Citrus Sinensis ID: 028959

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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-
Protein Sequence
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLKYF
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccccccccccccHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHEEEEEEcccccccccccccccccEEEcccccccc
Coil and Loop (DISEMBL)
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGIlssadpslAAELFPYLVElqsspeslVRKSLIETIEDIGLKAMEHSSILMPVLLAFLrdgdsgvagksivcgTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFtsdsndfenFTKEGIAFLFVMAIYLKYF
Flexible Loop (DISEMBL)
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLKYF
Low Complexity Region (SEG)
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLKYF
Disordered region (IsUnstruct)
*****************NHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLKY*
Disordered Region (DISOPRED)
******D****L****************LKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVL***********************A*YL***
Disordered Region (DISEMBL)
********ALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLKYF
Disordered Region (DISPRO)
******DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDS***********AFLFVMAIYLKYF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLKYF
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

No hits with e-value below 0.001 by BLAST

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	201
225458986	241	PREDICTED: uncharacterized protein LOC10	0.930	0.775	0.754	1e-70
302142115	242	unnamed protein product [Vitis vinifera]	0.930	0.772	0.754	1e-70
147791250	409	hypothetical protein VITISV_001105 [Viti	0.955	0.469	0.739	9e-70
356507969	269	PREDICTED: symplekin-like [Glycine max]	0.935	0.698	0.686	5e-68
363807220	254	uncharacterized protein LOC100810420 [Gl	0.935	0.740	0.680	4e-66
255537870	1390	conserved hypothetical protein [Ricinus	0.935	0.135	0.659	5e-65
449436918	243	PREDICTED: uncharacterized protein LOC10	0.930	0.769	0.668	3e-64
449502855	211	PREDICTED: uncharacterized LOC101221904	0.925	0.881	0.666	8e-64
224067086	251	predicted protein [Populus trichocarpa]	0.935	0.749	0.664	8e-64
388508130	248	unknown [Medicago truncatula]	0.915	0.741	0.625	5e-59

>gi|225458986|ref|XP_002283639.1| PREDICTED: uncharacterized protein LOC100260884 [Vitis vinifera]

 Score =  271 bits (693), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 141/187 (75%), Positives = 158/187 (84%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MA  SRDQAL+LLAAANNHGDLAVKLSSL+Q + IL +  PS AAELFPYLVELQSSPE+
Sbjct: 1   MAGASRDQALALLAAANNHGDLAVKLSSLRQAKDILLAVHPSFAAELFPYLVELQSSPET 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
           LVRKSLIE IE+IGLKAMEHSSIL+ VLL FLRDGDS +A +SIV GTNFFC VLEE+ +
Sbjct: 61  LVRKSLIEAIEEIGLKAMEHSSILVSVLLVFLRDGDSIIAKQSIVSGTNFFCSVLEELAL 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           QF  HGKVERWLEELW WMV+ KDAV AIAL PG  G K+LA+KFLET+VL FTSD+NDF
Sbjct: 121 QFHRHGKVERWLEELWVWMVKLKDAVLAIALGPGPFGVKILAMKFLETYVLHFTSDANDF 180

Query: 181 ENFTKEG 187
           E  + EG
Sbjct: 181 EKSSIEG 187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142115|emb|CBI19318.3| unnamed protein product [Vitis vinifera]

 Score =  271 bits (693), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 141/187 (75%), Positives = 158/187 (84%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MA  SRDQAL+LLAAANNHGDLAVKLSSL+Q + IL +  PS AAELFPYLVELQSSPE+
Sbjct: 1   MAGASRDQALALLAAANNHGDLAVKLSSLRQAKDILLAVHPSFAAELFPYLVELQSSPET 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
           LVRKSLIE IE+IGLKAMEHSSIL+ VLL FLRDGDS +A +SIV GTNFFC VLEE+ +
Sbjct: 61  LVRKSLIEAIEEIGLKAMEHSSILVSVLLVFLRDGDSIIAKQSIVSGTNFFCSVLEELAL 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           QF  HGKVERWLEELW WMV+ KDAV AIAL PG  G K+LA+KFLET+VL FTSD+NDF
Sbjct: 121 QFHRHGKVERWLEELWVWMVKLKDAVLAIALGPGPFGVKILAMKFLETYVLHFTSDANDF 180

Query: 181 ENFTKEG 187
           E  + EG
Sbjct: 181 EKSSIEG 187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147791250|emb|CAN63444.1| hypothetical protein VITISV_001105 [Vitis vinifera]

 Score =  268 bits (685), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 142/192 (73%), Positives = 159/192 (82%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MA  SRDQAL+LLAAANNHGDLAVKLSSL+Q + IL +  PS AAELFPYLVELQSSPE+
Sbjct: 1   MAGASRDQALALLAAANNHGDLAVKLSSLRQAKDILLAVHPSFAAELFPYLVELQSSPET 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
           LVRKSLIE IE+IGLKAMEHSSIL+ VLL FLRDGDS +A +SIV GTNFFC VLEE+ +
Sbjct: 61  LVRKSLIEAIEEIGLKAMEHSSILVSVLLVFLRDGDSIIAKQSIVSGTNFFCSVLEELAL 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           QF  HGKVERWLEELW WMV+ KDAV AIAL PG  G K+LA+KFLET+VL FTSD+NDF
Sbjct: 121 QFHRHGKVERWLEELWVWMVKLKDAVLAIALGPGPFGVKILAMKFLETYVLHFTSDANDF 180

Query: 181 ENFTKEGIAFLF 192
           E  + EG    F
Sbjct: 181 EKSSIEGSGRAF 192

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507969|ref|XP_003522735.1| PREDICTED: symplekin-like [Glycine max]

 Score =  262 bits (670), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 129/188 (68%), Positives = 152/188 (80%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MAA +RDQ LSLLAAANNHGDLAVK SSLKQ + +L S DPSLAA+LFPYL+ELQSSPES
Sbjct: 1   MAAPTRDQVLSLLAAANNHGDLAVKTSSLKQAKDLLLSIDPSLAADLFPYLIELQSSPES 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
           LVRK LI+ IE+IG KA+EHS  ++ +LL FLRDGD+ V  +SIV GTN FC V EE+ +
Sbjct: 61  LVRKLLIQIIEEIGFKAVEHSPTMISLLLTFLRDGDAIVVKQSIVSGTNIFCSVFEELIV 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           QF+ +GKVERWLE++W WM+RFKDAVF IA+EP  VG KLLALKFLET VLLF+SD  D 
Sbjct: 121 QFQQYGKVERWLEDIWMWMLRFKDAVFGIAVEPASVGIKLLALKFLETFVLLFSSDIGDT 180

Query: 181 ENFTKEGI 188
           E    +GI
Sbjct: 181 EKLATKGI 188

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807220|ref|NP_001242610.1| uncharacterized protein LOC100810420 [Glycine max] gi|255644520|gb|ACU22763.1| unknown [Glycine max]

 Score =  256 bits (654), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 128/188 (68%), Positives = 148/188 (78%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MAA +R Q LSLLAAANNHGDLAVK SSLKQ + +L S DPSLAA+LFPYL+ELQSSPES
Sbjct: 1   MAAPTRGQVLSLLAAANNHGDLAVKTSSLKQAKDLLLSIDPSLAADLFPYLLELQSSPES 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
           LVRK LI+ IE+IG KA E S  L+ VLL FLRD D  V  +SIV GTN FC + EE+ +
Sbjct: 61  LVRKLLIQIIEEIGFKAAEQSPTLISVLLTFLRDNDEIVVKQSIVSGTNIFCSIFEELIV 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           QF+ +GKVERWLE++W WM++FKDAVF IALEPG VG KLLALKFLE  VLLF+SD ND 
Sbjct: 121 QFQQYGKVERWLEDIWVWMLKFKDAVFGIALEPGSVGIKLLALKFLEMFVLLFSSDFNDA 180

Query: 181 ENFTKEGI 188
           E    +GI
Sbjct: 181 EKLAAKGI 188

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537870|ref|XP_002510000.1| conserved hypothetical protein [Ricinus communis] gi|223550701|gb|EEF52187.1| conserved hypothetical protein [Ricinus communis]

 Score =  252 bits (644), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 124/188 (65%), Positives = 150/188 (79%)

Query: 5   SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRK 64
           SRDQALSLL AANNH DLAVKLSSLKQ + I+ S +PS AAELFPYL++LQ SPESLVRK
Sbjct: 3   SRDQALSLLTAANNHSDLAVKLSSLKQAKDIILSVEPSFAAELFPYLLQLQFSPESLVRK 62

Query: 65  SLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRW 124
            L+E IE++ LKA EH S+L+PVLL FL+D    +A +SIVCGT+ F  +LEE+  QF+ 
Sbjct: 63  MLLEIIEEMSLKATEHCSLLVPVLLEFLKDNVPVIARQSIVCGTHLFSAILEEMAFQFQR 122

Query: 125 HGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFT 184
            GKVERWLEELW WM++FKDAVFAIA+EPG +GTKLL+LKFLE +VLLFT+D+ND +   
Sbjct: 123 CGKVERWLEELWIWMLKFKDAVFAIAVEPGYIGTKLLSLKFLEKYVLLFTADANDSDKSF 182

Query: 185 KEGIAFLF 192
             G   LF
Sbjct: 183 ARGSKRLF 190

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449436918|ref|XP_004136239.1| PREDICTED: uncharacterized protein LOC101221904 [Cucumis sativus]

 Score =  250 bits (638), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 125/187 (66%), Positives = 148/187 (79%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MA V R++ALSLLAAANNHGDL VK+SSL QV+ I+ + +PS AAEL+ YLVELQSSPES
Sbjct: 1   MAGVLRERALSLLAAANNHGDLTVKISSLNQVKDIILAIEPSFAAELYSYLVELQSSPES 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
            +RK LIE IEDIGL+AMEHS +LM VLLA L+DG+S VAG+SI+ G   FC  L E+ +
Sbjct: 61  SLRKLLIEVIEDIGLRAMEHSPLLMSVLLASLKDGESIVAGQSIISGQKLFCGTLREMAL 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           Q    GKVERWLEELW  M++FKD V AIALEPG VG +LLALKFLET+VLLFTSD+ND 
Sbjct: 121 QLHRRGKVERWLEELWMRMLKFKDEVLAIALEPGSVGKRLLALKFLETYVLLFTSDTNDP 180

Query: 181 ENFTKEG 187
           +    EG
Sbjct: 181 QKAISEG 187

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449502855|ref|XP_004161762.1| PREDICTED: uncharacterized LOC101221904 [Cucumis sativus]

 Score =  248 bits (634), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 124/186 (66%), Positives = 147/186 (79%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
           MA V R++ALSLLAAANNHGDL VK+SSL QV+ I+ + +PS AAEL+ YLVELQSSPES
Sbjct: 1   MAGVLRERALSLLAAANNHGDLTVKISSLNQVKDIILAIEPSFAAELYSYLVELQSSPES 60

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
            +RK LIE IEDIGL+AMEHS +LM VLLA L+DG+S VAG+SI+ G   FC  L E+ +
Sbjct: 61  SLRKLLIEVIEDIGLRAMEHSPLLMSVLLASLKDGESIVAGQSIISGQKLFCGTLREMAL 120

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDF 180
           Q    GKVERWLEELW  M++FKD V AIALEPG VG +LLALKFLET+VLLFTSD+ND 
Sbjct: 121 QLHRRGKVERWLEELWMRMLKFKDEVLAIALEPGSVGKRLLALKFLETYVLLFTSDTNDP 180

Query: 181 ENFTKE 186
           +    E
Sbjct: 181 QKAISE 186

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067086|ref|XP_002302348.1| predicted protein [Populus trichocarpa] gi|222844074|gb|EEE81621.1| predicted protein [Populus trichocarpa]

 Score =  248 bits (634), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 125/188 (66%), Positives = 149/188 (79%)

Query: 5   SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRK 64
           S D+ALSLL AAN+HGDL VKLSSLKQ + +L S +PSLAAELFP LVELQ SPE +VR+
Sbjct: 3   SMDEALSLLTAANSHGDLTVKLSSLKQAKDVLLSLEPSLAAELFPSLVELQYSPEGIVRQ 62

Query: 65  SLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRW 124
            L+E IE+IGLKAME+ SIL+PVLL  LRD DS VA +SIV GT+ +C VLEE+ +Q   
Sbjct: 63  KLVEVIEEIGLKAMENCSILIPVLLGLLRDSDSVVARESIVSGTHLYCGVLEEMALQCHR 122

Query: 125 HGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFT 184
            GKVERWLE LW WM++FKDAVFAIALEPG VG KLLALKFLET++LLFT+++ D +   
Sbjct: 123 RGKVERWLEGLWIWMLKFKDAVFAIALEPGPVGIKLLALKFLETYILLFTTETTDSDRLV 182

Query: 185 KEGIAFLF 192
            EG   LF
Sbjct: 183 AEGSRRLF 190

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388508130|gb|AFK42131.1| unknown [Medicago truncatula]

 Score =  233 bits (593), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 115/184 (62%), Positives = 142/184 (77%)

Query: 5   SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRK 64
           ++DQ LSLLAAANNHGD++VK +SLKQ + +L S DPSLAA+LFPYL+ELQSS + LVRK
Sbjct: 7   TKDQVLSLLAAANNHGDISVKTTSLKQAKDLLLSIDPSLAADLFPYLLELQSSHQPLVRK 66

Query: 65  SLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRW 124
            LI+ IE+IG +A++HS  L+  LL FLRD D+ V  +SI+ GTN FC   EE+ +QF+ 
Sbjct: 67  LLIQIIEEIGFRAVQHSPTLISSLLTFLRDTDATVVKQSIISGTNIFCACFEELILQFQQ 126

Query: 125 HGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFT 184
            GKVERWLEE+W WM +FK+AVF IALE G VG KLLALKFLE  VLLFTSD +D E   
Sbjct: 127 CGKVERWLEEIWMWMFKFKEAVFEIALEGGSVGIKLLALKFLEIFVLLFTSDISDSEKSA 186

Query: 185 KEGI 188
            EG+
Sbjct: 187 TEGV 190

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	201
TAIR|locus:2196869	264	AT1G27590 "AT1G27590" [Arabido	0.950	0.723	0.643	1e-59
TAIR|locus:2196914	649	AT1G27570 [Arabidopsis thalian	0.890	0.275	0.593	2.3e-48
TAIR|locus:2179137	1467	ESP4 "AT5G01400" [Arabidopsis	0.865	0.118	0.350	7.6e-22

TAIR|locus:2196869 AT1G27590 "AT1G27590" [Arabidopsis thaliana (taxid:3702)]

 Score = 612 (220.5 bits), Expect = 1.0e-59, P = 1.0e-59
 Identities = 123/191 (64%), Positives = 147/191 (76%)

Query:     2 AAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESL 61
             AA +R QALSLLAAANNHGDLAVKLSSL+QV+ IL S +PSL+AE+FPYL EL  S E L
Sbjct:     6 AATARAQALSLLAAANNHGDLAVKLSSLRQVKEILLSLEPSLSAEIFPYLAELHLSREIL 65

Query:    62 VRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQ 121
             VRKSLIE IE++GL+ ++HS +L+ VLL   RD D  VA KSI  GT FFC +LEE+ MQ
Sbjct:    66 VRKSLIEIIEEVGLRMLDHSYVLVSVLLVLSRDEDPTVAKKSISVGTTFFCTILEEMAMQ 125

Query:   122 FRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFE 181
             F   GKV+RW  ELWTWMV+FKD VFA ALEPG VG K+LALKF+ET +LLFT D++D E
Sbjct:   126 FHHRGKVDRWCGELWTWMVKFKDTVFATALEPGCVGVKVLALKFMETFILLFTPDASDPE 185

Query:   182 NFTKEGIAFLF 192
               + EG   +F
Sbjct:   186 KASSEGSRHMF 196

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2196914 AT1G27570 [Arabidopsis thaliana (taxid:3702)]

 Score = 505 (182.8 bits), Expect = 2.3e-48, P = 2.3e-48
 Identities = 108/182 (59%), Positives = 136/182 (74%)

Query:     3 AVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLV 62
             A ++ QAL+LLAAA NHGDLAVKLSSLK+V+ IL S +PSL+AE+FPYL EL  SPE LV
Sbjct:     7 ATTKGQALALLAAAKNHGDLAVKLSSLKEVKEILLSLEPSLSAEIFPYLRELCLSPEVLV 66

Query:    63 RKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQF 122
             R+SLIE IE++GL+ +EHS +L+ VL+  + D D  VA KSI  GT FF  +LE++  QF
Sbjct:    67 RRSLIEIIEEVGLRMLEHSYVLVSVLIHLVGDNDPTVAEKSISTGTTFFRSILEKMETQF 126

Query:   123 RWHGKVERWLEELWTWMVRFKDAVFAIAL--EPG-LVGTKLLALKFLETHVLLFTSDSND 179
                GKV+RW   LWT M+ FKDAVF IAL  EPG +VG K+LALKF+ET +LL T  ++D
Sbjct:   127 HHRGKVDRWCVNLWTLMLMFKDAVFNIALDLEPGRVVGVKVLALKFMETFILLITPHASD 186

Query:   180 FE 181
              E
Sbjct:   187 PE 188

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

TAIR|locus:2179137 ESP4 "AT5G01400" [Arabidopsis thaliana (taxid:3702)]

 Score = 269 (99.8 bits), Expect = 7.6e-22, P = 7.6e-22
 Identities = 61/174 (35%), Positives = 95/174 (54%)

Query:     1 MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
             MA+ SR +   L  +A +  +L  KL  L+ +R  L   D     EL P+L +L S    
Sbjct:     1 MASYSRARLKDLANSAKSATELPPKLQRLRYMRRDLQKDDSVFPTELLPHLFDLLSDQFG 60

Query:    61 LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
              VRK + E + +IGLK +E    ++P+L+  L D    VA + I CG + F   LE + +
Sbjct:    61 AVRKFVAEILGEIGLKYVELIPEIVPLLIKSLEDETPAVARQVIACGADLFRSTLERVAV 120

Query:   121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFT 174
             Q     ++   LE  WTW+++FKD + ++A + G  G KL A+KF+E  +LL+T
Sbjct:   121 QGLHSSELNDLLESSWTWLIKFKDEICSVAFKQGNSGVKLCAMKFVEALILLYT 174


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.324   0.137   0.401    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      201       201   0.00089  111 3  11 22  0.42    32
                                                     31  0.45    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  602 (64 KB)
  Total size of DFA:  161 KB (2095 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.49u 0.09s 17.58t   Elapsed:  00:00:00
  Total cpu time:  17.49u 0.09s 17.58t   Elapsed:  00:00:00
  Start:  Fri May 10 00:07:26 2013   End:  Fri May 10 00:07:26 2013

GO:0005847 "mRNA cleavage and polyadenylation specificity factor complex" evidence=NAS

GO:0006396 "RNA processing" evidence=IMP

GO:0035194 "posttranscriptional gene silencing by RNA" evidence=IMP

---

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	201
pfam11935	233	pfam11935, DUF3453, Domain of unknown function (DU	3e-09

>gnl|CDD|221326 pfam11935, DUF3453, Domain of unknown function (DUF3453)

 Score = 54.6 bits (132), Expect = 3e-09
 Identities = 23/96 (23%), Positives = 42/96 (43%), Gaps = 9/96 (9%)

Query: 92  LRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIAL 151
           LRD D  V  + I+C T+ +  V   +              E+LW  +   K+ +  +  
Sbjct: 2   LRDEDPSVVKRVILCSTSIYPLVFRLVA--------NNDNDEQLWDTLTALKNRILNL-W 52

Query: 152 EPGLVGTKLLALKFLETHVLLFTSDSNDFENFTKEG 187
           +    G KL A+KF+E  +L+ +   +D +   K+ 
Sbjct: 53  DTDNPGVKLAAIKFVERVILVQSPGPSDSDPRRKDE 88

This presumed domain is functionally uncharacterized. This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. Length = 233

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	201
PF11935	239	DUF3453: Domain of unknown function (DUF3453); Int	99.92
KOG1895	957	consensus mRNA cleavage and polyadenylation factor	99.78
PF05918	556	API5: Apoptosis inhibitory protein 5 (API5); Inter	97.22
PRK09687	280	putative lyase; Provisional	97.04
PF01602	526	Adaptin_N: Adaptin N terminal region; InterPro: IP	96.98
PF13646	88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	96.85
COG5096	757	Vesicle coat complex, various subunits [Intracellu	96.64
PF12717	178	Cnd1: non-SMC mitotic condensation complex subunit	96.34
PTZ00429	746	beta-adaptin; Provisional	96.15
PF01602	526	Adaptin_N: Adaptin N terminal region; InterPro: IP	96.0
PF12717	178	Cnd1: non-SMC mitotic condensation complex subunit	95.66
PF12348	228	CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi	95.6
cd00020	120	ARM Armadillo/beta-catenin-like repeats. An approx	95.48
PF13646	88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	95.37
cd00020	120	ARM Armadillo/beta-catenin-like repeats. An approx	95.11
KOG2956	516	consensus CLIP-associating protein [General functi	95.07
COG5096	757	Vesicle coat complex, various subunits [Intracellu	95.05
PTZ00429	746	beta-adaptin; Provisional	94.8
PF12530	234	DUF3730: Protein of unknown function (DUF3730) ; I	94.77
PF12755	97	Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region	94.02
PRK09687	280	putative lyase; Provisional	93.98
PF13513	55	HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O	93.88
PF12830	187	Nipped-B_C: Sister chromatid cohesion C-terminus	93.56
PF10508	503	Proteasom_PSMB: Proteasome non-ATPase 26S subunit;	93.3
KOG1058	948	consensus Vesicle coat complex COPI, beta subunit	92.79
PF10274	183	ParcG: Parkin co-regulated protein; InterPro: IPR0	91.78
PF02985	31	HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re	91.74
PF10363	92	DUF2435: Protein of unknown function (DUF2435)	91.66
PF10508	503	Proteasom_PSMB: Proteasome non-ATPase 26S subunit;	91.26
PF12765	42	Cohesin_HEAT: HEAT repeat associated with sister c	90.62
PF12348	228	CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi	90.52
PF02985	31	HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re	90.02
KOG1525	1266	consensus Sister chromatid cohesion complex Cohesi	89.6
KOG2011	1048	consensus Sister chromatid cohesion complex Cohesi	88.3
PF05918	556	API5: Apoptosis inhibitory protein 5 (API5); Inter	88.05
KOG1020	1692	consensus Sister chromatid cohesion protein SCC2/N	88.0
KOG1059	877	consensus Vesicle coat complex AP-3, delta subunit	85.75
PF12755	97	Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region	85.09
PF10521	282	DUF2454: Protein of unknown function (DUF2454); In	84.18
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	84.04
PF00514	41	Arm: Armadillo/beta-catenin-like repeat; InterPro:	82.54
KOG1060	968	consensus Vesicle coat complex AP-3, beta subunit	82.28
PF12830	187	Nipped-B_C: Sister chromatid cohesion C-terminus	81.82
KOG2229	616	consensus Protein required for actin cytoskeleton	81.26
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	81.06
KOG1061	734	consensus Vesicle coat complex AP-1/AP-2/AP-4, bet	80.16

>PF11935 DUF3453: Domain of unknown function (DUF3453); InterPro: IPR021850 This presumed domain is functionally uncharacterised

Probab=99.92  E-value=1.2e-25  Score=193.62  Aligned_cols=98  Identities=29%  Similarity=0.416  Sum_probs=79.9

Q ss_pred             hhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHhh
Q 028959           91 FLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHV  170 (201)
Q Consensus        91 LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vI  170 (201)
                      ||+|+||+|+|++|+|+|++||.+|     +|++   .+++++++|++|++||++|++ +|+++|+|||++|+||+|+||
T Consensus         1 Ll~d~d~~v~K~~I~~~~~iy~~~~-----~~i~---~~~~~~~~W~~~~~lK~~Il~-~~~~~~~gvk~~~iKFle~vI   71 (239)
T PF11935_consen    1 LLNDEDPAVVKRAIQCSTSIYPLVF-----RWIC---VNPSDEQLWESMNELKDRILS-LWDSENPGVKLAAIKFLERVI   71 (239)
T ss_dssp             HCT-SSHHHHHHHHHHHHHHHHHHH-----HHHS-----HHHHHHHHHHHHHHHHHHH-GGGSSSHHHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHH-----HHHc---CCchHHHHHHHHHHHHHHHHH-HhcCCCchHHHHHHHHHHHHH
Confidence            6899999999999999999999999     7773   566899999999999999999 799999999999999999999


Q ss_pred             hhccCCCCCCccccccccccceehhhhcc
Q 028959          171 LLFTSDSNDFENFTKEGIAFLFVMAIYLK  199 (201)
Q Consensus       171 L~qT~~~~d~~~~~~~~~~~~~~~~~~~~  199 (201)
                      ++||+++.+++.+  .+...+||++|++.
T Consensus        72 l~qs~~~~~~~~~--~~~~~d~SL~~vp~   98 (239)
T PF11935_consen   72 LVQSPGSSDSPPR--RGSPNDFSLSSVPP   98 (239)
T ss_dssp             HHTS---TTS-----GGGTTS--GGGS-T
T ss_pred             HhcCCCCCCCccc--cccccCCCHHHcCC
Confidence            9999998877665  55677999999875

This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. ; PDB: 3ODS_A 3ODR_A 3O2Q_A 3O2T_A 3O2S_A 3GS3_A.

>KOG1895 consensus mRNA cleavage and polyadenylation factor II complex, subunit PTA1 [RNA processing and modification]

Probab=99.78  E-value=6.3e-19  Score=174.57  Aligned_cols=147  Identities=35%  Similarity=0.491  Sum_probs=141.5

Q ss_pred             HHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhh
Q 028959           28 SLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCG  107 (201)
Q Consensus        28 ~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~  107 (201)
                      .|+.+++++...++++.+||++++.+|..++...||++++++++|++.++.++++.++++|..++.|+ |.|.++.|.++
T Consensus         2 sl~~~~~~l~~~~~~~~~e~~~~l~el~~~~~~~i~~~l~~~~~~i~~~~~~~~~~lv~~ls~~l~d~-~~~r~~~i~~~   80 (957)
T KOG1895|consen    2 SLSYAMHLLIDVSSSISDELLTELLELLELNDGLIRCLLVEILLEIGLKDFELCNKLVETLSPYLEDN-PIVRRQSIIKG   80 (957)
T ss_pred             cHHHHHHHHhcccccccHhHHHHHHHHHhCCcchhhhhHHHHHhhhhHHHHHhhhhHHHHhhhhhcCc-hhhHHHHHhhh
Confidence            47789999999999999999999999999999999999999999999999999999999999999999 99999999999


Q ss_pred             hhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHhhhhccCCC
Q 028959          108 TNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDS  177 (201)
Q Consensus       108 t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vIL~qT~~~  177 (201)
                      +..+|..|+++..|+..+++ +++.+.+|.+|..+|++|+. -...|+.|||+++.||+|.+|+++|++.
T Consensus        81 ~d~~~s~l~~i~~~~~~~~~-~~~~~s~w~~~~~~k~~i~~-~~~~G~v~vk~~~~~f~~~~i~~~t~~l  148 (957)
T KOG1895|consen   81 ADVARSNLEPIVLQFLHMEK-NDLAESLWTAFHLFKDRICL-DDHQGTVGVKVLAAKFMEQSILLYTPDL  148 (957)
T ss_pred             hhhhhhccHHHHHHHHhcch-hHHHHHHHHHHHHhHHHHhh-ccccCcchhhhhHHHHHHhhhhhhcccc
Confidence            99999999999999999999 99999999999999999994 6668899999999999999999999865

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms

Probab=97.22  E-value=0.0016  Score=63.01  Aligned_cols=111  Identities=19%  Similarity=0.157  Sum_probs=73.7

Q ss_pred             cCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHH
Q 028959           38 SADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEE  117 (201)
Q Consensus        38 ~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~  117 (201)
                      ..-|+|-++-++-++.+..|.+..||++.+-=|-.+|+-.+++++++.++|..||.-+++..+..+=.+..+||+.==  
T Consensus        51 k~FP~l~~~Ai~a~~DLcEDed~~iR~~aik~lp~~ck~~~~~v~kvaDvL~QlL~tdd~~E~~~v~~sL~~ll~~d~--  128 (556)
T PF05918_consen   51 KHFPDLQEEAINAQLDLCEDEDVQIRKQAIKGLPQLCKDNPEHVSKVADVLVQLLQTDDPVELDAVKNSLMSLLKQDP--  128 (556)
T ss_dssp             CC-GGGHHHHHHHHHHHHT-SSHHHHHHHHHHGGGG--T--T-HHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH-H--
T ss_pred             hhChhhHHHHHHHHHHHHhcccHHHHHHHHHhHHHHHHhHHHHHhHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCc--
Confidence            346999999999999999999999999999999999999999999999999999998887776666566666655211  


Q ss_pred             HhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhh-hHhh
Q 028959          118 ITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFL-ETHV  170 (201)
Q Consensus       118 ~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~-E~vI  170 (201)
                                        =..++.|=+.|.. . .++.+.||--++||+ ++++
T Consensus       129 ------------------k~tL~~lf~~i~~-~-~~~de~~Re~~lkFl~~kl~  162 (556)
T PF05918_consen  129 ------------------KGTLTGLFSQIES-S-KSGDEQVRERALKFLREKLK  162 (556)
T ss_dssp             ------------------HHHHHHHHHHHH-----HS-HHHHHHHHHHHHHHGG
T ss_pred             ------------------HHHHHHHHHHHHh-c-ccCchHHHHHHHHHHHHHHh
Confidence                              1122333344442 1 346778999999999 4444

Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.

>PRK09687 putative lyase; Provisional

Probab=97.04  E-value=0.041  Score=48.65  Aligned_cols=155  Identities=12%  Similarity=-0.056  Sum_probs=100.9

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhh-ccCcchhHHHHHHHHHHHHhhchhhhhhhHHH
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVEL-QSSPESLVRKSLIETIEDIGLKAMEHSSILMP   86 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f-~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~   86 (201)
                      .+..++..+..+.|...+.....-+-++=  ..+.-.++.++-+..+ ..|++..||...++-++..|...+...+.+++
T Consensus        54 ~~~~~l~~ll~~~d~~vR~~A~~aLg~lg--~~~~~~~~a~~~L~~l~~~D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~  131 (280)
T PRK09687         54 DVFRLAIELCSSKNPIERDIGADILSQLG--MAKRCQDNVFNILNNLALEDKSACVRASAINATGHRCKKNPLYSPKIVE  131 (280)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCccchHHHHHHHHHHHhcCCCHHHHHHHHHHHhcccccccccchHHHH
Confidence            44555555555566555555554444432  1112256778888866 68999999999999999999888877888888


Q ss_pred             HHHHhhccCChhHHHHHHhhhhhhh-HHHHHHHhhhhhccCcchhhHHHHHHHHHHhH-------HHHHHHhccCCCCch
Q 028959           87 VLLAFLRDGDSGVAGKSIVCGTNFF-CRVLEEITMQFRWHGKVERWLEELWTWMVRFK-------DAVFAIALEPGLVGT  158 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~~~t~ly-r~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK-------~~Il~~~~~s~n~GV  158 (201)
                      .+..++.|+++.|=+.++.+.+.+= +.++.-+. +-+. .+.++--......+..++       ..+.. ++++.+..|
T Consensus       132 ~l~~~~~D~~~~VR~~a~~aLg~~~~~~ai~~L~-~~L~-d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~-~L~D~~~~V  208 (280)
T PRK09687        132 QSQITAFDKSTNVRFAVAFALSVINDEAAIPLLI-NLLK-DPNGDVRNWAAFALNSNKYDNPDIREAFVA-MLQDKNEEI  208 (280)
T ss_pred             HHHHHhhCCCHHHHHHHHHHHhccCCHHHHHHHH-HHhc-CCCHHHHHHHHHHHhcCCCCCHHHHHHHHH-HhcCCChHH
Confidence            8888999999998888888776542 33332221 2222 221222233444444442       33566 668889999


Q ss_pred             hHHHHHhhh
Q 028959          159 KLLALKFLE  167 (201)
Q Consensus       159 r~~aiKF~E  167 (201)
                      |..|+.-+-
T Consensus       209 R~~A~~aLg  217 (280)
T PRK09687        209 RIEAIIGLA  217 (280)
T ss_pred             HHHHHHHHH
Confidence            999998875

>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.98  E-value=0.0054  Score=56.81  Aligned_cols=99  Identities=23%  Similarity=0.299  Sum_probs=85.7

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhh-HHHH
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSI-LMPV   87 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~-~v~~   87 (201)
                      ++..+...-.+++-..+.-.|+.+-.+.   +|.+.+.+++.+..+..|+++-|||-.+--+..+++.+|+.+.. .++.
T Consensus        80 ~~n~l~kdl~~~n~~~~~lAL~~l~~i~---~~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~  156 (526)
T PF01602_consen   80 IINSLQKDLNSPNPYIRGLALRTLSNIR---TPEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPK  156 (526)
T ss_dssp             HHHHHHHHHCSSSHHHHHHHHHHHHHH----SHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHH
T ss_pred             HHHHHHHhhcCCCHHHHHHHHhhhhhhc---ccchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            4555555556677667888888777765   88999999999999999999999999999999999999999988 7999


Q ss_pred             HHHhhccCChhHHHHHHhhhhhh
Q 028959           88 LLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        88 L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      |..+|.|.+|.|+..|+.+...+
T Consensus       157 l~~lL~d~~~~V~~~a~~~l~~i  179 (526)
T PF01602_consen  157 LKQLLSDKDPSVVSAALSLLSEI  179 (526)
T ss_dssp             HHHHTTHSSHHHHHHHHHHHHHH
T ss_pred             HhhhccCCcchhHHHHHHHHHHH
Confidence            99999999999999998888777

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.

