVPDSDIE-----RLWHCVKVC---------ISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~-----lP~~i-~L~~L~~L~L~~~~i~-----~LP~~i~~L---------~~L~~l~i~  310 (311)
                      ++|++|+|++|.+..     +|..+ ++.+|++|+|++|.+.     .++..+.++         ++|++|+++
T Consensus        94 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~  167 (386)
T 2ca6_A           94 PKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICG  167 (386)
T ss_dssp             TTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECC
T ss_pred             CcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECC
Confidence            667777777766654     56566 5667777777776654     344444444         666666654

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=96.60  E-value=0.00056  Score=61.58  Aligned_cols=61  Identities=18%  Similarity=0.150  Sum_probs=48.9

Q ss_pred             cCCCCCC-CceeEEeeeCCCC-----CCCCCCC-CCCCceEEEcCCCCccc-----ccccc--ccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPL-----KSLPSNL-SAKKLVLVEVPDSDIER-----LWHCV--KVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i-----~~lP~~i-~L~~L~~L~L~~~~i~~-----LP~~i--~~L~~L~~l~i~  310 (311)
                      +|..+.. ++|++|+|++|.+     ..+|..+ ++.+|++|+|++|.|..     +|..+  +++++|++|+++
T Consensus       208 ~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~  282 (386)
T 2ca6_A          208 LLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQ  282 (386)
T ss_dssp             HHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECC
T ss_pred             HHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECc
Confidence            3435666 8999999999988     6788888 78999999999998876     47777  448889988875

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=96.30  E-value=0.0013  Score=57.65  Aligned_cols=60  Identities=10%  Similarity=0.031  Sum_probs=50.8

Q ss_pred             CCCCCC-CceeEEeeeCCCCCC--CCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKS--LPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~--lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      +..+.. ++|++|++++|.+..  +|..+ ++.+|++|+|++|.+. ..|..++++++|++|++.
T Consensus        86 ~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~  150 (336)
T 2ast_B           86 LAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  150 (336)
T ss_dssp             CCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             chhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECC
Confidence            333455 999999999998763  77777 7999999999999887 688899999999999875

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.74  E-value=0.011  Score=44.70  Aligned_cols=40  Identities=20%  Similarity=0.174  Sum_probs=32.4

Q ss_pred             ccCCCCCCCceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCC
Q 021517          249 SYLQDPGFAEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDS  289 (311)
Q Consensus       249 ~lp~~~~~~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~  289 (311)
                      .+|..+. ..|++|+|++|.|+.||..+  .|.+|++|+|.+|
T Consensus        24 ~vP~~lp-~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           24 SLPTAFP-VDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             TSCSCCC-TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             cCCCCCC-cCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            5554432 67899999999999999887  5999999999886

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=95.62  E-value=0.0012  Score=59.05  Aligned_cols=53  Identities=9%  Similarity=0.025  Sum_probs=34.0

Q ss_pred             ceeEEeeeCCCCCCC-CCCC-CC-----CCceEEEcCCCCccccccc-----cccC-ccccccccC
Q 021517          258 EVKYLHWYGYPLKSL-PSNL-SA-----KKLVLVEVPDSDIERLWHC-----VKVC-ISYYTCGIF  310 (311)
Q Consensus       258 ~Lr~L~l~~~~i~~l-P~~i-~L-----~~L~~L~L~~~~i~~LP~~-----i~~L-~~L~~l~i~  310 (311)
                      +|++|+|++|.+... |..+ .+     .+|++|+|++|.+...+..     +.++ .+|++|+++
T Consensus        52 ~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls  117 (362)
T 3goz_A           52 SVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLG  117 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECC
T ss_pred             ceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECc
Confidence            677788877777655 3333 33     7778888877777755432     4444 677777664

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=94.94  E-value=0.059  Score=46.73  Aligned_cols=99  Identities=12%  Similarity=0.102  Sum_probs=65.4

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchhH-HHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQV-LRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~v-a~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +.++|+||++..  +.++.+...+.....++++|+||....- .... .....+.+.+++.++..+++...+...+..  
T Consensus       111 ~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~~~~~~--  188 (327)
T 1iqp_A          111 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE--  188 (327)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTTCE--
T ss_pred             CeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHHhcCCC--
Confidence            568999999854  4456665555444567788888876532 1111 112378999999999999998876432211  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLGC  102 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~~  102 (311)
                      -..+....|++.++|.|..+..+..
T Consensus       189 ~~~~~~~~l~~~~~g~~r~~~~~l~  213 (327)
T 1iqp_A          189 LTEEGLQAILYIAEGDMRRAINILQ  213 (327)
T ss_dssp             ECHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            1235677888999999986654443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.92  E-value=0.021  Score=43.00  Aligned_cols=50  Identities=12%  Similarity=0.062  Sum_probs=41.1

Q ss_pred             eEEeeeCCCCC--CCCCCCCCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          260 KYLHWYGYPLK--SLPSNLSAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       260 r~L~l~~~~i~--~lP~~i~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      .+++.++.+++  ++|..+- .+|++|+|++|+|+.||.++ ..|.+|++|.|.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp-~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   63 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP-VDTTELVLTGNNLTALPPGLLDALPALRTAHLG   63 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC-TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECC
T ss_pred             CEEEeCCCCCccccCCCCCC-cCCCEEECCCCcCCccChhhhhhccccCEEEec
Confidence            36788888888  9998772 24789999999999999875 678899988775

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=94.89  E-value=0.0042  Score=56.95  Aligned_cols=35  Identities=20%  Similarity=0.226  Sum_probs=23.5

Q ss_pred             ceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCcc
Q 021517          258 EVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIE  292 (311)
Q Consensus       258 ~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~  292 (311)
                      +|++|+|++|.+.     .+|..+ ++.+|++|+|++|.+.
T Consensus        86 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~  126 (461)
T 1z7x_W           86 KIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  126 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             ceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCc
Confidence            5777777777665     456666 5677777777777654

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=94.75  E-value=0.0055  Score=52.39  Aligned_cols=53  Identities=13%  Similarity=0.072  Sum_probs=43.6

Q ss_pred             CceeEEeeeCCCCCCCC---CCC-CCCCceEEEcCCCCccccccccccCc--cccccccC
Q 021517          257 AEVKYLHWYGYPLKSLP---SNL-SAKKLVLVEVPDSDIERLWHCVKVCI--SYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP---~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~--~L~~l~i~  310 (311)
                      ++|+.|+|++|.+..++   ..+ ++.+|++|+|++|.|+.+ .++.+|.  +|+.|.+.
T Consensus       170 ~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~  228 (267)
T 3rw6_A          170 PELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLD  228 (267)
T ss_dssp             TTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECT
T ss_pred             CCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEcc
Confidence            68999999999987765   455 699999999999999988 4467776  78877664

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=94.68  E-value=0.0083  Score=53.39  Aligned_cols=54  Identities=15%  Similarity=-0.130  Sum_probs=37.0

Q ss_pred             CceeEEeeeCCCCCCCCC-----CC-CCCCceEEEcCCCC--------ccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPS-----NL-SAKKLVLVEVPDSD--------IERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~-----~i-~L~~L~~L~L~~~~--------i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|+|++|.+...+.     .+ .+.+|++|+|++|.        +..++..+.++++|+.++++
T Consensus       225 ~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~  292 (362)
T 3goz_A          225 NHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKN  292 (362)
T ss_dssp             TTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTT
T ss_pred             CCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecC
Confidence            477888888877765543     23 46778888887776        55566667777777777664

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=94.64  E-value=0.0065  Score=55.68  Aligned_cols=52  Identities=10%  Similarity=0.079  Sum_probs=28.7

Q ss_pred             CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCccc---------cccccccCccccccc
Q 021517          257 AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIER---------LWHCVKVCISYYTCG  308 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~~---------LP~~i~~L~~L~~l~  308 (311)
                      +.|++|++++|.+.     .+|..+ ++.+|++|+|++|.+..         +|....+|++|+.++
T Consensus       370 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i~~~~~~~l~~~l~~~~~~L~~L~~~~  436 (461)
T 1z7x_W          370 SVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYD  436 (461)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCHHHHHHHHHHHTSTTCCCCEEECTT
T ss_pred             CceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCCCHHHHHHHHHHhccCCcchhheeecc
Confidence            45666666666655     455555 46666666666665543         344444555555443

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=94.36  E-value=0.0063  Score=54.63  Aligned_cols=61  Identities=15%  Similarity=0.091  Sum_probs=45.9

Q ss_pred             cCCCCCC-CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCcc-----ccccccccCccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIE-----RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~-----~LP~~i~~L~~L~~l~i~  310 (311)
                      ++..+.. +.|++|+|++|.+.     .|+..+ ...+|++|+|++|.|.     .++..+.+.++|++|+++
T Consensus       175 l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls  247 (372)
T 3un9_A          175 LMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLY  247 (372)
T ss_dssp             HHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECT
T ss_pred             HHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEecc
Confidence            3344445 78999999999875     345566 5778999999999886     466677778888888875

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=94.12  E-value=0.0058  Score=54.92  Aligned_cols=45  Identities=9%  Similarity=-0.030  Sum_probs=33.7