>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A

Probab=96.85  E-value=0.0057  Score=43.19  Aligned_cols=57  Identities=23%  Similarity=0.396  Sum_probs=43.3

Q ss_pred             hHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           48 FPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        48 l~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      +|.+++.- .|++..||...+..+++.+.      +.+++.|..+++|++|.|-..|+.+.+.+
T Consensus         1 i~~L~~~l~~~~~~~vr~~a~~~L~~~~~------~~~~~~L~~~l~d~~~~vr~~a~~aL~~i   58 (88)
T PF13646_consen    1 IPALLQLLQNDPDPQVRAEAARALGELGD------PEAIPALIELLKDEDPMVRRAAARALGRI   58 (88)
T ss_dssp             HHHHHHHHHTSSSHHHHHHHHHHHHCCTH------HHHHHHHHHHHTSSSHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHhcCCCHHHHHHHHHHHHHcCC------HhHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            35666544 78999999988888885542      26688888888999998888888877665

>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]

Probab=96.64  E-value=0.029  Score=56.17  Aligned_cols=105  Identities=14%  Similarity=0.152  Sum_probs=83.7

Q ss_pred             HHHHHHHHhhcC-CChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhH--
Q 028959            8 QALSLLAAANNH-GDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSIL--   84 (201)
Q Consensus         8 ~v~~lLn~A~~~-~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~--   84 (201)
                      +.+-.+|.-..- .|-.+.+.... +|-+-.=+++++++++++.+.+.-+|+++.|||-++-=+.+..+-++++.+..  
T Consensus        89 ~~lLavNti~kDl~d~N~~iR~~A-lR~ls~l~~~el~~~~~~~ik~~l~d~~ayVRk~Aalav~kly~ld~~l~~~~g~  167 (757)
T COG5096          89 LALLAVNTIQKDLQDPNEEIRGFA-LRTLSLLRVKELLGNIIDPIKKLLTDPHAYVRKTAALAVAKLYRLDKDLYHELGL  167 (757)
T ss_pred             HHHHHHHHHHhhccCCCHHHHHHH-HHHHHhcChHHHHHHHHHHHHHHccCCcHHHHHHHHHHHHHHHhcCHhhhhcccH
Confidence            333444444332 33335665554 55555556889999999999999999999999999999999999998888876  


Q ss_pred             HHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           85 MPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        85 v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                      +..+..|+.|+||.|+..|..+...+++.
T Consensus       168 ~~~l~~l~~D~dP~Vi~nAl~sl~~i~~e  196 (757)
T COG5096         168 IDILKELVADSDPIVIANALASLAEIDPE  196 (757)
T ss_pred             HHHHHHHhhCCCchHHHHHHHHHHHhchh
Confidence            66778888899999999999999999998

>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1

Probab=96.34  E-value=0.026  Score=46.20  Aligned_cols=95  Identities=17%  Similarity=0.162  Sum_probs=70.5

Q ss_pred             chhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHH
Q 028959           59 ESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTW  138 (201)
Q Consensus        59 ~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~  138 (201)
                      ++.||.-++--++..|.++|.++...+|.+...|+|++|.|=|.|+.+.+.|..        +...+-+     .     
T Consensus         1 ~~~vR~n~i~~l~DL~~r~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~--------~d~ik~k-----~-----   62 (178)
T PF12717_consen    1 DPSVRNNAIIALGDLCIRYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLIL--------EDMIKVK-----G-----   62 (178)
T ss_pred             CHHHHHHHHHHHHHHHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHH--------cCceeeh-----h-----
Confidence            467899999999999999999999999999999999999999998888887754        2222111     0     


Q ss_pred             HHHhHHHHHHHhccCCCCchhHHHHHhhhHhhhhcc
Q 028959          139 MVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFT  174 (201)
Q Consensus       139 m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vIL~qT  174 (201)
                        .+=..++. .+...|+.||-.|..|+..+..-.+
T Consensus        63 --~l~~~~l~-~l~D~~~~Ir~~A~~~~~e~~~~~~   95 (178)
T PF12717_consen   63 --QLFSRILK-LLVDENPEIRSLARSFFSELLKKRN   95 (178)
T ss_pred             --hhhHHHHH-HHcCCCHHHHHHHHHHHHHHHHhcc
Confidence              11123444 4466788899988888888766543

>PTZ00429 beta-adaptin; Provisional

Probab=96.15  E-value=0.16  Score=51.03  Aligned_cols=90  Identities=14%  Similarity=0.113  Sum_probs=69.6

Q ss_pred             cCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh--hHHHHHHHhhccC
Q 028959           18 NHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS--ILMPVLLAFLRDG   95 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~--~~v~~L~~LL~D~   95 (201)
                      ..++--.+.-.|+.+-.   =+.|++++.+++.+.....|+++-|||-.+==+..+...+|+++.  ..++.|..||.|.
T Consensus       115 ~d~Np~IRaLALRtLs~---Ir~~~i~e~l~~~lkk~L~D~~pYVRKtAalai~Kly~~~pelv~~~~~~~~L~~LL~D~  191 (746)
T PTZ00429        115 TNSSPVVRALAVRTMMC---IRVSSVLEYTLEPLRRAVADPDPYVRKTAAMGLGKLFHDDMQLFYQQDFKKDLVELLNDN  191 (746)
T ss_pred             CCCCHHHHHHHHHHHHc---CCcHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhhCcccccccchHHHHHHHhcCC
Confidence            34443344444443333   236778888888888888999999999999888899999998875  5689999999999


Q ss_pred             ChhHHHHHHhhhhhh
Q 028959           96 DSGVAGKSIVCGTNF  110 (201)
Q Consensus        96 ~~~VvK~aI~~~t~l  110 (201)
                      ||.|+-.|+.+...+
T Consensus       192 dp~Vv~nAl~aL~eI  206 (746)
T PTZ00429        192 NPVVASNAAAIVCEV  206 (746)
T ss_pred             CccHHHHHHHHHHHH
Confidence            999999998876655

>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.00  E-value=0.031  Score=51.82  Aligned_cols=109  Identities=19%  Similarity=0.208  Sum_probs=66.4

Q ss_pred             cCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHH
Q 028959           38 SADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEE  117 (201)
Q Consensus        38 ~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~  117 (201)
                      +.+|.++--..+.+..=-.+++..+|.....++..++  .+++++.+++.+..+|.|++|.|=|+|+.|...+|+..=  
T Consensus        71 ~~~~~~~~l~~n~l~kdl~~~n~~~~~lAL~~l~~i~--~~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p--  146 (526)
T PF01602_consen   71 HEDPELLILIINSLQKDLNSPNPYIRGLALRTLSNIR--TPEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDP--  146 (526)
T ss_dssp             TTSHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHH---SHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCH--
T ss_pred             hcchhHHHHHHHHHHHhhcCCCHHHHHHHHhhhhhhc--ccchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCH--
Confidence            3344433333333332223344445555555555544  577778888888888888888888888888888887522  


Q ss_pred             HhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHh
Q 028959          118 ITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETH  169 (201)
Q Consensus       118 ~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~v  169 (201)
                              .    ..+..      +-+.+.+ ++.+.+.||+.+|+.++..+
T Consensus       147 --------~----~~~~~------~~~~l~~-lL~d~~~~V~~~a~~~l~~i  179 (526)
T PF01602_consen  147 --------D----LVEDE------LIPKLKQ-LLSDKDPSVVSAALSLLSEI  179 (526)
T ss_dssp             --------C----CHHGG------HHHHHHH-HTTHSSHHHHHHHHHHHHHH
T ss_pred             --------H----HHHHH------HHHHHhh-hccCCcchhHHHHHHHHHHH
Confidence                    0    11111      2344555 55667789999999988877

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.

>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1

Probab=95.66  E-value=0.11  Score=42.41  Aligned_cols=86  Identities=16%  Similarity=0.260  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-hhhhhhHHHHHHHhhccCChhHHHH
Q 028959           24 VKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-MEHSSILMPVLLAFLRDGDSGVAGK  102 (201)
Q Consensus        24 ~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-~el~~~~v~~L~~LL~D~~~~VvK~  102 (201)
                      .|...+...-+|... .|++++.++|.+...-.|+++.||+..+--+-..-..+ ...=+.++..+..+|.|+|+.|..-
T Consensus         4 vR~n~i~~l~DL~~r-~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~~l~~~~l~~l~D~~~~Ir~~   82 (178)
T PF12717_consen    4 VRNNAIIALGDLCIR-YPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKGQLFSRILKLLVDENPEIRSL   82 (178)
T ss_pred             HHHHHHHHHHHHHHh-CcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehhhhhHHHHHHHcCCCHHHHHH
Confidence            344555555555533 66666666666666666666666666665555544444 2222333345555566666666666


Q ss_pred             HHhhhhhh
Q 028959          103 SIVCGTNF  110 (201)
Q Consensus       103 aI~~~t~l  110 (201)
                      |..+...+
T Consensus        83 A~~~~~e~   90 (178)
T PF12717_consen   83 ARSFFSEL   90 (178)
T ss_pred             HHHHHHHH
Confidence            55554443

>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]

Probab=95.60  E-value=0.1  Score=43.43  Aligned_cols=143  Identities=13%  Similarity=0.169  Sum_probs=82.6

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccC-CCchHHhhhH-------HHhhhccCcchhHHHHHHHHHHHHhh---ch
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSA-DPSLAAELFP-------YLVELQSSPESLVRKSLIETIEDIGL---KA   77 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~-dp~ll~~fl~-------~il~f~~d~~~~VRk~v~~fiee~c~---~~   77 (201)
                      +...++.-....|=.++.+.|.+++.++.+. .....+.|++       .+..-..|..+.|-+....++.+.+.   ++
T Consensus         8 ~~~~l~~~~~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~   87 (228)
T PF12348_consen    8 ILAALEKKESESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSH   87 (228)
T ss_dssp             S-TTHHHHHT-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGG
T ss_pred             HHHHHhccCCccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHh
Confidence            3445555445588889999999999999875 2234444433       44444567777777777777776666   33


Q ss_pred             -hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHh-HHHHHHHhccCCC
Q 028959           78 -MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRF-KDAVFAIALEPGL  155 (201)
Q Consensus        78 -~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~l-K~~Il~~~~~s~n  155 (201)
                       ..++..++|.|...+.|.+..|...|-.|...+...+=         .++             .+ ...+.. ...+.|
T Consensus        88 ~~~~~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~---------~~~-------------~~~~~~l~~-~~~~Kn  144 (228)
T PF12348_consen   88 FEPYADILLPPLLKKLGDSKKFIREAANNALDAIIESCS---------YSP-------------KILLEILSQ-GLKSKN  144 (228)
T ss_dssp             GHHHHHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS----------H---------------HHHHHHHHH-HTT-S-
T ss_pred             HHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHCC---------cHH-------------HHHHHHHHH-HHhCCC
Confidence             45788999999999999988777777776665543211         000             22 333333 567777


Q ss_pred             CchhHHHHHhhhHhhhhcc
Q 028959          156 VGTKLLALKFLETHVLLFT  174 (201)
Q Consensus       156 ~GVr~~aiKF~E~vIL~qT  174 (201)
                      ..+|..|..++..++--..
T Consensus       145 ~~vR~~~~~~l~~~l~~~~  163 (228)
T PF12348_consen  145 PQVREECAEWLAIILEKWG  163 (228)
T ss_dssp             HHHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHHHHHHHcc
Confidence            8888888888877765554

The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.

>cd00020 ARM Armadillo/beta-catenin-like repeats

Probab=95.48  E-value=0.16  Score=36.74  Aligned_cols=90  Identities=14%  Similarity=0.196  Sum_probs=65.4

Q ss_pred             ChHHHHHHHHHHHHhhccCCC---chHH-hhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhh----h-hhHHHHHHHh
Q 028959           21 DLAVKLSSLKQVRGILSSADP---SLAA-ELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEH----S-SILMPVLLAF   91 (201)
Q Consensus        21 d~~~Kl~~L~q~~elll~~dp---~ll~-~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el----~-~~~v~~L~~L   91 (201)
                      +...|...+..+..+..+.++   .++. ++++.++++-.|+++.||+..+..+..+|...++.    . ..+++.|..+
T Consensus        20 ~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~   99 (120)
T cd00020          20 DENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNL   99 (120)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHH
Confidence            355777788878877755211   1343 77778888888888899999999999888766332    1 2367888888


Q ss_pred             hccCChhHHHHHHhhhhhh
Q 028959           92 LRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        92 L~D~~~~VvK~aI~~~t~l  110 (201)
                      |++.+..|.+.+..+..+|
T Consensus       100 l~~~~~~~~~~a~~~l~~l  118 (120)
T cd00020         100 LDSSNEDIQKNATGALSNL  118 (120)
T ss_pred             HhcCCHHHHHHHHHHHHHh
Confidence            8888888888888877765

An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.

>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A

Probab=95.37  E-value=0.13  Score=36.08  Aligned_cols=82  Identities=26%  Similarity=0.431  Sum_probs=58.0

Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHh
Q 028959           12 LLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAF   91 (201)
Q Consensus        12 lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~L   91 (201)
                      |++.....+|...|...+..+.++-   +    ++.++.++++..|+++.||...+..++.++      -+.+++.|..+
T Consensus         4 L~~~l~~~~~~~vr~~a~~~L~~~~---~----~~~~~~L~~~l~d~~~~vr~~a~~aL~~i~------~~~~~~~L~~~   70 (88)
T PF13646_consen    4 LLQLLQNDPDPQVRAEAARALGELG---D----PEAIPALIELLKDEDPMVRRAAARALGRIG------DPEAIPALIKL   70 (88)
T ss_dssp             HHHHHHTSSSHHHHHHHHHHHHCCT---H----HHHHHHHHHHHTSSSHHHHHHHHHHHHCCH------HHHTHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHcC---C----HhHHHHHHHHHcCCCHHHHHHHHHHHHHhC------CHHHHHHHHHH
Confidence            4444445677667777666666432   2    467777887779999999999999999886      35688899999


Q ss_pred             hccCChhHHHH-HHhh
Q 028959           92 LRDGDSGVAGK-SIVC  106 (201)
Q Consensus        92 L~D~~~~VvK~-aI~~  106 (201)
                      +.|++..++|. ++++
T Consensus        71 l~~~~~~~vr~~a~~a   86 (88)
T PF13646_consen   71 LQDDDDEVVREAAAEA   86 (88)
T ss_dssp             HTC-SSHHHHHHHHHH
T ss_pred             HcCCCcHHHHHHHHhh
Confidence            98876666554 4443

>cd00020 ARM Armadillo/beta-catenin-like repeats

Probab=95.11  E-value=0.072  Score=38.68  Aligned_cols=104  Identities=15%  Similarity=0.068  Sum_probs=70.9

Q ss_pred             hhHHHhhhccCcchhHHHHHHHHHHHHhhch----hhhhh-hHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhh
Q 028959           47 LFPYLVELQSSPESLVRKSLIETIEDIGLKA----MEHSS-ILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQ  121 (201)
Q Consensus        47 fl~~il~f~~d~~~~VRk~v~~fiee~c~~~----~el~~-~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q  121 (201)
                      .++.++++-.+.+..+|...+.-+...|...    .++.. .+++.|..+|+|+++.|.+.++.+.++|-...=      
T Consensus         8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~------   81 (120)
T cd00020           8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPE------   81 (120)
T ss_pred             ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCcH------
Confidence            5677777777888999999999999999863    23333 788999999999999999999999888743110      


Q ss_pred             hhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhh
Q 028959          122 FRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLE  167 (201)
Q Consensus       122 ~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E  167 (201)
                              ...+..++  ..+-..+++ .+++++..++-.|.-++-
T Consensus        82 --------~~~~~~~~--~g~l~~l~~-~l~~~~~~~~~~a~~~l~  116 (120)
T cd00020          82 --------DNKLIVLE--AGGVPKLVN-LLDSSNEDIQKNATGALS  116 (120)
T ss_pred             --------HHHHHHHH--CCChHHHHH-HHhcCCHHHHHHHHHHHH
Confidence                    01112221  123445555 445556667766665554

An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.

>KOG2956 consensus CLIP-associating protein [General function prediction only]

Probab=95.07  E-value=0.6  Score=44.70  Aligned_cols=111  Identities=13%  Similarity=0.160  Sum_probs=85.4

Q ss_pred             hHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHh----hhccC-cchhHHHHHHHHHHHHhhchh-
Q 028959            5 SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLV----ELQSS-PESLVRKSLIETIEDIGLKAM-   78 (201)
Q Consensus         5 ~~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il----~f~~d-~~~~VRk~v~~fiee~c~~~~-   78 (201)
                      ..+.|.++|++-..+..++++-+.|.++.+++-...=++-+++|.+||    +.-.| .+.-.||.-...|+|+|+..+ 
T Consensus       284 ~~~~v~~~l~~~~g~e~a~~~k~alsel~~m~~e~sfsvWeq~f~~iL~~l~EvL~d~~~~~~k~laLrvL~~ml~~Q~~  363 (516)
T KOG2956|consen  284 QSALVADLLKEISGSERASERKEALSELPKMLCEGSFSVWEQHFAEILLLLLEVLSDSEDEIIKKLALRVLREMLTNQPA  363 (516)
T ss_pred             hhHHHHHHHHhccCccchhHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhchH
Confidence            457889999999888777789999999999998766666666666644    55677 666688888899999999774 


Q ss_pred             ---hhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHH
Q 028959           79 ---EHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVL  115 (201)
Q Consensus        79 ---el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L  115 (201)
                         +...-++..++.--.|.++.|++.|-++|+.+-...+
T Consensus       364 ~l~DstE~ai~K~Leaa~ds~~~v~~~Aeed~~~~las~~  403 (516)
T KOG2956|consen  364 RLFDSTEIAICKVLEAAKDSQDEVMRVAEEDCLTTLASHL  403 (516)
T ss_pred             hhhchHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHhhC
Confidence               3344455555555668999999999999887766555

>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]

Probab=95.05  E-value=0.18  Score=50.61  Aligned_cols=95  Identities=13%  Similarity=0.183  Sum_probs=74.4

Q ss_pred             hcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhh---------------------
Q 028959           17 NNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGL---------------------   75 (201)
Q Consensus        17 ~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~---------------------   75 (201)
                      ...++..+|++-+++.---+.+-++  ...+|+.++-+...++.++||.+=-+++-..+                     
T Consensus        28 l~s~n~~~kidAmK~iIa~M~~G~d--mssLf~dViK~~~trd~ElKrL~ylYl~~yak~~P~~~lLavNti~kDl~d~N  105 (757)
T COG5096          28 LESSNDYKKIDAMKKIIAQMSLGED--MSSLFPDVIKNVATRDVELKRLLYLYLERYAKLKPELALLAVNTIQKDLQDPN  105 (757)
T ss_pred             ccccChHHHHHHHHHHHHHHhcCCC--hHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhccCCC
Confidence            3344566899988876544444333  78888888877778899999988877765444                     


Q ss_pred             --------------chhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           76 --------------KAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        76 --------------~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                                    +.++++..+++.+..+++|++|-|=|.|+.|-+.+|+.
T Consensus       106 ~~iR~~AlR~ls~l~~~el~~~~~~~ik~~l~d~~ayVRk~Aalav~kly~l  157 (757)
T COG5096         106 EEIRGFALRTLSLLRVKELLGNIIDPIKKLLTDPHAYVRKTAALAVAKLYRL  157 (757)
T ss_pred             HHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCCcHHHHHHHHHHHHHHHhc
Confidence                          44788888999999999999999999999999999953

>PTZ00429 beta-adaptin; Provisional

Probab=94.80  E-value=0.8  Score=46.10  Aligned_cols=94  Identities=16%  Similarity=0.123  Sum_probs=57.0

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhh-ccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHH
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGIL-SSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMP   86 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~ell-l~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~   86 (201)
                      .+.++-+.-+ ..|..+|.+.++++--.+ .+.|-   ..+|++++.+....+.++||.+-=|+...++.+++++.-++.
T Consensus        33 e~~ELr~~L~-s~~~~~kk~alKkvIa~mt~G~Dv---S~LF~dVvk~~~S~d~elKKLvYLYL~~ya~~~pelalLaIN  108 (746)
T PTZ00429         33 EGAELQNDLN-GTDSYRKKAAVKRIIANMTMGRDV---SYLFVDVVKLAPSTDLELKKLVYLYVLSTARLQPEKALLAVN  108 (746)
T ss_pred             hHHHHHHHHH-CCCHHHHHHHHHHHHHHHHCCCCc---hHHHHHHHHHhCCCCHHHHHHHHHHHHHHcccChHHHHHHHH
Confidence            4444433333 345668888888876666 44444   446777887777889999999988887776655555444444


Q ss_pred             HHHHhhccCChhHHHHHHh
Q 028959           87 VLLAFLRDGDSGVAGKSIV  105 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~  105 (201)
                      ++..=+.|+||.|-=-||.
T Consensus       109 tl~KDl~d~Np~IRaLALR  127 (746)
T PTZ00429        109 TFLQDTTNSSPVVRALAVR  127 (746)
T ss_pred             HHHHHcCCCCHHHHHHHHH
Confidence            4444444433333333333

>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length

Probab=94.77  E-value=1.6  Score=37.40  Aligned_cols=109  Identities=16%  Similarity=0.158  Sum_probs=72.1

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhh--------c--cCcchhHHHHHHHHHHHHhhch
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVEL--------Q--SSPESLVRKSLIETIEDIGLKA   77 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f--------~--~d~~~~VRk~v~~fiee~c~~~   77 (201)
                      .+++.|..=...+....+--.++.+-.+..+ ++.-+ .|+..++.+        .  .+...++.--.+-=+.++|+.+
T Consensus        38 ~v~~~L~~L~~~~~~~~~~~~~rLl~~lw~~-~~r~f-~~L~~~L~~~~~r~~~~~~~~~~~~~~~i~~a~s~~~ic~~~  115 (234)
T PF12530_consen   38 PVLQTLVSLVEQGSLELRYVALRLLTLLWKA-NDRHF-PFLQPLLLLLILRIPSSFSSKDEFWECLISIAASIRDICCSR  115 (234)
T ss_pred             HHHHHHHHHHcCCchhHHHHHHHHHHHHHHh-CchHH-HHHHHHHHHHHhhcccccCCCcchHHHHHHHHHHHHHHHHhC
Confidence            4455555444444432333556666666644 55433 566666655        1  2333334444456889999999


Q ss_pred             hhhhhhHHHHHHHhh-ccCChhHHHHHHhhhhhhhHHHHHHH
Q 028959           78 MEHSSILMPVLLAFL-RDGDSGVAGKSIVCGTNFFCRVLEEI  118 (201)
Q Consensus        78 ~el~~~~v~~L~~LL-~D~~~~VvK~aI~~~t~lyr~~L~~~  118 (201)
                      |++-..+++.|...| .++++.+.--++++.+.+.+.-.-..
T Consensus       116 p~~g~~ll~~ls~~L~~~~~~~~~alale~l~~Lc~~~vvd~  157 (234)
T PF12530_consen  116 PDHGVDLLPLLSGCLNQSCDEVAQALALEALAPLCEAEVVDF  157 (234)
T ss_pred             hhhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHhhccH
Confidence            999999999999999 78889999999999888886655333

>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region

Probab=94.02  E-value=0.23  Score=37.40  Aligned_cols=62  Identities=19%  Similarity=0.217  Sum_probs=52.9

Q ss_pred             chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch----hhhhhhHHHHHHHhhccCChhHHHHH
Q 028959           42 SLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA----MEHSSILMPVLLAFLRDGDSGVAGKS  103 (201)
Q Consensus        42 ~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~----~el~~~~v~~L~~LL~D~~~~VvK~a  103 (201)
                      .+++++++.++..-.|+++.||-...+-+-.+++..    ..+.+.+.+.|..++.|.++.|-..|
T Consensus        23 ~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L~kl~~D~d~~Vr~~a   88 (97)
T PF12755_consen   23 KYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNEIFDALCKLSADPDENVRSAA   88 (97)
T ss_pred             HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHH
Confidence            478999999999999999999999999999888854    35678889999999999999975543

>PRK09687 putative lyase; Provisional

Probab=93.98  E-value=0.51  Score=41.71  Aligned_cols=97  Identities=13%  Similarity=0.154  Sum_probs=69.3

Q ss_pred             HHHHHHHHHh-hcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHH
Q 028959            7 DQALSLLAAA-NNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILM   85 (201)
Q Consensus         7 ~~v~~lLn~A-~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v   85 (201)
                      ++++.+|.+. ...+|...+-.....+-++- ..++...+.+++.+.....|.+..||+.++.=+++++.      +.++
T Consensus        89 ~~a~~~L~~l~~~D~d~~VR~~A~~aLG~~~-~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~------~~ai  161 (280)
T PRK09687         89 DNVFNILNNLALEDKSACVRASAINATGHRC-KKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVIND------EAAI  161 (280)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHhccc-ccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCC------HHHH
Confidence            4566666655 44466656666666555542 23444567778887788888899999999888876542      3477


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhh
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      +.|..+|+|+++.|=+.|+.+.+.+
T Consensus       162 ~~L~~~L~d~~~~VR~~A~~aLg~~  186 (280)
T PRK09687        162 PLLINLLKDPNGDVRNWAAFALNSN  186 (280)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHhcC
Confidence            8888888899888888888888876

>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B

Probab=93.88  E-value=0.15  Score=33.40  Aligned_cols=50  Identities=20%  Similarity=0.258  Sum_probs=38.7

Q ss_pred             hHHHHHHHHHHHHhhch----hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           61 LVRKSLIETIEDIGLKA----MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        61 ~VRk~v~~fiee~c~~~----~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      .||...+--|++++...    ..+.+.+++.|..+|+|+++.|-..|.-|.++|
T Consensus         2 ~vR~~A~~aLg~l~~~~~~~~~~~~~~~~~~L~~~L~d~~~~VR~~A~~aLg~l   55 (55)
T PF13513_consen    2 RVRRAAAWALGRLAEGCPELLQPYLPELLPALIPLLQDDDDSVRAAAAWALGNL   55 (55)
T ss_dssp             HHHHHHHHHHHCTTTTTHHHHHHHHHHHHHHHHHHTTSSSHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHhhHhcccHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcC
Confidence            57888888887655433    468889999999999999998877777666554

...

>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus

Probab=93.56  E-value=0.25  Score=41.03  Aligned_cols=70  Identities=16%  Similarity=0.235  Sum_probs=59.7

Q ss_pred             chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           42 SLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        42 ~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      ++.-.|++.|+++..+++..||...+++|+-+-+.=--+=..++|+|..|..|+++.+-++|...-..++
T Consensus         4 ~l~Qryl~~Il~~~~~~~~~vr~~Al~~l~~il~qGLvnP~~cvp~lIAL~ts~~~~ir~~A~~~l~~l~   73 (187)
T PF12830_consen    4 ALVQRYLKNILELCLSSDDSVRLAALQVLELILRQGLVNPKQCVPTLIALETSPNPSIRSRAYQLLKELH   73 (187)
T ss_pred             HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhcCCCChHHHHhHhhhhhCCCChHHHHHHHHHHHHHH
Confidence            4667899999999999999999999999997776544444578999999999999999999998887774

>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells

Probab=93.30  E-value=2.8  Score=40.00  Aligned_cols=87  Identities=22%  Similarity=0.315  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHhhcc-CCCc-hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhh-----hhhhHHHHHHHhhccCC
Q 028959           24 VKLSSLKQVRGILSS-ADPS-LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAME-----HSSILMPVLLAFLRDGD   96 (201)
Q Consensus        24 ~Kl~~L~q~~elll~-~dp~-ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~e-----l~~~~v~~L~~LL~D~~   96 (201)
                      +.++....+=+.++. .+|. +++++.+.+...-..+++.||..++.-|+.+......     .-..+++.+...|.|++
T Consensus        53 e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~~~~~~~~~~~l~~~i~~~L~~~d  132 (503)
T PF10508_consen   53 EQVELICDILKRLLSALSPDSLLPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSEGAAQLLVDNELLPLIIQCLRDPD  132 (503)
T ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHHhcCccHHHHHHHHHcCCc
Confidence            455544444444444 3554 6888888888877788899999988877765543322     22567888888999999


Q ss_pred             hhHHHHHHhhhhhh
Q 028959           97 SGVAGKSIVCGTNF  110 (201)
Q Consensus        97 ~~VvK~aI~~~t~l  110 (201)
                      ..|.+.|+.+...|
T Consensus       133 ~~Va~~A~~~L~~l  146 (503)
T PF10508_consen  133 LSVAKAAIKALKKL  146 (503)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999888777

26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding

>KOG1058 consensus Vesicle coat complex COPI, beta subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.79  E-value=0.6  Score=47.08  Aligned_cols=99  Identities=20%  Similarity=0.230  Sum_probs=81.2

Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhc-cCcchhHHHHHHHHHHHH------------------
Q 028959           13 LAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQ-SSPESLVRKSLIETIEDI------------------   73 (201)
Q Consensus        13 Ln~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~-~d~~~~VRk~v~~fiee~------------------   73 (201)
                      +.++...+|..+|++-++++--++++-++  +|+++-.|+-|. +.++-+++|.+.-|.|-.                  
T Consensus        25 ik~~Lek~~~~~KIeamK~ii~~mlnGe~--~p~Llm~IiRfvlps~~~elKKLly~ywE~vPKt~~dgkl~~EMILvcn  102 (948)
T KOG1058|consen   25 IKEKLEKGDDEVKIEAMKKIIALMLNGED--LPSLLMTIIRFVLPSRNHELKKLLYYYWELVPKTDSDGKLLHEMILVCN  102 (948)
T ss_pred             HHHHHhcCChHHHHHHHHHHHHHHHcCCC--chHHHHHHhheeeccCchHHHHHHHHHHHHccccCCCcccHHHHHHHHH
Confidence            55666678888999999999999987543  455677777776 788888999887555422                  


Q ss_pred             ---------------------hh-chhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           74 ---------------------GL-KAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        74 ---------------------c~-~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                                           |+ +++|++..++|.++.=|++..+-|=|.||.|--+||+.
T Consensus       103 a~RkDLQHPNEyiRG~TLRFLckLkE~ELlepl~p~IracleHrhsYVRrNAilaifsIyk~  164 (948)
T KOG1058|consen  103 AYRKDLQHPNEYIRGSTLRFLCKLKEPELLEPLMPSIRACLEHRHSYVRRNAILAIFSIYKN  164 (948)
T ss_pred             HHhhhccCchHhhcchhhhhhhhcCcHHHhhhhHHHHHHHHhCcchhhhhhhheeehhHHhh
Confidence                                 22 56899999999999999999999999999999999998

>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter

Probab=91.78  E-value=0.64  Score=39.19  Aligned_cols=69  Identities=19%  Similarity=0.134  Sum_probs=61.1

Q ss_pred             chHHhhhHHHhhhccCcchhHHHHHHHHHHH-HhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           42 SLAAELFPYLVELQSSPESLVRKSLIETIED-IGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        42 ~ll~~fl~~il~f~~d~~~~VRk~v~~fiee-~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      .+|+-|++++-|-.+.-..-.++-+.+.++. ...|-.-++|+++..|..-|+..|+.|.+.+..+...|
T Consensus        38 ~~Lpif~dGL~Et~~Py~flA~~g~~dll~~~~~~kilPvlPqLI~plk~AL~tr~~~V~~~~L~~Lq~L  107 (183)
T PF10274_consen   38 HYLPIFFDGLRETEHPYRFLARQGIKDLLERGGGEKILPVLPQLIIPLKRALNTRDPEVFCATLKALQQL  107 (183)
T ss_pred             hHHHHHHhhhhccCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence            4899999999999888778888888999998 55566789999999999999999999999999988777

The protein has predicted alpha-helical and beta-sheet domains which suggest its function is in the ubiquitin/proteasome system []. Mutations in parkin are the genetic cause of early-onset and autosomal recessive juvenile parkinsonism.

>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []

Probab=91.74  E-value=0.29  Score=28.88  Aligned_cols=27  Identities=30%  Similarity=0.539  Sum_probs=14.3

Q ss_pred             hHHHhhhccCcchhHHHHHHHHHHHHh
Q 028959           48 FPYLVELQSSPESLVRKSLIETIEDIG   74 (201)
Q Consensus        48 l~~il~f~~d~~~~VRk~v~~fiee~c   74 (201)
                      +|.++++..|++.+||...+.-+++++
T Consensus         2 lp~l~~~l~D~~~~VR~~a~~~l~~i~   28 (31)
T PF02985_consen    2 LPILLQLLNDPSPEVRQAAAECLGAIA   28 (31)
T ss_dssp             HHHHHHHHT-SSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            445555555555555555555555544

Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....

>PF10363 DUF2435: Protein of unknown function (DUF2435)

Probab=91.66  E-value=0.78  Score=34.25  Aligned_cols=77  Identities=16%  Similarity=0.061  Sum_probs=59.7

Q ss_pred             hhHHHhhhccCcchhHHHHHHHHHHHHhhchh---hhhhhHHHHHHHhhccCChhHHHHHHhhhhh---hhHH-HHHHHh
Q 028959           47 LFPYLVELQSSPESLVRKSLIETIEDIGLKAM---EHSSILMPVLLAFLRDGDSGVAGKSIVCGTN---FFCR-VLEEIT  119 (201)
Q Consensus        47 fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~---el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~---lyr~-~L~~~~  119 (201)
                      -+.+.+.-..|+.++||=+..-.|....++..   ...+.++..+...|+|+|+-|==.||++.+.   .||. ++..++
T Consensus         4 ~~~~al~~L~dp~~PvRa~gL~~L~~Li~~~~~~~~~~~~il~l~l~~L~d~DsyVYL~aI~~L~~La~~~p~~vl~~L~   83 (92)
T PF10363_consen    4 TLQEALSDLNDPLPPVRAHGLVLLRKLIESKSEPVIDIPKILDLFLSQLKDEDSYVYLNAIKGLAALADRHPDEVLPILL   83 (92)
T ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHChHHHHHHHH
Confidence            35667777789999999999999998887654   7788999999999999999997777776554   4665 665655


Q ss_pred             hhhh
Q 028959          120 MQFR  123 (201)
Q Consensus       120 ~q~i  123 (201)
                      .+|.
T Consensus        84 ~~y~   87 (92)
T PF10363_consen   84 DEYA   87 (92)
T ss_pred             HHHh
Confidence            4443

>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells

Probab=91.26  E-value=6.3  Score=37.60  Aligned_cols=105  Identities=18%  Similarity=0.212  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCC--chH--HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh
Q 028959            6 RDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADP--SLA--AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS   81 (201)
Q Consensus         6 ~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp--~ll--~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~   81 (201)
                      -.+..+.|.....+++...|...+++++.++-+.+.  .++  +++++.++....|++..|.+..+..|..+++..+++ 
T Consensus        75 ~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~~~~~~~~~~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~~~~~~-  153 (503)
T PF10508_consen   75 LPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSEGAAQLLVDNELLPLIIQCLRDPDLSVAKAAIKALKKLASHPEGL-  153 (503)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHHhcCccHHHHHHHHHcCCcHHHHHHHHHHHHHHhCCchhH-
Confidence            457788899999998888999999999998865433  122  788899999999999999999999999999866544 


Q ss_pred             hhH-----HHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           82 SIL-----MPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        82 ~~~-----v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      ..+     +..|..++...+..|--|+..+...+.
T Consensus       154 ~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~  188 (503)
T PF10508_consen  154 EQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIA  188 (503)
T ss_pred             HHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHH
Confidence            233     778888887767767666666554443

26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding

>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion

Probab=90.62  E-value=0.26  Score=31.65  Aligned_cols=35  Identities=17%  Similarity=0.369  Sum_probs=28.8

Q ss_pred             hccCCCchHH--hhhHHHhhhccCcchhHHHHHHHHH
Q 028959           36 LSSADPSLAA--ELFPYLVELQSSPESLVRKSLIETI   70 (201)
Q Consensus        36 ll~~dp~ll~--~fl~~il~f~~d~~~~VRk~v~~fi   70 (201)
                      +.++||.+++  .+.+.+..-..|+++.||+..+++|
T Consensus         6 iv~~dp~ll~~~~v~~~i~~rl~D~s~~VR~aav~ll   42 (42)
T PF12765_consen    6 IVEKDPTLLDSSDVQSAIIRRLSDSSPSVREAAVDLL   42 (42)
T ss_pred             HHhcCccccchHHHHHHHHHHhcCCChHHHHHHHHHC
Confidence            4477998764  7777777888999999999999875

>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]

Probab=90.52  E-value=8.2  Score=31.92  Aligned_cols=72  Identities=19%  Similarity=0.174  Sum_probs=50.4

Q ss_pred             hHHhh-hHHHhhhccCcchhHHHHHHHHHHHHhhchh---h------hhhhHHHHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           43 LAAEL-FPYLVELQSSPESLVRKSLIETIEDIGLKAM---E------HSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        43 ll~~f-l~~il~f~~d~~~~VRk~v~~fiee~c~~~~---e------l~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                      +.+.+ ++.+.....++++.+|...+.++..+..+.+   .      .++.+++.+..++.|.+|.|=+.|-.|...+|.
T Consensus       127 ~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~  206 (228)
T PF12348_consen  127 YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSDADPEVREAARECLWALYS  206 (228)
T ss_dssp             H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Confidence            45666 5555567799999999999999998887665   1      246789999999999999997777766666665


Q ss_pred             HH
Q 028959          113 RV  114 (201)
Q Consensus       113 ~~  114 (201)
                      ..
T Consensus       207 ~~  208 (228)
T PF12348_consen  207 HF  208 (228)
T ss_dssp             HH
T ss_pred             HC
Confidence            43

The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.

>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []

Probab=90.02  E-value=0.55  Score=27.65  Aligned_cols=30  Identities=27%  Similarity=0.408  Sum_probs=25.8

Q ss_pred             HHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           84 LMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        84 ~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                      ++|.+..+++|+++.|=..|+.|.+.+.+.
T Consensus         1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~~   30 (31)
T PF02985_consen    1 LLPILLQLLNDPSPEVRQAAAECLGAIAEH   30 (31)
T ss_dssp             HHHHHHHHHT-SSHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHcCCCCHHHHHHHHHHHHHHHhh
Confidence            578999999999999999999999988763

Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....

>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]

Probab=89.60  E-value=0.4  Score=50.73  Aligned_cols=144  Identities=16%  Similarity=0.187  Sum_probs=101.9

Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhc---cCcchhHHHHHHHHHHHHhhchhhhhhhHHHHH
Q 028959           12 LLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQ---SSPESLVRKSLIETIEDIGLKAMEHSSILMPVL   88 (201)
Q Consensus        12 lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~---~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L   88 (201)
                      .|+.-.. .+.+.++..+....+.+++ +|+...+. ..++.+.   +|.+..+|+.++=-+-++.+...++.+.++.-+
T Consensus       305 fl~r~~D-~~~~vR~~~v~~~~~~l~~-~~~~~~~~-~~~~~l~~~~~D~~~rir~~v~i~~~~v~~~~l~~~~~ll~~~  381 (1266)
T KOG1525|consen  305 FLGRFND-ISVEVRMECVESIKQCLLN-NPSIAKAS-TILLALRERDLDEDVRVRTQVVIVACDVMKFKLVYIPLLLKLV  381 (1266)
T ss_pred             HHHHhcc-CChhhhhhHHHHhHHHHhc-CchhhhHH-HHHHHHHhhcCChhhhheeeEEEEEeehhHhhhhhhHHHHHHH
Confidence            3444433 3345899999999999988 77765443 2333333   777777777776555555556667777778888


Q ss_pred             HHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhH
Q 028959           89 LAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLET  168 (201)
Q Consensus        89 ~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~  168 (201)
                      ...++|--+.|=|.||...+.+|+.+.     +-+     +......|..++.|++.+|+ .++-.+.-.|     ++.-
T Consensus       382 ~eR~rDKk~~VR~~Am~~LaqlYk~~~-----~~~-----~~~~k~~t~~~swIp~kLL~-~~y~~~~~~r-----~~vE  445 (1266)
T KOG1525|consen  382 AERLRDKKIKVRKQAMNGLAQLYKNVY-----CLR-----SAGGKEITPPFSWIPDKLLH-LYYENDLDDR-----LLVE  445 (1266)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHH-----Hhh-----ccCcccccccccccchhHHh-hHhhccccHH-----HHHH
Confidence            888999999999999999999999866     222     22346889999999999999 6665556666     4444


Q ss_pred             hhhhcc
Q 028959          169 HVLLFT  174 (201)
Q Consensus       169 vIL~qT  174 (201)
                      .|+.+.
T Consensus       446 ~il~~~  451 (1266)
T KOG1525|consen  446 RILAEY  451 (1266)
T ss_pred             HHHHHh
Confidence            445444

>KOG2011 consensus Sister chromatid cohesion complex Cohesin, subunit STAG/IRR1/SCC3 [Cell cycle control, cell division, chromosome partitioning]

Probab=88.30  E-value=4  Score=42.62  Aligned_cols=126  Identities=17%  Similarity=0.149  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHhhcc-CC--CchHHhhhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHh----hccCC
Q 028959           25 KLSSLKQVRGILSS-AD--PSLAAELFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAF----LRDGD   96 (201)
Q Consensus        25 Kl~~L~q~~elll~-~d--p~ll~~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~L----L~D~~   96 (201)
                      +++.|.+.+..+.. .|  -+.++.++++++-=. .|-.+++|--.++.|+.-++.+|++...-  +++.+    |.|.+
T Consensus       262 rle~Ll~~r~etqe~~d~i~~mi~~if~sVFVHRYRDV~~~IRaiCiqeLgiWi~~yP~~Fl~d--sYLKYiGWtLsDk~  339 (1048)
T KOG2011|consen  262 RLESLLMLRKETQEQQDEIESMINDIFDSVFVHRYRDVDPDIRAICIQELGIWIKSYPEIFLSD--SYLKYIGWTLSDKN  339 (1048)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhheeeeecccCchHHHHHHHHHHHHHHHhccHHHhcc--hHHHHhcceeecCc
Confidence            46666665555532 12  125566666665333 89999999999999999999999887654  33333    66999


Q ss_pred             hhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhh
Q 028959           97 SGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLE  167 (201)
Q Consensus        97 ~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E  167 (201)
                      ..|=++++.+.-.||-.-               .....+=.-.+.||++|+.+..-..+.|||.+.++-..
T Consensus       340 ~~VRl~~lkaL~~L~e~~---------------~~~~~L~lFtsRFK~RIVeMadrd~~~~Vrav~L~~~~  395 (1048)
T KOG2011|consen  340 GTVRLRCLKALIKLYEKD---------------EDKDKLELFTSRFKDRIVEMADRDRNVSVRAVGLVLCL  395 (1048)
T ss_pred             cHHHHHHHHHHHHHHhcc---------------ccchHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHH
Confidence            999999999888887641               11222223456999999995523789999999986543

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms

Probab=88.05  E-value=3.7  Score=40.14  Aligned_cols=131  Identities=14%  Similarity=0.050  Sum_probs=81.0

Q ss_pred             HHHHHHHHhhcc-CCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHh
Q 028959           27 SSLKQVRGILSS-ADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIV  105 (201)
Q Consensus        27 ~~L~q~~elll~-~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~  105 (201)
                      +-|-+..|.|-. +|.+-=.+=+.+||+... .+..+++..+.||-.-.+.-|++...++..+..|.+|+|+.|=++||.
T Consensus         3 e~lY~~~~~L~~a~d~~~~~~~y~~il~~~k-g~~k~K~Laaq~I~kffk~FP~l~~~Ai~a~~DLcEDed~~iR~~aik   81 (556)
T PF05918_consen    3 EKLYENYEILADAKDKSQHEEDYKEILDGVK-GSPKEKRLAAQFIPKFFKHFPDLQEEAINAQLDLCEDEDVQIRKQAIK   81 (556)
T ss_dssp             HHHHHHHHHHHHTGGGGGGHHHHHHHHHGGG-S-HHHHHHHHHHHHHHHCC-GGGHHHHHHHHHHHHT-SSHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCCcccCHHHHHHHHHHcc-CCHHHHHHHHHHHHHHHhhChhhHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            334444454432 122222445666776664 578899999999999999999999999999999999999999999999


Q ss_pred             hhhhhhHHHHHHH------hhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhh
Q 028959          106 CGTNFFCRVLEEI------TMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLE  167 (201)
Q Consensus       106 ~~t~lyr~~L~~~------~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E  167 (201)
                      ..-.+.+..=+.+      ..|-+...    +.    .-+...|....+ ++..++-|+=..-++.++
T Consensus        82 ~lp~~ck~~~~~v~kvaDvL~QlL~td----d~----~E~~~v~~sL~~-ll~~d~k~tL~~lf~~i~  140 (556)
T PF05918_consen   82 GLPQLCKDNPEHVSKVADVLVQLLQTD----DP----VELDAVKNSLMS-LLKQDPKGTLTGLFSQIE  140 (556)
T ss_dssp             HGGGG--T--T-HHHHHHHHHHHTT-------H----HHHHHHHHHHHH-HHHH-HHHHHHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhHHHHHHHHHHhcc----cH----HHHHHHHHHHHH-HHhcCcHHHHHHHHHHHH
Confidence            9888887543111      11222211    11    123456666666 556666666666665554

Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.

>KOG1020 consensus Sister chromatid cohesion protein SCC2/Nipped-B [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=88.00  E-value=4.1  Score=43.99  Aligned_cols=68  Identities=19%  Similarity=0.211  Sum_probs=51.5

Q ss_pred             CCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhH--HHHHHHhhccCChhHHHHHHhhh
Q 028959           40 DPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSIL--MPVLLAFLRDGDSGVAGKSIVCG  107 (201)
Q Consensus        40 dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~--v~~L~~LL~D~~~~VvK~aI~~~  107 (201)
                      +|+++++|++-|.+=..|...-|||-|+-.++++|-..|.+...+  ..-+..=.+|+--+|.|=+-.++
T Consensus       886 ~~e~~~qyY~~i~erIlDtgvsVRKRvIKIlrdic~e~pdf~~i~~~cakmlrRv~DEEg~I~kLv~etf  955 (1692)
T KOG1020|consen  886 IPELIFQYYDQIIERILDTGVSVRKRVIKILRDICEETPDFSKIVDMCAKMLRRVNDEEGNIKKLVRETF  955 (1692)
T ss_pred             cHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHHHhCCChhhHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence            799999999999999999999999999999999999887664333  33333334476555666554433

>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.75  E-value=1.9  Score=43.38  Aligned_cols=65  Identities=29%  Similarity=0.315  Sum_probs=59.1

Q ss_pred             CchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHh
Q 028959           41 PSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIV  105 (201)
Q Consensus        41 p~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~  105 (201)
                      |+|.-.+-+.++.+-...-+=|||--+..+=.+|.++||-+..+.|.|..=|+|+||+|+--|+-
T Consensus       139 pdLARDLa~Dv~tLL~sskpYvRKkAIl~lykvFLkYPeAlr~~FprL~EkLeDpDp~V~SAAV~  203 (877)
T KOG1059|consen  139 PDLARDLADDVFTLLNSSKPYVRKKAILLLYKVFLKYPEALRPCFPRLVEKLEDPDPSVVSAAVS  203 (877)
T ss_pred             chhhHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHhhhHhHhhhHHHHHHhccCCCchHHHHHHH
Confidence            67888899999998888788899999999999999999999999999999999999999877765

>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region

Probab=85.09  E-value=11  Score=28.35  Aligned_cols=73  Identities=16%  Similarity=0.087  Sum_probs=53.9

Q ss_pred             hhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCC
Q 028959           77 AMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLV  156 (201)
Q Consensus        77 ~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~  156 (201)
                      -.+++..+++.++..+.|+|+-|=--|..+..++-+.+=                 +..+..++++=+.+++ +....++
T Consensus        21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~-----------------~~~l~~f~~IF~~L~k-l~~D~d~   82 (97)
T PF12755_consen   21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVAR-----------------GEILPYFNEIFDALCK-LSADPDE   82 (97)
T ss_pred             HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHH-HHcCCch
Confidence            378999999999999999999997777776666654332                 4566677788888888 5566667


Q ss_pred             chhHHHHHhhhH
Q 028959          157 GTKLLALKFLET  168 (201)
Q Consensus       157 GVr~~aiKF~E~  168 (201)
                      .||-.| .++-+
T Consensus        83 ~Vr~~a-~~Ld~   93 (97)
T PF12755_consen   83 NVRSAA-ELLDR   93 (97)
T ss_pred             hHHHHH-HHHHH
Confidence            788777 34433

>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p []

Probab=84.18  E-value=11  Score=33.04  Aligned_cols=73  Identities=8%  Similarity=0.012  Sum_probs=56.7

Q ss_pred             hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhh----------chhhhhhhHHHHHHHhhc--------cCChhHHHHHH
Q 028959           43 LAAELFPYLVELQSSPESLVRKSLIETIEDIGL----------KAMEHSSILMPVLLAFLR--------DGDSGVAGKSI  104 (201)
Q Consensus        43 ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~----------~~~el~~~~v~~L~~LL~--------D~~~~VvK~aI  104 (201)
                      .++-++|.+|.+.-|.++++|...+..+.....          +++.+....-+.|.-.|.        ++.+.++..|.
T Consensus       116 ~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~~~~L~~tGl~~v~~~al~~~L~~LP~~tp~~~s~~Ll~~ay  195 (282)
T PF10521_consen  116 HWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAEWDILRRTGLFSVFEDALFPCLYYLPPITPEDESLELLQAAY  195 (282)
T ss_pred             hhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhhhHHHHHcChHHHHHHHHHHHhhcCCCCCCchhhHHHHHHHH
Confidence            677889999999999999999999987776654          344445555555555555        77899999999


Q ss_pred             hhhhhhhHHHH
Q 028959          105 VCGTNFFCRVL  115 (201)
Q Consensus       105 ~~~t~lyr~~L  115 (201)
                      -|...||+...
T Consensus       196 ~~L~~L~~~~~  206 (282)
T PF10521_consen  196 PALLSLLKTQE  206 (282)
T ss_pred             HHHHHHHHhhc
Confidence            99999988654

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=84.04  E-value=6.1  Score=40.33  Aligned_cols=87  Identities=15%  Similarity=0.167  Sum_probs=48.1

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHH
Q 028959           11 SLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLA   90 (201)
Q Consensus        11 ~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~   90 (201)
                      +.|-.+....|...+...+..+.++=   ++   +...+.++....|++..||+-.+.-|++++.      +..++.|..
T Consensus       778 ~~L~~ll~D~d~~VR~aA~~aLg~~g---~~---~~~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~------~~a~~~L~~  845 (897)
T PRK13800        778 DAVRALTGDPDPLVRAAALAALAELG---CP---PDDVAAATAALRASAWQVRQGAARALAGAAA------DVAVPALVE  845 (897)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcC---Cc---chhHHHHHHHhcCCChHHHHHHHHHHHhccc------cchHHHHHH
Confidence            33333333344445555555554431   22   1122334555566667777777777765542      344567777


Q ss_pred             hhccCChhHHHHHHhhhhh
Q 028959           91 FLRDGDSGVAGKSIVCGTN  109 (201)
Q Consensus        91 LL~D~~~~VvK~aI~~~t~  109 (201)
                      +|+|+++.|-+.|+.+...
T Consensus       846 ~L~D~~~~VR~~A~~aL~~  864 (897)
T PRK13800        846 ALTDPHLDVRKAAVLALTR  864 (897)
T ss_pred             HhcCCCHHHHHHHHHHHhc
Confidence            7777777777777766555

>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless

Probab=82.54  E-value=2  Score=26.47  Aligned_cols=28  Identities=21%  Similarity=0.228  Sum_probs=24.8

Q ss_pred             hHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           83 ILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        83 ~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      .++|.|..||+++++.|.+.+.-+..+|
T Consensus        12 g~i~~Lv~ll~~~~~~v~~~a~~al~nl   39 (41)
T PF00514_consen   12 GGIPPLVQLLKSPDPEVQEEAAWALGNL   39 (41)
T ss_dssp             THHHHHHHHTTSSSHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence            4688999999999999999999888876

Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....

>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.28  E-value=8.7  Score=39.31  Aligned_cols=86  Identities=20%  Similarity=0.271  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhhcCCChHHHHHHHHHHHHhhcc-CCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhH
Q 028959            6 RDQALSLLAAANNHGDLAVKLSSLKQVRGILSS-ADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSIL   84 (201)
Q Consensus         6 ~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~-~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~   84 (201)
                      .+.+..+||.=   .| ..|++.++.+--++-+ +|   ..+|||.++.-....+++|||.|-=++-.-+-.+|.+..-.
T Consensus        37 ~~dL~~lLdSn---kd-~~KleAmKRIia~iA~G~d---vS~~Fp~VVKNVaskn~EVKkLVyvYLlrYAEeqpdLALLS  109 (968)
T KOG1060|consen   37 HDDLKQLLDSN---KD-SLKLEAMKRIIALIAKGKD---VSLLFPAVVKNVASKNIEVKKLVYVYLLRYAEEQPDLALLS  109 (968)
T ss_pred             hHHHHHHHhcc---cc-HHHHHHHHHHHHHHhcCCc---HHHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcCCCceeee
Confidence            45666777643   34 4899999988887754 24   67789999988899999999998766655555444444444


Q ss_pred             HHHHHHhhccCChh
Q 028959           85 MPVLLAFLRDGDSG   98 (201)
Q Consensus        85 v~~L~~LL~D~~~~   98 (201)
                      +.++..-|.|.|+-
T Consensus       110 IntfQk~L~DpN~L  123 (968)
T KOG1060|consen  110 INTFQKALKDPNQL  123 (968)
T ss_pred             HHHHHhhhcCCcHH
Confidence            44444444444433

>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus

Probab=81.82  E-value=11  Score=31.13  Aligned_cols=67  Identities=18%  Similarity=0.240  Sum_probs=51.2

Q ss_pred             hhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhh
Q 028959           16 ANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSI   83 (201)
Q Consensus        16 A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~   83 (201)
                      .-.++|...+...+. +=+++++..=.---+.+|.++.+..|+++.+|+-....+.+.+.||+.++..
T Consensus        16 ~~~~~~~~vr~~Al~-~l~~il~qGLvnP~~cvp~lIAL~ts~~~~ir~~A~~~l~~l~eK~~s~v~~   82 (187)
T PF12830_consen   16 LCLSSDDSVRLAALQ-VLELILRQGLVNPKQCVPTLIALETSPNPSIRSRAYQLLKELHEKHESLVES   82 (187)
T ss_pred             HHhCCCHHHHHHHHH-HHHHHHhcCCCChHHHHhHhhhhhCCCChHHHHHHHHHHHHHHHHhHHHHHH
Confidence            444566556666666 4445556554445689999999999999999999999999999999887544

>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=81.26  E-value=42  Score=32.97  Aligned_cols=106  Identities=16%  Similarity=0.165  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHH----HHhhch-hhhh
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIE----DIGLKA-MEHS   81 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fie----e~c~~~-~el~   81 (201)
                      .++.+||..-..+-+. +=.....++--||-+++.-...++|.-+++++.-++...||++-.-|=    .+-+++ .+=+
T Consensus        19 ~el~dLL~~~~~~lp~-~Lr~~i~~~LiLLrNk~~i~~~~LL~lff~l~~~~dk~lRkllythiv~~Ikn~n~~~kn~kl   97 (616)
T KOG2229|consen   19 SELKDLLRTNHTVLPP-ELREKIVKALILLRNKNLIVAEDLLELFFPLLRCGDKNLRKLLYTHIVTTIKNINKKHKNDKL   97 (616)
T ss_pred             HHHHHHHHhccccCCH-HHHHHHHHHHHHHhccCcCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHHHhhcccchH
Confidence            4778889888877443 334445556666667777777788888888998888888998765444    333444 3445


Q ss_pred             hhHHH-HHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           82 SILMP-VLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        82 ~~~v~-~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                      .++++ .+..||+++|+.-.|.|...+.-||+.
T Consensus        98 nkslq~~~fsml~~~d~~~ak~a~~~~~eL~kr  130 (616)
T KOG2229|consen   98 NKSLQAFMFSMLDQSDSTAAKMALDTMIELYKR  130 (616)
T ss_pred             HHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHh
Confidence            55555 566789999999999999999999983

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=81.06  E-value=12  Score=38.30  Aligned_cols=62  Identities=23%  Similarity=0.343  Sum_probs=33.0

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHh
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIG   74 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c   74 (201)
                      +.+++.|.++...+|...+...+..+.++.-.. ++     .+.+.....|+++.||.-+++.|.+..
T Consensus       651 ~~~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~-~~-----~~~L~~~L~~~d~~VR~~A~~aL~~~~  712 (897)
T PRK13800        651 PGFGPALVAALGDGAAAVRRAAAEGLRELVEVL-PP-----APALRDHLGSPDPVVRAAALDVLRALR  712 (897)
T ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcc-Cc-----hHHHHHHhcCCCHHHHHHHHHHHHhhc
Confidence            345566666666666667777766666653211 11     012222223456666666666665543

>KOG1061 consensus Vesicle coat complex AP-1/AP-2/AP-4, beta subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.16  E-value=9.3  Score=38.53  Aligned_cols=90  Identities=16%  Similarity=0.127  Sum_probs=73.0

Q ss_pred             CChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhh--hhhHHHHHHHhhccCCh
Q 028959           20 GDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEH--SSILMPVLLAFLRDGDS   97 (201)
Q Consensus        20 ~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el--~~~~v~~L~~LL~D~~~   97 (201)
                      .|-...+..|+ +|-+-.-..+......++.+..-..|.++.|||-++--++....-++++  -.-.++.|..|+.|+||
T Consensus        96 ~d~np~iR~lA-lrtm~~l~v~~i~ey~~~Pl~~~l~d~~~yvRktaa~~vakl~~~~~~~~~~~gl~~~L~~ll~D~~p  174 (734)
T KOG1061|consen   96 EDPNPLIRALA-LRTMGCLRVDKITEYLCDPLLKCLKDDDPYVRKTAAVCVAKLFDIDPDLVEDSGLVDALKDLLSDSNP  174 (734)
T ss_pred             CCCCHHHHHHH-hhceeeEeehHHHHHHHHHHHHhccCCChhHHHHHHHHHHHhhcCChhhccccchhHHHHHHhcCCCc
Confidence            34445666665 6666666678899999999999999999999999999999888877655  45678999999999999


Q ss_pred             hHHHHHHhhhhhh
Q 028959           98 GVAGKSIVCGTNF  110 (201)
Q Consensus        98 ~VvK~aI~~~t~l  110 (201)
                      .||-.|..+-..|
T Consensus       175 ~VVAnAlaaL~eI  187 (734)
T KOG1061|consen  175 MVVANALAALSEI  187 (734)
T ss_pred             hHHHHHHHHHHHH
Confidence            9998887765444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	201
3o2q_A	351	Crystal Structure Of The Human Symplekin-Ssu72-Ctd		9e-04

>pdb|3O2Q|A Chain A, Crystal Structure Of The Human Symplekin-Ssu72-Ctd Phosphopeptide Complex Length = 351

Iteration: 1
 Score = 40.0 bits (92), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 39/157 (24%), Positives = 72/157 (45%), Gaps = 5/157 (3%)
Query: 25  KLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSIL 84
           K++ LKQV+ ++ + DP+L       ++  Q+     VRK +I  IE+   + +E    L
Sbjct: 42  KITVLKQVQELIINKDPTLLDNFLDEIIAFQADKSIEVRKFVIGFIEEACKRDIELLLKL 101
Query: 85  MPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKD 144
           +  L   LRD +  V  K+I+  T  +     ++ +Q+    +V   L+E    MV    
Sbjct: 102 IANLNMLLRDENVNVVKKAILTMTQLY-----KVALQWMVKSRVISELQEACWDMVSAMA 156
Query: 145 AVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFE 181
               + L+    G +  A+KF+E  ++  +    D E
Sbjct: 157 GDIILLLDSDNDGIRTHAIKFVEGLIVTLSPRMADSE 193

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	201
3gs3_A	257	Symplekin, LD45768P; helix-turn-helix heat repeat	1e-33
3o2t_A	386	Symplekin; heat repeat, scaffold, protein binding;	2e-32
2db0_A	253	253AA long hypothetical protein; heat repeats, hel	7e-04

>3gs3_A Symplekin, LD45768P; helix-turn-helix heat repeat extended loop, transcription, protein binding; 2.40A {Drosophila melanogaster} Length = 257

 Score =  119 bits (300), Expect = 1e-33
 Identities = 33/179 (18%), Positives = 68/179 (37%), Gaps = 6/179 (3%)

Query: 1   MAAVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPES 60
             A +R + +            + K   L +V+  +  +   LA E    ++ L      
Sbjct: 9   KTATARAKVVDWCNELVIASP-STKCELLAKVQETVLGSCAELAEEFLESVLSLAHDSNM 67

Query: 61  LVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITM 120
            VRK ++  +E +    +E    ++ V+   LRD  + V  + I    + +   L+ +  
Sbjct: 68  EVRKQVVAFVEQVCKVKVELLPHVINVVSMLLRDNSAQVIKRVIQACGSIYKNGLQYLCS 127

Query: 121 QFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSND 179
                 +     E+ W  +   K  +  + ++    G +  A+KFLE  V+L +    D
Sbjct: 128 ----LMEPGDSAEQAWNILSLIKAQILDM-IDNENDGIRTNAIKFLEGVVVLQSFADED 181

>3o2t_A Symplekin; heat repeat, scaffold, protein binding; 1.40A {Homo sapiens} PDB: 3odr_A 3ods_A 3o2q_A* 3o2s_A Length = 386

 Score =  119 bits (298), Expect = 2e-32
 Identities = 39/186 (20%), Positives = 78/186 (41%), Gaps = 6/186 (3%)

Query: 5   SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRK 64
           + ++ + LL  A    +   K++ LKQV+ ++ + DP+L       ++  Q+     VRK
Sbjct: 23  TSERVVDLLNQAALITN-DSKITVLKQVQELIINKDPTLLDNFLDEIIAFQADKSIEVRK 81

Query: 65  SLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRW 124
            +I  IE+   + +E    L+  L   LRD +  V  K+I+  T  +   L+ +      
Sbjct: 82  FVIGFIEEACKRDIELLLKLIANLNMLLRDENVNVVKKAILTMTQLYKVALQWMVK---- 137

Query: 125 HGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLFTSDSNDFENFT 184
              +    E  W  +      +  + L+    G +  A+KF+E  ++  +    D E   
Sbjct: 138 SRVISELQEACWDMVSAMAGDIILL-LDSDNDGIRTHAIKFVEGLIVTLSPRMADSEIPR 196

Query: 185 KEGIAF 190
           ++    
Sbjct: 197 RQEHDI 202

>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii} Length = 253

 Score = 38.5 bits (89), Expect = 7e-04
 Identities = 20/93 (21%), Positives = 41/93 (44%), Gaps = 1/93 (1%)

Query: 7   DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSL 66
              + +L A    GD   K++        ++ A+P L A +    + + SS     + + 
Sbjct: 106 KSMIPVLFANYRIGDEKTKINVS-YALEEIAKANPMLMASIVRDFMSMLSSKNREDKLTA 164

Query: 67  IETIEDIGLKAMEHSSILMPVLLAFLRDGDSGV 99
           +  IE +G  + ++ +  +P ++  L DGD  V
Sbjct: 165 LNFIEAMGENSFKYVNPFLPRIINLLHDGDEIV 197

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	201
3gs3_A	257	Symplekin, LD45768P; helix-turn-helix heat repeat	100.0
3o2t_A	386	Symplekin; heat repeat, scaffold, protein binding;	100.0
2qk2_A	242	LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2	97.36
2vgl_B	591	AP-2 complex subunit beta-1; cytoplasmic vesicle,	97.28
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	97.23
2db0_A	253	253AA long hypothetical protein; heat repeats, hel	97.07
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	97.03
2qk1_A	249	Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h	96.98
2vgl_B	591	AP-2 complex subunit beta-1; cytoplasmic vesicle,	96.98
2qk2_A	242	LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2	96.92
1b3u_A	588	Protein (protein phosphatase PP2A); scaffold prote	96.88
2qk1_A	249	Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h	96.85
1b3u_A	588	Protein (protein phosphatase PP2A); scaffold prote	96.77
4fdd_A	852	Transportin-1; heat repeats, karyopherin, nuclear	96.74
4hxt_A	252	De novo protein OR329; structural genomics, PSI-bi	96.69
4db6_A	210	Armadillo repeat protein; solenoid repeat, armadil	96.65
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	96.55
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	96.42
3u0r_A	507	Apoptosis inhibitor 5; heat repeat, armadillo repe	96.42
2vgl_A	621	Adaptor protein complex AP-2, alpha 2 subunit; cyt	96.31
1w63_A	618	Adapter-related protein complex 1 gamma 1 subunit;	96.23
2jdq_A	450	Importin alpha-1 subunit; transport, PB2 subunit,	96.1
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	95.98
3tjz_B	355	Coatomer subunit gamma; protein trafficking, golgi	95.98
1te4_A	131	Conserved protein MTH187; methanobacterium thermoa	95.84
1ibr_B	462	P95, importin beta-1 subunit, nuclear factor; smal	95.79
4hxt_A	252	De novo protein OR329; structural genomics, PSI-bi	95.73
2jdq_A	450	Importin alpha-1 subunit; transport, PB2 subunit,	95.65
1u6g_C	1230	TIP120 protein, CAND1; cullin repeat, heat repeat,	95.63
1wa5_B	530	Importin alpha subunit; nuclear transport/complex,	95.55
1u6g_C	1230	TIP120 protein, CAND1; cullin repeat, heat repeat,	95.52
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	95.48
1w63_A	618	Adapter-related protein complex 1 gamma 1 subunit;	95.45
4b8j_A	528	Importin subunit alpha-1A; transport protein, nucl	95.43
2bpt_A	861	Importin beta-1 subunit; nuclear transport, nucleo	95.4
4db6_A	210	Armadillo repeat protein; solenoid repeat, armadil	95.32
4db8_A	252	Armadillo-repeat protein; solenoid repeat, de novo	94.97
4db8_A	252	Armadillo-repeat protein; solenoid repeat, de novo	94.93
1qgr_A	876	Protein (importin beta subunit); transport recepto	94.82
4fdd_A	852	Transportin-1; heat repeats, karyopherin, nuclear	94.76
2bpt_A	861	Importin beta-1 subunit; nuclear transport, nucleo	94.61
1qgr_A	876	Protein (importin beta subunit); transport recepto	94.59
4b8j_A	528	Importin subunit alpha-1A; transport protein, nucl	94.38
3tpo_A	529	Importin subunit alpha-2; nuclear import, protein	93.89
3tjz_B	355	Coatomer subunit gamma; protein trafficking, golgi	93.76
1xqr_A	296	HSPBP1 protein; armadillo repeat, superhelical twi	93.72
1wa5_B	530	Importin alpha subunit; nuclear transport/complex,	93.6
2vgl_A	621	Adaptor protein complex AP-2, alpha 2 subunit; cyt	93.54
1te4_A	131	Conserved protein MTH187; methanobacterium thermoa	93.51
3ul1_B	510	Importin subunit alpha-2; arm repeat, armadillo re	93.34
3ul1_B	510	Importin subunit alpha-2; arm repeat, armadillo re	92.87
1ibr_B	462	P95, importin beta-1 subunit, nuclear factor; smal	92.66
3tpo_A	529	Importin subunit alpha-2; nuclear import, protein	92.65
1xqr_A	296	HSPBP1 protein; armadillo repeat, superhelical twi	91.08
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.82
1xm9_A	457	Plakophilin 1; armadillo repeat, cell adhesion; 2.	88.26
3b2a_A	265	TON_1937, putative uncharacterized protein; heat-r	87.98
4ffb_C	278	Protein STU2; tubulin fold, heat repeats, cytoskel	87.79
2db0_A	253	253AA long hypothetical protein; heat repeats, hel	87.59
2of3_A	266	ZYG-9; multifunctional macromolecule, kinetochore,	86.51
2z6g_A	780	B-catenin; FULL-length, beta-catenin, cell adhesio	85.55
2of3_A	266	ZYG-9; multifunctional macromolecule, kinetochore,	85.15
1jdh_A	529	Beta-catenin; beta-catenin, protein-protein comple	83.49
1jdh_A	529	Beta-catenin; beta-catenin, protein-protein comple	82.66
3u0r_A	507	Apoptosis inhibitor 5; heat repeat, armadillo repe	81.28
4atg_A	196	TAF6; transcription, TFIID; HET: NHE; 1.89A {Anton	81.25

>3gs3_A Symplekin, LD45768P; helix-turn-helix heat repeat extended loop, transcription, protein binding; 2.40A {Drosophila melanogaster}

Probab=100.00  E-value=2.3e-55  Score=381.20  Aligned_cols=185  Identities=20%  Similarity=0.253  Sum_probs=173.4

Q ss_pred             cchHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh
Q 028959            3 AVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS   82 (201)
Q Consensus         3 ~s~~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~   82 (201)
                      +++||||++|||+|+.++| ++|+++|+|+||+++++||+|||+||+++++|++|++.+||||+++||||+|++++++++
T Consensus        11 ~~~~~~v~~lln~A~~~~~-~~kl~~L~qa~el~~~~dp~ll~~~l~~il~~~~~~~~~vrk~~~~Fi~e~~~~k~~l~~   89 (257)
T 3gs3_A           11 ATARAKVVDWCNELVIASP-STKCELLAKVQETVLGSCAELAEEFLESVLSLAHDSNMEVRKQVVAFVEQVCKVKVELLP   89 (257)
T ss_dssp             HHHHHHHHHHHHHHTTCCH-HHHHHHHHHHHHHHTTTTGGGHHHHHHHHHGGGGCSCHHHHHHHHHHHHHHHHHCGGGHH
T ss_pred             ccHHHHHHHHHHHhhhcCc-HHHHHHHHHHHHHHHccCHhHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5899999999999999998 699999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCc-chhhHHHHHHHHHHhHHHHHHHhccCCCCchhHH
Q 028959           83 ILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGK-VERWLEELWTWMVRFKDAVFAIALEPGLVGTKLL  161 (201)
Q Consensus        83 ~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~-~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~  161 (201)
                      +++++|.+||+|+||+|+|++|+|+|++||.+|     +|++.++ .+++++++|++|++||++|++ +|+++|+|||++
T Consensus        90 ~~l~~L~~Ll~d~d~~V~K~~I~~~~~iY~~~l-----~~i~~~~~~~~~~~~~W~~m~~lK~~Il~-~~~s~n~gvkl~  163 (257)
T 3gs3_A           90 HVINVVSMLLRDNSAQVIKRVIQACGSIYKNGL-----QYLCSLMEPGDSAEQAWNILSLIKAQILD-MIDNENDGIRTN  163 (257)
T ss_dssp             HHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHH-----HHHTTSSSCCHHHHHHHHHHHHHHHHHHH-GGGSSCHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH-----HHHhcCCCCcchHHHHHHHHHHHHHHHHH-HHccCCcchHHH
Confidence            999999999999999999999999999999999     8888776 778899999999999999999 899999999999