Q ss_pred             cCCCCCC-CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCcccc
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIERL  294 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~~L  294 (311)
                      ++..+.. +.|++|+|++|.+.     .++..+ ....|++|+|++|.|..-
T Consensus       203 L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~~~  254 (372)
T 3un9_A          203 LAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNELSSE  254 (372)
T ss_dssp             HHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSCCHH
T ss_pred             HHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCCCHH
Confidence            3444555 78999999999886     344555 578899999999987653

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=93.97  E-value=0.0093  Score=47.81  Aligned_cols=54  Identities=13%  Similarity=0.162  Sum_probs=31.3

Q ss_pred             CceeEEeeeCCCCCC-----CCCCC-CCCCceEEEc--CCCCccc-----cccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKS-----LPSNL-SAKKLVLVEV--PDSDIER-----LWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~-----lP~~i-~L~~L~~L~L--~~~~i~~-----LP~~i~~L~~L~~l~i~  310 (311)
                      +.|++|+|++|.|..     |...+ ....|++|+|  ++|.|..     |.+.+.+.++|++|++.
T Consensus        93 ~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~  159 (185)
T 1io0_A           93 NTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYH  159 (185)
T ss_dssp             SSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECC
T ss_pred             CCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEecc
Confidence            566666666666543     44445 4556667777  5565543     44555555666666553

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=93.91  E-value=0.021  Score=45.44  Aligned_cols=31  Identities=3%  Similarity=-0.076  Sum_probs=14.5

Q ss_pred             CceEEEcCCC-Cccccc-cccccCccccccccC
Q 021517          280 KLVLVEVPDS-DIERLW-HCVKVCISYYTCGIF  310 (311)
Q Consensus       280 ~L~~L~L~~~-~i~~LP-~~i~~L~~L~~l~i~  310 (311)
                      +|++|+|++| +|+.-- ..+.++++|++|+++
T Consensus       115 ~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~  147 (176)
T 3e4g_A          115 SMLEMEIISCGNVTDKGIIALHHFRNLKYLFLS  147 (176)
T ss_dssp             HCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEE
T ss_pred             CCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECC
Confidence            3555555555 343310 123455566655543

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=93.72  E-value=0.32  Score=42.87  Aligned_cols=98  Identities=12%  Similarity=0.089  Sum_probs=63.8

Q ss_pred             eEEEEEeCCCC--HHHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTC--FSQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~--~~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +.++|+||++.  .+.++.+...+.....+..+|++|.... +...+ .....+++.+++.++..+++...+-..+..  
T Consensus       120 ~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~--  197 (373)
T 1jr3_A          120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--  197 (373)
T ss_dssp             SEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--
T ss_pred             eEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC--
Confidence            46899999975  3445666655543445667777776443 21111 223689999999999999998765221111  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~  101 (311)
                      -..+....|++.++|.|..+..+.
T Consensus       198 ~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          198 HEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             BCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCHHHHHHHH
Confidence            123556789999999998776554

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=93.57  E-value=0.0091  Score=56.57  Aligned_cols=53  Identities=21%  Similarity=0.201  Sum_probs=32.5

Q ss_pred             CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      +.|++|+++++.+.     .+|..+ ++.+|++|+|++|.+..+|..+.++++|++|++
T Consensus       192 ~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l  250 (592)
T 3ogk_B          192 TSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCG  250 (592)
T ss_dssp             CCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEE
T ss_pred             CCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHHhhcc
Confidence            56667777666654     333333 466677777777666666666666666665554

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=93.37  E-value=0.83  Score=39.09  Aligned_cols=98  Identities=9%  Similarity=0.056  Sum_probs=65.6

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|+++..  +..+.+...+.....++++|+||.... +.... .....+.+.+++.++..+++...+-..+..  
T Consensus       103 ~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~--  180 (319)
T 2chq_A          103 FKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVK--  180 (319)
T ss_dssp             CEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHHTTCCC--
T ss_pred             ceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHHHcCCC--
Confidence            568999999753  446667766665556778888876643 21111 223489999999999999998776432221  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~  101 (311)
                      -..+....+++.++|.+..+....
T Consensus       181 i~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          181 ITEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             BCHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            123566788899999987655443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=93.10  E-value=0.014  Score=52.19  Aligned_cols=54  Identities=9%  Similarity=0.055  Sum_probs=42.9

Q ss_pred             CceeEEeeeCCCCCC-CCCCC----CCCCceEEEcCCCCccc-----cccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKS-LPSNL----SAKKLVLVEVPDSDIER-----LWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~-lP~~i----~L~~L~~L~L~~~~i~~-----LP~~i~~L~~L~~l~i~  310 (311)
                      ++||+|+|++|.+.. .+..+    .+.+|++|+|+.|.+..     ++.++.++++|+.|+++
T Consensus       252 p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~  315 (362)
T 2ra8_A          252 PNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMK  315 (362)
T ss_dssp             TTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECC
T ss_pred             CCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECC
Confidence            899999999998642 22222    37799999999998776     78888889999988875

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=92.74  E-value=0.021  Score=45.65  Aligned_cols=35  Identities=14%  Similarity=0.113  Sum_probs=16.1

Q ss_pred             CceeEEee--eCCCCCC-----CCCCC-CCCCceEEEcCCCCc
Q 021517          257 AEVKYLHW--YGYPLKS-----LPSNL-SAKKLVLVEVPDSDI  291 (311)
Q Consensus       257 ~~Lr~L~l--~~~~i~~-----lP~~i-~L~~L~~L~L~~~~i  291 (311)
                      +.|++|+|  ++|.+..     +.+.+ ....|++|+|++|.|
T Consensus       121 ~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          121 TSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             SSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             CCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence            45555555  4444432     22333 234555555555544

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=92.37  E-value=0.084  Score=46.08  Aligned_cols=61  Identities=10%  Similarity=0.035  Sum_probs=44.5

Q ss_pred             ccccCCCCCC--CceeEEeeeCCCCCCCCCCC--CCCCce-EEEcCCCCccccc-cccccCcccccccc
Q 021517          247 KISYLQDPGF--AEVKYLHWYGYPLKSLPSNL--SAKKLV-LVEVPDSDIERLW-HCVKVCISYYTCGI  309 (311)
Q Consensus       247 ~~~lp~~~~~--~~Lr~L~l~~~~i~~lP~~i--~L~~L~-~L~L~~~~i~~LP-~~i~~L~~L~~l~i  309 (311)
                      ...+|.....  .+|+.|+|.++ ++.+|+..  ++.+|+ .++|+. +++.++ .....+.+|+++.+
T Consensus       238 i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l  304 (329)
T 3sb4_A          238 ATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLA  304 (329)
T ss_dssp             CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEE
T ss_pred             cceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEe
Confidence            4456665444  78888888876 88888765  688888 888877 787776 45677777777765

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=91.67  E-value=0.026  Score=53.39  Aligned_cols=54  Identities=15%  Similarity=0.110  Sum_probs=37.2

Q ss_pred             CceeEEeeeCCCCCC-----CCCCC-CCCCceEEEcCCCC--c--cccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKS-----LPSNL-SAKKLVLVEVPDSD--I--ERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~-----lP~~i-~L~~L~~L~L~~~~--i--~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|++++|.+..     ++... .+.+|++|+|++|.  +  ..++.-+.++++|++|++.
T Consensus       156 ~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~  219 (594)
T 2p1m_B          156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLN  219 (594)
T ss_dssp             TTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECC
T ss_pred             CCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecC
Confidence            789999999887433     44444 57789999998886  2  3344444566888888764

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=91.57  E-value=0.055  Score=51.09  Aligned_cols=58  Identities=10%  Similarity=0.044  Sum_probs=38.3

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccc--cccccccCcccccccc
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIER--LWHCVKVCISYYTCGI  309 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~--LP~~i~~L~~L~~l~i  309 (311)
                      ..+.. ++|+.|+++++....+|..+ .+.+|++|+|++|.+..  ++..+.++++|++|++
T Consensus       264 ~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L  325 (592)
T 3ogk_B          264 MNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLET  325 (592)
T ss_dssp             SCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEE
T ss_pred             HHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEec
Confidence            34455 77777777777667777777 57788888888876432  3333566666666654

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=91.41  E-value=0.23  Score=43.19  Aligned_cols=59  Identities=10%  Similarity=-0.048  Sum_probs=48.2

Q ss_pred             cccCCCCCC--Ccee-EEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCcccccc
Q 021517          248 ISYLQDPGF--AEVK-YLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTC  307 (311)
Q Consensus       248 ~~lp~~~~~--~~Lr-~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l  307 (311)
                      ..++.....  ..|+ .|++.+ +++.+++..  ++.+|+.|+|++++++.++. ...++.+|+++
T Consensus       262 ~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~l  326 (329)
T 3sb4_A          262 KTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLI  326 (329)
T ss_dssp             CEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEE
T ss_pred             ceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhh
Confidence            445555444  8899 999998 899998654  79999999999999999997 56788888876

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=91.35  E-value=1.3  Score=38.73  Aligned_cols=92  Identities=14%  Similarity=0.196  Sum_probs=61.9

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|+++..  +..+.+...+.....++.+|++|.+.+ +...+ .-...+.+.+++.++..+.+....    ..  
T Consensus       109 ~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~~--  182 (334)
T 1a5t_A          109 AKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV----TM--  182 (334)
T ss_dssp             CEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC----CC--
T ss_pred             cEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc----CC--
Confidence            457899999854  445666666654445677777766543 33322 334589999999999999888765    11  