Q ss_pred             HHHhhhHhhhhccCCCCCCccccccccccceehhhhcc
Q 028959          162 ALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLK  199 (201)
Q Consensus       162 aiKF~E~vIL~qT~~~~d~~~~~~~~~~~~~~~~~~~~  199 (201)
                      |+||+|+||++||++.++  .|++++   +||++|++.
T Consensus       164 ~iKF~e~vIl~qT~~~~~--~~~~~~---d~SL~~Vp~  196 (257)
T 3gs3_A          164 AIKFLEGVVVLQSFADED--SLKRDG---DFSLADVPD  196 (257)
T ss_dssp             HHHHHHHHHHHTSCCCTT--SCCCTT---CCCGGGSCS
T ss_pred             HHHHHHHHHHhhcCCCcc--cCCCCC---CCCHHHCCC
Confidence            999999999999966443  444433   899999875

>3o2t_A Symplekin; heat repeat, scaffold, protein binding; 1.40A {Homo sapiens} PDB: 3odr_A 3ods_A 4h3k_A* 3o2s_A 3o2q_A* 4h3h_A*

Probab=100.00  E-value=1.6e-54  Score=394.44  Aligned_cols=188  Identities=21%  Similarity=0.304  Sum_probs=178.7

Q ss_pred             cchHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh
Q 028959            3 AVSRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS   82 (201)
Q Consensus         3 ~s~~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~   82 (201)
                      +|++|||++|||+|+.+++ ++|+++|+|+|||++++||+||+|||++|++|++|++.+||||+++||||+|++++|+++
T Consensus        21 ~~~~~~v~~lln~A~~~~~-~~Kl~~L~q~~EL~l~~dpsLl~~fl~~il~f~~d~~~~vRk~~a~FieEa~~~~~el~~   99 (386)
T 3o2t_A           21 MTTSERVVDLLNQAALITN-DSKITVLKQVQELIINKDPTLLDNFLDEIIAFQADKSIEVRKFVIGFIEEACKRDIELLL   99 (386)
T ss_dssp             CCHHHHHHHHHHHHHHCCS-THHHHHHHHHHHHHHTTCGGGGGGGHHHHHGGGGCSCHHHHHHHHHHHHHHHHHCGGGHH
T ss_pred             ccHHHHHHHHHHhhhccCh-HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6899999999999999877 499999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCc-chhhHHHHHHHHHHhHHHHHHHhccCCCCchhHH
Q 028959           83 ILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGK-VERWLEELWTWMVRFKDAVFAIALEPGLVGTKLL  161 (201)
Q Consensus        83 ~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~-~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~  161 (201)
                      +++++|.+||+|+||+|+|++|+|+++|||.+|     ||+++++ .+++++++|++|++||++|++ +|+++|+|||++
T Consensus       100 ~~l~~L~~LL~d~d~~V~K~~I~~~tslYpl~f-----~~i~~~~~~~~~~e~~W~~m~~lK~~Il~-~~ds~n~GVrl~  173 (386)
T 3o2t_A          100 KLIANLNMLLRDENVNVVKKAILTMTQLYKVAL-----QWMVKSRVISELQEACWDMVSAMAGDIIL-LLDSDNDGIRTH  173 (386)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHH-----HHHHHC-CCCHHHHHHHHHHHHHHHHHHH-GGGCSSHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH-----HHHhcCCCcchhHHHHHHHHHHHHHHHHH-HhccCCcchHHH
Confidence            999999999999999999999999999999999     8888888 567899999999999999999 899999999999


Q ss_pred             HHHhhhHhhhhccCCCCCCccccccccccceehhhhcc
Q 028959          162 ALKFLETHVLLFTSDSNDFENFTKEGIAFLFVMAIYLK  199 (201)
Q Consensus       162 aiKF~E~vIL~qT~~~~d~~~~~~~~~~~~~~~~~~~~  199 (201)
                      |+||+|+||++||++++|++.|++++  .+|+++|++.
T Consensus       174 aiKFle~VIl~qS~~~~d~~~p~~~~--~d~SL~~VP~  209 (386)
T 3o2t_A          174 AIKFVEGLIVTLSPRMADSEIPRRQE--HDISLDRIPR  209 (386)
T ss_dssp             HHHHHHHHHHHTSCCCTTCCCCGGGT--TSCCGGGSCT
T ss_pred             HHHHHHHHHHHhCCCCCCcccccccC--CCCCHhhCCC
Confidence            99999999999999999999888764  5899999875

>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster}

Probab=97.36  E-value=0.0048  Score=50.13  Aligned_cols=107  Identities=14%  Similarity=0.050  Sum_probs=81.6

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch------hhhh
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA------MEHS   81 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~------~el~   81 (201)
                      .++..|-+....++...+-.....+..++..  . -++.+++.++..-.++++.||..++++|..+...+      ..++
T Consensus        98 ~ilp~ll~~l~d~~~~vr~~a~~aL~~~~~~--~-~~~~ll~~l~~~l~~~~~~vr~~~l~~l~~~l~~~~~~~~~~~~l  174 (242)
T 2qk2_A           98 ACVPSLLEKFKEKKPNVVTALREAIDAIYAS--T-SLEAQQESIVESLSNKNPSVKSETALFIARALTRTQPTALNKKLL  174 (242)
T ss_dssp             HHHHHHHHGGGCCCHHHHHHHHHHHHHHHTT--S-CHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHTTCCGGGCCHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHc--C-CHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHcCCCCccHHHH
Confidence            4455555554445555666666666666533  2 26888999998778889999999999999865432      3578


Q ss_pred             hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHH
Q 028959           82 SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEE  117 (201)
Q Consensus        82 ~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~  117 (201)
                      +.++|.|..+|+|.++.|=+.|+.|.+.+++.+=++
T Consensus       175 ~~l~p~l~~~l~D~~~~VR~~A~~~l~~l~~~vg~~  210 (242)
T 2qk2_A          175 KLLTTSLVKTLNEPDPTVRDSSAEALGTLIKLMGDK  210 (242)
T ss_dssp             HHHHHHHHHHHTSSCHHHHHHHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCHH
Confidence            899999999999999999999999999999877543

>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B

Probab=97.28  E-value=0.0036  Score=58.08  Aligned_cols=92  Identities=10%  Similarity=0.100  Sum_probs=75.2

Q ss_pred             hcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh--hHHHHHHHhhcc
Q 028959           17 NNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS--ILMPVLLAFLRD   94 (201)
Q Consensus        17 ~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~--~~v~~L~~LL~D   94 (201)
                      ...+|...+...|+.+-.+   ..|.+.+.+++.+.....|+++.|||-.+--+..+++.+|+.++  ..++.|..+|.|
T Consensus        95 L~~~n~~ir~~AL~~L~~i---~~~~~~~~l~~~l~~~L~d~~~~VRk~A~~al~~i~~~~p~~~~~~~~~~~l~~lL~d  171 (591)
T 2vgl_B           95 CEDPNPLIRALAVRTMGCI---RVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIAD  171 (591)
T ss_dssp             SSSSSHHHHHHHHHHHHTC---CSGGGHHHHHHHHHHHSSCSCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSC
T ss_pred             cCCCCHHHHHHHHHHHHcC---ChHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhhChhhcccccHHHHHHHHhCC
Confidence            3445544555555554443   37778899999999999999999999999999999999999887  589999999999


Q ss_pred             CChhHHHHHHhhhhhhh
Q 028959           95 GDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        95 ~~~~VvK~aI~~~t~ly  111 (201)
                      ++|.|...|+.+...+.
T Consensus       172 ~d~~V~~~A~~aL~~i~  188 (591)
T 2vgl_B          172 SNPMVVANAVAALSEIS  188 (591)
T ss_dssp             SCHHHHHHHHHHHHHHT
T ss_pred             CChhHHHHHHHHHHHHH
Confidence            99999999998877654

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=97.23  E-value=0.021  Score=46.78  Aligned_cols=123  Identities=12%  Similarity=-0.037  Sum_probs=76.0

Q ss_pred             hHHhhhHHHh-hhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH-HHHHHhh
Q 028959           43 LAAELFPYLV-ELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR-VLEEITM  120 (201)
Q Consensus        43 ll~~fl~~il-~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~-~L~~~~~  120 (201)
                      ..+.+++-+. .+..|++..||...+.-++..|..++...+.+++.|..+|+|+++.|-..++.+...+-.. ++..+. 
T Consensus        87 ~~~~l~~~L~~~~~~d~~~~vr~~a~~aL~~l~~~~~~~~~~~~~~L~~~l~d~~~~vR~~a~~aL~~~~~~~~~~~L~-  165 (280)
T 1oyz_A           87 CEDNVFNILNNMALNDKSACVRATAIESTAQRCKKNPIYSPKIVEQSQITAFDKSTNVRRATAFAISVINDKATIPLLI-  165 (280)
T ss_dssp             THHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHTTCSCHHHHHHHHHHHHTC---CCHHHHH-
T ss_pred             cchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHhhCCCHHHHHHHHHHHHhcCCHHHHHHHH-
Confidence            3444444443 2447888899999999999998887777788889999999999999988888887776432 221111 


Q ss_pred             hhhccCcchhhHHHHHHHHHHhH-------HHHHHHhccCCCCchhHHHHHhhhH
Q 028959          121 QFRWHGKVERWLEELWTWMVRFK-------DAVFAIALEPGLVGTKLLALKFLET  168 (201)
Q Consensus       121 q~i~~~~~~~~~~~~W~~m~~lK-------~~Il~~~~~s~n~GVr~~aiKF~E~  168 (201)
                      +.+.... ..--..+...+..+.       ..++. ++.+++..||..|+.-+-.
T Consensus       166 ~~l~d~~-~~vr~~a~~aL~~~~~~~~~~~~~L~~-~l~d~~~~vR~~A~~aL~~  218 (280)
T 1oyz_A          166 NLLKDPN-GDVRNWAAFAININKYDNSDIRDCFVE-MLQDKNEEVRIEAIIGLSY  218 (280)
T ss_dssp             HHHTCSS-HHHHHHHHHHHHHHTCCCHHHHHHHHH-HTTCSCHHHHHHHHHHHHH
T ss_pred             HHHcCCC-HHHHHHHHHHHHhhccCcHHHHHHHHH-HhcCCCHHHHHHHHHHHHH
Confidence            2222221 111222333334432       34445 5566778888888866543

>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii}

Probab=97.07  E-value=0.0043  Score=52.25  Aligned_cols=101  Identities=21%  Similarity=0.309  Sum_probs=85.3

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHH
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVL   88 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L   88 (201)
                      ++..|-+--..+|.+.|+..=..+.|+. ..+|+++++.+.++..+..|++-.=|-....||+..|-.+++++.--+|.|
T Consensus       108 vVp~lfanyrigd~kikIn~~yaLeeIa-ranP~l~~~v~rdi~smltskd~~Dkl~aLnFi~alGen~~~yv~PfLprL  186 (253)
T 2db0_A          108 MIPVLFANYRIGDEKTKINVSYALEEIA-KANPMLMASIVRDFMSMLSSKNREDKLTALNFIEAMGENSFKYVNPFLPRI  186 (253)
T ss_dssp             HHHHHHHHSCCCSHHHHHHHHHHHHHHH-HHCHHHHHHHHHHHHHHTSCSSHHHHHHHHHHHHTCCTTTHHHHGGGHHHH
T ss_pred             hHHHHHHHHhcCCccceecHHHHHHHHH-HhChHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhccCccccCcchHHH
Confidence            4455554445589888888777777766 559999999999999999999998999999999999999999999999999


Q ss_pred             HHhhccCChhHHHHHHhhhhhh
Q 028959           89 LAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        89 ~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      ..||.|.|..|=-.++-+.+++
T Consensus       187 ~aLL~D~deiVRaSaVEtL~~l  208 (253)
T 2db0_A          187 INLLHDGDEIVRASAVEALVHL  208 (253)
T ss_dssp             HGGGGCSSHHHHHHHHHHHHHH
T ss_pred             HHHHcCcchhhhHHHHHHHHHH
Confidence            9999999988877777766554

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=97.03  E-value=0.028  Score=44.03  Aligned_cols=142  Identities=13%  Similarity=0.032  Sum_probs=76.6

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHH
Q 028959           11 SLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLA   90 (201)
Q Consensus        11 ~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~   90 (201)
                      +.|-+....+|...+...+..+.++-   +    ++.++.++++..|++..||...+.-+.+.+.      +..++.|..
T Consensus        22 ~~L~~~L~~~~~~vR~~A~~~L~~~~---~----~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~------~~~~~~L~~   88 (211)
T 3ltm_A           22 EMYIKNLQDDSYYVRRAAAYALGKIG---D----ERAVEPLIKALKDEDAWVRRAAADALGQIGD------ERAVEPLIK   88 (211)
T ss_dssp             HHHHHHTTCSSHHHHHHHHHHHHHHC---C----GGGHHHHHHHTTCSCHHHHHHHHHHHHHHCC------GGGHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHhC---C----ccHHHHHHHHHcCCCHHHHHHHHHHHHhhCC------HHHHHHHHH
Confidence            33333334566666666666555532   2    3556666666667778888888877777763      345666667


Q ss_pred             hhccCChhHHHHHHhhhhhhhHH-HHHHHhhhhhccCcchhhHHHHHHHHHHhH-----HHHHHHhccCCCCchhHHHHH
Q 028959           91 FLRDGDSGVAGKSIVCGTNFFCR-VLEEITMQFRWHGKVERWLEELWTWMVRFK-----DAVFAIALEPGLVGTKLLALK  164 (201)
Q Consensus        91 LL~D~~~~VvK~aI~~~t~lyr~-~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK-----~~Il~~~~~s~n~GVr~~aiK  164 (201)
                      +|+|+++.|-..++.+...+-.. ++..+. +.+. ++...--..+-..+..+.     ..+.. ++++.+..||..|+.
T Consensus        89 ~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~-~~l~-d~~~~vr~~a~~aL~~~~~~~~~~~L~~-~l~d~~~~vr~~a~~  165 (211)
T 3ltm_A           89 ALKDEDGWVRQSAAVALGQIGDERAVEPLI-KALK-DEDWFVRIAAAFALGEIGDERAVEPLIK-ALKDEDGWVRQSAAD  165 (211)
T ss_dssp             HTTCSSHHHHHHHHHHHHHHCCGGGHHHHH-HHTT-CSSHHHHHHHHHHHHHHCCGGGHHHHHH-HTTCSSHHHHHHHHH
T ss_pred             HHcCCCHHHHHHHHHHHHHhCcHHHHHHHH-HHHh-CCCHHHHHHHHHHHHHcCCHHHHHHHHH-HHcCCCHHHHHHHHH
Confidence            77777777777777766654221 111111 2221 221112223333333332     23444 445666677777765


Q ss_pred             hhhH
Q 028959          165 FLET  168 (201)
Q Consensus       165 F~E~  168 (201)
                      -+-.
T Consensus       166 aL~~  169 (211)
T 3ltm_A          166 ALGE  169 (211)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae}

Probab=96.98  E-value=0.015  Score=48.64  Aligned_cols=73  Identities=5%  Similarity=0.047  Sum_probs=63.8

Q ss_pred             hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchh-------hhh-hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHH
Q 028959           43 LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAM-------EHS-SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRV  114 (201)
Q Consensus        43 ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~-------el~-~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~  114 (201)
                      .++.+++.+++.-..+++.+|...+.||..++....       .++ +.++|.|..+|.|+++.|=+.|+.|.+.+|+.+
T Consensus       143 ~l~~ll~~l~~~l~~k~~~vk~~al~~l~~~~~~~~~~~~~l~~~l~~~iip~l~~~l~D~~~~VR~aA~~~l~~i~~~v  222 (249)
T 2qk1_A          143 RNEDMLKDILEHMKHKTPQIRMECTQLFNASMKEEKDGYSTLQRYLKDEVVPIVIQIVNDTQPAIRTIGFESFAILIKIF  222 (249)
T ss_dssp             TTHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHCCSCSHHHHHHHTTTHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHh
Confidence            388999999987777789999999999998886543       367 999999999999999999999999999999866


Q ss_pred             H
Q 028959          115 L  115 (201)
Q Consensus       115 L  115 (201)
                      =
T Consensus       223 G  223 (249)
T 2qk1_A          223 G  223 (249)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B

Probab=96.98  E-value=0.036  Score=51.28  Aligned_cols=152  Identities=11%  Similarity=0.019  Sum_probs=94.1

Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhhc-cCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHh
Q 028959           13 LAAANNHGDLAVKLSSLKQVRGILS-SADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAF   91 (201)
Q Consensus        13 Ln~A~~~~d~~~Kl~~L~q~~elll-~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~L   91 (201)
                      |.+.-..+|...|.+.++++--+.. +.|.   +.++++++.+..+++..+||-+--+++..++.+++++.-++++|..-
T Consensus        18 i~~~L~~~~~~~k~~~~~kli~~~~~G~d~---~~~~~~vi~l~~s~~~~~Krl~yl~l~~~~~~~~e~~~l~~n~l~kd   94 (591)
T 2vgl_B           18 LKAELNNEKKEKRKEAVKKVIAAMTVGKDV---SSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKD   94 (591)
T ss_dssp             HHHHTTSSCHHHHHHHHHHHHHHHHTTCCC---GGGHHHHHHTTSSSCHHHHHHHHHHHHHHHHHSHHHHHTTHHHHGGG
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHHHCCCCh---HHHHHHHHHHhCCCCHHHHHHHHHHHHHHcccCchHHHHHHHHHHHH
Confidence            3333445677788888888766553 4443   44577788888889999999998888888777777777777777777


Q ss_pred             hccCChhHHHHHHhhhhhh-----hHHHHHHHhhhhhccCcchhhHHHHHHHHH------------HhHHHHHHHhccCC
Q 028959           92 LRDGDSGVAGKSIVCGTNF-----FCRVLEEITMQFRWHGKVERWLEELWTWMV------------RFKDAVFAIALEPG  154 (201)
Q Consensus        92 L~D~~~~VvK~aI~~~t~l-----yr~~L~~~~~q~i~~~~~~~~~~~~W~~m~------------~lK~~Il~~~~~s~  154 (201)
                      |.|+||.|..-|+.+.+++     .+.+...+ .+.+.+....---..+|....            .+-..+.. ++++.
T Consensus        95 L~~~n~~ir~~AL~~L~~i~~~~~~~~l~~~l-~~~L~d~~~~VRk~A~~al~~i~~~~p~~~~~~~~~~~l~~-lL~d~  172 (591)
T 2vgl_B           95 CEDPNPLIRALAVRTMGCIRVDKITEYLCEPL-RKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRD-LIADS  172 (591)
T ss_dssp             SSSSSHHHHHHHHHHHHTCCSGGGHHHHHHHH-HHHSSCSCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHH-TTSCS
T ss_pred             cCCCCHHHHHHHHHHHHcCChHHHHHHHHHHH-HHHcCCCChHHHHHHHHHHHHHHhhChhhcccccHHHHHHH-HhCCC
Confidence            7777777776666666653     22211111 122221111111223332222            23356666 66777


Q ss_pred             CCchhHHHHHhhhHh
Q 028959          155 LVGTKLLALKFLETH  169 (201)
Q Consensus       155 n~GVr~~aiKF~E~v  169 (201)
                      +.+|+.+|+..+-.+
T Consensus       173 d~~V~~~A~~aL~~i  187 (591)
T 2vgl_B          173 NPMVVANAVAALSEI  187 (591)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHH
Confidence            889999998887664

>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster}

Probab=96.92  E-value=0.012  Score=47.68  Aligned_cols=132  Identities=11%  Similarity=0.111  Sum_probs=96.4

Q ss_pred             cCCChHHHHHHHHHHHHhhcc-CC--CchHHhhhHHHhhhcc-CcchhHHHHHHHHHHHHhhch----hhhhhhHHHHHH
Q 028959           18 NHGDLAVKLSSLKQVRGILSS-AD--PSLAAELFPYLVELQS-SPESLVRKSLIETIEDIGLKA----MEHSSILMPVLL   89 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~-~d--p~ll~~fl~~il~f~~-d~~~~VRk~v~~fiee~c~~~----~el~~~~v~~L~   89 (201)
                      ...|-.+|...+..+..++-. .+  +.-+.++++.+..... |++..||.....-++..++.-    ..+...++|.|.
T Consensus        25 ~s~~w~~R~~a~~~L~~l~~~~~~~~~~~~~~i~~~L~~~l~kd~~~~V~~~a~~~l~~la~~l~~~~~~~~~~ilp~ll  104 (242)
T 2qk2_A           25 EEKKWTLRKESLEVLEKLLTDHPKLENGEYGALVSALKKVITKDSNVVLVAMAGKCLALLAKGLAKRFSNYASACVPSLL  104 (242)
T ss_dssp             TCSSHHHHHHHHHHHHHHHHHCSSBCCCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHccCCCCCCCCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            457778899999999998865 11  2345788888887775 999999999999999888633    367889999999


Q ss_pred             HhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHh
Q 028959           90 AFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETH  169 (201)
Q Consensus        90 ~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~v  169 (201)
                      ..+.|.++.|-..+..+...++..            .+    .+       .+=..++. .+++.|..||..++.|+..+
T Consensus       105 ~~l~d~~~~vr~~a~~aL~~~~~~------------~~----~~-------~ll~~l~~-~l~~~~~~vr~~~l~~l~~~  160 (242)
T 2qk2_A          105 EKFKEKKPNVVTALREAIDAIYAS------------TS----LE-------AQQESIVE-SLSNKNPSVKSETALFIARA  160 (242)
T ss_dssp             HGGGCCCHHHHHHHHHHHHHHHTT------------SC----HH-------HHHHHHHH-HTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHcCCCHHHHHHHHHHHHHHHHc------------CC----HH-------HHHHHHHH-HHcCCChHHHHHHHHHHHHH
Confidence            999999988877777776655431            11    12       22233455 56677788888888888877


Q ss_pred             hhhc
Q 028959          170 VLLF  173 (201)
Q Consensus       170 IL~q  173 (201)
                      +-.+
T Consensus       161 l~~~  164 (242)
T 2qk2_A          161 LTRT  164 (242)
T ss_dssp             HTTC
T ss_pred             HHHc
Confidence            5443

>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A

Probab=96.88  E-value=0.025  Score=50.25  Aligned_cols=70  Identities=19%  Similarity=0.230  Sum_probs=57.6

Q ss_pred             hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch--hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           43 LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA--MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        43 ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~--~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                      ..+++++.+.++..|++..||+..++.+++.+...  ..+.+.++|.|..+++|+++.|-+.++.+...+..
T Consensus       161 ~~~~l~~~l~~l~~d~~~~VR~~a~~~l~~l~~~~~~~~~~~~l~~~l~~~~~d~~~~vr~~a~~~l~~l~~  232 (588)
T 1b3u_A          161 VKAELRQYFRNLCSDDTPMVRRAAASKLGEFAKVLELDNVKSEIIPMFSNLASDEQDSVRLLAVEACVNIAQ  232 (588)
T ss_dssp             HHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHHTSCHHHHHHTHHHHHHHHHTCSCHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcHHhHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence            34677777778889999999999999999988743  35678899999999999999998888888776543

>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae}

Probab=96.85  E-value=0.022  Score=47.53  Aligned_cols=137  Identities=9%  Similarity=0.042  Sum_probs=99.1

Q ss_pred             cCCChHHHHHHHHHHHH-hhccCCCc------hHHhhhHHHhhhc-cCcchhHHHHHHHHHHHHhhch-----h-hhhhh
Q 028959           18 NHGDLAVKLSSLKQVRG-ILSSADPS------LAAELFPYLVELQ-SSPESLVRKSLIETIEDIGLKA-----M-EHSSI   83 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~e-lll~~dp~------ll~~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~-----~-el~~~   83 (201)
                      .+++-.++.+.|..+.. ++-+ .|.      -+.++++.+.... .|.+..||...+.-|++++..-     . .+...
T Consensus        26 ~s~~w~eRk~al~~L~~~~~~~-~~~i~~~~~~~~~~~~~L~~~l~~D~n~~v~~~A~~al~~la~~l~~~~f~~~y~~~  104 (249)
T 2qk1_A           26 TSSKWKDRVEALEEFWDSVLSQ-TKKLKSTSQNYSNLLGIYGHIIQKDANIQAVALAAQSVELICDKLKTPGFSKDYVSL  104 (249)
T ss_dssp             TCSSHHHHHHHHHHHHHHTGGG-CCCBCCTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHHHCTTTSCHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHHhc-CCccccCcccHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhcccccccHHHHHH
Confidence            45777788899999998 7743 332      3468888888776 8999999988888787776522     2 68889


Q ss_pred             HHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHH
Q 028959           84 LMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLAL  163 (201)
Q Consensus        84 ~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~ai  163 (201)
                      ++|.+...+.|..+.|...+..|.-.++..+=     .+.. .+   ..+.+++       +++. .+++.|..+|..++
T Consensus       105 llp~ll~~l~dkk~~V~~aa~~al~~i~~~~~-----~~~~-~~---~l~~ll~-------~l~~-~l~~k~~~vk~~al  167 (249)
T 2qk1_A          105 VFTPLLDRTKEKKPSVIEAIRKALLTICKYYD-----PLAS-SG---RNEDMLK-------DILE-HMKHKTPQIRMECT  167 (249)
T ss_dssp             HHHHHHHGGGCCCHHHHHHHHHHHHHHHHHSC-----TTCT-TC---TTHHHHH-------HHHH-HTTCSSHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcc-----cccc-CC---cHHHHHH-------HHHH-HHcCCChHHHHHHH
Confidence            99999999999999988887777766666431     1000 00   1334444       4455 67888999999999


Q ss_pred             HhhhHhhhh
Q 028959          164 KFLETHVLL  172 (201)
Q Consensus       164 KF~E~vIL~  172 (201)
                      +|+-+++-.
T Consensus       168 ~~l~~~~~~  176 (249)
T 2qk1_A          168 QLFNASMKE  176 (249)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998754

>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A

Probab=96.77  E-value=0.017  Score=51.36  Aligned_cols=103  Identities=14%  Similarity=0.181  Sum_probs=63.5

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc-hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchh------hhh
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS-LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAM------EHS   81 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~-ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~------el~   81 (201)
                      ++..+.......+-..|......+..+.-.-++. ..+.+++.++.+..|++.+||+..+..+++++....      .+.
T Consensus       243 ~~~~l~~~~~d~~~~vR~~a~~~l~~l~~~~~~~~~~~~l~~~l~~~l~d~~~~vr~~a~~~l~~~~~~~~~~~~~~~~~  322 (588)
T 1b3u_A          243 VMPTLRQAAEDKSWRVRYMVADKFTELQKAVGPEITKTDLVPAFQNLMKDCEAEVRAAASHKVKEFCENLSADCRENVIM  322 (588)
T ss_dssp             THHHHHHHHTCSSHHHHHHHHHTHHHHHHHHCHHHHHHTHHHHHHHHHTCSSHHHHHHHHHHHHHHHHTSCTTTHHHHHH
T ss_pred             HHHHHHHHccCCCHHHHHHHHHHHHHHHHHhCcccchhHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHhChhhhhhHHH
Confidence            3344444433344334444444444433221222 345667777777778888888888888877776442      467


Q ss_pred             hhHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           82 SILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        82 ~~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      +.++|.+..+++|.++.|-+.+..+...+-
T Consensus       323 ~~l~p~l~~~l~d~~~~vR~~a~~~l~~l~  352 (588)
T 1b3u_A          323 SQILPCIKELVSDANQHVKSALASVIMGLS  352 (588)
T ss_dssp             HTHHHHHHHHHTCSCHHHHHHHHTTGGGGH
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            778888888888888887777776666654

>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*

Probab=96.74  E-value=0.034  Score=52.99  Aligned_cols=106  Identities=16%  Similarity=0.231  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhh-----
Q 028959            6 RDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEH-----   80 (201)
Q Consensus         6 ~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el-----   80 (201)
                      ++.+-+.|=++-..++...+...-.-+.++.-+..|.-.+++++.+++...+++..+|......+..+|...++.     
T Consensus        88 ~~~ik~~ll~~l~~~~~~vr~~~a~~i~~ia~~~~~~~wp~ll~~L~~~l~~~~~~~r~~al~~L~~i~~~~~~~~~~~~  167 (852)
T 4fdd_A           88 TDFIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLCSLLDSEDYNTCEGAFGALQKICEDSAEILDSDV  167 (852)
T ss_dssp             HHHHHHHHHTTTTCSSHHHHHHHHHHHHHHHHHTTTTTCTTHHHHHHHHHSCSSHHHHHHHHHHHHHHHHHHTTHHHHCS
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCccccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhHHHhchhh
Confidence            344444444443344444444444445555544346677888888888888888889999888888888866544     


Q ss_pred             ----hhhHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           81 ----SSILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        81 ----~~~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                          +..+++.+..++.|+++.|-..|+.|.+++.
T Consensus       168 ~~~~~~~il~~l~~~l~~~~~~vR~~A~~aL~~~~  202 (852)
T 4fdd_A          168 LDRPLNIMIPKFLQFFKHSSPKIRSHAVACVNQFI  202 (852)
T ss_dssp             SSSCHHHHHHHHTTTTTCSSHHHHHHHHHHHHTTT
T ss_pred             hcchHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence                5668888888888989998888888876554

>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene}

Probab=96.69  E-value=0.16  Score=39.91  Aligned_cols=99  Identities=22%  Similarity=0.170  Sum_probs=72.5

Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhhccCCCchH-----HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh----
Q 028959           12 LLAAANNHGDLAVKLSSLKQVRGILSSADPSLA-----AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS----   82 (201)
Q Consensus        12 lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll-----~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~----   82 (201)
                      .|-+.-..++...+...+..+..+..+ ++..-     ...++.++.+-.+++.++|...+..+...|..+++...    
T Consensus        48 ~L~~ll~~~~~~v~~~a~~~L~~l~~~-~~~~~~~~~~~~~i~~l~~ll~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~  126 (252)
T 4hxt_A           48 VLVKLLTSTDSEVQKEAARALANIASG-PDEAIKAIVDAGGVEVLVKLLTSTDSEVQKEAARALANIASGPDEAIKAIVD  126 (252)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTHHHHHHHHTTCSSHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHHcC-ChHHHHHHHHCCCHHHHHHHHcCCCHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            333333445666777777777777644 23322     24688888888889999999999999999975544332    


Q ss_pred             -hHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           83 -ILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        83 -~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                       ..++.|..+|+++++.|.+.++.+..+|-
T Consensus       127 ~~~i~~L~~~l~~~~~~~~~~a~~~L~~l~  156 (252)
T 4hxt_A          127 AGGVEVLVKLLTSTDSEVQKEAARALANIA  156 (252)
T ss_dssp             TTHHHHHHHHTTCSCHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence             57889999999999999999988888774

>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A

Probab=96.65  E-value=0.12  Score=39.95  Aligned_cols=95  Identities=21%  Similarity=0.250  Sum_probs=73.2

Q ss_pred             hhcCCChHHHHHHHHHHHHhhccCCCchH-----HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh-----hhHH
Q 028959           16 ANNHGDLAVKLSSLKQVRGILSSADPSLA-----AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS-----SILM   85 (201)
Q Consensus        16 A~~~~d~~~Kl~~L~q~~elll~~dp~ll-----~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~-----~~~v   85 (201)
                      -..++|...+...+..+..+..+ ++...     ...++.++++-.+++.++|...+..|..++..+++..     ...+
T Consensus        20 LL~s~~~~v~~~a~~~L~~l~~~-~~~~~~~i~~~g~i~~L~~lL~~~~~~v~~~a~~~L~~l~~~~~~~~~~i~~~g~i   98 (210)
T 4db6_A           20 QLNSPDQQELQSALRKLSQIASG-GNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDAGAL   98 (210)
T ss_dssp             HTTCSCHHHHHHHHHHHHHHHTS-CHHHHHHHHHTTHHHHHHHHTTCSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTCH
T ss_pred             HhcCCCHHHHHHHHHHHHHHHcC-CHHHHHHHHHcCCHHHHHHHHcCCCHHHHHHHHHHHHHHhcCCcHHHHHHHHCCCH
Confidence            33456777888888888888744 33322     2567888888888899999999999999997554432     3367


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      +.|..+|.++++.|.+.+..+..+|-
T Consensus        99 ~~L~~lL~~~~~~v~~~a~~~L~~l~  124 (210)
T 4db6_A           99 PALVQLLSSPNEQILQEALWALSNIA  124 (210)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence            89999999999999999988888775

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=96.55  E-value=0.042  Score=42.71  Aligned_cols=144  Identities=19%  Similarity=0.102  Sum_probs=86.6

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHH
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLL   89 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~   89 (201)
                      +..|-++...+|...+...+..+.++-   +|    +.++.++..-.|++..||...+.-+...+.      +..++.|.
T Consensus        47 ~~~L~~~l~~~~~~vr~~a~~~L~~~~---~~----~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~------~~~~~~L~  113 (201)
T 3ltj_A           47 VEPLIKALKDEDAWVRRAAADALGQIG---DE----RAVEPLIKALKDEDGWVRQSAAVALGQIGD------ERAVEPLI  113 (201)
T ss_dssp             HHHHHHHTTCSSHHHHHHHHHHHHHHC---CG----GGHHHHHHHTTCSSHHHHHHHHHHHHHHCC------GGGHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhhC---CH----HHHHHHHHHHcCCCHHHHHHHHHHHHHhCc------HHHHHHHH
Confidence            333444444567666766666665542   33    556667777788899999999999988764      34677788


Q ss_pred             HhhccCChhHHHHHHhhhhhhhH-HHHHHHhhhhhccCcchhhHHHHHHHHHHhH-----HHHHHHhccCCCCchhHHHH
Q 028959           90 AFLRDGDSGVAGKSIVCGTNFFC-RVLEEITMQFRWHGKVERWLEELWTWMVRFK-----DAVFAIALEPGLVGTKLLAL  163 (201)
Q Consensus        90 ~LL~D~~~~VvK~aI~~~t~lyr-~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK-----~~Il~~~~~s~n~GVr~~ai  163 (201)
                      .+|+|+++.|-..++.+.+.+-. .++..+. +.+. ++...--..+-.++..+.     ..+.. ++++.+..||..|+
T Consensus       114 ~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~-~~l~-d~~~~vr~~A~~aL~~~~~~~~~~~L~~-~l~d~~~~vr~~A~  190 (201)
T 3ltj_A          114 KALKDEDWFVRIAAAFALGEIGDERAVEPLI-KALK-DEDGWVRQSAADALGEIGGERVRAAMEK-LAETGTGFARKVAV  190 (201)
T ss_dssp             HHTTCSSHHHHHHHHHHHHHHTCGGGHHHHH-HHTT-CSSHHHHHHHHHHHHHHCSHHHHHHHHH-HHHHCCHHHHHHHH
T ss_pred             HHHcCCCHHHHHHHHHHHHHhCCHHHHHHHH-HHHc-CCCHHHHHHHHHHHHHhCchhHHHHHHH-HHhCCCHHHHHHHH
Confidence            88899999998888888776642 1111111 2222 221112233333333332     33444 44567778888888


Q ss_pred             HhhhHh
Q 028959          164 KFLETH  169 (201)
Q Consensus       164 KF~E~v  169 (201)
                      +-+.++
T Consensus       191 ~aL~~l  196 (201)
T 3ltj_A          191 NYLETH  196 (201)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            766543

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=96.42  E-value=0.15  Score=39.79  Aligned_cols=138  Identities=17%  Similarity=0.085  Sum_probs=87.4

Q ss_pred             HhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhcc
Q 028959           15 AANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRD   94 (201)
Q Consensus        15 ~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D   94 (201)
                      ++...+|...+...+..+.++-   +    ++.++.++++-.|++..||...+.-++..+.      +..++.|..+|+|
T Consensus        57 ~~l~~~~~~vr~~a~~aL~~~~---~----~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~------~~~~~~L~~~l~d  123 (211)
T 3ltm_A           57 KALKDEDAWVRRAAADALGQIG---D----ERAVEPLIKALKDEDGWVRQSAAVALGQIGD------ERAVEPLIKALKD  123 (211)
T ss_dssp             HHTTCSCHHHHHHHHHHHHHHC---C----GGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC------GGGHHHHHHHTTC
T ss_pred             HHHcCCCHHHHHHHHHHHHhhC---C----HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc------HHHHHHHHHHHhC
Confidence            3333456556666666555542   2    3566777777789999999999999998875      3567888889999


Q ss_pred             CChhHHHHHHhhhhhhhHH-HHHHHhhhhhccCcchhhHHHHHHHHHHhH-----HHHHHHhccCCCCchhHHHHHhhhH
Q 028959           95 GDSGVAGKSIVCGTNFFCR-VLEEITMQFRWHGKVERWLEELWTWMVRFK-----DAVFAIALEPGLVGTKLLALKFLET  168 (201)
Q Consensus        95 ~~~~VvK~aI~~~t~lyr~-~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK-----~~Il~~~~~s~n~GVr~~aiKF~E~  168 (201)
                      +++.|-..++.+.+.+-.. ++..+. +.+ .++...--..+-..+..+.     ..+.. ++++++..||..|+.-+..
T Consensus       124 ~~~~vr~~a~~aL~~~~~~~~~~~L~-~~l-~d~~~~vr~~a~~aL~~~~~~~~~~~L~~-~l~d~~~~vr~~A~~aL~~  200 (211)
T 3ltm_A          124 EDWFVRIAAAFALGEIGDERAVEPLI-KAL-KDEDGWVRQSAADALGEIGGERVRAAMEK-LAETGTGFARKVAVNYLET  200 (211)
T ss_dssp             SSHHHHHHHHHHHHHHCCGGGHHHHH-HHT-TCSSHHHHHHHHHHHHHHCSHHHHHHHHH-HHHHCCHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHH-HHH-cCCCHHHHHHHHHHHHHhCchhHHHHHHH-HHhCCCHHHHHHHHHHHHh
Confidence            9999999999988776321 121111 333 2221222334444444443     33444 5566778899888866544

>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine acetylation; 2.50A {Homo sapiens} PDB: 3v6a_A

Probab=96.42  E-value=0.01  Score=55.43  Aligned_cols=107  Identities=17%  Similarity=0.130  Sum_probs=69.1

Q ss_pred             CCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHH
Q 028959           39 ADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEI  118 (201)
Q Consensus        39 ~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~  118 (201)
                      .-|+|-++-++.++.+..|.+..||++.+.=|-.+|+-  ++++++.++|..||.-+++.-+..+=.+..+||+.==   
T Consensus        58 ~FP~l~~~Ai~a~lDLcEDed~~IR~qaik~Lp~~ck~--~~i~kiaDvL~QlLqtdd~~E~~~V~~sL~sllk~Dp---  132 (507)
T 3u0r_A           58 HFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATG--ENLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDA---  132 (507)
T ss_dssp             GCGGGHHHHHHHHHHHHTCSSHHHHHHHHHHGGGGCCT--TCHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCH---
T ss_pred             hChhhHHHHHHHHHHHHhcccHHHHHHHHHhhHHHhhh--hhhhhHHHHHHHHHhccchHHHHHHHHHHHHHHhcCh---
Confidence            35777777777788888888888888888888888866  7788888888888886666555544444444444110   


Q ss_pred             hhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHhhhh
Q 028959          119 TMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLL  172 (201)
Q Consensus       119 ~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vIL~  172 (201)
                                       =.+++.+=++|..     +.+.+|.-++||+-.-+.-
T Consensus       133 -----------------k~tl~~lf~~i~~-----~~e~~Rer~lkFi~~kl~~  164 (507)
T 3u0r_A          133 -----------------KGTLGGLFSQILQ-----GEDIVRERAIKFLSTKLKT  164 (507)
T ss_dssp             -----------------HHHHHHHHHHHHH-----SCHHHHHHHHHHHHHHGGG
T ss_pred             -----------------HHHHHHHHHHHcc-----cchHHHHHHHHHHHHHHhh
Confidence                             0112222233333     5678888888888555433

>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A

Probab=96.31  E-value=0.015  Score=54.75  Aligned_cols=98  Identities=9%  Similarity=0.033  Sum_probs=80.0

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhc--cCcchhHHHHHHHHHHHHhhchhhhhh--hHH
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQ--SSPESLVRKSLIETIEDIGLKAMEHSS--ILM   85 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~--~d~~~~VRk~v~~fiee~c~~~~el~~--~~v   85 (201)
                      +..+.....+++.-.+.-.|+.+-.+   ..|++.+.+++.+....  .|+++-|||-.+--+..+++.+|++++  ..+
T Consensus       113 iN~l~kDl~~~n~~ir~lALr~L~~i---~~~e~~~~l~~~v~~~l~~~d~~~~VRK~A~~al~kl~~~~p~~~~~~~~~  189 (621)
T 2vgl_A          113 NNAIKNDLASRNPTFMGLALHCIANV---GSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGDWT  189 (621)
T ss_dssp             HHHHHHHHHSCCHHHHHHHHHHHHHH---CCHHHHHHHTTHHHHHHHCSSSCHHHHHHHHHHHHHHHHHCGGGCCCCSCH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHhhcc---CCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhChhhcCchhHH
Confidence            44444444456655666667766665   36889999999999888  999999999999999999999999999  899


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhh
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      +.|..+|.|.||.|+-.|+.+...+
T Consensus       190 ~~l~~lL~d~d~~V~~~a~~~l~~i  214 (621)
T 2vgl_A          190 SRVVHLLNDQHLGVVTAATSLITTL  214 (621)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCccHHHHHHHHHHHH
Confidence            9999999999999998888765554

>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1

Probab=96.23  E-value=0.01  Score=55.47  Aligned_cols=99  Identities=18%  Similarity=0.167  Sum_probs=74.7

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHH
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLL   89 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~   89 (201)
                      ++.|.....+++.-.+...|+.+-.+-   +|.+.+.+++.+..+..|+++.|||-.+--+..+++++|+++...++.|.
T Consensus       109 in~l~kDL~~~n~~vr~lAL~~L~~i~---~~~~~~~l~~~l~~~L~~~~~~VRk~A~~al~~l~~~~p~~v~~~~~~l~  185 (618)
T 1w63_A          109 TNCIKNDLNHSTQFVQGLALCTLGCMG---SSEMCRDLAGEVEKLLKTSNSYLRKKAALCAVHVIRKVPELMEMFLPATK  185 (618)
T ss_dssp             HHHHHHHHSCSSSHHHHHHHHHHHHHC---CHHHHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHHCGGGGGGGGGGTT
T ss_pred             HHHHHHhcCCCCHhHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHChHHHHHHHHHHH
Confidence            444444444444445666666655543   56677888888888888899999999999999999999999999999999


Q ss_pred             HhhccCChhHHHHHHhhhhhhh
Q 028959           90 AFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        90 ~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      .+|.|.||.|+-.|+.+...+.
T Consensus       186 ~lL~D~d~~V~~~Al~~L~~i~  207 (618)
T 1w63_A          186 NLLNEKNHGVLHTSVVLLTEMC  207 (618)
T ss_dssp             TSTTCCCHHHHHHHHHHHHHHC
T ss_pred             HHhCCCCHhHHHHHHHHHHHHH
Confidence            9999999999888876665543

>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A

Probab=96.10  E-value=0.066  Score=46.04  Aligned_cols=154  Identities=15%  Similarity=0.057  Sum_probs=98.1

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhc-hhhhh--
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLK-AMEHS--   81 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~-~~el~--   81 (201)
                      +..|-+....++...+...+..+..+..+ ++.    ++ ..+++.++.+-.+++.+||+..+..|..++.. .++..  
T Consensus       278 l~~L~~ll~~~~~~vr~~a~~~L~~l~~~-~~~~~~~~~~~~~l~~L~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~  356 (450)
T 2jdq_A          278 LQSLLHLLSSPKESIKKEACWTISNITAG-NRAQIQTVIDANIFPALISILQTAEFRTRKEAAWAITNATSGGSAEQIKY  356 (450)
T ss_dssp             HHHHHHHTTCSSHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHCCHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHHHcC-CHHHHHHHHHCCCHHHHHHHHhcCCHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence            33343444445556677777777776643 222    22 36788888887788999999999999988864 33322  


Q ss_pred             ---hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCch
Q 028959           82 ---SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGT  158 (201)
Q Consensus        82 ---~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GV  158 (201)
                         ..+++.|..+|+++++.|.+.++.+..++....=...-   ...+..++......+ .. .-+.+.. +.++.|..|
T Consensus       357 l~~~~~i~~L~~ll~~~~~~v~~~a~~aL~~l~~~~~~~~~---~~~~~~~~~~~~l~~-~g-~~~~l~~-l~~~~~~~v  430 (450)
T 2jdq_A          357 LVELGCIKPLCDLLTVMDSKIVQVALNGLENILRLGEQEAK---RNGTGINPYCALIEE-AY-GLDKIEF-LQSHENQEI  430 (450)
T ss_dssp             HHHHTCHHHHHHGGGSSCHHHHHHHHHHHHHHHHHHHHHHH---HSCSCCCHHHHHHHH-HH-CHHHHHH-HHCHHHHHH
T ss_pred             HHHCCCHHHHHHHhcCCCHHHHHHHHHHHHHHHHhchhhhh---ccccchhHHHHHHHH-cC-cHHHHHH-HHcCCCHHH
Confidence               25889999999999999999999988888764331100   000111112222211 11 1233555 567788899


Q ss_pred             hHHHHHhhhHhh
Q 028959          159 KLLALKFLETHV  170 (201)
Q Consensus       159 r~~aiKF~E~vI  170 (201)
                      +..|++.++.+.
T Consensus       431 ~~~a~~~l~~~~  442 (450)
T 2jdq_A          431 YQKAFDLIEHYF  442 (450)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC
Confidence            999999998874

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=95.98  E-value=0.38  Score=37.09  Aligned_cols=136  Identities=14%  Similarity=0.032  Sum_probs=89.4

Q ss_pred             cCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCCh
Q 028959           18 NHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDS   97 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~   97 (201)
                      ..+|...+...+..+.++-   +    ++.++.++++-.|++..||...+..+++.+.      +..++.|..+|+|+++
T Consensus        24 ~~~~~~vr~~A~~~L~~~~---~----~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~------~~~~~~L~~~l~d~~~   90 (201)
T 3ltj_A           24 QDDSYYVRRAAAYALGKIG---D----ERAVEPLIKALKDEDAWVRRAAADALGQIGD------ERAVEPLIKALKDEDG   90 (201)
T ss_dssp             TCSCHHHHHHHHHHHHHHC---C----GGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC------GGGHHHHHHHTTCSSH
T ss_pred             cCCCHHHHHHHHHHHHhcC---C----hhHHHHHHHHHcCCCHHHHHHHHHHHHhhCC------HHHHHHHHHHHcCCCH
Confidence            3466667777766666543   2    3566777777789999999999999998874      3567888889999999


Q ss_pred             hHHHHHHhhhhhhhHH-HHHHHhhhhhccCcchhhHHHHHHHHHHhH-----HHHHHHhccCCCCchhHHHHHhhhHh
Q 028959           98 GVAGKSIVCGTNFFCR-VLEEITMQFRWHGKVERWLEELWTWMVRFK-----DAVFAIALEPGLVGTKLLALKFLETH  169 (201)
Q Consensus        98 ~VvK~aI~~~t~lyr~-~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK-----~~Il~~~~~s~n~GVr~~aiKF~E~v  169 (201)
                      .|-..++.+.+.+-.. ++..+. +.+. ++...--..+-..+..+.     ..+.. ++.+.+..||..|+.-+-.+
T Consensus        91 ~vr~~a~~aL~~~~~~~~~~~L~-~~l~-d~~~~vr~~a~~aL~~~~~~~~~~~L~~-~l~d~~~~vr~~A~~aL~~~  165 (201)
T 3ltj_A           91 WVRQSAAVALGQIGDERAVEPLI-KALK-DEDWFVRIAAAFALGEIGDERAVEPLIK-ALKDEDGWVRQSAADALGEI  165 (201)
T ss_dssp             HHHHHHHHHHHHHCCGGGHHHHH-HHTT-CSSHHHHHHHHHHHHHHTCGGGHHHHHH-HTTCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHH-HHHc-CCCHHHHHHHHHHHHHhCCHHHHHHHHH-HHcCCCHHHHHHHHHHHHHh
Confidence            9999999988875433 222221 3332 221112233444444443     34555 55667778998888766554

>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus}

Probab=95.98  E-value=0.21  Score=44.52  Aligned_cols=141  Identities=7%  Similarity=0.019  Sum_probs=99.2

Q ss_pred             cCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCCh
Q 028959           18 NHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDS   97 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~   97 (201)
                      .+++.-.+.-.|+.+-.+.   +|+++..+.+.+-.-..|+++-|||--+==....+..+|+++.+.++.+..++.|.||
T Consensus       114 ~~~N~~iR~lALRtL~~I~---~~~m~~~l~~~lk~~L~d~~pyVRk~A~l~~~kL~~~~pe~v~~~~~~l~~ll~d~n~  190 (355)
T 3tjz_B          114 TGKEDSYRGPAVRALCQIT---DSTMLQAIERYMKQAIVDKVPSVSSSALVSSLHLLKCSFDVVKRWVNEAQEAASSDNI  190 (355)
T ss_dssp             HSSCHHHHHHHHHHHHHHC---CTTTHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHTTTCHHHHHTTHHHHHHHTTCSSH
T ss_pred             CCCcHhHHHHHHHHHhcCC---CHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHhcCCCc
Confidence            3445447777777777765   8999999999999999999999999877667788999999999999999999999999


Q ss_pred             hHHHHHHhhhhhhhH---HHHHHHhhhhhccCcchhhHHHHHHHHHHhH--------------HHHHHH---hccCCCCc
Q 028959           98 GVAGKSIVCGTNFFC---RVLEEITMQFRWHGKVERWLEELWTWMVRFK--------------DAVFAI---ALEPGLVG  157 (201)
Q Consensus        98 ~VvK~aI~~~t~lyr---~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK--------------~~Il~~---~~~s~n~G  157 (201)
                      .|+=.|+.....+-.   .++.++..++- .+..    ..-|..+.-++              .+++.+   .+.+.|+.
T Consensus       191 ~V~~~Al~lL~ei~~~d~~a~~kLv~~l~-~~~l----~~~~~q~~llr~l~~~~~~d~~~~~~~~~~~l~~~L~~~~~a  265 (355)
T 3tjz_B          191 MVQYHALGLLYHVRKNDRLAVSKMISKFT-RHGL----KSPFAYCMMIRVASRQLEDEDGSRDSPLFDFIESCLRNKHEM  265 (355)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH-SSCC----SCHHHHHHHHHHHTCC-----------------CCCCCSSHH
T ss_pred             cHHHHHHHHHHHHHhhchHHHHHHHHHHh-cCCC----cChHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHcCCChH
Confidence            999888887777664   67766654332 2221    12344443333              334442   23466777


Q ss_pred             hhHHHHHhh
Q 028959          158 TKLLALKFL  166 (201)
Q Consensus       158 Vr~~aiKF~  166 (201)
                      |-.-|+|-+
T Consensus       266 VvyEa~k~I  274 (355)
T 3tjz_B          266 VVYEAASAI  274 (355)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776543

>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16

Probab=95.84  E-value=0.059  Score=39.71  Aligned_cols=54  Identities=17%  Similarity=0.093  Sum_probs=23.6

Q ss_pred             HhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           51 LVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        51 il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      +++.-.|++..||...+.-++.++.      +..++.|..+|+|+++.|-..++.+.+.+
T Consensus        47 L~~~L~d~~~~vR~~A~~aL~~~~~------~~a~~~L~~~L~d~~~~VR~~A~~aL~~~  100 (131)
T 1te4_A           47 LLESLSNEDWRIRGAAAWIIGNFQD------ERAVEPLIKLLEDDSGFVRSGAARSLEQI  100 (131)
T ss_dssp             HHHGGGCSCHHHHHHHHHHHGGGCS------HHHHHHHHHHHHHCCTHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCC------HHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            3333334444444444444444432      12344444444444444444444444443

>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A

Probab=95.79  E-value=0.047  Score=46.89  Aligned_cols=115  Identities=18%  Similarity=0.115  Sum_probs=74.9

Q ss_pred             hHHhhhHHHhhhccCc--chhHHHHHHHHHHHHhhch-----hhhhhhHHHHHHHhhccC--ChhHHHHHHhhhhhhhHH
Q 028959           43 LAAELFPYLVELQSSP--ESLVRKSLIETIEDIGLKA-----MEHSSILMPVLLAFLRDG--DSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        43 ll~~fl~~il~f~~d~--~~~VRk~v~~fiee~c~~~-----~el~~~~v~~L~~LL~D~--~~~VvK~aI~~~t~lyr~  113 (201)
                      -.+++++.+++...++  +..+|...+..++.+|...     ..+.+.+++.+..+|.|+  ++.|-+.++.|.+++.. 
T Consensus       125 ~w~~ll~~L~~~l~~~~~~~~~r~~al~~l~~l~~~~~~~~~~~~~~~ll~~l~~~l~~~~~~~~vr~~a~~~l~~~~~-  203 (462)
T 1ibr_B          125 QWPELIPQLVANVTNPNSTEHMKESTLEAIGYICQDIDPEQLQDKSNEILTAIIQGMRKEEPSNNVKLAATNALLNSLE-  203 (462)
T ss_dssp             CCTTHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHSCGGGTGGGHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHTT-
T ss_pred             ccHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhCCchhhHhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHH-
Confidence            4577888888777676  8899999999999998753     456778889999999988  78888888888776531 


Q ss_pred             HHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHhhhhc
Q 028959          114 VLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVLLF  173 (201)
Q Consensus       114 ~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vIL~q  173 (201)
                              ++..      ....|.....+-..+.. ...+.+..+|..+++.+..++-.+
T Consensus       204 --------~~~~------~~~~~~~~~~l~~~l~~-~~~~~~~~vr~~~~~~l~~l~~~~  248 (462)
T 1ibr_B          204 --------FTKA------NFDKESERHFIMQVVCE-ATQCPDTRVRVAALQNLVKIMSLY  248 (462)
T ss_dssp             --------TTHH------HHTSHHHHHHHHHHHHH-HTTCSSHHHHHHHHHHHHHHHHHC
T ss_pred             --------HHHH------hhhhhHHHHHHHHHHHH-hcCCCCHHHHHHHHHHHHHHHHHH
Confidence                    1100      00112111112222333 345666778887777776665433

>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene}

Probab=95.73  E-value=0.11  Score=40.68  Aligned_cols=102  Identities=21%  Similarity=0.154  Sum_probs=72.0

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCch-----HHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh---
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPSL-----AAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS---   81 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~l-----l~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~---   81 (201)
                      +..|-+....++...+...+..+..+..+ ++..     -...++.++++-.+++.++|...+..|..+|..+++..   
T Consensus       130 i~~L~~~l~~~~~~~~~~a~~~L~~l~~~-~~~~~~~~~~~~~i~~L~~ll~~~~~~v~~~a~~~L~~l~~~~~~~~~~l  208 (252)
T 4hxt_A          130 VEVLVKLLTSTDSEVQKEAARALANIASG-PDEAIKAIVDAGGVEVLVKLLTSTDSEVQKEAARALANIASGPTSAIKAI  208 (252)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTHHHHHHHHTTCSCHHHHHHHHHHHHHHTTSBHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHHHcC-CHHHHHHHHHCcCHHHHHHHHCCCCHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            33444444456666777777777777654 2221     14477888888888888899999999998887665443   


Q ss_pred             --hhHHHHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           82 --SILMPVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        82 --~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                        ..+++.|..+++++++.|.+.|..+..+|..
T Consensus       209 ~~~~~i~~L~~ll~~~~~~v~~~a~~~L~~l~~  241 (252)
T 4hxt_A          209 VDAGGVEVLQKLLTSTDSEVQKEAQRALENIKS  241 (252)
T ss_dssp             HHTTHHHHHHHGGGCSCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHCCCcHHHHHHHHHHHHHHHc
Confidence              3467888888888888888888888877754

>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A

Probab=95.65  E-value=0.088  Score=45.23  Aligned_cols=94  Identities=14%  Similarity=0.181  Sum_probs=73.6

Q ss_pred             cCCChHHHHHHHHHHHHhhc-cCCCc---hHH--hhhHHHhhhccCc-chhHHHHHHHHHHHHhhchhhhh-----hhHH
Q 028959           18 NHGDLAVKLSSLKQVRGILS-SADPS---LAA--ELFPYLVELQSSP-ESLVRKSLIETIEDIGLKAMEHS-----SILM   85 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll-~~dp~---ll~--~fl~~il~f~~d~-~~~VRk~v~~fiee~c~~~~el~-----~~~v   85 (201)
                      .++|...+...+..+++++. +.+|.   .+.  .+++.++++-.+. +..+|...+..+..++..+++..     ..++
T Consensus        30 ~s~~~~~r~~A~~~L~~l~~~~~~~~~~~~~~~~~~i~~L~~~L~~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~~~i  109 (450)
T 2jdq_A           30 FSKSPEQQLSATQKFRKLLSKEPNPPIDEVISTPGVVARFVEFLKRKENCTLQFESAWVLTNIASGNSLQTRIVIQAGAV  109 (450)
T ss_dssp             HSSCHHHHHHHHHHHHHHHHSSSSCCHHHHHTSTTHHHHHHHHHTCTTCHHHHHHHHHHHHHHHSSCHHHHHHHHHTTHH
T ss_pred             cCCCHHHHHHHHHHHHHHhcCCCCCcHHHHHHcCCcHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHhCCCH
Confidence            35677789999999999875 23443   232  6888888776666 89999999999999998554332     4689


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      |.|..+|.++++.|...++.+.++|-
T Consensus       110 ~~L~~lL~~~~~~vr~~a~~~L~~l~  135 (450)
T 2jdq_A          110 PIFIELLSSEFEDVQEQAVWALGNIA  135 (450)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHHc
Confidence            99999999999999999988877764

>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A

Probab=95.63  E-value=0.57  Score=46.41  Aligned_cols=164  Identities=10%  Similarity=0.097  Sum_probs=103.1

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc---------hHHhhhHHHhhhcc-CcchhHHHHHHHHHHHHhhc
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS---------LAAELFPYLVELQS-SPESLVRKSLIETIEDIGLK   76 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~---------ll~~fl~~il~f~~-d~~~~VRk~v~~fiee~c~~   76 (201)
                      +.+++.|-.+-...+...+-.....+.++.-.-.+.         ..++++|.++.... +++..+|....+.+.+.|..
T Consensus        85 ~~i~~~Ll~~l~d~~~~vR~~a~~~L~~i~~~l~~~~~~~~~~~~~~~~llp~L~~~l~~~~~~~~~~~al~~l~~~~~~  164 (1230)
T 1u6g_C           85 ETIVDTLCTNMLSDKEQLRDISSIGLKTVIGELPPASSGSALAANVCKKITGRLTSAIAKQEDVSVQLEALDIMADMLSR  164 (1230)
T ss_dssp             HHHHHHHHHHTTCSSSHHHHHHHHHHHHHHHHCC-----CCTHHHHHHHHHHHHHHHHSCCSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhCCCcccccchHHHHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHH
Confidence            455555555544434334555555555555433333         57888888887666 47889999999999998863


Q ss_pred             h----hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH--------HHHHHhhhhhccC---cchhhHHHHHHHHHH
Q 028959           77 A----MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR--------VLEEITMQFRWHG---KVERWLEELWTWMVR  141 (201)
Q Consensus        77 ~----~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~--------~L~~~~~q~i~~~---~~~~~~~~~W~~m~~  141 (201)
                      .    ..+.+.+++.|...|.|+++.|-++|+.|.+.+...        .+..+. +.+...   ..-...-.+|..+..
T Consensus       165 ~~~~l~~~~~~ll~~l~~~L~~~~~~vR~~a~~al~~l~~~~~~~~~~~~l~~l~-~~L~~~~~~~~r~~a~~~l~~l~~  243 (1230)
T 1u6g_C          165 QGGLLVNFHPSILTCLLPQLTSPRLAVRKRTIIALGHLVMSCGNIVFVDLIEHLL-SELSKNDSMSTTRTYIQCIAAISR  243 (1230)
T ss_dssp             TCSSCTTTHHHHHHHHGGGGGCSSHHHHHHHHHHHHHHTTTC----CTTHHHHHH-HHHHHTCSSCSCTTHHHHHHHHHH
T ss_pred             hHhHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH-HHhccCCchhHHHHHHHHHHHHHH
Confidence            3    246788999999999999999999998887765321        222221 222221   111234555655543


Q ss_pred             ------------hHHHHHHHhccCCCCchhHHHHHhhhHhhhh
Q 028959          142 ------------FKDAVFAIALEPGLVGTKLLALKFLETHVLL  172 (201)
Q Consensus       142 ------------lK~~Il~~~~~s~n~GVr~~aiKF~E~vIL~  172 (201)
                                  +-..+++ .+.+.++.||-.|+.+++.++-.
T Consensus       244 ~~~~~~~~~l~~l~~~ll~-~l~d~~~~vR~~a~~~l~~l~~~  285 (1230)
T 1u6g_C          244 QAGHRIGEYLEKIIPLVVK-FCNVDDDELREYCIQAFESFVRR  285 (1230)
T ss_dssp             HSSGGGTTSCTTHHHHHHH-HHSSCCTTTHHHHHHHHHHHHHC
T ss_pred             HhHHHHHHHHHHHHHHHHH-HhcCCCHHHHHHHHHHHHHHHHH
Confidence                        2334444 34567889999999998887654

>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A

Probab=95.55  E-value=0.24  Score=44.36  Aligned_cols=94  Identities=22%  Similarity=0.319  Sum_probs=74.6

Q ss_pred             cCCChHHHHHHHHHHHHhhccC-CCc---hH-HhhhHHHhhhccCc-chhHHHHHHHHHHHHhhchhhhh-----hhHHH
Q 028959           18 NHGDLAVKLSSLKQVRGILSSA-DPS---LA-AELFPYLVELQSSP-ESLVRKSLIETIEDIGLKAMEHS-----SILMP   86 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~-dp~---ll-~~fl~~il~f~~d~-~~~VRk~v~~fiee~c~~~~el~-----~~~v~   86 (201)
                      ..+|...+...+..+++++-.. +|.   +. ...++.++++..++ +..+|...+..|..++...++..     ..+++
T Consensus        97 ~s~~~~~~~~A~~~L~~ll~~~~~~~~~~~~~~g~i~~Lv~~L~~~~~~~v~~~A~~~L~~l~~~~~~~~~~~~~~g~i~  176 (530)
T 1wa5_B           97 NSDDMQEQLSATVKFRQILSREHRPPIDVVIQAGVVPRLVEFMRENQPEMLQLEAAWALTNIASGTSAQTKVVVDADAVP  176 (530)
T ss_dssp             SCSSHHHHHHHHHHHHHHTCCSSSCSHHHHHHTTCHHHHHHTTSTTSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTCHH
T ss_pred             cCCCHHHHHHHHHHHHHHhCCCCCccHHHHHHCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCHHHHHHHHHCCCHH
Confidence            3467778899999999998653 342   11 46788899888776 89999999999999998654333     45689


Q ss_pred             HHHHhhccCChhHHHHHHhhhhhhh
Q 028959           87 VLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      .|..+|.++++.|...|+.+..+|-
T Consensus       177 ~Lv~lL~~~~~~vr~~A~~aL~~l~  201 (530)
T 1wa5_B          177 LFIQLLYTGSVEVKEQAIWALGNVA  201 (530)
T ss_dssp             HHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999888875

>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A

Probab=95.52  E-value=0.7  Score=45.79  Aligned_cols=104  Identities=10%  Similarity=0.089  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccC----CCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-hhh
Q 028959            6 RDQALSLLAAANNHGDLAVKLSSLKQVRGILSSA----DPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-MEH   80 (201)
Q Consensus         6 ~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~----dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-~el   80 (201)
                      ...+..+|.... ++|.+.|...+.++.+.+...    ++...+.+++.+++...|++..||+..+.-|..++..- ++.
T Consensus         5 ~~~l~~lL~~l~-s~d~~~R~~A~~~L~~~l~~~~~~~~~~~~~~il~~Ll~~L~d~~~~vR~~A~~~L~~l~~~~~~~~   83 (1230)
T 1u6g_C            5 SYHISNLLEKMT-SSDKDFRFMATNDLMTELQKDSIKLDDDSERKVVKMILKLLEDKNGEVQNLAVKCLGPLVSKVKEYQ   83 (1230)
T ss_dssp             CHHHHHHHHHTT-CSSHHHHHHHHHHHHHHTSSSCCSCCTTHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHTTSCHHH
T ss_pred             HhHHHHHHHhcC-CCCHhHHHHHHHHHHHHHcccccCCChhHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhCCHHH
Confidence            345667777744 477778998888888877432    34457788999998778999999999999998887644 457


Q ss_pred             hhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           81 SSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        81 ~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      ...+++.|...|.|+++.|-..+..+.+.+
T Consensus        84 ~~~i~~~Ll~~l~d~~~~vR~~a~~~L~~i  113 (1230)
T 1u6g_C           84 VETIVDTLCTNMLSDKEQLRDISSIGLKTV  113 (1230)
T ss_dssp             HHHHHHHHHHHTTCSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHH
Confidence            788999999999999888855555544433

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=95.48  E-value=0.26  Score=40.09  Aligned_cols=85  Identities=13%  Similarity=0.136  Sum_probs=60.7

Q ss_pred             CCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChh
Q 028959           19 HGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSG   98 (201)
Q Consensus        19 ~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~   98 (201)
                      .+|...+......+.++-. .+|..-+.+++.++....|++..||...+.-++.++.      +.+++.|..+|.|+++.
T Consensus       102 d~~~~vr~~a~~aL~~l~~-~~~~~~~~~~~~L~~~l~d~~~~vR~~a~~aL~~~~~------~~~~~~L~~~l~d~~~~  174 (280)
T 1oyz_A          102 DKSACVRATAIESTAQRCK-KNPIYSPKIVEQSQITAFDKSTNVRRATAFAISVIND------KATIPLLINLLKDPNGD  174 (280)
T ss_dssp             CSCHHHHHHHHHHHHHHHH-HCGGGHHHHHHHHHHHTTCSCHHHHHHHHHHHHTC---------CCHHHHHHHHTCSSHH
T ss_pred             CCCHHHHHHHHHHHHHHhc-cCCcccHHHHHHHHHHhhCCCHHHHHHHHHHHHhcCC------HHHHHHHHHHHcCCCHH
Confidence            3444455555555544432 2444566788888888889999999999998887764      34778888899999999


Q ss_pred             HHHHHHhhhhhh
Q 028959           99 VAGKSIVCGTNF  110 (201)
Q Consensus        99 VvK~aI~~~t~l  110 (201)
                      |-..++.+...+
T Consensus       175 vr~~a~~aL~~~  186 (280)
T 1oyz_A          175 VRNWAAFAININ  186 (280)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            988888888777

>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1

Probab=95.45  E-value=0.052  Score=50.70  Aligned_cols=55  Identities=16%  Similarity=0.239  Sum_probs=34.2

Q ss_pred             CcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           57 SPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        57 d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                      |++..+|..-+.++..++  .++++..+++.+..+|+|.+|.|=|.|+.|...+|+.
T Consensus       118 ~~n~~vr~lAL~~L~~i~--~~~~~~~l~~~l~~~L~~~~~~VRk~A~~al~~l~~~  172 (618)
T 1w63_A          118 HSTQFVQGLALCTLGCMG--SSEMCRDLAGEVEKLLKTSNSYLRKKAALCAVHVIRK  172 (618)
T ss_dssp             CSSSHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHhHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            444445555555555444  2455666667777777777777777777777777764

>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A

Probab=95.43  E-value=0.5  Score=42.10  Aligned_cols=94  Identities=16%  Similarity=0.264  Sum_probs=74.0

Q ss_pred             cCCChHHHHHHHHHHHHhhccCC-Cc----hHHhhhHHHhhhccCcc-hhHHHHHHHHHHHHhhchhhhhh-----hHHH
Q 028959           18 NHGDLAVKLSSLKQVRGILSSAD-PS----LAAELFPYLVELQSSPE-SLVRKSLIETIEDIGLKAMEHSS-----ILMP   86 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~d-p~----ll~~fl~~il~f~~d~~-~~VRk~v~~fiee~c~~~~el~~-----~~v~   86 (201)
                      ..+|...+...+..++.++.... |.    .-...+|.++++-.+++ ..+|...+..|..+|...++...     .++|
T Consensus        84 ~s~~~~~~~~A~~~L~~l~s~~~~~~~~~~~~~g~v~~Lv~lL~~~~~~~v~~~A~~~L~~l~~~~~~~~~~~~~~g~i~  163 (528)
T 4b8j_A           84 YSDDNNLQLEATTQFRKLLSIERSPPIEEVIQSGVVPRFVQFLTREDFPQLQFEAAWALTNIASGTSENTKVVIDHGAVP  163 (528)
T ss_dssp             TSSCHHHHHHHHHHHHHHHTCSSSCCHHHHHHTTCHHHHHHHHTCTTCHHHHHHHHHHHHHHHTSCHHHHHHHHHTTHHH
T ss_pred             cCCCHHHHHHHHHHHHHHhcCCCCchHHHHHHCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCHHHHHHHHhCCcHH
Confidence            45677789999999999886543 32    22467888888877766 89999999999999986544322     4889