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVL  100 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~  100 (311)
                       ..+.+..+++.++|.|..+..+
T Consensus       183 -~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          183 -SQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             -CHHHHHHHHHHTTTCHHHHHHT
T ss_pred             -CHHHHHHHHHHcCCCHHHHHHH
Confidence             1245577899999999765443

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=91.29  E-value=1.5  Score=36.74  Aligned_cols=114  Identities=14%  Similarity=0.106  Sum_probs=62.1

Q ss_pred             eEEEEEeCCCCH------------HHHHHHHhcCCC---CCCCcEEEEEeCchhHHHhc----CCCceEEcCCCCH-HHH
Q 021517            2 KVLIVFDDVTCF------------SQIESLIGSLDW---LTPVSRIIITTRNKQVLRNW----GVRKIYEMKALEY-HHA   61 (311)
Q Consensus         2 r~LlVLDdv~~~------------~~~~~l~~~~~~---~~~gs~IlvTTR~~~va~~~----~~~~~~~l~~L~~-~~a   61 (311)
                      ..+|++||++..            ...+.+...+..   .+.+..||.||.........    .....+.+++++. ++-
T Consensus       125 ~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i  204 (272)
T 1d2n_A          125 LSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQL  204 (272)
T ss_dssp             EEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHH
T ss_pred             CcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHHHHH
Confidence            468999998643            223444433322   22344577788777554431    2245789999988 555


Q ss_pred             HHHHHHhhcCCCCCCccHHHHHHHHHHHhCC------CchHHHHHHHHhccccHHHHHHHHHHHhcc
Q 021517           62 IRLFSRHAFKQNHPDVGYEELSCKVMKYAQG------VPLALKVLGCFLHKREKEVWESATDKLQRI  122 (311)
Q Consensus        62 ~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~g------lPLai~~~~~~L~~~~~~~w~~~~~~l~~~  122 (311)
                      ..++....    ..   ..+....+++.+.|      +.-++..+-..........+..+++.+.+.
T Consensus       205 ~~i~~~~~----~~---~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          205 LEALELLG----NF---KDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             HHHHHHHT----CS---CHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHHHHHHHHHHHT
T ss_pred             HHHHHhcC----CC---CHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHHHHHHHHHHHc
Confidence            55555421    11   13456778888877      334333333332222445566666555443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=91.18  E-value=0.23  Score=40.65  Aligned_cols=97  Identities=12%  Similarity=0.124  Sum_probs=56.3

Q ss_pred             EEEEEeCCCCHH--H--HHHHHhcCCCC-CCCc-EEEEEeCch---------hHHHhcCCCceEEcCCCCHHHHHHHHHH
Q 021517            3 VLIVFDDVTCFS--Q--IESLIGSLDWL-TPVS-RIIITTRNK---------QVLRNWGVRKIYEMKALEYHHAIRLFSR   67 (311)
Q Consensus         3 ~LlVLDdv~~~~--~--~~~l~~~~~~~-~~gs-~IlvTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~   67 (311)
                      -+||+||++...  .  .+.+...+... ..+. ++|+||+..         .+...+.....+.+.+++.++..+++..
T Consensus       106 ~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~  185 (242)
T 3bos_A          106 DLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQR  185 (242)
T ss_dssp             SEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHH
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHH
Confidence            478999997532  1  22222221100 1222 477777632         2222222236899999999999999988


Q ss_pred             hhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHH
Q 021517           68 HAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        68 ~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  101 (311)
                      .+.....  .-..+....+++.++|.+-.+..+.
T Consensus       186 ~~~~~~~--~~~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          186 RAAMRGL--QLPEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             HHHHTTC--CCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHcCC--CCCHHHHHHHHHHccCCHHHHHHHH
Confidence            7632221  1123566788888998876655443

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=89.27  E-value=0.079  Score=50.00  Aligned_cols=59  Identities=10%  Similarity=0.078  Sum_probs=46.2

Q ss_pred             cCCCCCC-CceeEEeeeCCCCCCCC-----CCC-CCCCceEEEcCCC-CccccccccccCcccccccc
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLKSLP-----SNL-SAKKLVLVEVPDS-DIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~~lP-----~~i-~L~~L~~L~L~~~-~i~~LP~~i~~L~~L~~l~i  309 (311)
                      ++..... ++|++|++++|. ..++     ..+ ++.+|++|+|++| .+..+|..+.++++|++|++
T Consensus       176 l~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l  242 (594)
T 2p1m_B          176 LSHFPDTYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGT  242 (594)
T ss_dssp             GGGSCTTCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEEC
T ss_pred             HHHHhhcCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEccc
Confidence            4444445 899999999997 3333     222 4799999999999 88889999999999999875

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=89.04  E-value=1.1  Score=38.43  Aligned_cols=100  Identities=14%  Similarity=0.053  Sum_probs=60.9

Q ss_pred             EEEEEeCCCCHH--HHHHHHhcCCCC------------------CCCcEEEEEeCchh-HHHhc--CCCceEEcCCCCHH
Q 021517            3 VLIVFDDVTCFS--QIESLIGSLDWL------------------TPVSRIIITTRNKQ-VLRNW--GVRKIYEMKALEYH   59 (311)
Q Consensus         3 ~LlVLDdv~~~~--~~~~l~~~~~~~------------------~~gs~IlvTTR~~~-va~~~--~~~~~~~l~~L~~~   59 (311)
                      .+|++|++....  ..+.+...+...                  .++..+|.||.... +....  .....+.+.+++.+
T Consensus        92 ~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~  171 (324)
T 1hqc_A           92 DILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPE  171 (324)
T ss_dssp             CEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHH
T ss_pred             CEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecCCCCHH
Confidence            478999998643  333333222111                  02345666665432 11111  12358999999999


Q ss_pred             HHHHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHh
Q 021517           60 HAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFL  104 (311)
Q Consensus        60 ~a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L  104 (311)
                      +...++...+......  -..+....+++.|+|.|-.+..+...+
T Consensus       172 e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          172 ELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             HHHHHHHHHHHTTTCC--CCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCC--CCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            9999998877432221  123567889999999998777665544

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=88.39  E-value=2.5  Score=39.27  Aligned_cols=96  Identities=11%  Similarity=0.163  Sum_probs=55.7

Q ss_pred             eEEEEEeCCCCHH-----HHHHHHhcCCCCCCCcEEEEEeCchh---HHHhcCCCceEEcCCCCHHHHHHHHHHhhcCCC
Q 021517            2 KVLIVFDDVTCFS-----QIESLIGSLDWLTPVSRIIITTRNKQ---VLRNWGVRKIYEMKALEYHHAIRLFSRHAFKQN   73 (311)
Q Consensus         2 r~LlVLDdv~~~~-----~~~~l~~~~~~~~~gs~IlvTTR~~~---va~~~~~~~~~~l~~L~~~~a~~Lf~~~a~~~~   73 (311)
                      +.+||+|+++...     .+..+...+..  .+..||+++....   +.........+.+.+++.++..+.+...+....
T Consensus       149 ~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~  226 (516)
T 1sxj_A          149 HFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREK  226 (516)
T ss_dssp             SEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcC
Confidence            5789999996431     13333333221  2334555554432   222223345789999999999999887764322


Q ss_pred             -CCCccHHHHHHHHHHHhCC-CchHHHHHHH
Q 021517           74 -HPDVGYEELSCKVMKYAQG-VPLALKVLGC  102 (311)
Q Consensus        74 -~~~~~~~~~~~~i~~~c~g-lPLai~~~~~  102 (311)
                       ..++   +....|++.++| ++-|+..+..
T Consensus       227 ~~i~~---~~l~~la~~s~GdiR~~i~~L~~  254 (516)
T 1sxj_A          227 FKLDP---NVIDRLIQTTRGDIRQVINLLST  254 (516)
T ss_dssp             CCCCT---THHHHHHHHTTTCHHHHHHHHTH
T ss_pred             CCCCH---HHHHHHHHHcCCcHHHHHHHHHH
Confidence             2222   346678888998 4555555543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=86.33  E-value=1.8  Score=37.66  Aligned_cols=97  Identities=6%  Similarity=0.089  Sum_probs=59.3

Q ss_pred             EEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCch-hHHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCC-CCc
Q 021517            3 VLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNH-PDV   77 (311)
Q Consensus         3 ~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~-~va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~-~~~   77 (311)
                      -++|+|++...  +..+.+...+.....++.+|++|... .+...+ .-...+++.+++.++..+.+...+-..+. .+.
T Consensus       136 ~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  215 (354)
T 1sxj_E          136 KCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET  215 (354)
T ss_dssp             EEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC
T ss_pred             eEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCc
Confidence            38999999864  22344443332223466777777653 222222 22368999999999999999877632211 110


Q ss_pred             cHHHHHHHHHHHhCCCchHHHHHH
Q 021517           78 GYEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai~~~~  101 (311)
                        .+....|++.++|.+-.+..+.
T Consensus       216 --~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          216 --KDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             --SHHHHHHHHHHTTCHHHHHHHH
T ss_pred             --HHHHHHHHHHcCCCHHHHHHHH
Confidence              2556788899999886554443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=85.84  E-value=0.31  Score=43.40  Aligned_cols=55  Identities=13%  Similarity=0.016  Sum_probs=31.8

Q ss_pred             CCceeEEeeeCCCCCCC-CCCC---CCCCceEEEcCCC--------Ccccccccc--ccCccccccccC
Q 021517          256 FAEVKYLHWYGYPLKSL-PSNL---SAKKLVLVEVPDS--------DIERLWHCV--KVCISYYTCGIF  310 (311)
Q Consensus       256 ~~~Lr~L~l~~~~i~~l-P~~i---~L~~L~~L~L~~~--------~i~~LP~~i--~~L~~L~~l~i~  310 (311)
                      .++|+.|+|..|.+..- ...+   ++.+|++|+|+.+        .+..+...+  +.+++|++|+++
T Consensus       192 ~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~  260 (362)
T 2ra8_A          192 RPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIV  260 (362)
T ss_dssp             CTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEE
T ss_pred             CCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCC
Confidence            47888888887764311 0112   4778888887531        133333323  356788888764

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=85.16  E-value=2  Score=39.19  Aligned_cols=93  Identities=10%  Similarity=0.114  Sum_probs=56.9

Q ss_pred             EEEEEeCCCCHH----HHHHHHhcCCC-CCCCcEEEEEeCch---------hHHHhcCCCceEEcCCCCHHHHHHHHHHh
Q 021517            3 VLIVFDDVTCFS----QIESLIGSLDW-LTPVSRIIITTRNK---------QVLRNWGVRKIYEMKALEYHHAIRLFSRH   68 (311)
Q Consensus         3 ~LlVLDdv~~~~----~~~~l~~~~~~-~~~gs~IlvTTR~~---------~va~~~~~~~~~~l~~L~~~~a~~Lf~~~   68 (311)
                      -+|++||++...    .-+.+...+.. ...|..||+||...         .+...+.....+.+++++.++-.+++.+.
T Consensus       196 ~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~  275 (440)
T 2z4s_A          196 DILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKM  275 (440)
T ss_dssp             SEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHH
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHH
Confidence            479999996432    22233322210 13467888888762         23333433457899999999999999887


Q ss_pred             hcCCC-CCCccHHHHHHHHHHHhCCCchHHH
Q 021517           69 AFKQN-HPDVGYEELSCKVMKYAQGVPLALK   98 (311)
Q Consensus        69 a~~~~-~~~~~~~~~~~~i~~~c~glPLai~   98 (311)
                      +-..+ ..++   +....|++.++|.+-.+.
T Consensus       276 ~~~~~~~i~~---e~l~~la~~~~gn~R~l~  303 (440)
T 2z4s_A          276 LEIEHGELPE---EVLNFVAENVDDNLRRLR  303 (440)
T ss_dssp             HHHHTCCCCT---THHHHHHHHCCSCHHHHH
T ss_pred             HHHcCCCCCH---HHHHHHHHhcCCCHHHHH
Confidence            73211 1222   345677888888875444

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=82.24  E-value=4.9  Score=34.77  Aligned_cols=97  Identities=13%  Similarity=0.157  Sum_probs=60.1

Q ss_pred             EEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -+|++|++...  ...+.+...+.......++|++|.... +.... .....+.+.+++.++....+...+...+..  -
T Consensus       135 ~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~--i  212 (353)
T 1sxj_D          135 KIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFISEQENVK--C  212 (353)
T ss_dssp             EEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHHHHHHHHHHTTTCC--C
T ss_pred             eEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEeCCCCHHHHHHHHHHHHHHhCCC--C
Confidence            48999998643  334445444433344567777765432 21111 112378999999999999998876332211  1


Q ss_pred             HHHHHHHHHHHhCCCchHHHHHH
Q 021517           79 YEELSCKVMKYAQGVPLALKVLG  101 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPLai~~~~  101 (311)
                      ..+....|++.++|.|-.+..+.
T Consensus       213 ~~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          213 DDGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             CHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCCHHHHHHHH
Confidence            23567889999999987655443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=81.54  E-value=5.5  Score=33.37  Aligned_cols=92  Identities=22%  Similarity=0.290  Sum_probs=52.8

Q ss_pred             EEEEEeCCCCH----------------HHHHHHHhcCC--CCCCCcEEEEEeCchhHHH-----hcCCCceEEcCCCCHH
Q 021517            3 VLIVFDDVTCF----------------SQIESLIGSLD--WLTPVSRIIITTRNKQVLR-----NWGVRKIYEMKALEYH   59 (311)
Q Consensus         3 ~LlVLDdv~~~----------------~~~~~l~~~~~--~~~~gs~IlvTTR~~~va~-----~~~~~~~~~l~~L~~~   59 (311)
                      .+|++||++..                ..+..+...+.  ....+..||.||...+...     .......+.++.++.+
T Consensus       112 ~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~  191 (285)
T 3h4m_A          112 SIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEK  191 (285)
T ss_dssp             EEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHH
T ss_pred             eEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHH
Confidence            68999999653                11333332221  1234567788887543221     1122357899999999


Q ss_pred             HHHHHHHHhhcCCCCC-CccHHHHHHHHHHHhCCC-chHHH
Q 021517           60 HAIRLFSRHAFKQNHP-DVGYEELSCKVMKYAQGV-PLALK   98 (311)
Q Consensus        60 ~a~~Lf~~~a~~~~~~-~~~~~~~~~~i~~~c~gl-PLai~   98 (311)
                      +-.+++...+...... ...    ...+++.+.|. |-.|.
T Consensus       192 ~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~~~~~i~  228 (285)
T 3h4m_A          192 GRLEILKIHTRKMNLAEDVN----LEEIAKMTEGCVGAELK  228 (285)
T ss_dssp             HHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTCCHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCCCHHHHH
Confidence            9999998887433221 222    34566666663 43443

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=80.03  E-value=16  Score=29.75  Aligned_cols=93  Identities=11%  Similarity=0.161  Sum_probs=52.0

Q ss_pred             eEEEEEeCCCCH-----------------HHHHHHHhcCCC--CCCCcEEEEEeCchhHHH-hc----CCCceEEcCCCC
Q 021517            2 KVLIVFDDVTCF-----------------SQIESLIGSLDW--LTPVSRIIITTRNKQVLR-NW----GVRKIYEMKALE   57 (311)
Q Consensus         2 r~LlVLDdv~~~-----------------~~~~~l~~~~~~--~~~gs~IlvTTR~~~va~-~~----~~~~~~~l~~L~   57 (311)
                      ..+|++|+++..                 ..+..+...+..  ...+..||.||....... ..    .....+.++..+
T Consensus        99 ~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~  178 (262)
T 2qz4_A           99 PCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPT  178 (262)
T ss_dssp             SEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCC
T ss_pred             CeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcC
Confidence            468999999864                 112333332221  123556777776544211 11    233578899999


Q ss_pred             HHHHHHHHHHhhcCCCCCCccHHHHHHHHHHHhCCCch
Q 021517           58 YHHAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPL   95 (311)
Q Consensus        58 ~~~a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPL   95 (311)
                      .++-.+++...+..... ..........+++.+.|.+-
T Consensus       179 ~~~r~~il~~~~~~~~~-~~~~~~~~~~l~~~~~g~~~  215 (262)
T 2qz4_A          179 LQERREIFEQHLKSLKL-TQSSTFYSQRLAELTPGFSG  215 (262)
T ss_dssp             HHHHHHHHHHHHHHTTC-CBTHHHHHHHHHHTCTTCCH
T ss_pred             HHHHHHHHHHHHHhCCC-CcchhhHHHHHHHHCCCCCH
Confidence            99999999887633221 22222234678888888754

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	311
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-23

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 93.7 bits (232), Expect = 6e-23
 Identities = 27/147 (18%), Positives = 50/147 (34%), Gaps = 10/147 (6%)

Query: 2   KVLIVFDDVTCFSQIESLIGSLDWLTPV-SRIIITTRNKQVLRN-WGVRKIYEMKALEYH 59
             L VFDDV     I        W   +  R ++TTR+ ++        +  E+ +LE  
Sbjct: 136 NTLFVFDDVVQEETIR-------WAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEID 188

Query: 60  HAIRLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKL 119
                   +       +   E++  K ++ + G P  L +       +  E      +KL
Sbjct: 189 ECYDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKL 247

Query: 120 QRILYPSILEVLKISYDSLDDKEKNIF 146
           +      +  +   SY SL    +   
Sbjct: 248 ESRGLVGVECITPYSYKSLAMALQRCV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	311
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.96
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.51
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.4
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.09
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.05
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.04
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.0
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.96
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	97.88
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	97.87
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	97.84
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.8
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.8
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	97.77
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.77
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.71
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.69
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.66
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.65
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	97.6
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.51
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.5
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.46
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	97.38
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	97.3
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	97.2
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.1
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	96.96
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	96.93
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	96.89
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	96.72
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.62
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.24
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	94.99
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	94.25
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.09
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	93.55
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	93.52
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.93
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	89.75
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	89.72
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	84.95
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	83.72
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	83.16

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.96  E-value=9.5e-30  Score=220.67  Aligned_cols=142  Identities=18%  Similarity=0.148  Sum_probs=127.3