Q ss_pred             HHHHhhccCChhHHHHHHhhhhhhh
Q 028959           87 VLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      .|..+|.++++.|...++.+..+|-
T Consensus       164 ~L~~lL~~~~~~v~~~a~~aL~~l~  188 (528)
T 4b8j_A          164 IFVKLLGSSSDDVREQAVWALGNVA  188 (528)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999888884

>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A

Probab=95.40  E-value=0.69  Score=43.08  Aligned_cols=151  Identities=14%  Similarity=0.115  Sum_probs=91.5

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhc------
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LAAELFPYLVELQSSPESLVRKSLIETIEDIGLK------   76 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~------   76 (201)
                      +.++..+.+.....+-..|-..+..+..+.-+..|.    +++.+++.++....|++..||...+..++..|..      
T Consensus       368 ~~l~~~l~~~l~~~~~~~r~~a~~~l~~i~~~~~~~~~~~~l~~il~~l~~~l~d~~~~vr~~a~~~l~~l~~~~~~~~~  447 (861)
T 2bpt_A          368 EPVLEFVEQNITADNWRNREAAVMAFGSIMDGPDKVQRTYYVHQALPSILNLMNDQSLQVKETTAWCIGRIADSVAESID  447 (861)
T ss_dssp             HHHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSCHHHHHHHHHHHHHHHHHGGGCSCHHHHHHHHHHHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHcCCCChhHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHhhhhcC
Confidence            345556666555566666666677666666332322    5567777778777899999999888877777653      


Q ss_pred             hhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCC-C
Q 028959           77 AMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPG-L  155 (201)
Q Consensus        77 ~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~-n  155 (201)
                      ..+++..+++.|...|.|+ +.|...+..+..++....=     . .......+..+..+..+       +..+-+.+ +
T Consensus       448 ~~~~~~~~l~~l~~~l~~~-~~v~~~a~~al~~l~~~~~-----~-~~~~~l~~~~~~il~~L-------~~~l~~~d~~  513 (861)
T 2bpt_A          448 PQQHLPGVVQACLIGLQDH-PKVATNCSWTIINLVEQLA-----E-ATPSPIYNFYPALVDGL-------IGAANRIDNE  513 (861)
T ss_dssp             TTTTHHHHHHHHHHHHTSC-HHHHHHHHHHHHHHHHHHS-----S-SSSCGGGGGHHHHHHHH-------HHHHTCSCCG
T ss_pred             CHHHHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHhcc-----c-ccchhhHHHHHHHHHHH-------HHHHhCcCcc
Confidence            2568899999999999886 7666655555444432110     0 00011333445554443       33221222 2


Q ss_pred             CchhHHHHHhhhHhhh
Q 028959          156 VGTKLLALKFLETHVL  171 (201)
Q Consensus       156 ~GVr~~aiKF~E~vIL  171 (201)
                      ..||..+++.+..++-
T Consensus       514 ~~vr~~a~~al~~l~~  529 (861)
T 2bpt_A          514 FNARASAFSALTTMVE  529 (861)
T ss_dssp             GGHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH
Confidence            5778777777766653

>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A

Probab=95.32  E-value=0.24  Score=38.23  Aligned_cols=139  Identities=16%  Similarity=0.125  Sum_probs=94.6

Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhhccCCCchH-----HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh-----h
Q 028959           13 LAAANNHGDLAVKLSSLKQVRGILSSADPSLA-----AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS-----S   82 (201)
Q Consensus        13 Ln~A~~~~d~~~Kl~~L~q~~elll~~dp~ll-----~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~-----~   82 (201)
                      |-+....++...+...+..+..+..+ ++...     ...++.++.+-.+++..+|+..+.-|..+|..+++..     .
T Consensus        59 L~~lL~~~~~~v~~~a~~~L~~l~~~-~~~~~~~i~~~g~i~~L~~lL~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~  137 (210)
T 4db6_A           59 LVQLLSSPNEQILQEALWALSNIASG-GNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDA  137 (210)
T ss_dssp             HHHHTTCSCHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTCHHHHHHHTTCSCHHHHHHHHHHHHHHTTSCHHHHHHHHHT
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHhcC-CcHHHHHHHHCCCHHHHHHHHcCCcHHHHHHHHHHHHHHHcCCHHHHHHHHHc
Confidence            33333445666777777777777643 33221     3467888999899999999999999999998665443     4


Q ss_pred             hHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHH
Q 028959           83 ILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLA  162 (201)
Q Consensus        83 ~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~a  162 (201)
                      .+++.|..+|+++++.|.+.+..+..++-..            ++  +......+  ...-..+.. ++.+++..||-.|
T Consensus       138 ~~i~~L~~ll~~~~~~v~~~a~~aL~~l~~~------------~~--~~~~~~~~--~g~i~~L~~-ll~~~~~~v~~~a  200 (210)
T 4db6_A          138 GALPALVQLLSSPNEQILQEALWALSNIASG------------GN--EQKQAVKE--AGALEKLEQ-LQSHENEKIQKEA  200 (210)
T ss_dssp             THHHHHHHHTTCSCHHHHHHHHHHHHHHHTS------------CH--HHHHHHHH--TTHHHHHHH-GGGCSCHHHHHHH
T ss_pred             CcHHHHHHHHcCCCHHHHHHHHHHHHHHHcC------------Cc--HHHHHHHH--CCCHHHHHH-HHhCCCHHHHHHH
Confidence            5789999999999999999998887776421            00  00111111  022334555 6678888999999


Q ss_pred             HHhhhHh
Q 028959          163 LKFLETH  169 (201)
Q Consensus       163 iKF~E~v  169 (201)
                      ...+..+
T Consensus       201 ~~aL~~l  207 (210)
T 4db6_A          201 QEALEKL  207 (210)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887754

>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct}

Probab=94.97  E-value=0.21  Score=39.62  Aligned_cols=140  Identities=16%  Similarity=0.132  Sum_probs=89.1

Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhhccCCCc---hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh-----h
Q 028959           12 LLAAANNHGDLAVKLSSLKQVRGILSSADPS---LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS-----S   82 (201)
Q Consensus        12 lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~---ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~-----~   82 (201)
                      .|-+....++...+...+..+..+..+.+..   +. ...++.++.+-.+++..+|+..+..+..+|...++..     .
T Consensus       100 ~L~~lL~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~~~i~~L~~lL~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~  179 (252)
T 4db8_A          100 ALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDA  179 (252)
T ss_dssp             HHHHGGGCSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHGGGCSCHHHHHHHHHHHHHHTTSCHHHHHHHHHT
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHhhcCCchHHHHHHHCCCHHHHHHHHhCCCHHHHHHHHHHHHHHHcCChHHHHHHHHC
Confidence            3333334456566777777777766442211   12 3478888888888899999999999999998654432     4


Q ss_pred             hHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHH
Q 028959           83 ILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLA  162 (201)
Q Consensus        83 ~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~a  162 (201)
                      .+++.|..+|.++++.|.+.+..+..+|-..            ++  +.....-+.  ..-..++. ++.+++..+|..|
T Consensus       180 ~~i~~L~~ll~~~~~~v~~~a~~~L~~l~~~------------~~--~~~~~~~~~--g~i~~L~~-ll~~~~~~v~~~A  242 (252)
T 4db8_A          180 GALPALVQLLSSPNEQILQEALWALSNIASG------------GN--EQKQAVKEA--GALEKLEQ-LQSHENEKIQKEA  242 (252)
T ss_dssp             TCHHHHHHGGGCSSHHHHHHHHHHHHHHTTS------------CH--HHHHHHHHT--THHHHHHT-TTTCSSSHHHHTH
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHHHhcC------------CH--HHHHHHHHC--CcHHHHHH-HhCCCCHHHHHHH
Confidence            5788999999999999999888887777420            00  000000000  12234555 5567788888888


Q ss_pred             HHhhhH
Q 028959          163 LKFLET  168 (201)
Q Consensus       163 iKF~E~  168 (201)
                      ...+..
T Consensus       243 ~~~L~~  248 (252)
T 4db8_A          243 QEALEK  248 (252)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            766543

>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct}

Probab=94.93  E-value=0.18  Score=40.04  Aligned_cols=102  Identities=16%  Similarity=0.140  Sum_probs=77.0

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCch----H-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh---
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPSL----A-AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS---   81 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~l----l-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~---   81 (201)
                      +..|-+....++...+...+..+..+..+ ++..    . ...++.++++..+++..+|+..+..|..+|..+++..   
T Consensus       140 i~~L~~lL~~~~~~v~~~a~~~L~~l~~~-~~~~~~~~~~~~~i~~L~~ll~~~~~~v~~~a~~~L~~l~~~~~~~~~~~  218 (252)
T 4db8_A          140 LPALVQLLSSPNEQILQEALWALSNIASG-GNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQKQAV  218 (252)
T ss_dssp             HHHHHHGGGCSCHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTCHHHHHHGGGCSSHHHHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHHcC-ChHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence            34444444456767788888888888754 3321    1 5678889998888999999999999999997665432   


Q ss_pred             --hhHHHHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           82 --SILMPVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        82 --~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                        ..+++.|..+|.++++.|.+.|..+..+|.+
T Consensus       219 ~~~g~i~~L~~ll~~~~~~v~~~A~~~L~~l~~  251 (252)
T 4db8_A          219 KEAGALEKLEQLQSHENEKIQKEAQEALEKLQS  251 (252)
T ss_dssp             HHTTHHHHHHTTTTCSSSHHHHTHHHHHHTTC-
T ss_pred             HHCCcHHHHHHHhCCCCHHHHHHHHHHHHHHhc
Confidence              3478889999999999999999988887753

>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A

Probab=94.82  E-value=0.25  Score=46.14  Aligned_cols=104  Identities=20%  Similarity=0.208  Sum_probs=76.2

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhc------h
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LAAELFPYLVELQSSPESLVRKSLIETIEDIGLK------A   77 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~------~   77 (201)
                      .++..+.+.-..++-..|-..+..+..+.-+-.|.    +++++++.++..-.|++..||...+.-++..|..      .
T Consensus       366 ~~l~~l~~~l~~~~~~~r~~a~~~l~~i~~~~~~~~~~~~~~~~l~~l~~~l~d~~~~vr~~a~~~l~~~~~~~~~~~~~  445 (876)
T 1qgr_A          366 HVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTLIELMKDPSVVVRDTAAWTVGRICELLPEAAIN  445 (876)
T ss_dssp             HHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSCHHHHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHCGGGTSS
T ss_pred             HHHHHHHHHccCCChHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhCchhccc
Confidence            45556666555566667777888777776443333    4567777777777899999999999988888875      3


Q ss_pred             hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           78 MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        78 ~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                      ..++..+++.|...|.|+ +.|...+..+..++..
T Consensus       446 ~~~l~~~l~~l~~~l~~~-~~v~~~a~~al~~l~~  479 (876)
T 1qgr_A          446 DVYLAPLLQCLIEGLSAE-PRVASNVCWAFSSLAE  479 (876)
T ss_dssp             TTTHHHHHHHHHHHTTSC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHH
Confidence            478899999999999885 7776666666555543

>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*

Probab=94.76  E-value=0.23  Score=47.31  Aligned_cols=104  Identities=22%  Similarity=0.163  Sum_probs=79.1

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCC---chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhc-----hhh
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADP---SLAAELFPYLVELQSSPESLVRKSLIETIEDIGLK-----AME   79 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp---~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~-----~~e   79 (201)
                      .++..+.+.-..++-..|-..+..+..+.-+-..   .+++++++.++..-.|++..||+..+.-++..|.-     ...
T Consensus       359 ~l~~~l~~~l~~~~~~~R~aa~~alg~i~~~~~~~~~~~l~~~l~~l~~~l~d~~~~Vr~~a~~~l~~l~~~~~~~~~~~  438 (852)
T 4fdd_A          359 HILPLLKELLFHHEWVVKESGILVLGAIAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDT  438 (852)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHTTTTTHHHHGGGHHHHHHHHHHHTTCSSHHHHHHHHHHHHHTHHHHHHSCTTT
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccchHHH
Confidence            4555666555556666777777777776643211   26788899999988999999999888888877762     356


Q ss_pred             hhhhHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           80 HSSILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        80 l~~~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      +...+++.|...|.|+++.|.+.+..+..++-
T Consensus       439 ~~~~ll~~L~~~L~d~~~~vr~~a~~aL~~l~  470 (852)
T 4fdd_A          439 YLKPLMTELLKRILDSNKRVQEAACSAFATLE  470 (852)
T ss_dssp             THHHHHHHHHHHHTCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence            78899999999999999999998888776654

>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A

Probab=94.61  E-value=0.59  Score=43.54  Aligned_cols=68  Identities=10%  Similarity=0.079  Sum_probs=55.5

Q ss_pred             hHHhhhHHHhhhccCc-chhHHHHHHHHHHHHhhch-------hhhhhhHHHHHHHhhccC--ChhHHHHHHhhhhhh
Q 028959           43 LAAELFPYLVELQSSP-ESLVRKSLIETIEDIGLKA-------MEHSSILMPVLLAFLRDG--DSGVAGKSIVCGTNF  110 (201)
Q Consensus        43 ll~~fl~~il~f~~d~-~~~VRk~v~~fiee~c~~~-------~el~~~~v~~L~~LL~D~--~~~VvK~aI~~~t~l  110 (201)
                      -.+++++.+++...++ +..+|...+..+..+|...       ..+...+++.+...+.|+  ++.|-+.++.|..++
T Consensus       131 ~w~~ll~~L~~~l~~~~~~~~r~~al~~l~~l~~~~~~~~~~~~~~~~~ll~~l~~~l~~~~~~~~vr~~al~~l~~~  208 (861)
T 2bpt_A          131 AWPELMKIMVDNTGAEQPENVKRASLLALGYMCESADPQSQALVSSSNNILIAIVQGAQSTETSKAVRLAALNALADS  208 (861)
T ss_dssp             CCHHHHHHHHHHTSTTSCHHHHHHHHHHHHHHHHTSSTTSSTTGGGHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHH
Confidence            5688999999887777 8899999999999888742       346788888888899987  788888888887664

>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A

Probab=94.59  E-value=0.19  Score=47.00  Aligned_cols=113  Identities=18%  Similarity=0.112  Sum_probs=72.1

Q ss_pred             hHHhhhHHHhhhccCc--chhHHHHHHHHHHHHhhch-----hhhhhhHHHHHHHhhccC--ChhHHHHHHhhhhhhhHH
Q 028959           43 LAAELFPYLVELQSSP--ESLVRKSLIETIEDIGLKA-----MEHSSILMPVLLAFLRDG--DSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        43 ll~~fl~~il~f~~d~--~~~VRk~v~~fiee~c~~~-----~el~~~~v~~L~~LL~D~--~~~VvK~aI~~~t~lyr~  113 (201)
                      -.+++++.+++...++  +..+|+-.+..+..+|...     ..+++.+++.+...+.|+  ++.|-+.++.|.+++...
T Consensus       125 ~w~~ll~~l~~~l~~~~~~~~~r~~al~~l~~l~~~~~~~~~~~~~~~ll~~l~~~l~~~~~~~~vr~~a~~~l~~~~~~  204 (876)
T 1qgr_A          125 QWPELIPQLVANVTNPNSTEHMKESTLEAIGYICQDIDPEQLQDKSNEILTAIIQGMRKEEPSNNVKLAATNALLNSLEF  204 (876)
T ss_dssp             CCTTHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHSTTCSCHHHHHHHHHHHHHHGGG
T ss_pred             ccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCHhhHHhHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            4567777777777777  8889999999998888742     467788888888889887  677877788777765431


Q ss_pred             HHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHhhh
Q 028959          114 VLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHVL  171 (201)
Q Consensus       114 ~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vIL  171 (201)
                               +..+ ..   ...|..  .+-..+.. ...+.++.+|..|++++..++-
T Consensus       205 ---------~~~~-~~---~~~~~~--~il~~l~~-~~~~~~~~vr~~a~~~l~~l~~  246 (876)
T 1qgr_A          205 ---------TKAN-FD---KESERH--FIMQVVCE-ATQCPDTRVRVAALQNLVKIMS  246 (876)
T ss_dssp             ---------CHHH-HT---SHHHHH--HHHHHHHH-HTTCSSHHHHHHHHHHHHHHHH
T ss_pred             ---------HHHH-HH---hHHHHH--HHHHHHHH-HcCCCCHHHHHHHHHHHHHHHH
Confidence                     0000 00   011211  12222233 3345566788888877776553

>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A

Probab=94.38  E-value=1.6  Score=38.84  Aligned_cols=102  Identities=20%  Similarity=0.206  Sum_probs=69.8

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc---hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh----
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPS---LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS----   81 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~---ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~----   81 (201)
                      +..|-.....+|...+...+..+..+..+.+..   ++ ...++.++.+..+++..||...+..|..+|...++..    
T Consensus       246 l~~L~~lL~~~~~~v~~~a~~aL~~l~~~~~~~~~~~~~~g~v~~Lv~lL~~~~~~v~~~a~~~L~nl~~~~~~~~~~~~  325 (528)
T 4b8j_A          246 LPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLVELLLHPSPSVLIPALRTVGNIVTGDDAQTQCII  325 (528)
T ss_dssp             HHHHHHHTTCCCHHHHHHHHHHHHHHTSSCHHHHHHHHHTTCHHHHHHHTTCSCHHHHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHcCHHHHHHHHHcCCChhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            344444444566667777777777766432111   11 2567788888888888899999998888887543222    


Q ss_pred             -hhHHHHHHHhhccC-ChhHHHHHHhhhhhhh
Q 028959           82 -SILMPVLLAFLRDG-DSGVAGKSIVCGTNFF  111 (201)
Q Consensus        82 -~~~v~~L~~LL~D~-~~~VvK~aI~~~t~ly  111 (201)
                       ..+++.|..+|.++ ++.|.+.|..+..+|-
T Consensus       326 ~~~~l~~L~~lL~~~~~~~v~~~A~~~L~nl~  357 (528)
T 4b8j_A          326 DHQALPCLLSLLTQNLKKSIKKEACWTISNIT  357 (528)
T ss_dssp             TTTHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHcCCCcHHHHHHHHHHHHHHH
Confidence             45678888888888 8888888888777764

>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B

Probab=93.89  E-value=0.65  Score=41.98  Aligned_cols=93  Identities=16%  Similarity=0.243  Sum_probs=72.2

Q ss_pred             cCCChHHHHHHHHHHHHhhccCCCchHH-----hhhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhhh-----hhHHH
Q 028959           18 NHGDLAVKLSSLKQVRGILSSADPSLAA-----ELFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEHS-----SILMP   86 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~dp~ll~-----~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el~-----~~~v~   86 (201)
                      .+.|...++..+..+|.++-......++     ..+|.++++- .+.+++++...+.-|..++...++..     .-++|
T Consensus        86 ~s~d~~~q~~a~~~~rklLs~~~~~~i~~ii~~G~ip~Lv~lL~~~~~~~~q~~Aa~aL~nia~~~~~~~~~vv~~Gaip  165 (529)
T 3tpo_A           86 NSNNLESQLQATQAARKLLSREKQPPIDNIIRAGLIPKFVSFLGKTDCSPIQFESAWALTNIASGTSEQTKAVVDGGAIP  165 (529)
T ss_dssp             TSSCHHHHHHHHHHHHHHHTSSSCCCHHHHHHTTHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTSCHHHHHHHHHTTHHH
T ss_pred             cCCCHHHHHHHHHHHHHHHcCCCCchHHHHHHCCCHHHHHHHHcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHCCCHH
Confidence            4578889999999999998543222333     4567788766 56778899999999999887654432     23689


Q ss_pred             HHHHhhccCChhHHHHHHhhhhhh
Q 028959           87 VLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      .|..||.++++.|...|+.+..+|
T Consensus       166 ~Lv~LL~s~~~~v~e~A~~aL~nL  189 (529)
T 3tpo_A          166 AFISLLASPHAHISEQAVWALGNI  189 (529)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988877

>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus}

Probab=93.76  E-value=1.1  Score=39.87  Aligned_cols=98  Identities=13%  Similarity=0.136  Sum_probs=74.3

Q ss_pred             CCChHHHHH-HHHHHHHhhccCCC--c-hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhh-------------------
Q 028959           19 HGDLAVKLS-SLKQVRGILSSADP--S-LAAELFPYLVELQSSPESLVRKSLIETIEDIGL-------------------   75 (201)
Q Consensus        19 ~~d~~~Kl~-~L~q~~elll~~dp--~-ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~-------------------   75 (201)
                      .+..+.|+. .++++=-++..-++  . ....+|..++.+-..++.++||.+-=++++..+                   
T Consensus        37 ~~~~~~kc~~~l~kll~l~~~G~~f~~~e~t~lf~~v~kl~~s~d~~lKrLvYLyl~~~~~~~~e~iLv~Nsl~kDl~~~  116 (355)
T 3tjz_B           37 TPINPRKCAHILTKILYLINQGEHLGTTEATEAFFAMTKLFQSNDPTLRRMCYLTIKEMSCIAEDVIIVTSSLTKDMTGK  116 (355)
T ss_dssp             SSCCHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHGGGGCCCHHHHHHHHHHHHHHTTTSSCGGGGHHHHHHHHHSS
T ss_pred             CCCcHHHHHHHHHHHHHHHHCCCCCchhHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhcCCC
Confidence            333446655 67777766655332  2 346788888988888999999998877776655                   


Q ss_pred             ---------------chhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHH
Q 028959           76 ---------------KAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLE  116 (201)
Q Consensus        76 ---------------~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~  116 (201)
                                     .+++++..+.+.+...|.|.+|.|-|.|+.|+..||+..=+
T Consensus       117 N~~iR~lALRtL~~I~~~~m~~~l~~~lk~~L~d~~pyVRk~A~l~~~kL~~~~pe  172 (355)
T 3tjz_B          117 EDSYRGPAVRALCQITDSTMLQAIERYMKQAIVDKVPSVSSSALVSSLHLLKCSFD  172 (355)
T ss_dssp             CHHHHHHHHHHHHHHCCTTTHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHTTTCHH
T ss_pred             cHhHHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhccCHH
Confidence                           33677888888888889999999999999999999887654

>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A*

Probab=93.72  E-value=2.4  Score=36.13  Aligned_cols=151  Identities=13%  Similarity=0.005  Sum_probs=100.2

Q ss_pred             ChHHHHHHHHHHHHhhccCCCc--hH-HhhhHHHhh-hccCcchhHHHHHHHHHHHHhhchhhh---h--hhHHHHHHHh
Q 028959           21 DLAVKLSSLKQVRGILSSADPS--LA-AELFPYLVE-LQSSPESLVRKSLIETIEDIGLKAMEH---S--SILMPVLLAF   91 (201)
Q Consensus        21 d~~~Kl~~L~q~~elll~~dp~--ll-~~fl~~il~-f~~d~~~~VRk~v~~fiee~c~~~~el---~--~~~v~~L~~L   91 (201)
                      +.+.|+..|..+.+++-+.|-.  +. -.-++.++. +..+++.+||.+.+.-|+.++..+++.   +  ...+|.|..|
T Consensus        53 ~~e~k~~Al~~L~~lv~~~dna~~~~~~G~l~~Lv~~lL~s~~~~vr~~Aa~~Lg~ia~~n~~~~~~vv~~g~l~~Ll~L  132 (296)
T 1xqr_A           53 DQQEREGALELLADLCENMDNAADFCQLSGMHLLVGRYLEAGAAGLRWRAAQLIGTCSQNVAAIQEQVLGLGALRKLLRL  132 (296)
T ss_dssp             HHHHHHHHHHHHHHHHTSHHHHHHHHHTTHHHHHHHTTTTCSSHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhChhhHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHHHHHHHhCCHHHHHHHHHCCCHHHHHHH
Confidence            3458899999998888543311  11 234678888 888899999999999999998866533   2  2588999999


Q ss_pred             hcc-CChhHHHHHHhhhhhhhH---HHHHHH--------hhhhhccCcchhhHHHHHHHHHH------hHH---------
Q 028959           92 LRD-GDSGVAGKSIVCGTNFFC---RVLEEI--------TMQFRWHGKVERWLEELWTWMVR------FKD---------  144 (201)
Q Consensus        92 L~D-~~~~VvK~aI~~~t~lyr---~~L~~~--------~~q~i~~~~~~~~~~~~W~~m~~------lK~---------  144 (201)
                      |+. .++.|.+.|+-+.++|-+   ...+.+        ..+.+.++...-..+.+|---.-      .+.         
T Consensus       133 L~~~~~~~v~~~A~~ALsnl~~~~~~~~~~~~~~ggi~~L~~lL~~~d~~v~~~A~~aLs~L~~~~~~~~~~vv~~g~i~  212 (296)
T 1xqr_A          133 LDRDACDTVRVKALFAISCLVREQEAGLLQFLRLDGFSVLMRAMQQQVQKLKVKSAFLLQNLLVGHPEHKGTLCSMGMVQ  212 (296)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHTTHHH
T ss_pred             HccCCCHHHHHHHHHHHHHHHcCCcHHHHHHHHCCCHHHHHHHHcCCCHHHHHHHHHHHHHHHhCChHHHHHHHHcCCHH
Confidence            984 589999999999888853   211111        11222333333345566643221      122         


Q ss_pred             HHHHHhccCCCCchhHHHHHhhhHhhhh
Q 028959          145 AVFAIALEPGLVGTKLLALKFLETHVLL  172 (201)
Q Consensus       145 ~Il~~~~~s~n~GVr~~aiKF~E~vIL~  172 (201)
                      .++. ++.+.+..|+..|+..+..++-.
T Consensus       213 ~Lv~-LL~~~d~~v~~~al~aL~~l~~~  239 (296)
T 1xqr_A          213 QLVA-LVRTEHSPFHEHVLGALCSLVTD  239 (296)
T ss_dssp             HHHH-HHTSCCSTHHHHHHHHHHHHHTT
T ss_pred             HHHH-HHcCCChhHHHHHHHHHHHHHhC
Confidence            2344 56778899999999988877644

>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A

Probab=93.60  E-value=0.65  Score=41.52  Aligned_cols=92  Identities=12%  Similarity=0.083  Sum_probs=73.2

Q ss_pred             CChHHHHHHHHHHHHhhccCCCc----hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh-----hhHHHHHHH
Q 028959           20 GDLAVKLSSLKQVRGILSSADPS----LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS-----SILMPVLLA   90 (201)
Q Consensus        20 ~d~~~Kl~~L~q~~elll~~dp~----ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~-----~~~v~~L~~   90 (201)
                      ++...+...+..+..+..+.+|.    .....++.++.+..+.+..||...+..|..++...++..     ..+++.|..
T Consensus       227 ~~~~v~~~a~~~L~~L~~~~~~~~~~~~~~~~l~~L~~lL~~~d~~v~~~a~~~L~~L~~~~~~~~~~~~~~~~v~~Lv~  306 (530)
T 1wa5_B          227 NKPSLIRTATWTLSNLCRGKKPQPDWSVVSQALPTLAKLIYSMDTETLVDACWAISYLSDGPQEAIQAVIDVRIPKRLVE  306 (530)
T ss_dssp             CCHHHHHHHHHHHHHHHCCSSSCCCHHHHGGGHHHHHHHTTCCCHHHHHHHHHHHHHHHSSCHHHHHHHHHTTCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhCCCCCCCcHHHHHhHHHHHHHHHcCCCHHHHHHHHHHHHHHhCCCHHHHHHHHhcCcHHHHHH
Confidence            56667777888888888665343    456788899998888999999999999999987654322     267899999


Q ss_pred             hhccCChhHHHHHHhhhhhhh
Q 028959           91 FLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        91 LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      +|.++++.|...++.+..+|-
T Consensus       307 lL~~~~~~v~~~a~~~L~~l~  327 (530)
T 1wa5_B          307 LLSHESTLVQTPALRAVGNIV  327 (530)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHT
T ss_pred             HHCCCChhhHHHHHHHHHHHH
Confidence            999999999999988887774

>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A

Probab=93.54  E-value=0.22  Score=46.80  Aligned_cols=127  Identities=15%  Similarity=-0.001  Sum_probs=75.5

Q ss_pred             CChHHHHHHHHHHHHhhc-cCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhc----------------------
Q 028959           20 GDLAVKLSSLKQVRGILS-SADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLK----------------------   76 (201)
Q Consensus        20 ~d~~~Kl~~L~q~~elll-~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~----------------------   76 (201)
                      .|..+|.+.+.++-=+.. +.|.+   .++.+++.+..+++..+||-+-=+++..+..                      
T Consensus        50 ~~~~~k~~~l~Kli~l~~~G~d~s---~~~~~vvkl~~s~~~~~Krl~YL~l~~~~~~~~e~~~L~iN~l~kDl~~~n~~  126 (621)
T 2vgl_A           50 LDGYSKKKYVCKLLFIFLLGHDID---FGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPT  126 (621)
T ss_dssp             CCHHHHHHHHHHHHHHHHHSCCCC---SCHHHHHHGGGCSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHSCCHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCCc---hhHHHHHHHhcCCCHHHHHHHHHHHHHHccCCcHHHHHHHHHHHHhcCCCCHH
Confidence            355667777766554443 43443   3466666666667777777665444444332                      


Q ss_pred             -------------hhhhhhhHHHHHHHhh--ccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHH
Q 028959           77 -------------AMEHSSILMPVLLAFL--RDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVR  141 (201)
Q Consensus        77 -------------~~el~~~~v~~L~~LL--~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~  141 (201)
                                   .++++..+++.+..+|  .|.+|.|=|+|+.|...+|+..=     . ....  +           .
T Consensus       127 ir~lALr~L~~i~~~e~~~~l~~~v~~~l~~~d~~~~VRK~A~~al~kl~~~~p-----~-~~~~--~-----------~  187 (621)
T 2vgl_A          127 FMGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSP-----D-LVPM--G-----------D  187 (621)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHTTHHHHHHHCSSSCHHHHHHHHHHHHHHHHHCG-----G-GCCC--C-----------S
T ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhCh-----h-hcCc--h-----------h
Confidence                         2566666777777777  77788888888888888887311     0 0100  0           2


Q ss_pred             hHHHHHHHhccCCCCchhHHHHHhhhHh
Q 028959          142 FKDAVFAIALEPGLVGTKLLALKFLETH  169 (201)
Q Consensus       142 lK~~Il~~~~~s~n~GVr~~aiKF~E~v  169 (201)
                      +-+.+.. ++++.+.||+.+|+..+..+
T Consensus       188 ~~~~l~~-lL~d~d~~V~~~a~~~l~~i  214 (621)
T 2vgl_A          188 WTSRVVH-LLNDQHLGVVTAATSLITTL  214 (621)
T ss_dssp             CHHHHHH-HTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-HhCCCCccHHHHHHHHHHHH
Confidence            2344445 55666678888887765443

>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16

Probab=93.51  E-value=0.12  Score=38.02  Aligned_cols=61  Identities=16%  Similarity=0.137  Sum_probs=27.1

Q ss_pred             hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           43 LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        43 ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      ..+.+.+.++++-.|++..+|...+.-+.+.+..       .++.|..+|+|+++.|-..++.+.+++
T Consensus         9 ~~~~~~~~l~~~L~~~~~~vR~~A~~~L~~~~~~-------~~~~L~~~L~d~~~~vR~~A~~aL~~~   69 (131)
T 1te4_A            9 HHSSGLVPRGSHMADENKWVRRDVSTALSRMGDE-------AFEPLLESLSNEDWRIRGAAAWIIGNF   69 (131)
T ss_dssp             ------------CCSSCCCSSSSCCSSTTSCSST-------THHHHHHGGGCSCHHHHHHHHHHHGGG
T ss_pred             cccccHHHHHHHhcCCCHHHHHHHHHHHHHhCch-------HHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence            3445555555555566666665555555443322       135555666666666666666665555

>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ...

Probab=93.34  E-value=0.99  Score=40.70  Aligned_cols=93  Identities=17%  Similarity=0.268  Sum_probs=72.3

Q ss_pred             cCCChHHHHHHHHHHHHhhccC-CCchHHh-----hhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhhhh-----hHH
Q 028959           18 NHGDLAVKLSSLKQVRGILSSA-DPSLAAE-----LFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEHSS-----ILM   85 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~-dp~ll~~-----fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el~~-----~~v   85 (201)
                      .+.|...+++...++|.++-.. +| .+++     .+|.+++|- .+.+++++...+.-|..++...++...     -++
T Consensus        67 ~s~d~~~q~~a~~~~rklls~e~~p-pi~~ii~~G~ip~LV~lL~~~~~~~lq~~Aa~aL~nias~~~e~~~~vv~~GaI  145 (510)
T 3ul1_B           67 NSNNLESQLQATQAARKLLSREKQP-PIDNIIRAGLIPKFVSFLGKTDCSPIQFESAWALTNIASGTSEQTKAVVDGGAI  145 (510)
T ss_dssp             TSSCHHHHHHHHHHHHHHHTCSSCC-CHHHHHHTTHHHHHHHHTTCTTCHHHHHHHHHHHHHHHTSCHHHHHHHHHTTHH
T ss_pred             cCCCHHHHHHHHHHHHHHhcCCCCc-hHHHHHHCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCCH
Confidence            4588889999999999998542 33 3333     577888865 566788999999999988875544432     368


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      |.|..+|.++++.|..+|+.+..+|-
T Consensus       146 p~Lv~lL~s~~~~v~e~A~~aL~nLa  171 (510)
T 3ul1_B          146 PAFISLLASPHAHISEQAVWALGNIA  171 (510)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999988873

>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ...