Q ss_pred             CeEEEEEeCCCCHHHHHHHHhcCCCCCCCcEEEEEeCchhHHHhcCCC-ceEEcCCCCHHHHHHHHHHhhcCCCCCCccH
Q 021517            1 MKVLIVFDDVTCFSQIESLIGSLDWLTPVSRIIITTRNKQVLRNWGVR-KIYEMKALEYHHAIRLFSRHAFKQNHPDVGY   79 (311)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~~~-~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~~   79 (311)
                      ||+|+||||||+.++|+.+..      .||+||||||+..++..+... +.|++++|+.+|||+||++++|.... ++..
T Consensus       135 kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~-~~~~  207 (277)
T d2a5yb3         135 PNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKE  207 (277)
T ss_dssp             TTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHH
T ss_pred             CCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccC-chhh
Confidence            689999999999999987754      489999999999999887655 68999999999999999999986543 4456


Q ss_pred             HHHHHHHHHHhCCCchHHHHHHHHhccccHHHHHHHHHHHhccCcccHHHHHhhhcccCchhhhhhhhhh
Q 021517           80 EELSCKVMKYAQGVPLALKVLGCFLHKREKEVWESATDKLQRILYPSILEVLKISYDSLDDKEKNIFLDV  149 (311)
Q Consensus        80 ~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~~~~l~~~~~~~i~~~l~~sy~~L~~~~k~cfl~l  149 (311)
                      .+++++|+++|+|+||||+++|+.|+.++.++|....+.+.+....++..++.+||+.||+++|+||.++
T Consensus       208 ~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         208 EDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            7899999999999999999999999999999999999999888788899999999999999999999764

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.51  E-value=3.9e-08  Score=72.85  Aligned_cols=52  Identities=19%  Similarity=0.161  Sum_probs=25.9

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      .+|++|++++|.++++|+.+ .+.+|++|++++|.|+.+| +++++++|+++++
T Consensus        20 ~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l   72 (124)
T d1dcea3          20 LLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLL   72 (124)
T ss_dssp             TTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEEC
T ss_pred             CCCCEEECCCCccCcchhhhhhhhcccccccccccccccC-ccccccccCeEEC
Confidence            44555555555555555444 4555555555555555554 2445555554443

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.40  E-value=8.6e-08  Score=70.93  Aligned_cols=50  Identities=12%  Similarity=0.033  Sum_probs=47.0

Q ss_pred             eEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          260 KYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       260 r~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      |+|+|++++++.+|. + +|.+|++|+|++|.|+++|.+++.+++|++|++.
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~   51 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQAS   51 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCCccCcchhhhhhhhcccccccc
Confidence            799999999999985 7 7999999999999999999999999999999875

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.09  E-value=1.1e-06  Score=67.98  Aligned_cols=62  Identities=8%  Similarity=0.020  Sum_probs=45.6

Q ss_pred             cccCCCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccccc-ccCccccccccC
Q 021517          248 ISYLQDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCV-KVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i-~~L~~L~~l~i~  310 (311)
                      ..+|..+.. .+|++|+|++|.|.+++ .+ .+.+|++|+|++|+++.+|.++ ..+.+|++|++.
T Consensus        31 ~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~   95 (162)
T d1a9na_          31 PVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILT   95 (162)
T ss_dssp             CSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECC
T ss_pred             CccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCccccccccccccceec
Confidence            345543344 78888888888888885 46 6888888888888888888765 467888877764

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.05  E-value=2.6e-06  Score=72.32  Aligned_cols=63  Identities=8%  Similarity=0.047  Sum_probs=48.6

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCC-CC-CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPS-NL-SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~-~i-~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      ...+|..+. +.+++|+|++|+|+++|+ ++ ++.+|++|++++|.+..+ |..+.+|++|++++++
T Consensus        22 L~~lP~~l~-~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~   87 (305)
T d1xkua_          22 LEKVPKDLP-PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS   87 (305)
T ss_dssp             CCSCCCSCC-TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCccCCCCC-CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEeccc
Confidence            456676553 678888888888888886 46 688888888888888887 4568888888888764

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=2.8e-06  Score=70.93  Aligned_cols=64  Identities=9%  Similarity=-0.035  Sum_probs=55.4

Q ss_pred             ccccCCCCCC--CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          247 KISYLQDPGF--AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~--~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ...+|.....  ..|++|+++++++..+|...  .+.+|++|+|++|+|+.||.++..+.+|++++++
T Consensus       136 l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~  203 (266)
T d1p9ag_         136 LKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (266)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             cceeccccccccccchhcccccccccccCccccccccccceeecccCCCcccChhHCCCCCCCEEEec
Confidence            3455655444  89999999999999999765  6999999999999999999999999999999875

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=2e-06  Score=65.92  Aligned_cols=63  Identities=13%  Similarity=0.012  Sum_probs=53.0

Q ss_pred             cccCC-CCCC-CceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          248 ISYLQ-DPGF-AEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       248 ~~lp~-~~~~-~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ..++. .+.. .+|++|+|++++|+.+|.. + .+.+|++|+|++++|+.+|.++....+|++|++.
T Consensus        45 ~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L~L~  111 (156)
T d2ifga3          45 QHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLS  111 (156)
T ss_dssp             CEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCEEECC
T ss_pred             cccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcccChhhhccccccccccC
Confidence            34543 4555 8999999999999999766 5 7999999999999999999998877789888775

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.96  E-value=3.9e-06  Score=66.47  Aligned_cols=60  Identities=10%  Similarity=0.055  Sum_probs=50.1

Q ss_pred             CCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      ++.+.. +.|++|+|+++.+..+|...  +|.+|++|+|+++.|+.+|.+ ...+.+|+++++.
T Consensus        71 ~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~  134 (192)
T d1w8aa_          71 PNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLA  134 (192)
T ss_dssp             TTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECT
T ss_pred             ccccccccccceeeeccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccc
Confidence            445555 89999999999999998764  699999999999999999875 5788899988774

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=97.88  E-value=2.2e-06  Score=73.12  Aligned_cols=62  Identities=10%  Similarity=0.099  Sum_probs=40.8

Q ss_pred             ccCCCCCC-CceeEEeeeC-CCCC-CCCCCC-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          249 SYLQDPGF-AEVKYLHWYG-YPLK-SLPSNL-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       249 ~lp~~~~~-~~Lr~L~l~~-~~i~-~lP~~i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      .+|..++. ++|++|+|++ +.+. .+|++| +|.+|++|+|++|++..++. .+.++.+|+++++.
T Consensus        67 ~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~  133 (313)
T d1ogqa_          67 PIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFS  133 (313)
T ss_dssp             ECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECC
T ss_pred             CCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccc
Confidence            46666666 7777777776 3443 677777 67777777777777666543 36666666666543

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=4.2e-06  Score=64.53  Aligned_cols=63  Identities=11%  Similarity=-0.024  Sum_probs=47.8

Q ss_pred             ccccCCCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc--ccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i~  310 (311)
                      ...++ .+.. ++|++|++++|.+..+|..+  .+.+|++|+|++|+|+.+|.  .+.++++|+++.+.
T Consensus        53 i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~  120 (162)
T d1a9na_          53 IRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCIL  120 (162)
T ss_dssp             CCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECC
T ss_pred             CCccC-CcccCcchhhhhcccccccCCCccccccccccccceeccccccccccccccccccccchhhcC
Confidence            33443 3555 88888888888888888776  58888888888888888874  56777888877664

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=97.84  E-value=3.7e-06  Score=71.68  Aligned_cols=59  Identities=15%  Similarity=0.118  Sum_probs=51.2

Q ss_pred             CCCCCC-CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCCCcc-ccccccccCccccccccC
Q 021517          251 LQDPGF-AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDSDIE-RLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       251 p~~~~~-~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~~i~-~LP~~i~~L~~L~~l~i~  310 (311)
                      +..++. +.|++|+|++|.+. .+|+++ +|.+|++|+|++|+++ .+|. .++|++|+.+.+.
T Consensus       237 ~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~~L~~l~l~  299 (313)
T d1ogqa_         237 LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAYA  299 (313)
T ss_dssp             GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCC-STTGGGSCGGGTC
T ss_pred             ccccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCCC-cccCCCCCHHHhC
Confidence            445666 99999999999998 899999 8999999999999998 7885 6889999887763

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.80  E-value=4.9e-06  Score=67.56  Aligned_cols=55  Identities=11%  Similarity=0.137  Sum_probs=49.3

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|+|++|.++.+|. + ++.+|++|+|++|+|+.+|. ++++++|+.|+++
T Consensus       169 l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls~N~lt~i~~-l~~l~~L~~L~ls  225 (227)
T d1h6ua2         169 LANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLT  225 (227)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEE
T ss_pred             hcccccceecccCCCccCCChh-hcCCCCCCEEECcCCcCCCCcc-cccCCCCCEEEee
Confidence            555 899999999999999875 6 79999999999999999984 9999999999874

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.80  E-value=5.6e-06  Score=66.51  Aligned_cols=52  Identities=13%  Similarity=0.142  Sum_probs=48.2

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++++++++.+..+|. + +|.+|+.|+|++|.|+.+| ++.+|++|++|+|+
T Consensus       156 ~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         156 TKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             TTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEEEE
T ss_pred             cccccccccccccccccc-ccCCCCCCEEECCCCCCCCCh-hhcCCCCCCEEEcc
Confidence            899999999999999875 6 8999999999999999998 69999999999984