Probab=92.87  E-value=0.45  Score=42.99  Aligned_cols=115  Identities=17%  Similarity=0.149  Sum_probs=81.8

Q ss_pred             HhhhHHHhhhccCcchhHHHHHHHHHHHHhhc-hhhhh-----hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHH
Q 028959           45 AELFPYLVELQSSPESLVRKSLIETIEDIGLK-AMEHS-----SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEI  118 (201)
Q Consensus        45 ~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~-~~el~-----~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~  118 (201)
                      ..+++.++.+-.+.+.++|+..+..|..++.. +++.+     ..+++.|..||+..|+.|++.++.+..+|.+..=   
T Consensus       357 ~g~i~~Lv~lL~~~~~~v~~~Aa~aL~Nl~~~~~~~~~~~L~~~g~i~~L~~LL~~~d~~i~~~~L~aL~nil~~~~---  433 (510)
T 3ul1_B          357 HGLVPFLVGVLSKADFKTQKEAAWAITNYTSGGTVEQIVYLVHCGIIEPLMNLLSAKDTKIIQVILDAISNIFQAAE---  433 (510)
T ss_dssp             TTHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCCHHHHHHHHHTTCHHHHHHGGGCSCHHHHHHHHHHHHHHHHHHH---
T ss_pred             cCCHHHHHHHHcCCCHHHHHHHHHHHHHHHccCCHHHHHHHHHCCCHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhH---
Confidence            35778888888899999999999999877663 33333     3468899999999999999999998888876442   


Q ss_pred             hhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhHhh
Q 028959          119 TMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLETHV  170 (201)
Q Consensus       119 ~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~vI  170 (201)
                        +-   +. +......-+....+ +.|-. +..++|+-|+-.|.+.+|++-
T Consensus       434 --~~---~~-~~~~~~~iee~ggl-~~ie~-Lq~~~n~~i~~~A~~iie~yf  477 (510)
T 3ul1_B          434 --KL---GE-TEKLSIMIEECGGL-DKIEA-LQRHENESVYKASLNLIEKYF  477 (510)
T ss_dssp             --TT---TC-HHHHHHHHHHTTHH-HHHHH-GGGCSSHHHHHHHHHHHHHHC
T ss_pred             --hc---cc-hHHHHHHHHHcCcH-HHHHH-HHcCCCHHHHHHHHHHHHHHC
Confidence              11   11 11112222222222 34555 678999999999999999983

>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A

Probab=92.66  E-value=0.68  Score=39.55  Aligned_cols=73  Identities=14%  Similarity=0.160  Sum_probs=60.4

Q ss_pred             chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-----hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHH
Q 028959           42 SLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-----MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRV  114 (201)
Q Consensus        42 ~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-----~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~  114 (201)
                      ..++.+++.+.+...|++..+|...+..++.++...     ..+++.++|.|..+|+|+++.|-+.|..+.+++....
T Consensus       362 ~~~~~~~~~l~~~l~~~~~~~r~aal~~l~~l~~~~~~~~~~~~l~~~~~~l~~~l~d~~~~Vr~~a~~~l~~~~~~~  439 (462)
T 1ibr_B          362 DIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTLIELMKDPSVVVRDTAAWTVGRICELL  439 (462)
T ss_dssp             THHHHHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSCTTTTCTTTTTHHHHHHHGGGCSCHHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhc
Confidence            566778887777778899999999999999888643     2467899999999999999999999998888776543

>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B

Probab=92.65  E-value=0.53  Score=42.59  Aligned_cols=139  Identities=14%  Similarity=0.126  Sum_probs=90.0

Q ss_pred             CCChHHHHHHHHHHHHhhccCCCc----hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhc-hhhhhh-----hHHHH
Q 028959           19 HGDLAVKLSSLKQVRGILSSADPS----LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLK-AMEHSS-----ILMPV   87 (201)
Q Consensus        19 ~~d~~~Kl~~L~q~~elll~~dp~----ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~-~~el~~-----~~v~~   87 (201)
                      +++...|......+..+.-+ ++.    +. ..+++.++.+-.+.+.++|+..+..|..++.. +++.+.     .+++.
T Consensus       346 ~~~~~i~~~a~~aL~nl~~~-~~~~~~~v~~~g~i~~Lv~lL~~~~~~v~~~A~~aL~nl~~~~~~~~~~~l~~~g~i~~  424 (529)
T 3tpo_A          346 NPKTNIQKEATWTMSNITAG-RQDQIQQVVNHGLVPFLVGVLSKADFKTQKAAAWAITNYTSGGTVEQIVYLVHCGIIEP  424 (529)
T ss_dssp             CSSHHHHHHHHHHHHHHHTS-CHHHHHHHHHTTHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHSCHHHHHHHHHTTCHHH
T ss_pred             CCCHHHHHHHHHHHHHHhcc-cHHHHHHHHhcCcHHHHHHHhcCCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHCcCHHH
Confidence            34444555555555555533 222    11 35778888888888999999999988877653 344332     36888


Q ss_pred             HHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhh
Q 028959           88 LLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLE  167 (201)
Q Consensus        88 L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E  167 (201)
                      |..||+..|+.|+..+..+..+|.+..=     +.   +. .......-+.... -+.|-. +.+++|+-|+-.|.+.+|
T Consensus       425 L~~LL~~~d~~i~~~~L~aL~nil~~~~-----~~---~~-~~~~~~~iee~gg-l~~ie~-Lq~~~n~~i~~~A~~iie  493 (529)
T 3tpo_A          425 LMNLLSAKDTKIIQVILDAISNIFQAAE-----KL---GE-TEKLSIMIEECGG-LDKIEA-LQRHENESVYKASLNLIE  493 (529)
T ss_dssp             HHHGGGCSCHHHHHHHHHHHHHHHHHHH-----TT---TC-HHHHHHHHHHTTC-HHHHTG-GGGCSSHHHHHHHHHHHH
T ss_pred             HHHHhcCCCHHHHHHHHHHHHHHHHHhH-----hc---cC-hHHHHHHHHHCCc-HHHHHH-HHcCCCHHHHHHHHHHHH
Confidence            9999999999999988888887765432     10   11 1111122222222 234555 668999999999999999


Q ss_pred             Hh
Q 028959          168 TH  169 (201)
Q Consensus       168 ~v  169 (201)
                      ++
T Consensus       494 ~y  495 (529)
T 3tpo_A          494 KY  495 (529)
T ss_dssp             HH
T ss_pred             HH
Confidence            98

>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A*

Probab=91.08  E-value=1.6  Score=37.29  Aligned_cols=102  Identities=13%  Similarity=0.142  Sum_probs=74.8

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc---hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh---
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS---LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS---   81 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~---ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~---   81 (201)
                      ++.+|+.   .++...+...+..+-.+.-+..|.   +. .+.++.++.+-.+++..||+..+..|..+|..+++..   
T Consensus       129 Ll~LL~~---~~~~~v~~~A~~ALsnl~~~~~~~~~~~~~~ggi~~L~~lL~~~d~~v~~~A~~aLs~L~~~~~~~~~~v  205 (296)
T 1xqr_A          129 LLRLLDR---DACDTVRVKALFAISCLVREQEAGLLQFLRLDGFSVLMRAMQQQVQKLKVKSAFLLQNLLVGHPEHKGTL  205 (296)
T ss_dssp             HHHHHHH---CSCHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             HHHHHcc---CCCHHHHHHHHHHHHHHHcCCcHHHHHHHHCCCHHHHHHHHcCCCHHHHHHHHHHHHHHHhCChHHHHHH
Confidence            3445543   234556777777777777553331   33 3678888888888899999999999999887665432   


Q ss_pred             --hhHHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           82 --SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        82 --~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                        ..+++.|..||..+++.|...+..+..+|...
T Consensus       206 v~~g~i~~Lv~LL~~~d~~v~~~al~aL~~l~~~  239 (296)
T 1xqr_A          206 CSMGMVQQLVALVRTEHSPFHEHVLGALCSLVTD  239 (296)
T ss_dssp             HHTTHHHHHHHHHTSCCSTHHHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHcCCChhHHHHHHHHHHHHHhC
Confidence              34778999999999999999999988887654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.82  E-value=2.5  Score=42.44  Aligned_cols=96  Identities=18%  Similarity=0.106  Sum_probs=68.8

Q ss_pred             HHHH-HHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhh-hccCcchhHHHHHHHHHHHHhhchhhhhhhHH
Q 028959            8 QALS-LLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVE-LQSSPESLVRKSLIETIEDIGLKAMEHSSILM   85 (201)
Q Consensus         8 ~v~~-lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~-f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v   85 (201)
                      .+++ ||+-+....+...+-...-.+-.+... +|    +-.+.+++ +..+.++.||+-++-=++.+|...+.  ++++
T Consensus       577 ~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g-~~----e~v~rlv~~L~~~~d~~VR~gAalALGli~aGn~~--~~ai  649 (963)
T 4ady_A          577 SAVKRLLHVAVSDSNDDVRRAAVIALGFVLLR-DY----TTVPRIVQLLSKSHNAHVRCGTAFALGIACAGKGL--QSAI  649 (963)
T ss_dssp             HHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSS-SC----SSHHHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCC--HHHH
T ss_pred             HHHHHHHHHhccCCcHHHHHHHHHHHHhhccC-CH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCCc--HHHH
Confidence            3444 777777664443443333333333333 55    34566665 55788999999999999999987774  8899


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhh
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      +.|..|+.|.|..|-+.||.+.+-+
T Consensus       650 d~L~~L~~D~d~~Vrq~Ai~ALG~I  674 (963)
T 4ady_A          650 DVLDPLTKDPVDFVRQAAMIALSMI  674 (963)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999877654

>1xm9_A Plakophilin 1; armadillo repeat, cell adhesion; 2.80A {Homo sapiens} SCOP: a.118.1.24

Probab=88.26  E-value=4.8  Score=35.69  Aligned_cols=100  Identities=13%  Similarity=0.131  Sum_probs=75.1

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS   82 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~   82 (201)
                      +.++.+|+.    +|...|......++.+..+.++.    .-...+|.++++-.+++..+++..+.-+..++...++.-.
T Consensus         5 ~~lv~~L~s----~~~~~q~~A~~~L~~l~~~~~~~~~~i~~~g~i~~Lv~lL~s~~~~~~~~A~~aL~nLa~~~~~~k~   80 (457)
T 1xm9_A            5 PKAVQYLSS----QDEKYQAIGAYYIQHTCFQDESAKQQVYQLGGICKLVDLLRSPNQNVQQAAAGALRNLVFRSTTNKL   80 (457)
T ss_dssp             HHHHHHHHS----SCTHHHHHHHHHHHHHTSSCSSHHHHHHHTTHHHHHHHHTTSSCHHHHHHHHHHHHHHHSSCHHHHH
T ss_pred             HHHHHHHCC----CCHHHHHHHHHHHHHHHcCChHHHHHHHHcCCHHHHHHHHcCCCHHHHHHHHHHHHHHhcCCHHHHH
Confidence            456677764    45568999999999988654442    2256789999988889999999999999988876443322


Q ss_pred             -----hHHHHHHHhhc-cCChhHHHHHHhhhhhh
Q 028959           83 -----ILMPVLLAFLR-DGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        83 -----~~v~~L~~LL~-D~~~~VvK~aI~~~t~l  110 (201)
                           -.+|.|..+|+ ++++.|.+.+.-+..+|
T Consensus        81 ~i~~~G~i~~Lv~lL~~~~~~~~~~~a~~aL~nL  114 (457)
T 1xm9_A           81 ETRRQNGIREAVSLLRRTGNAEIQKQLTGLLWNL  114 (457)
T ss_dssp             HHHHTTCHHHHHHHHTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHhhCCCHHHHHHHHHHHHHH
Confidence                 34889999999 77888888887666554

>3b2a_A TON_1937, putative uncharacterized protein; heat-repeats, hypothetical, unknown function; 2.20A {Thermococcus onnurineus}

Probab=87.98  E-value=2.3  Score=36.52  Aligned_cols=73  Identities=11%  Similarity=0.108  Sum_probs=63.8

Q ss_pred             hHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccC-CCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch
Q 028959            5 SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSA-DPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA   77 (201)
Q Consensus         5 ~~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~-dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~   77 (201)
                      ...+++++|++--.+.|...|.--|+-+-|+.-.. ||+.+.+.++||=+|-...++.++++..+-++++..+.
T Consensus       147 ~~~~V~~~l~sLl~Skd~~vK~agl~~L~eia~~S~D~~i~~~I~~eI~elL~~eD~~l~e~aLd~Le~ils~p  220 (265)
T 3b2a_A          147 DSKLVRTYINELVVSPDLYTKVAGFCLFLNMLNSSADSGHLTLILDEIPSLLQNDNEFIVELALDVLEKALSFP  220 (265)
T ss_dssp             CCHHHHHHHHHHHTCSSHHHHHHHHHHHHHHGGGCSSCCCGGGTTTTHHHHHTCSCHHHHHHHHHHHHHHTTSC
T ss_pred             chHHHHHHHHHHHhCCChhHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHcCc
Confidence            35688888888887799999999999999988654 89999999999999988889999999999999998875

>4ffb_C Protein STU2; tubulin fold, heat repeats, cytoskeleton, microtubule, tubul domain, hydrolase; HET: GTP; 2.88A {Saccharomyces cerevisiae}

Probab=87.79  E-value=5.2  Score=32.81  Aligned_cols=73  Identities=5%  Similarity=0.033  Sum_probs=56.9

Q ss_pred             chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-------hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHH
Q 028959           42 SLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-------MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRV  114 (201)
Q Consensus        42 ~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-------~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~  114 (201)
                      ...+.+++.+++.-...++.+|-..+.||.++-...       ...++.+++.+..+|.|.|+.|=..|+.+...+|+.+
T Consensus       135 ~~~~~~~e~l~~~l~~Knpkv~~~~l~~l~~~l~~fg~~~~~~k~~l~~i~~~l~k~l~d~~~~VR~aA~~l~~~ly~~~  214 (278)
T 4ffb_C          135 TSITQSVELVIPFFEKKLPKLIAAAANCVYELMAAFGLTNVNVQTFLPELLKHVPQLAGHGDRNVRSQTMNLIVEIYKVT  214 (278)
T ss_dssp             SSSHHHHHHHGGGGGCSCHHHHHHHHHHHHHHHHHHTTTTCCHHHHHHHHGGGHHHHHTCSSHHHHHHHHHHHHHHHTC-
T ss_pred             CcHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhCCCcCCchhHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHh
Confidence            345677888888888899999988777777665432       1245667888889999999999999999999999743

>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii}

Probab=87.59  E-value=5.4  Score=33.56  Aligned_cols=88  Identities=16%  Similarity=0.136  Sum_probs=72.0

Q ss_pred             CCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChh
Q 028959           19 HGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSG   98 (201)
Q Consensus        19 ~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~   98 (201)
                      ++|...|+..|+=.--+= ..+|.+..-|||.++.+-+|++--||-..++-++.++.+.|. +-+++.....=++|.+.-
T Consensus       155 skd~~Dkl~aLnFi~alG-en~~~yv~PfLprL~aLL~D~deiVRaSaVEtL~~lA~~npk-lRkii~~kl~e~~D~S~l  232 (253)
T 2db0_A          155 SKNREDKLTALNFIEAMG-ENSFKYVNPFLPRIINLLHDGDEIVRASAVEALVHLATLNDK-LRKVVIKRLEELNDTSSL  232 (253)
T ss_dssp             CSSHHHHHHHHHHHHTCC-TTTHHHHGGGHHHHHGGGGCSSHHHHHHHHHHHHHHHTSCHH-HHHHHHHHHHHCCCSCHH
T ss_pred             CCChHHHHHHHHHHHHHh-ccCccccCcchHHHHHHHcCcchhhhHHHHHHHHHHHHcCHH-HHHHHHHHHHHhcCcHHH
Confidence            577778999888665443 337889999999999999999999999999999999999999 666666666677888888


Q ss_pred             HHHHHHhhhh
Q 028959           99 VAGKSIVCGT  108 (201)
Q Consensus        99 VvK~aI~~~t  108 (201)
                      |.|.+....+
T Consensus       233 v~~~V~egL~  242 (253)
T 2db0_A          233 VNKTVKEGIS  242 (253)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8887765543

>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans}

Probab=86.51  E-value=2.9  Score=35.75  Aligned_cols=89  Identities=15%  Similarity=0.180  Sum_probs=57.1

Q ss_pred             HHHHHHHHhhccCCCch----HHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch---------------------hhh-
Q 028959           27 SSLKQVRGILSSADPSL----AAELFPYLVELQSSPESLVRKSLIETIEDIGLKA---------------------MEH-   80 (201)
Q Consensus        27 ~~L~q~~elll~~dp~l----l~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~---------------------~el-   80 (201)
                      +.|..+-+.+...++.+    ...|+|.+++=..|+...||..+-+.+..++.-+                     .+. 
T Consensus       109 ~~L~~l~~~l~~~~y~~~~~ea~~~lP~LveKlGd~k~~vR~~~r~il~~l~~v~~~~~v~~~l~~g~ksKN~R~R~e~l  188 (266)
T 2of3_A          109 ELCKVIVELIRDTETPMSQEEVSAFVPYLLLKTGEAKDNMRTSVRDIVNVLSDVVGPLKMTPMLLDALKSKNARQRSECL  188 (266)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHGGGCSSHHHHHHHHHHHHHHHHHHCHHHHHHHHHHGGGCSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            34444434444444443    2567777776667776667766665444333300                     000 


Q ss_pred             -------------hhhHH---HHHHHhhccCChhHHHHHHhhhhhhhHHHH
Q 028959           81 -------------SSILM---PVLLAFLRDGDSGVAGKSIVCGTNFFCRVL  115 (201)
Q Consensus        81 -------------~~~~v---~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L  115 (201)
                                   -.+.+   +.+..+++|.|++|=.-|+.|...+|+.+=
T Consensus       189 ~~l~~li~~~G~~~~~~l~~~~~ia~ll~D~d~~VR~aAl~~lve~y~~~G  239 (266)
T 2of3_A          189 LVIEYYITNAGISPLKSLSVEKTVAPFVGDKDVNVRNAAINVLVACFKFEG  239 (266)
T ss_dssp             HHHHHHHHHHCSGGGGGGCHHHHHGGGGGCSSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCccccccchHHHHHHHcCCCHHHHHHHHHHHHHHHHHhh
Confidence                         24567   889999999999999999999999998764

>2z6g_A B-catenin; FULL-length, beta-catenin, cell adhesion; 3.40A {Danio rerio}

Probab=85.55  E-value=11  Score=35.93  Aligned_cols=68  Identities=16%  Similarity=0.200  Sum_probs=39.1

Q ss_pred             hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhh---h--hhhHHHHHHHhhccC-ChhHHHHHHhhhhhh
Q 028959           43 LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAME---H--SSILMPVLLAFLRDG-DSGVAGKSIVCGTNF  110 (201)
Q Consensus        43 ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~e---l--~~~~v~~L~~LL~D~-~~~VvK~aI~~~t~l  110 (201)
                      +....++.++.+-.+.+..||...+..|..+|.....   +  .+.+++.|..+|+++ ++.+.+.|..+..+|
T Consensus       147 i~~g~ip~Lv~lL~~~d~~vr~~A~~~L~~L~~~~~~~~~i~~~~~~i~~Lv~~L~~~~d~~vr~~Aa~aL~~L  220 (780)
T 2z6g_A          147 LATRAIPELTKLLNDEDQVVVNKAAVMVHQLSKKEASRHAIMRSPQMVSAIVRTMQNTNDVETARCTSGTLHNL  220 (780)
T ss_dssp             HHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHTSHHHHHHHTTCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHCCCCHHHHHHHHHHHHHHhCCChhHHHHHhccChHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            3355566666655566667777777776666654311   1  234566666666533 666666666555543

>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans}

Probab=85.15  E-value=17  Score=30.93  Aligned_cols=146  Identities=13%  Similarity=0.086  Sum_probs=87.9

Q ss_pred             CCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhc----cCcchhHHHHHHHHHHHHhh----ch---hh-hhhhHHH
Q 028959           19 HGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQ----SSPESLVRKSLIETIEDIGL----KA---ME-HSSILMP   86 (201)
Q Consensus        19 ~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~----~d~~~~VRk~v~~fiee~c~----~~---~e-l~~~~v~   86 (201)
                      ++|....+.-+..+.+.+- .+|.-+...+|-++.-.    .|.+..|=.-+.+++..+..    .+   .+ -...++|
T Consensus        57 s~d~k~~~~ale~L~~~l~-~~~~~~~~~lDll~kw~~lr~~d~N~~v~~~~L~~L~~l~~~l~~~~y~~~~~ea~~~lP  135 (266)
T 2of3_A           57 HKDFKQHLAALDSLVRLAD-TSPRSLLSNSDLLLKWCTLRFFETNPAALIKVLELCKVIVELIRDTETPMSQEEVSAFVP  135 (266)
T ss_dssp             CSCHHHHHHHHHHHHHHHH-HCHHHHHHTHHHHHHHHHHHTTSCCHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhh-hChHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            3566677777777777763 36655444444443321    48888888899999887643    21   22 2578889


Q ss_pred             HHHHhhccCChhH---HHHHHhhhhhhhHH--HHHHHhhhhhccCcchhhHHHHHHHHHHhH--------------HHHH
Q 028959           87 VLLAFLRDGDSGV---AGKSIVCGTNFFCR--VLEEITMQFRWHGKVERWLEELWTWMVRFK--------------DAVF  147 (201)
Q Consensus        87 ~L~~LL~D~~~~V---vK~aI~~~t~lyr~--~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK--------------~~Il  147 (201)
                      .|..=+.|....|   ++.++.....+|+.  ++.+++ .+. .+++.+.-+.+=+++..+=              ..|.
T Consensus       136 ~LveKlGd~k~~vR~~~r~il~~l~~v~~~~~v~~~l~-~g~-ksKN~R~R~e~l~~l~~li~~~G~~~~~~l~~~~~ia  213 (266)
T 2of3_A          136 YLLLKTGEAKDNMRTSVRDIVNVLSDVVGPLKMTPMLL-DAL-KSKNARQRSECLLVIEYYITNAGISPLKSLSVEKTVA  213 (266)
T ss_dssp             HHHHGGGCSSHHHHHHHHHHHHHHHHHHCHHHHHHHHH-HGG-GCSCHHHHHHHHHHHHHHHHHHCSGGGGGGCHHHHHG
T ss_pred             HHHHHhCCChHHHHHHHHHHHHHHHHHCCHHHHHHHHH-HHH-ccCCHHHHHHHHHHHHHHHHhcCCCccccccchHHHH
Confidence            9999999998777   44444455555544  344444 444 4555666666666665542              2233


Q ss_pred             HHhccCCCCchhHHHHHhhhH
Q 028959          148 AIALEPGLVGTKLLALKFLET  168 (201)
Q Consensus       148 ~~~~~s~n~GVr~~aiKF~E~  168 (201)
                      . ++++.+.+||-.|+.-+..
T Consensus       214 ~-ll~D~d~~VR~aAl~~lve  233 (266)
T 2of3_A          214 P-FVGDKDVNVRNAAINVLVA  233 (266)
T ss_dssp             G-GGGCSSHHHHHHHHHHHHH
T ss_pred             H-HHcCCCHHHHHHHHHHHHH
Confidence            3 4445555666666655443

>1jdh_A Beta-catenin; beta-catenin, protein-protein complex, transcription; 1.90A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qz7_A 1g3j_A 1th1_A* 1i7w_A* 1i7x_A 1jpp_A 1m1e_A 1v18_A* 3oux_A 3ouw_A 1jpw_A 3tx7_A* 2gl7_A 1t08_A 1luj_A 2bct_A 3bct_A* 3ifq_A* 3sla_A 3sl9_A

Probab=83.49  E-value=11  Score=32.61  Aligned_cols=90  Identities=12%  Similarity=0.098  Sum_probs=60.6

Q ss_pred             ChHHHHHHHHHHHHhhccC-CCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhh-----hhHHHHHHHhhcc
Q 028959           21 DLAVKLSSLKQVRGILSSA-DPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHS-----SILMPVLLAFLRD   94 (201)
Q Consensus        21 d~~~Kl~~L~q~~elll~~-dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~-----~~~v~~L~~LL~D   94 (201)
                      +...+...+..+..+.-+. .......+++.++.+..+.+.++|...+..+...|..+++..     ...++.|..+|.+
T Consensus       240 ~~~~~~~a~~~L~~l~~~~~~~~~~~~~i~~L~~ll~~~~~~v~~~a~~~L~~L~~~~~~~~~~~~~~~~v~~L~~ll~~  319 (529)
T 1jdh_A          240 SQRLVQNCLWTLRNLSDAATKQEGMEGLLGTLVQLLGSDDINVVTCAAGILSNLTCNNYKNKMMVCQVGGIEALVRTVLR  319 (529)
T ss_dssp             CHHHHHHHHHHHHHHHTTCTTCSCCHHHHHHHHHHTTCSCHHHHHHHHHHHHHHTTTCHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHhcCChhhHHHHhHHHHHHHHHcCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHcCChHHHHHHHHc
Confidence            3334444444455544332 112346788888888889999999999999999888654322     2457788888875


Q ss_pred             --CChhHHHHHHhhhhhh
Q 028959           95 --GDSGVAGKSIVCGTNF  110 (201)
Q Consensus        95 --~~~~VvK~aI~~~t~l  110 (201)
                        +++.|...++.+.++|
T Consensus       320 ~~~~~~v~~~a~~~L~nl  337 (529)
T 1jdh_A          320 AGDREDITEPAICALRHL  337 (529)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHH
Confidence              3478888888877766

>1jdh_A Beta-catenin; beta-catenin, protein-protein complex, transcription; 1.90A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qz7_A 1g3j_A 1th1_A* 1i7w_A* 1i7x_A 1jpp_A 1m1e_A 1v18_A* 3oux_A 3ouw_A 1jpw_A 3tx7_A* 2gl7_A 1t08_A 1luj_A 2bct_A 3bct_A* 3ifq_A* 3sla_A 3sl9_A

Probab=82.66  E-value=9.1  Score=33.28  Aligned_cols=89  Identities=15%  Similarity=0.145  Sum_probs=62.9

Q ss_pred             CChHHHHHHHHHHHHhhccCCCc--h-HHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhh-----hhhHHHHHHHh
Q 028959           20 GDLAVKLSSLKQVRGILSSADPS--L-AAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEH-----SSILMPVLLAF   91 (201)
Q Consensus        20 ~d~~~Kl~~L~q~~elll~~dp~--l-l~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el-----~~~~v~~L~~L   91 (201)
                      +|...+......++++..+.++.  + -...++.++++-.+++..+|...+..|..+|..+++.     -...+|.|..+
T Consensus        72 ~~~~~~~~a~~~L~~ls~~~~~~~~i~~~g~i~~L~~lL~~~~~~v~~~a~~~L~~l~~~~~~~~~~i~~~g~i~~L~~l  151 (529)
T 1jdh_A           72 NDVETARCTAGTLHNLSHHREGLLAIFKSGGIPALVKMLGSPVDSVLFYAITTLHNLLLHQEGAKMAVRLAGGLQKMVAL  151 (529)
T ss_dssp             CCHHHHHHHHHHHHHHTTSHHHHHHHHHTTHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHCTTHHHHHHHHTHHHHHHHG
T ss_pred             CCHHHHHHHHHHHHHHHcCchhHHHHHHcCCHHHHHHHHcCCCHHHHHHHHHHHHHHhcCCcchHHHHHHcCCHHHHHHH
Confidence            46667777777777765332211  1 1246778888888889999999999999999864322     25688999999


Q ss_pred             hccCChhHHHHHHhhhh
Q 028959           92 LRDGDSGVAGKSIVCGT  108 (201)
Q Consensus        92 L~D~~~~VvK~aI~~~t  108 (201)
                      |.++++.|...+..+..
T Consensus       152 l~~~~~~~~~~~~~~L~  168 (529)
T 1jdh_A          152 LNKTNVKFLAITTDCLQ  168 (529)
T ss_dssp             GGCCCHHHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHHH
Confidence            99988877665544443

>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine acetylation; 2.50A {Homo sapiens} PDB: 3v6a_A

Probab=81.28  E-value=7.6  Score=36.26  Aligned_cols=64  Identities=11%  Similarity=0.084  Sum_probs=55.9

Q ss_pred             hHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           48 FPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        48 l~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                      +.+|+. ....+...++..+.||-.-.+.-|++...++..+..|.+|+|+.|=++||.....+-+
T Consensus        31 y~~Il~-~~kg~~k~K~LaaQ~I~kffk~FP~l~~~Ai~a~lDLcEDed~~IR~qaik~Lp~~ck   94 (507)
T 3u0r_A           31 YQVILD-GVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFAT   94 (507)
T ss_dssp             HHHHHH-GGGSCHHHHHHHHHHHHHHGGGCGGGHHHHHHHHHHHHTCSSHHHHHHHHHHGGGGCC
T ss_pred             HHHHHH-hcCCCHHHHHHHHHHHHHHHhhChhhHHHHHHHHHHHHhcccHHHHHHHHHhhHHHhh
Confidence            455555 3456789999999999999999999999999999999999999999999987776655

>4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae}

Probab=81.25  E-value=17  Score=29.60  Aligned_cols=96  Identities=13%  Similarity=0.090  Sum_probs=65.8

Q ss_pred             CChHHHHHHHHHHHHhhccCCCc---hHHhhhHHHhhhc-c-C-cchhHHHHHHHHHHHHhhch----hhhhhhHHHHHH
Q 028959           20 GDLAVKLSSLKQVRGILSSADPS---LAAELFPYLVELQ-S-S-PESLVRKSLIETIEDIGLKA----MEHSSILMPVLL   89 (201)
Q Consensus        20 ~d~~~Kl~~L~q~~elll~~dp~---ll~~fl~~il~f~-~-d-~~~~VRk~v~~fiee~c~~~----~el~~~~v~~L~   89 (201)
                      .|...=...++-++-|+.+++-.   ++.+++|.++... . . ....+|.+-+.++..+|+++    +.+-++++.++.
T Consensus        58 ~~l~~L~~lm~~~~ALl~N~~l~lepYlH~LipsvLtCll~k~l~~~~LRd~AA~lL~~I~~~~~~~y~~L~~RI~~tl~  137 (196)
T 4atg_A           58 KEAEVLKTCIALYFSLIKNKHVFIDPYLHQILPSLLTCVIGKSIVDDDVRKMSADIVKYIYDTYSRSYKTLAPRVLKTLK  137 (196)
T ss_dssp             TCHHHHHHHHHHHHHHHHCTTCCCGGGHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHHHHTTTSTTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHhCccCchHHHHHHHHHH
Confidence            46633334445555555444321   6788888888544 1 1 22279999999999999976    889999999999


Q ss_pred             HhhccC--ChhHHHHHHhhhhhhhHHHH
Q 028959           90 AFLRDG--DSGVAGKSIVCGTNFFCRVL  115 (201)
Q Consensus        90 ~LL~D~--~~~VvK~aI~~~t~lyr~~L  115 (201)
                      .-+-|+  +....=.||.+...+=+.+.
T Consensus       138 k~l~dp~~~l~t~YGAi~GL~~lG~~~v  165 (196)
T 4atg_A          138 GVWMDPNRSEDSQYGALYCLSILSKNVV  165 (196)
T ss_dssp             HHHTCTTSCHHHHHHHHHHHHHHCHHHH
T ss_pred             HHHcCCCCChHHHHHHHHHHHHhHHHHH
Confidence            888876  56666677776666655555

---

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	201
d1b3ua_	588	a.118.1.2 (A:) Constant regulatory domain of prote	3e-05

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 588

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.7 bits (96), Expect = 3e-05
 Identities = 15/98 (15%), Positives = 42/98 (42%), Gaps = 3/98 (3%)

Query: 5   SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAE-LFPYLVELQSSPESLVR 63
           +    +  + A +   +   ++++L  +  +       +  + + P ++ +   P + VR
Sbjct: 477 AHATIIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDITTKHMLPTVLRMAGDPVANVR 536

Query: 64  KSLIETIEDIG--LKAMEHSSILMPVLLAFLRDGDSGV 99
            ++ ++++ IG  L      S + P+L    +D D  V
Sbjct: 537 FNVAKSLQKIGPILDNSTLQSEVKPILEKLTQDQDVDV 574

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	201
d2vglb_	579	Adaptin beta subunit N-terminal fragment {Human (H	96.74
d1te4a_	111	MTH187 {Archaeon Methanobacterium thermoautotrophi	96.62
d1oyza_	276	Hypothetical protein YibA {Escherichia coli [TaxId	96.53
d2vglb_	579	Adaptin beta subunit N-terminal fragment {Human (H	96.34
d1b3ua_	588	Constant regulatory domain of protein phosphatase	95.89
d1b3ua_	588	Constant regulatory domain of protein phosphatase	95.82
d1te4a_	111	MTH187 {Archaeon Methanobacterium thermoautotrophi	95.79
d2vgla_	584	Adaptin alpha C subunit N-terminal fragment {Mouse	95.54
d1q1sc_	434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	95.3
d1oyza_	276	Hypothetical protein YibA {Escherichia coli [TaxId	95.01
d1xm9a1	457	Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}	94.53
d1xqra1	264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	94.44
d1qbkb_	888	Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96	94.43
d1q1sc_	434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	93.81
d1u6gc_	1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	93.1
d1wa5b_	503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	93.09
d1xqra1	264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	92.81
d1wa5b_	503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	92.04
d2bpta1	861	Importin beta {Baker's yeast (Saccharomyces cerevi	91.91
d1u6gc_	1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	91.55
d1ibrb_	458	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	91.38
d2vgla_	584	Adaptin alpha C subunit N-terminal fragment {Mouse	90.88
d1xm9a1	457	Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}	90.73
d2bpta1	861	Importin beta {Baker's yeast (Saccharomyces cerevi	88.92
d1qbkb_	888	Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96	88.62
d1qgra_	876	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	88.21
d1ibrb_	458	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	88.0
d1jdha_	529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	85.97
d1qgra_	876	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	84.15

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: MTH187
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=96.62  E-value=0.0046  Score=42.81  Aligned_cols=88  Identities=22%  Similarity=0.159  Sum_probs=65.4

Q ss_pred             hhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccC
Q 028959           47 LFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHG  126 (201)
Q Consensus        47 fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~  126 (201)
                      -++.+++.-.|++..||...+.-+++.+.      +..++.|..+|+|+++.|-..++.+.+.+-.              
T Consensus        23 ~~~~L~~~l~d~~~~vR~~a~~~L~~~~~------~~~~~~L~~~l~d~~~~VR~~a~~aL~~i~~--------------   82 (111)
T d1te4a_          23 AFEPLLESLSNEDWRIRGAAAWIIGNFQD------ERAVEPLIKLLEDDSGFVRSGAARSLEQIGG--------------   82 (111)
T ss_dssp             THHHHHHGGGCSCHHHHHHHHHHHGGGCS------HHHHHHHHHHHHHCCTHHHHHHHHHHHHHCS--------------
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcch------hhhHHHHHhhhccchhHHHHHHHHHHHHhCc--------------
Confidence            45666776779999999999999887653      3467888999999999999999887764321              


Q ss_pred             cchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHHHHHhhhH
Q 028959          127 KVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLLALKFLET  168 (201)
Q Consensus       127 ~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~aiKF~E~  168 (201)
                            .       .....+.. ++++.+.-||-.|++-+++
T Consensus        83 ------~-------~~~~~L~~-ll~d~~~~vr~~A~~aL~t  110 (111)
T d1te4a_          83 ------E-------RVRAAMEK-LAETGTGFARKVAVNYLET  110 (111)
T ss_dssp             ------H-------HHHHHHHH-HTTSCCTHHHHHHHHHGGG
T ss_pred             ------c-------chHHHHHH-HHcCCCHHHHHHHHHHHHc
Confidence                  1       22334445 6677788899998887764