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.77  E-value=6.6e-06  Score=69.77  Aligned_cols=58  Identities=19%  Similarity=0.242  Sum_probs=45.7

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccc-------cccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHC-------VKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~-------i~~L~~L~~l~i~  310 (311)
                      .+.. ++|++|+|++|+++++|+++ ++.+|++|+|++|+|+.+|..       ...+.+|+++.|.
T Consensus       214 ~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~  280 (305)
T d1xkua_         214 SLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLF  280 (305)
T ss_dssp             TGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECC
T ss_pred             cccccccceeeecccccccccccccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECC
Confidence            3444 88999999999999999888 799999999999999888753       2456677777664

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.77  E-value=9.6e-06  Score=64.08  Aligned_cols=57  Identities=12%  Similarity=0.112  Sum_probs=49.8

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc-cccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC-VKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~-i~~L~~L~~l~i~  310 (311)
                      +.. ++|+.|+|+++.+..+|...  .+.+|++|+|++++|+.+|.+ +.+|.+|++|+++
T Consensus        50 f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~  110 (192)
T d1w8aa_          50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLY  110 (192)
T ss_dssp             GGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECC
T ss_pred             cCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccccC
Confidence            444 99999999999998887665  699999999999999999875 6889999999875

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.71  E-value=9.4e-06  Score=70.65  Aligned_cols=57  Identities=12%  Similarity=0.213  Sum_probs=50.1

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++++. ++|++|+|++|+++.+|. + +|.+|++|++++|.|..+|. +++|++|+++++.
T Consensus        60 ~gl~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~~  118 (384)
T d2omza2          60 DGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  118 (384)
T ss_dssp             TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECC
T ss_pred             cccccCCCCCEEeCcCCcCCCCcc-ccCCcccccccccccccccccc-ccccccccccccc
Confidence            35666 999999999999999985 7 79999999999999999885 8999999988764

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=1.6e-05  Score=60.69  Aligned_cols=64  Identities=11%  Similarity=0.005  Sum_probs=54.7

Q ss_pred             ccccCCCCCC-CceeEEeeeCCC-CCCCCCC-C-CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          247 KISYLQDPGF-AEVKYLHWYGYP-LKSLPSN-L-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~Lr~L~l~~~~-i~~lP~~-i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ....|..+.. ++|+.|++.+++ ++.+|.. + +|.+|+.|+|++|+|+.+|. .+..+++|++|+++
T Consensus        20 ~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3          20 ALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             CCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            3456777777 999999998775 9999865 6 79999999999999999965 57899999999885

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.66  E-value=1.5e-05  Score=63.85  Aligned_cols=56  Identities=14%  Similarity=0.126  Sum_probs=40.8

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.++.+|..-+|.+|++|++++|+|+.+| ++.++++|+++.++
T Consensus        64 l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          64 IQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECT
T ss_pred             HhhCCCCCEEeCCCccccCccccccCccccccccccccccccc-cccccccccccccc
Confidence            455 778888888888777774226788888888888888777 47777777777653

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.65  E-value=1.4e-05  Score=69.56  Aligned_cols=55  Identities=9%  Similarity=0.111  Sum_probs=47.9

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|+++.+| .+ ++.+|++|+|++|+++.+|. +.+|++|+.|+|+
T Consensus       325 l~~l~~L~~L~L~~n~l~~l~-~l~~l~~L~~L~l~~N~l~~l~~-l~~l~~L~~L~L~  381 (384)
T d2omza2         325 VSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHNQISDLTP-LANLTRITQLGLN  381 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSCCCBCGG-GTTCTTCSEEECC
T ss_pred             cccCCCCCEEECCCCCCCCCh-hHcCCCCCCEEECCCCcCCCChh-hccCCCCCEeeCC
Confidence            444 88999999999998887 57 79999999999999999985 8999999999875

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.60  E-value=1.5e-05  Score=66.23  Aligned_cols=53  Identities=9%  Similarity=0.035  Sum_probs=26.9

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCccccccccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWHCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i  309 (311)
                      ++|++|+|++|.++.+|..-.+.+|++|+|++|+++..|..+.++.+|+.+++
T Consensus        55 ~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l  107 (266)
T d1p9ag_          55 TRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDV  107 (266)
T ss_dssp             TTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEEC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            55555555555555554322455555555555555555555555555555444

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.51  E-value=3.7e-05  Score=60.93  Aligned_cols=56  Identities=13%  Similarity=0.212  Sum_probs=48.3

Q ss_pred             CCCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          253 DPGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       253 ~~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++.. ++|++|++++|.+..+|. + ++.+|++|++++|.+..+|. +.++++|++++++
T Consensus        57 ~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l~  114 (199)
T d2omxa2          57 GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  114 (199)
T ss_dssp             TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECC
T ss_pred             ccccCCCcCcCccccccccCccc-ccCCcccccccccccccccccc-ccccccccccccc
Confidence            4556 899999999999998886 7 79999999999999999984 8899999888765

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.50  E-value=3.1e-05  Score=61.34  Aligned_cols=55  Identities=7%  Similarity=0.001  Sum_probs=44.8

Q ss_pred             CCC-CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          254 PGF-AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       254 ~~~-~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.. ++|++|++++|.+..+|. + ++.+|++|+++++.+..++ .+.++++|+.+++.
T Consensus        80 l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~L~l~  136 (199)
T d2omxa2          80 LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELS  136 (199)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECC
T ss_pred             ccCCcccccccccccccccccc-ccccccccccccccccccccc-ccchhhhhHHhhhh
Confidence            555 889999999998888875 6 7899999999988777765 47888888888764

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=97.46  E-value=1.2e-06  Score=70.06  Aligned_cols=53  Identities=11%  Similarity=0.019  Sum_probs=32.0

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|+|++|.++++|..+ .+.+|++|++++|.|+.+| ++.++++|++|+++
T Consensus        70 ~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~L~  123 (198)
T d1m9la_          70 ENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMS  123 (198)
T ss_dssp             TTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEEES
T ss_pred             ccccChhhcccccccccccccccccccccccccccccccc-cccccccccccccc
Confidence            66666666666666666544 3455666666666666654 36666666666543

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=97.38  E-value=6e-05  Score=64.29  Aligned_cols=61  Identities=20%  Similarity=0.114  Sum_probs=46.7

Q ss_pred             ccccCCCCCCCceeEEeeeCCCCCCCCCCC-CCC-----------------CceEEEcCCCCccccccccccCccccccc
Q 021517          247 KISYLQDPGFAEVKYLHWYGYPLKSLPSNL-SAK-----------------KLVLVEVPDSDIERLWHCVKVCISYYTCG  308 (311)
Q Consensus       247 ~~~lp~~~~~~~Lr~L~l~~~~i~~lP~~i-~L~-----------------~L~~L~L~~~~i~~LP~~i~~L~~L~~l~  308 (311)
                      ...+|+.+  ++|++|+|++++++++|..+ +|+                 .|++|+|++|.+..+|. ++++++|++++
T Consensus        50 L~~lp~~~--~~L~~L~Ls~N~l~~lp~~~~~L~~L~l~~n~l~~l~~lp~~L~~L~L~~n~l~~lp~-~~~l~~L~~L~  126 (353)
T d1jl5a_          50 LSSLPELP--PHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPE-LQNSSFLKIID  126 (353)
T ss_dssp             CSCCCSCC--TTCSEEECCSSCCSSCCCCCTTCCEEECCSSCCSCCCSCCTTCCEEECCSSCCSSCCC-CTTCTTCCEEE
T ss_pred             CCCCCCCC--CCCCEEECCCCCCcccccchhhhhhhhhhhcccchhhhhccccccccccccccccccc-hhhhccceeec
Confidence            44666532  78999999999999999876 442                 46777888888888874 67888888888


Q ss_pred             cC
Q 021517          309 IF  310 (311)
Q Consensus       309 i~  310 (311)
                      +.
T Consensus       127 l~  128 (353)
T d1jl5a_         127 VD  128 (353)
T ss_dssp             CC
T ss_pred             cc
Confidence            75

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.30  E-value=0.00014  Score=60.57  Aligned_cols=53  Identities=8%  Similarity=0.053  Sum_probs=25.7

Q ss_pred             CceeEEeeeCCCCCCC-CCCC-CCCCceEEEcCCCCcccccc-ccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSL-PSNL-SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~l-P~~i-~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i  309 (311)
                      +.|++|++.++.+..+ |..+ ++.+|++|+++++++..+|. .++++.+|+++++
T Consensus       177 ~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l  232 (284)
T d1ozna_         177 HSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (284)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             cccchhhhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEe
Confidence            5555555555554433 3333 35555555555555555543 3445555554443

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=0.00016  Score=58.57  Aligned_cols=64  Identities=11%  Similarity=0.064  Sum_probs=49.8

Q ss_pred             ccccCCCCCC-Cce-eEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccccc-ccccCccccccccC
Q 021517          247 KISYLQDPGF-AEV-KYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWH-CVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~~~~-~~L-r~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~-~i~~L~~L~~l~i~  310 (311)
                      ...++..... .++ +.+++.++.++++|..+  ++.+|++|+|++|+|+.+|. .+.+|.+|+.++++
T Consensus       165 l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~  233 (242)
T d1xwdc1         165 IQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTY  233 (242)
T ss_dssp             CCEECTTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEE
T ss_pred             ccccccccccchhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcCC
Confidence            3456666555 554 45567788899999875  69999999999999999987 47888888888764

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.10  E-value=0.00017  Score=57.98  Aligned_cols=52  Identities=15%  Similarity=0.197  Sum_probs=47.0

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCccccccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~~i~~L~~L~~l~i~  310 (311)
                      +.|++|++.++.+...+. + ++.+|++|+|++|+++.+|. +.++++|++|+++
T Consensus       151 ~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls  203 (227)
T d1h6ua2         151 TNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNKISDISP-LASLPNLIEVHLK  203 (227)
T ss_dssp             TTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECT
T ss_pred             cccccccccccccccchh-hcccccceecccCCCccCCChh-hcCCCCCCEEECc
Confidence            889999999999887765 6 79999999999999999985 8999999999876

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=96.96  E-value=0.0003  Score=59.72  Aligned_cols=38  Identities=13%  Similarity=0.074  Sum_probs=21.4

Q ss_pred             CceeEEeeeCCCCCCCCCCCCCCCceEEEcCCCCcccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNLSAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i~L~~L~~L~L~~~~i~~LP~  296 (311)
                      ++|++|++++|.+.++|..+  .+|++|+|++|+|+.+|.
T Consensus       284 ~~L~~L~Ls~N~l~~lp~~~--~~L~~L~L~~N~L~~l~~  321 (353)
T d1jl5a_         284 PSLEELNVSNNKLIELPALP--PRLERLIASFNHLAEVPE  321 (353)
T ss_dssp             TTCCEEECCSSCCSCCCCCC--TTCCEEECCSSCCSCCCC
T ss_pred             CCCCEEECCCCccCcccccc--CCCCEEECCCCcCCcccc
Confidence            56666666666666666543  334455555555555554

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.00036  Score=56.40  Aligned_cols=44  Identities=14%  Similarity=0.151  Sum_probs=26.2

Q ss_pred             ccCCCCCCCceeEEeeeCCCCCCCCCC-C-CCCCceEEEcCCCCccc
Q 021517          249 SYLQDPGFAEVKYLHWYGYPLKSLPSN-L-SAKKLVLVEVPDSDIER  293 (311)
Q Consensus       249 ~lp~~~~~~~Lr~L~l~~~~i~~lP~~-i-~L~~L~~L~L~~~~i~~  293 (311)
                      .+|+.+. .++++|+++++.++++|.. + ++.+|++|+|++|.+..
T Consensus        22 ~iP~~l~-~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~   67 (242)
T d1xwdc1          22 EIPSDLP-RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLE   67 (242)
T ss_dssp             SCCSCSC-SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCC
T ss_pred             CcCCCCC-CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccc
Confidence            4454432 4566666666666666654 3 56666666666665544

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=96.89  E-value=1.2e-05  Score=63.94  Aligned_cols=52  Identities=10%  Similarity=0.003  Sum_probs=32.2

Q ss_pred             CceeEEeeeCCCCCCCCCCC-CCCCceEEEcCCCCcccccc--ccccCcccccccc
Q 021517          257 AEVKYLHWYGYPLKSLPSNL-SAKKLVLVEVPDSDIERLWH--CVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~~i-~L~~L~~L~L~~~~i~~LP~--~i~~L~~L~~l~i  309 (311)
                      +.|++|++++|.++++|. + ++.+|++|+|++|+|+.+|.  .+.+|++|++|.+
T Consensus        93 ~~L~~L~l~~N~i~~l~~-~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L  147 (198)
T d1m9la_          93 DTLEELWISYNQIASLSG-IEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLL  147 (198)
T ss_dssp             HHCCEEECSEEECCCHHH-HHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEE
T ss_pred             cccccccccccccccccc-ccccccccccccccchhccccccccccCCCccceeec
Confidence            456666666666666543 4 56666666666666666652  4566666666654

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.72  E-value=0.00058  Score=56.71  Aligned_cols=64  Identities=14%  Similarity=0.099  Sum_probs=53.5

Q ss_pred             ccccCCC-CCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCcccc-ccccccCccccccccC
Q 021517          247 KISYLQD-PGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERL-WHCVKVCISYYTCGIF  310 (311)
Q Consensus       247 ~~~lp~~-~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~L-P~~i~~L~~L~~l~i~  310 (311)
                      ...+|.. +.. .+|+.|+++++.++.+|...  ++.+|++|+++++++..+ |..+.++.+|++|+++
T Consensus       141 l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~  209 (284)
T d1ozna_         141 LQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF  209 (284)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             ccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhccccccc
Confidence            3455544 555 89999999999999998765  699999999999988887 6889999999999876

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.62  E-value=0.00014  Score=55.57  Aligned_cols=40  Identities=15%  Similarity=0.194  Sum_probs=22.6

Q ss_pred             CceeEEeeeCCCCCCCCC---CC-CCCCceEEEcCCCCcccccc
Q 021517          257 AEVKYLHWYGYPLKSLPS---NL-SAKKLVLVEVPDSDIERLWH  296 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~lP~---~i-~L~~L~~L~L~~~~i~~LP~  296 (311)
                      +.|++|+|++|.|+.++.   .+ ++.+|++|+|+++.|+.++.
T Consensus        65 ~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~  108 (162)
T d1koha1          65 PELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE  108 (162)
T ss_dssp             TTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGG
T ss_pred             CCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchh
Confidence            456666666666555532   22 35666666666666666554

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.24  E-value=0.0068  Score=49.17  Aligned_cols=101  Identities=18%  Similarity=0.194  Sum_probs=62.2

Q ss_pred             CeEEEEEeCCCCHHH------HHHHHhcCCCCCCCcEEEEEeCchhHHHhcC------------CCceEEcCCCCHHHHH
Q 021517            1 MKVLIVFDDVTCFSQ------IESLIGSLDWLTPVSRIIITTRNKQVLRNWG------------VRKIYEMKALEYHHAI   62 (311)
Q Consensus         1 kr~LlVLDdv~~~~~------~~~l~~~~~~~~~gs~IlvTTR~~~va~~~~------------~~~~~~l~~L~~~~a~   62 (311)
                      ++.++|+|++.....      +..+..... .......+++++.........            ....+.|++++.+++.
T Consensus       136 ~~~~i~id~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~  214 (283)
T d2fnaa2         136 DNVIIVLDEAQELVKLRGVNLLPALAYAYD-NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAI  214 (283)
T ss_dssp             SCEEEEEETGGGGGGCTTCCCHHHHHHHHH-HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHH
T ss_pred             cccccccchhhhhcccchHHHHHHHHHHHH-hhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHH
Confidence            568899998754321      222222211 123445566655544433221            1246899999999999


Q ss_pred             HHHHHhhcCCCCCCccHHHHHHHHHHHhCCCchHHHHHHHHhcc
Q 021517           63 RLFSRHAFKQNHPDVGYEELSCKVMKYAQGVPLALKVLGCFLHK  106 (311)
Q Consensus        63 ~Lf~~~a~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~  106 (311)
                      +++.+..-......++    ..+|.+.++|.|..+..+|..+..
T Consensus       215 ~~l~~~~~~~~~~~~~----~~~i~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         215 EFLRRGFQEADIDFKD----YEVVYEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHHHHHHHHHTCCCCC----HHHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcCCCHHH----HHHHHHHhCCCHHHHHHHHHHHHh
Confidence            9998765322222222    468999999999999999876643

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.99  E-value=0.0062  Score=50.35  Aligned_cols=53  Identities=13%  Similarity=0.008  Sum_probs=24.5

Q ss_pred             CceeEEeeeCCC-CC-CCCCCC-CCCCceEEEcCCC-Cccc-cccccccCcccccccc
Q 021517          257 AEVKYLHWYGYP-LK-SLPSNL-SAKKLVLVEVPDS-DIER-LWHCVKVCISYYTCGI  309 (311)
Q Consensus       257 ~~Lr~L~l~~~~-i~-~lP~~i-~L~~L~~L~L~~~-~i~~-LP~~i~~L~~L~~l~i  309 (311)
                      ++|+.|++++|. ++ ..+..+ ++.+|++|+|++| +|+. -+..++++++|++|++
T Consensus       175 ~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l  232 (284)
T d2astb2         175 PNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQV  232 (284)
T ss_dssp             TTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEEC
T ss_pred             ccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEee
Confidence            445555555543 32 233334 4555555555554 3321 2223444555555544

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.25  E-value=0.0021  Score=53.31  Aligned_cols=54  Identities=15%  Similarity=0.247  Sum_probs=31.9

Q ss_pred             CceeEEeeeCCCCC-CCCCCC-CCCCceEEEcCCC-Cccc--cccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLK-SLPSNL-SAKKLVLVEVPDS-DIER--LWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~-~lP~~i-~L~~L~~L~L~~~-~i~~--LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|+|++|++. ..+..+ ++.+|++|+|++| +++.  +..-...+++|++|+++
T Consensus        71 ~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls  129 (284)
T d2astb2          71 SKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLS  129 (284)
T ss_dssp             CCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECC
T ss_pred             CCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccc
Confidence            67777777777653 334444 5677777777775 4542  33223456666666653

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.09  E-value=0.0035  Score=47.37  Aligned_cols=57  Identities=14%  Similarity=-0.010  Sum_probs=44.1

Q ss_pred             CCCCC-CceeEEeeeCCCCCCCCCCC--CCCCceEEEcCCCCccccccc--------cccCccccccc
Q 021517          252 QDPGF-AEVKYLHWYGYPLKSLPSNL--SAKKLVLVEVPDSDIERLWHC--------VKVCISYYTCG  308 (311)
Q Consensus       252 ~~~~~-~~Lr~L~l~~~~i~~lP~~i--~L~~L~~L~L~~~~i~~LP~~--------i~~L~~L~~l~  308 (311)
                      ..+.. ++|++|+|++|.|+++++--  +..+|+.|+|.++.+...+..        +..+++|+.|+
T Consensus        85 ~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1          85 SIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             THHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             HHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHHHHHCCCCCEEC
Confidence            33444 89999999999999998732  566799999999988765432        55788888876

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.55  E-value=0.0039  Score=54.32  Aligned_cols=35  Identities=11%  Similarity=0.232  Sum_probs=15.9

Q ss_pred             CceeEEeeeCCCCCC-----CCCCC-CCCCceEEEcCCCCc
Q 021517          257 AEVKYLHWYGYPLKS-----LPSNL-SAKKLVLVEVPDSDI  291 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~-----lP~~i-~L~~L~~L~L~~~~i  291 (311)
                      ..|++|+|++|++..     |++.+ ..++|++|+|++|+|
T Consensus       369 ~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i  409 (460)
T d1z7xw1         369 SVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCL  409 (460)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSC
T ss_pred             CCCCEEECCCCCCChHHHHHHHHHHhcCCCCCEEECCCCcC
Confidence            345555555554421     33333 344555555555544

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.52  E-value=0.0091  Score=51.87  Aligned_cols=54  Identities=9%  Similarity=0.064  Sum_probs=33.6

Q ss_pred             CceeEEeeeCCCCC-----CCCCCC--CCCCceEEEcCCCCccc-----cccccccCccccccccC
Q 021517          257 AEVKYLHWYGYPLK-----SLPSNL--SAKKLVLVEVPDSDIER-----LWHCVKVCISYYTCGIF  310 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~-----~lP~~i--~L~~L~~L~L~~~~i~~-----LP~~i~~L~~L~~l~i~  310 (311)
                      ++|++|||++|+|.     .+...+  ...+|++|+|++|+|+.     ++..+.++++|++|+++
T Consensus        55 ~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~  120 (460)
T d1z7xw1          55 PALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLS  120 (460)
T ss_dssp             TTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECC
T ss_pred             CCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCCccccccccccchhhccccccccccc
Confidence            66777777777663     233333  13457777777776643     55666677777776653

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=92.93  E-value=0.32  Score=37.51  Aligned_cols=89  Identities=13%  Similarity=0.196  Sum_probs=62.6

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+||++..  +....++..+.....++.+|+||++.+ +...+ +-...+.+.+++.++....+....    ..  
T Consensus       109 ~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~----~~--  182 (207)
T d1a5ta2         109 AKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV----TM--  182 (207)
T ss_dssp             CEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC----CC--
T ss_pred             cceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcC----CC--
Confidence            447999999854  446777766665567788777777653 44433 344689999999999999887654    11  


Q ss_pred             cHHHHHHHHHHHhCCCchHH
Q 021517           78 GYEELSCKVMKYAQGVPLAL   97 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPLai   97 (311)
                       ..+.+..|++.++|.|-.+
T Consensus       183 -~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         183 -SQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             -CHHHHHHHHHHTTTCHHHH
T ss_pred             -CHHHHHHHHHHcCCCHHHH
Confidence             1356778888999988543

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=89.75  E-value=0.05  Score=45.66  Aligned_cols=61  Identities=18%  Similarity=0.164  Sum_probs=41.4

Q ss_pred             cCCCCCC-CceeEEeeeCCCCC-----CCCCCC-CCCCceEEEcCCCCccc-----cccccccC--ccccccccC
Q 021517          250 YLQDPGF-AEVKYLHWYGYPLK-----SLPSNL-SAKKLVLVEVPDSDIER-----LWHCVKVC--ISYYTCGIF  310 (311)
Q Consensus       250 lp~~~~~-~~Lr~L~l~~~~i~-----~lP~~i-~L~~L~~L~L~~~~i~~-----LP~~i~~L--~~L~~l~i~  310 (311)
                      +...+.. ++|++|+|++|.+.     .+...+ ...+|++|+|++|.|..     +-+.+.+.  ..|++|+++
T Consensus       207 l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls  281 (344)
T d2ca6a1         207 LLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQ  281 (344)
T ss_dssp             HHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECC
T ss_pred             hhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECC
Confidence            3444555 88999999998763     355556 57889999999997764     33334333  457777764

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=89.72  E-value=0.71  Score=36.16  Aligned_cols=97  Identities=13%  Similarity=0.138  Sum_probs=61.3

Q ss_pred             eEEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCc
Q 021517            2 KVLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDV   77 (311)
Q Consensus         2 r~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~   77 (311)
                      +-++|+|+++..  +.-..++..+.....++++|+||.+.. +.... .-...+.+.+++.++-...+.+.+-.....  
T Consensus       116 ~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~--  193 (239)
T d1njfa_         116 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--  193 (239)
T ss_dssp             SEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--
T ss_pred             CEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC--
Confidence            347899999865  334455555444456677777776543 32222 334689999999999988887776322221  


Q ss_pred             cHHHHHHHHHHHhCCCch-HHHHH
Q 021517           78 GYEELSCKVMKYAQGVPL-ALKVL  100 (311)
Q Consensus        78 ~~~~~~~~i~~~c~glPL-ai~~~  100 (311)
                      -..+....|++.++|.+- |+..+
T Consensus       194 ~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         194 HEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             BCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            123567788999999884 44433

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.95  E-value=0.75  Score=35.94  Aligned_cols=92  Identities=7%  Similarity=0.105  Sum_probs=55.6

Q ss_pred             EEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -++|+|+++..  +.+..+...+......+++|+||.+.+ +.... +-...+++.+++.++..+.+.+.+-. +.....
T Consensus       133 ~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~-e~~~~~  211 (252)
T d1sxje2         133 KCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTN-ERIQLE  211 (252)
T ss_dssp             EEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHH-HTCEEC
T ss_pred             eEEEeccccccccccchhhhcccccccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHH-cCCCCC
Confidence            37889999864  334444444433345677777776542 21111 22257899999999999988765521 111111


Q ss_pred             HHHHHHHHHHHhCCCch
Q 021517           79 YEELSCKVMKYAQGVPL   95 (311)
Q Consensus        79 ~~~~~~~i~~~c~glPL   95 (311)
                      .++....|++.+.|.+-
T Consensus       212 ~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         212 TKDILKRIAQASNGNLR  228 (252)
T ss_dssp             CSHHHHHHHHHHTTCHH
T ss_pred             cHHHHHHHHHHcCCcHH
Confidence            22556788899988764

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.72  E-value=2  Score=32.86  Aligned_cols=90  Identities=10%  Similarity=0.130  Sum_probs=58.0

Q ss_pred             EEEEEeCCCCH--HHHHHHHhcCCCCCCCcEEEEEeCchh-HHHhc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCCcc
Q 021517            3 VLIVFDDVTCF--SQIESLIGSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEMKALEYHHAIRLFSRHAFKQNHPDVG   78 (311)
Q Consensus         3 ~LlVLDdv~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-va~~~-~~~~~~~l~~L~~~~a~~Lf~~~a~~~~~~~~~   78 (311)
                      -.+|+|++...  ..-..+...+......++++++|.... +.... .....+++.+++.++-...+.+.+-..+..-  
T Consensus       101 kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~i~i--  178 (227)
T d1sxjc2         101 KLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKL--  178 (227)
T ss_dssp             EEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTTCCB--
T ss_pred             EEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccccccccccccccccccccccC--
Confidence            37889999754  333444444443456777777776543 32222 3446889999999999998888764432221  


Q ss_pred             HHHHHHHHHHHhCCCc
Q 021517           79 YEELSCKVMKYAQGVP   94 (311)
Q Consensus        79 ~~~~~~~i~~~c~glP   94 (311)
                      ..+....|++.++|..
T Consensus       179 ~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         179 SPNAEKALIELSNGDM  194 (227)
T ss_dssp             CHHHHHHHHHHHTTCH
T ss_pred             CHHHHHHHHHHcCCcH
Confidence            1356788899998864

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=83.16  E-value=0.11  Score=38.73  Aligned_cols=34  Identities=12%  Similarity=0.120  Sum_probs=16.1

Q ss_pred             CceeEEeeeCCCCCC-----CCCCC-CCCCceEEEcCCCC
Q 021517          257 AEVKYLHWYGYPLKS-----LPSNL-SAKKLVLVEVPDSD  290 (311)
Q Consensus       257 ~~Lr~L~l~~~~i~~-----lP~~i-~L~~L~~L~L~~~~  290 (311)
                      +.|+.|+|++|++..     |-..+ .-..|++|+|+++.
T Consensus        72 ~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          72 PSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             SSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             ccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCc
Confidence            556666666665432     11122 23445666665543