>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: Hypothetical protein YibA
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.068  Score=40.45  Aligned_cols=102  Identities=13%  Similarity=-0.007  Sum_probs=70.5

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhh-hccCcchhHHHHHHHHHHHHhhchhhhhhhHHH
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVE-LQSSPESLVRKSLIETIEDIGLKAMEHSSILMP   86 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~-f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~   86 (201)
                      .++..|-+....+|...+......+.++-  ....-.+..++.++. +..|++..||+..+..|...|...+...+.+++
T Consensus        50 ~~~~~l~~~l~d~~~~vr~~a~~aL~~l~--~~~~~~~~~~~~l~~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~~~~~~  127 (276)
T d1oyza_          50 DAVRLAIEFCSDKNYIRRDIGAFILGQIK--ICKKCEDNVFNILNNMALNDKSACVRATAIESTAQRCKKNPIYSPKIVE  127 (276)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHSC--CCTTTHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHHhc--cccccccchHHHHHHHHhcCCChhHHHHHHHHHHHHccccchhhHHHHH
Confidence            44555555555566555655555544432  122233444444453 457899999999999999999988888899999


Q ss_pred             HHHHhhccCChhHHHHHHhhhhhhh
Q 028959           87 VLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      .+...+.|+++.|-+.++.+...+-
T Consensus       128 ~l~~~~~d~~~~vr~~a~~~l~~~~  152 (276)
T d1oyza_         128 QSQITAFDKSTNVRRATAFAISVIN  152 (276)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHHHTC-
T ss_pred             HHHHHhcCcchHHHHHHHHHHhhcc
Confidence            9999999999998887777666553

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.89  E-value=0.02  Score=48.91  Aligned_cols=104  Identities=13%  Similarity=0.105  Sum_probs=58.6

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc-hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhc--hhhhhhhH
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS-LAAELFPYLVELQSSPESLVRKSLIETIEDIGLK--AMEHSSIL   84 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~-ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~--~~el~~~~   84 (201)
                      .+..++-.....+....+-...+.+..++.+-.+. ..+.+++.+.++..|++..+|...+..+..++..  .......+
T Consensus       441 ~l~~~l~~~l~D~~~~VR~~A~~~L~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~R~~~~~~l~~l~~~~~~~~~~~~i  520 (588)
T d1b3ua_         441 KLNSLCMAWLVDHVYAIREAATSNLKKLVEKFGKEWAHATIIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDITTKHM  520 (588)
T ss_dssp             HHHHHHHHGGGCSSHHHHHHHHHHHHHHHHHHCHHHHHHHTHHHHHHTTTCSCHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhccCCchhHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcChHHHHHHH
Confidence            34444444444445555665555555555433343 3355666666666777777776666666655442  22344566


Q ss_pred             HHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           85 MPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        85 v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      +|.|..+++|+.|.|=..++.+...++
T Consensus       521 lp~ll~~~~D~v~nVR~~a~~~l~~i~  547 (588)
T d1b3ua_         521 LPTVLRMAGDPVANVRFNVAKSLQKIG  547 (588)
T ss_dssp             HHHHHHGGGCSCHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            677777777776666555555555543

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.82  E-value=0.063  Score=45.70  Aligned_cols=104  Identities=18%  Similarity=0.161  Sum_probs=74.4

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccCCC-chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch--hhhhhhHH
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSADP-SLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA--MEHSSILM   85 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp-~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~--~el~~~~v   85 (201)
                      ++..+.+.-...+...+...+..+.++...-++ .+.+.+++.+.++..|++..+|+.+++.+...+..-  ..+.+.+.
T Consensus       364 l~p~l~~~l~d~~~~v~~~~~~~l~~~~~~~~~~~~~~~ll~~l~~~~~d~~~~~r~~~~~~l~~l~~~~~~~~~~~~l~  443 (588)
T d1b3ua_         364 LLPLFLAQLKDECPEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELAEDAKWRVRLAIIEYMPLLAGQLGVEFFDEKLN  443 (588)
T ss_dssp             THHHHHHHHTCSCHHHHHHHHTTCHHHHHHSCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHCGGGCCHHHH
T ss_pred             HHHHHHHHHHhhhhhhhhHHHHHHHHHHhhcchhhhhhHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHcChHhHHHHHH
Confidence            334444444445555666665555554433333 356778888888889999999999999999887643  45567788


Q ss_pred             HHHHHhhccCChhHHHHHHhhhhhhhH
Q 028959           86 PVLLAFLRDGDSGVAGKSIVCGTNFFC  112 (201)
Q Consensus        86 ~~L~~LL~D~~~~VvK~aI~~~t~lyr  112 (201)
                      +.+..+|.|++..|-+.|+.+...|..
T Consensus       444 ~~l~~~l~D~~~~VR~~A~~~L~~l~~  470 (588)
T d1b3ua_         444 SLCMAWLVDHVYAIREAATSNLKKLVE  470 (588)
T ss_dssp             HHHHHGGGCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhccCCchhHHHHHHHHHHHHHH
Confidence            888899999999998888888777754

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: MTH187
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=95.79  E-value=0.038  Score=37.84  Aligned_cols=84  Identities=13%  Similarity=0.132  Sum_probs=61.6

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHH
Q 028959           11 SLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLA   90 (201)
Q Consensus        11 ~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~   90 (201)
                      +.|-++....|...+...+..+.+.-   +    +..++.++++-.|+++.||...+.-|++++.      +.+++.|..
T Consensus        25 ~~L~~~l~d~~~~vR~~a~~~L~~~~---~----~~~~~~L~~~l~d~~~~VR~~a~~aL~~i~~------~~~~~~L~~   91 (111)
T d1te4a_          25 EPLLESLSNEDWRIRGAAAWIIGNFQ---D----ERAVEPLIKLLEDDSGFVRSGAARSLEQIGG------ERVRAAMEK   91 (111)
T ss_dssp             HHHHHGGGCSCHHHHHHHHHHHGGGC---S----HHHHHHHHHHHHHCCTHHHHHHHHHHHHHCS------HHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcc---h----hhhHHHHHhhhccchhHHHHHHHHHHHHhCc------cchHHHHHH
Confidence            33444555667666666665554321   3    3456677777789999999999999998864      467888999


Q ss_pred             hhccCChhHHHHHHhhh
Q 028959           91 FLRDGDSGVAGKSIVCG  107 (201)
Q Consensus        91 LL~D~~~~VvK~aI~~~  107 (201)
                      +++|+++.|-+.|+.+.
T Consensus        92 ll~d~~~~vr~~A~~aL  108 (111)
T d1te4a_          92 LAETGTGFARKVAVNYL  108 (111)
T ss_dssp             HTTSCCTHHHHHHHHHG
T ss_pred             HHcCCCHHHHHHHHHHH
Confidence            99999999988888764

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin alpha
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.30  E-value=0.15  Score=41.02  Aligned_cols=138  Identities=14%  Similarity=0.124  Sum_probs=91.7

Q ss_pred             cCCChHHHHHHHHHHHHhhccCCCc----hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-hhhhhh-----HHH
Q 028959           18 NHGDLAVKLSSLKQVRGILSSADPS----LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLKA-MEHSSI-----LMP   86 (201)
Q Consensus        18 ~~~d~~~Kl~~L~q~~elll~~dp~----ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-~el~~~-----~v~   86 (201)
                      .+++.+.|...+.-+..+..+ ++.    +. .++++.++..-.+++.++|+..+..|...+... ++....     +++
T Consensus       282 ~~~~~~v~~~a~~~L~~l~~~-~~~~~~~i~~~~~i~~li~~l~~~~~~v~~~a~~~l~nl~~~~~~~~~~~l~~~~~i~  360 (434)
T d1q1sc_         282 TNPKTNIQKEATWTMSNITAG-RQDQIQQVVNHGLVPFLVGVLSKADFKTQKEAAWAITNYTSGGTVEQIVYLVHCGIIE  360 (434)
T ss_dssp             TCSSHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTCHHHHHHHHHSSCHHHHHHHHHHHHHHHHHSCHHHHHHHHHTTCHH
T ss_pred             cccchhhhHHHHHHHhhhccc-cchhHHHHhhhhhHHHHHHHHhccChHHHHHHHHHHHHHHhcCCHHHHHHHHHCCcHH
Confidence            345555666666666666643 332    22 347777888888889999999999998776543 343333     478


Q ss_pred             HHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHH--hHHHHHHHhccCCCCchhHHHHH
Q 028959           87 VLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVR--FKDAVFAIALEPGLVGTKLLALK  164 (201)
Q Consensus        87 ~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~--lK~~Il~~~~~s~n~GVr~~aiK  164 (201)
                      .|..+|..+++.+++.++.+..+|.+..=     +.    +   ........+.+  +-+.|-. +.+++|+-|+-.|.|
T Consensus       361 ~L~~ll~~~d~~~~~~~l~~l~~ll~~~~-----~~----~---~~~~~~~~~~~~~~~~~i~~-L~~~~n~~i~~~a~~  427 (434)
T d1q1sc_         361 PLMNLLSAKDTKIIQVILDAISNIFQAAE-----KL----G---ETEKLSIMIEECGGLDKIEA-LQRHENESVYKASLN  427 (434)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHHHHHHHHHH-----TT----T---CHHHHHHHHHHTTSHHHHHH-HHTCSSHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHHHHHH-----hc----C---CcHHHHHHHHHcCCHHHHHH-HHcCCCHHHHHHHHH
Confidence            89999999999999998887777765332     11    1   11222223322  2334544 668999999999999


Q ss_pred             hhhHh
Q 028959          165 FLETH  169 (201)
Q Consensus       165 F~E~v  169 (201)
                      .+|+.
T Consensus       428 il~~~  432 (434)
T d1q1sc_         428 LIEKY  432 (434)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99875

>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: Hypothetical protein YibA
species: Escherichia coli [TaxId: 562]

Probab=95.01  E-value=0.19  Score=37.76  Aligned_cols=92  Identities=12%  Similarity=0.030  Sum_probs=48.3

Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhhHHHHHHHhh
Q 028959           13 LAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSILMPVLLAFL   92 (201)
Q Consensus        13 Ln~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~~v~~L~~LL   92 (201)
                      |-.....+|...+......+...    ..   ++-++.++.+..|++..||...+.-+.+.+......-.....-+..++
T Consensus        24 L~~~L~d~~~~vR~~A~~~L~~~----~~---~~~~~~l~~~l~d~~~~vr~~a~~aL~~l~~~~~~~~~~~~~l~~~~l   96 (276)
T d1oyza_          24 LFRLLDDHNSLKRISSARVLQLR----GG---QDAVRLAIEFCSDKNYIRRDIGAFILGQIKICKKCEDNVFNILNNMAL   96 (276)
T ss_dssp             HHHHTTCSSHHHHHHHHHHHHHH----CC---HHHHHHHHHHHTCSSHHHHHHHHHHHHHSCCCTTTHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCHHHHHHHHHHHHhh----CC---HhHHHHHHHHHcCCCHHHHHHHHHHHHHhccccccccchHHHHHHHHh
Confidence            33444445544555554444332    11   455666666666777777777666666654433221111112234445


Q ss_pred             ccCChhHHHHHHhhhhhhh
Q 028959           93 RDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        93 ~D~~~~VvK~aI~~~t~ly  111 (201)
                      +|+++.|.+.++.+...++
T Consensus        97 ~d~~~~vr~~a~~aL~~~~  115 (276)
T d1oyza_          97 NDKSACVRATAIESTAQRC  115 (276)
T ss_dssp             HCSCHHHHHHHHHHHHHHH
T ss_pred             cCCChhHHHHHHHHHHHHc
Confidence            6677777666666665554

>d1xm9a1 a.118.1.24 (A:244-700) Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Plakophilin 1 helical region
domain: Plakophilin 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.53  E-value=0.033  Score=43.91  Aligned_cols=63  Identities=16%  Similarity=0.064  Sum_probs=53.7

Q ss_pred             hHHHhhhccCcchhHHHHHHHHHHHHhhchhhh-----hhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           48 FPYLVELQSSPESLVRKSLIETIEDIGLKAMEH-----SSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        48 l~~il~f~~d~~~~VRk~v~~fiee~c~~~~el-----~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      +|.++++-.+++++||-..+.+|...|..+.+.     -...+|.|..+|+++++.|.+.++.+..+|
T Consensus         4 ip~lv~~L~~~~~~~~~~a~~~l~~l~~~~~~~~~~i~~~g~i~~Lv~lL~~~~~~v~~~a~~aL~~L   71 (457)
T d1xm9a1           4 IPKAVQYLSSQDEKYQAIGAYYIQHTCFQDESAKQQVYQLGGICKLVDLLRSPNQNVQQAAAGALRNL   71 (457)
T ss_dssp             HHHHHHHHHSSCTHHHHHHHHHHHHHTSSCSSHHHHHHHTTHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHCCcHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence            578889999999999999999999999876543     334578999999999999999988887766

>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HspBP1 domain
domain: Hsp70-binding protein 1 (HspBP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.44  E-value=0.64  Score=35.81  Aligned_cols=140  Identities=12%  Similarity=0.023  Sum_probs=69.3

Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhhccCCCc-----hHHhhhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhh-----h
Q 028959           13 LAAANNHGDLAVKLSSLKQVRGILSSADPS-----LAAELFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEH-----S   81 (201)
Q Consensus        13 Ln~A~~~~d~~~Kl~~L~q~~elll~~dp~-----ll~~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el-----~   81 (201)
                      +.....++|.+.|...+.-+..+..+ +|.     .-...++.++.+- .+.+..+|+..+.-+...++..+..     -
T Consensus        64 l~~ll~s~~~~vr~~A~~~L~~l~~~-~~~~~~~~~~~~~i~~Lv~lL~~~~~~~v~~~a~~aL~~l~~~~~~~~~~~~~  142 (264)
T d1xqra1          64 VGRYLEAGAAGLRWRAAQLIGTCSQN-VAAIQEQVLGLGALRKLLRLLDRDACDTVRVKALFAISCLVREQEAGLLQFLR  142 (264)
T ss_dssp             HHTTTTCSSHHHHHHHHHHHHHHHTT-CHHHHHHHHHTTHHHHHHHHHHHCSCHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHHHHH-HHHHHHHHHHcCchHHHHHHhhcCCCHHHHHHHHHHHHHHhccchhhHHHHHH
Confidence            33344445554555555555555533 332     1134455555433 4555666666666666666544322     2


Q ss_pred             hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHH
Q 028959           82 SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLL  161 (201)
Q Consensus        82 ~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~  161 (201)
                      ...++.|..+|+++++.+.++++.+-.++...            ++  +......+.  ..=..+++ ++.+++..+|..
T Consensus       143 ~~gi~~L~~lL~~~~~~~~~~a~~~L~~l~~~------------~~--~~~~~~~~~--~~v~~L~~-lL~~~~~~~~~~  205 (264)
T d1xqra1         143 LDGFSVLMRAMQQQVQKLKVKSAFLLQNLLVG------------HP--EHKGTLCSM--GMVQQLVA-LVRTEHSPFHEH  205 (264)
T ss_dssp             TTHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH------------CG--GGHHHHHHT--THHHHHHH-HHTSCCSTHHHH
T ss_pred             hhhhhHHHHHHhcCchHHHHHHHHHHHHHHhc------------cH--HHHHHHHHh--hhHHHHHH-HHcCCCHHHHHH
Confidence            23355666666666666655554444333210            00  001111110  11234566 567788888888


Q ss_pred             HHHhhhHhh
Q 028959          162 ALKFLETHV  170 (201)
Q Consensus       162 aiKF~E~vI  170 (201)
                      |+.-+..+.
T Consensus       206 a~~aL~~L~  214 (264)
T d1xqra1         206 VLGALCSLV  214 (264)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            887776653

>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Karyopherin beta2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.45  Score=42.73  Aligned_cols=107  Identities=21%  Similarity=0.149  Sum_probs=74.5

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhcc---CCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhh-----chh
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSS---ADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGL-----KAM   78 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~---~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~-----~~~   78 (201)
                      +.++..+.+.-.+++-..|-..+.....+.-+   .-..++++.++.++..-.|+++.||.-.+-.+++.|.     ...
T Consensus       394 ~~~l~~l~~~l~s~~~~~reaa~~alg~i~eg~~~~~~~~l~~li~~l~~~l~d~~~~Vr~~a~~~l~~~~~~~~~~~~~  473 (888)
T d1qbkb_         394 PHILPLLKELLFHHEWVVKESGILVLGAIAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPD  473 (888)
T ss_dssp             HHHHHHHHHTTTSSSHHHHHHHHHHHHHHTTTSHHHHTTTHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTHHHHHSSCHH
T ss_pred             HHHHHHHHHhhccchhHHHHHHHHHhhhhhhhHHHHhcccchhhhHHHHHhccCCCHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            35566776666666654554444433332211   1123678889999998899999999887777776654     124


Q ss_pred             hhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           79 EHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        79 el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                      +++..+++.|...+.|+++.|...|..+..++...
T Consensus       474 ~~~~~~l~~ll~~l~d~~~~V~~~a~~al~~l~~~  508 (888)
T d1qbkb_         474 TYLKPLMTELLKRILDSNKRVQEAACSAFATLEEE  508 (888)
T ss_dssp             HHTTTHHHHHHHHHSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Confidence            67888999999999999999988888877766543

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin alpha
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.81  E-value=0.34  Score=38.81  Aligned_cols=101  Identities=17%  Similarity=0.273  Sum_probs=75.4

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhhccC-CCc---hH-HhhhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhh--
Q 028959            9 ALSLLAAANNHGDLAVKLSSLKQVRGILSSA-DPS---LA-AELFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEH--   80 (201)
Q Consensus         9 v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~-dp~---ll-~~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el--   80 (201)
                      +-++++. -.++|.+.++..+..+++++-.. +|.   ++ ...+|.++++- ...+++||+..++.|...|...++.  
T Consensus        15 i~~lv~~-l~s~~~~~~~~a~~~l~~l~s~~~~~~~~~i~~~g~i~~Lv~lL~~~~~~~v~~~a~~~L~~la~~~~~~~~   93 (434)
T d1q1sc_          15 VEDIVKG-INSNNLESQLQATQAARKLLSREKQPPIDNIIRAGLIPKFVSFLGKTDCSPIQFESAWALTNIASGTSEQTK   93 (434)
T ss_dssp             HHHHHHH-HTSSCHHHHHHHHHHHHHHHHSSSCCCHHHHHHTTCHHHHHHHTTCGGGHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHH-HcCCCHHHHHHHHHHHHHHhcCCCCchHHHHHHCCCHHHHHHHHccCCCHHHHHHHHHHHHHHhcCChhhhh
Confidence            4455553 34468889999999999997432 332   22 34778888876 4567889999999999998765443  


Q ss_pred             ---hhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           81 ---SSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        81 ---~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                         -...+|.|..+|.++++.+...++.+..+|
T Consensus        94 ~i~~~~~i~~l~~~L~~~~~~~~~~a~~~L~nl  126 (434)
T d1q1sc_          94 AVVDGGAIPAFISLLASPHAHISEQAVWALGNI  126 (434)
T ss_dssp             HHHHTTHHHHHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HhhhccchhhhhhccccCCHHHHHHHHHHHHHH
Confidence               245688999999999999999998888776

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Cullin-associated NEDD8-dissociated protein 1 (Tip120)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.10  E-value=1.2  Score=40.53  Aligned_cols=155  Identities=10%  Similarity=0.045  Sum_probs=94.2

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhcc----CCCchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-hhhh
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSS----ADPSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-MEHS   81 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~----~dp~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-~el~   81 (201)
                      -++.++|..... +|.+-+.-.++.+...+-.    -|+...+.+++.++..-.|++++||...+.-++....+- ++.+
T Consensus         3 ~~~~~ll~k~~~-~D~d~R~ma~~dl~~~l~~~~~~~~~~~~~~i~~~ll~~L~D~~~~Vq~~A~k~l~~l~~~~~~~~~   81 (1207)
T d1u6gc_           3 YHISNLLEKMTS-SDKDFRFMATNDLMTELQKDSIKLDDDSERKVVKMILKLLEDKNGEVQNLAVKCLGPLVSKVKEYQV   81 (1207)
T ss_dssp             HHHHHHHHHTTC-SSHHHHHHHHHHHHHHTSSSCCSCCTTHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHTTSCHHHH
T ss_pred             hhHHHHHHhcCC-CCHhHHHHHHHHHHHHHhhcccccChHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhCcHhhH
Confidence            367788876543 6766777777777776632    245567889999999889999999999888888776654 4567


Q ss_pred             hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHH
Q 028959           82 SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLL  161 (201)
Q Consensus        82 ~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~  161 (201)
                      +.+++.|...+.+++..+-..+-.+.    +.++..+     ...  .....-.|.....+-.......-...+.++|..
T Consensus        82 ~~l~~~L~~~l~~~~~~~r~~~~~~L----~~i~~~l-----~~~--~~~~~~~~~~~~~l~~~l~~~~~~~~~~~v~~~  150 (1207)
T d1u6gc_          82 ETIVDTLCTNMLSDKEQLRDISSIGL----KTVIGEL-----PPA--SSGSALAANVCKKITGRLTSAIAKQEDVSVQLE  150 (1207)
T ss_dssp             HHHHHHHHHHTTCSSSHHHHHHHHHH----HHHHHHC-----C-------CCTHHHHHHHHHHHHHHHHSCCSCHHHHHH
T ss_pred             HHHHHHHHHHhcCCchhhhHHHHHHH----HHHHHhc-----ccc--cccchhHHHHHHHHHHHHHHhhcCCCCHHHHHH
Confidence            78888888877776665432221111    2222111     100  001112344444555555553334555677877


Q ss_pred             HHHhhhHhhhhc
Q 028959          162 ALKFLETHVLLF  173 (201)
Q Consensus       162 aiKF~E~vIL~q  173 (201)
                      |+..+..++-.+
T Consensus       151 al~~l~~l~~~~  162 (1207)
T d1u6gc_         151 ALDIMADMLSRQ  162 (1207)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            777666555433

>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Karyopherin alpha
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.09  E-value=0.49  Score=39.27  Aligned_cols=99  Identities=20%  Similarity=0.266  Sum_probs=74.0

Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhhccCCCchH-----HhhhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhhhh----
Q 028959           13 LAAANNHGDLAVKLSSLKQVRGILSSADPSLA-----AELFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEHSS----   82 (201)
Q Consensus        13 Ln~A~~~~d~~~Kl~~L~q~~elll~~dp~ll-----~~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el~~----   82 (201)
                      +-++..+.|...++..+...++++...+...+     ...+|.++.+. .+.+.+++...+..+..+|..+++...    
T Consensus        81 ~~~~~~s~~~~~~~~a~~~~r~~ls~~~~~~i~~ii~~g~i~~Lv~~l~~~~~~~iq~~a~~~L~ni~~~~~~~~~~~~~  160 (503)
T d1wa5b_          81 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQAGVVPRLVEFMRENQPEMLQLEAAWALTNIASGTSAQTKVVVD  160 (503)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHHHTCCSSSCSHHHHHHTTCHHHHHHTTSTTSCHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHhcCCCHHHHHHHHHHHHHHHhcCCCchHHHHHHCCChHHHHHHHcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            33445667888899999999999864432233     34577788665 567888999999999999986543332    


Q ss_pred             -hHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           83 -ILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        83 -~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                       -.++.|..+|.++++.|...++.+.++|-
T Consensus       161 ~g~i~~l~~lL~s~~~~i~~~a~~~L~nia  190 (503)
T d1wa5b_         161 ADAVPLFIQLLYTGSVEVKEQAIWALGNVA  190 (503)
T ss_dssp             TTCHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHhcCCChhHHHHHHHHHHHHh
Confidence             35788999999999999999988887763

>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HspBP1 domain
domain: Hsp70-binding protein 1 (HspBP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.81  E-value=0.49  Score=36.53  Aligned_cols=91  Identities=11%  Similarity=0.103  Sum_probs=70.3

Q ss_pred             CCChHHHHHHHHHHHHhhccCCCchH-----HhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhh-----hHHHHH
Q 028959           19 HGDLAVKLSSLKQVRGILSSADPSLA-----AELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSS-----ILMPVL   88 (201)
Q Consensus        19 ~~d~~~Kl~~L~q~~elll~~dp~ll-----~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~-----~~v~~L   88 (201)
                      .++...+...+..+..++-+ +|...     ..-++.++.+..+++..+++..+..|...|..+++...     .+++.|
T Consensus       113 ~~~~~v~~~a~~aL~~l~~~-~~~~~~~~~~~~gi~~L~~lL~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~v~~L  191 (264)
T d1xqra1         113 DACDTVRVKALFAISCLVRE-QEAGLLQFLRLDGFSVLMRAMQQQVQKLKVKSAFLLQNLLVGHPEHKGTLCSMGMVQQL  191 (264)
T ss_dssp             CSCHHHHHHHHHHHHHHHTT-CHHHHHHHHHTTHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHTTHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhcc-chhhHHHHHHhhhhhHHHHHHhcCchHHHHHHHHHHHHHHhccHHHHHHHHHhhhHHHH
Confidence            35666788888888888755 43322     34478888888889999999999999999887654322     368999


Q ss_pred             HHhhccCChhHHHHHHhhhhhh
Q 028959           89 LAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        89 ~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      ..+|+++++.|.+.+..+..+|
T Consensus       192 ~~lL~~~~~~~~~~a~~aL~~L  213 (264)
T d1xqra1         192 VALVRTEHSPFHEHVLGALCSL  213 (264)
T ss_dssp             HHHHTSCCSTHHHHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHH
Confidence            9999999999999888887776

>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Karyopherin alpha
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.04  E-value=1.3  Score=36.50  Aligned_cols=153  Identities=14%  Similarity=0.053  Sum_probs=94.3

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hH-HhhhHHHhhhccCcchhHHHHHHHHHHHHhhc---hhhhh
Q 028959           10 LSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LA-AELFPYLVELQSSPESLVRKSLIETIEDIGLK---AMEHS   81 (201)
Q Consensus        10 ~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll-~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~---~~el~   81 (201)
                      ++.|..-..+++...+...+..+..+..+ +|.    ++ .++++.++++-.+.+.+||+..+.+|..++..   +++.+
T Consensus       332 l~~l~~ll~~~~~~i~~~~~~~l~nl~~~-~~~~~~~i~~~~~l~~li~~l~~~~~~v~~~a~~~l~nl~~~~~~~~~~~  410 (503)
T d1wa5b_         332 LPALRLLLSSPKENIKKEACWTISNITAG-NTEQIQAVIDANLIPPLVKLLEVAEYKTKKEACWAISNASSGGLQRPDII  410 (503)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHHHHHTTS-CHHHHHHHHHTTCHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTTCTHHH
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHHhhc-cHHHHHHHHHccccchhHHhcccCChhHHHHHHHHHHHHHhcccccHHHH
Confidence            34444444455555566666666666543 443    22 56778888888888889999988888866642   23332


Q ss_pred             -----hhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCC
Q 028959           82 -----SILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLV  156 (201)
Q Consensus        82 -----~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~  156 (201)
                           ..+++.|..+|...|+.+++.++.+..+|.+..-..-..+.   ...+... ..-+.... -+.|-. +.++.|+
T Consensus       411 ~~l~~~~~l~~l~~~L~~~d~~~~~~~L~~l~~ll~~~~~~~~~~~---~~~~~~~-~~iee~g~-~~~i~~-Lq~~~~~  484 (503)
T d1wa5b_         411 RYLVSQGCIKPLCDLLEIADNRIIEVTLDALENILKMGEADKEARG---LNINENA-DFIEKAGG-MEKIFN-CQQNEND  484 (503)
T ss_dssp             HHHHHTTCHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSCHHH-HHHHHTTH-HHHHHG-GGGCSCH
T ss_pred             HHHHHCCcHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhhhhc---ccchHHH-HHHHHCCC-HHHHHH-HHcCCCH
Confidence                 33677888899888999999988888888876542111111   1111111 11122222 234444 5678888


Q ss_pred             chhHHHHHhhhHh
Q 028959          157 GTKLLALKFLETH  169 (201)
Q Consensus       157 GVr~~aiKF~E~v  169 (201)
                      -|+-.|.+-+|++
T Consensus       485 ~i~~~A~~il~~~  497 (503)
T d1wa5b_         485 KIYEKAYKIIETY  497 (503)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9998898888775

>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin beta
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.91  E-value=0.9  Score=38.83  Aligned_cols=107  Identities=13%  Similarity=0.006  Sum_probs=69.1

Q ss_pred             hHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCchHHhhhHHHhhhccC--cchhHHHHHHHHHHHHhhc------
Q 028959            5 SRDQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPSLAAELFPYLVELQSS--PESLVRKSLIETIEDIGLK------   76 (201)
Q Consensus         5 ~~~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~ll~~fl~~il~f~~d--~~~~VRk~v~~fiee~c~~------   76 (201)
                      +.++++++|.++-.++|...+-..=++++++--+    -.++|+..+++...+  .+..+|...+-.+.....+      
T Consensus         2 ~~~~~~~~L~~~~~s~d~~~r~~Ae~~L~~~~~~----~~~~~~~~l~~il~~~~~~~~~r~~A~i~lkn~i~~~~~~~~   77 (861)
T d2bpta1           2 STAEFAQLLENSILSPDQNIRLTSETQLKKLSND----NFLQFAGLSSQVLIDENTKLEGRILAALTLKNELVSKDSVKT   77 (861)
T ss_dssp             CHHHHHHHHHHHHHCSSHHHHHHHHHHHHHHHHH----CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHTTTCCSSHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhc----CchHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhhcccchhh
Confidence            3578899999988778877777666666665532    346788888876644  4456776555444332221      


Q ss_pred             -----------hhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHH
Q 028959           77 -----------AMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVL  115 (201)
Q Consensus        77 -----------~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L  115 (201)
                                 +++.-..+-..+...|.++++.|-+.+-++.+.+.+.-+
T Consensus        78 ~~~~~~~~~~i~~~~~~~ik~~ll~~l~~~~~~vr~~~a~~i~~i~~~~~  127 (861)
T d2bpta1          78 QQFAQRWITQVSPEAKNQIKTNALTALVSIEPRIANAAAQLIAAIADIEL  127 (861)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHG
T ss_pred             hhHHhhhHhcCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhC
Confidence                       133334455666777888889888888887777765433

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Cullin-associated NEDD8-dissociated protein 1 (Tip120)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.55  E-value=1.3  Score=40.23  Aligned_cols=146  Identities=17%  Similarity=0.139  Sum_probs=89.3

Q ss_pred             HHHHHHHHhhc-CCChHHHHHHHHHHHHhhccCCCc---hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-hhhhh
Q 028959            8 QALSLLAAANN-HGDLAVKLSSLKQVRGILSSADPS---LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-MEHSS   82 (201)
Q Consensus         8 ~v~~lLn~A~~-~~d~~~Kl~~L~q~~elll~~dp~---ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-~el~~   82 (201)
                      +++..+..+.. ..+...+.+.+.-+.+++-.-.+.   +.+++++.+++.-.+++..|||-.+.-|..++..- .+.+.
T Consensus       130 ~l~~~l~~~~~~~~~~~v~~~al~~l~~l~~~~g~~l~~~~~~il~~l~~~l~~~~~~vR~~A~~~l~~l~~~~~~~~~~  209 (1207)
T d1u6gc_         130 KITGRLTSAIAKQEDVSVQLEALDIMADMLSRQGGLLVNFHPSILTCLLPQLTSPRLAVRKRTIIALGHLVMSCGNIVFV  209 (1207)
T ss_dssp             HHHHHHHHHHSCCSCHHHHHHHHHHHHHHHHHTCSSCTTTHHHHHHHHGGGGGCSSHHHHHHHHHHHHHHTTTC----CT
T ss_pred             HHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHCCHHHHH
Confidence            34455555444 367677888888888877543322   45777888887778888999999999888887644 34555


Q ss_pred             hHHHHHHHhh-ccCChhHHHHHHhhhhhhhHHHHHHHhhhhhccCcchhhHHHHHHHHHHhHHHHHHHhccCCCCchhHH
Q 028959           83 ILMPVLLAFL-RDGDSGVAGKSIVCGTNFFCRVLEEITMQFRWHGKVERWLEELWTWMVRFKDAVFAIALEPGLVGTKLL  161 (201)
Q Consensus        83 ~~v~~L~~LL-~D~~~~VvK~aI~~~t~lyr~~L~~~~~q~i~~~~~~~~~~~~W~~m~~lK~~Il~~~~~s~n~GVr~~  161 (201)
                      .+++.+...| .+.+..+.+.+++|.+.+.+..=     .-.... .+           .+-..+++ ...++++-+|-.
T Consensus       210 ~~~~~ll~~l~~~~~~~~~~~~~~~l~~l~~~~~-----~~~~~~-l~-----------~i~~~l~~-~l~~~~~~~r~~  271 (1207)
T d1u6gc_         210 DLIEHLLSELSKNDSMSTTRTYIQCIAAISRQAG-----HRIGEY-LE-----------KIIPLVVK-FCNVDDDELREY  271 (1207)
T ss_dssp             THHHHHHHHHHHTCSSCSCTTHHHHHHHHHHHSS-----GGGTTS-CT-----------THHHHHHH-HHSSCCTTTHHH
T ss_pred             HHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHcc-----hhhHHH-HH-----------HHHHHHHH-HhcCccHHHHHH
Confidence            6666665544 46677778888888887766432     111100 11           12233344 445556666666


Q ss_pred             HHHhhhHhhh
Q 028959          162 ALKFLETHVL  171 (201)
Q Consensus       162 aiKF~E~vIL  171 (201)
                      |+.-++.++.
T Consensus       272 al~~l~~l~~  281 (1207)
T d1u6gc_         272 CIQAFESFVR  281 (1207)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666666553

>d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin beta
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.38  E-value=0.57  Score=36.97  Aligned_cols=70  Identities=14%  Similarity=0.190  Sum_probs=56.4

Q ss_pred             CchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhh---ch--hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           41 PSLAAELFPYLVELQSSPESLVRKSLIETIEDIGL---KA--MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        41 p~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~---~~--~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                      ...++.+++-+.+...+++..+|...+-.++.++.   +.  .++++.++|.|..+++|++|.|-..|..|.+.+
T Consensus       360 ~~~~~~l~~~i~~~l~s~~~~~r~aal~~l~~i~~~~~~~~~~~~l~~i~~~l~~~l~d~~~~VR~~a~~~l~~i  434 (458)
T d1ibrb_         360 DDIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTLIELMKDPSVVVRDTAAWTVGRI  434 (458)
T ss_dssp             TTHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSCTTTTCTTTTTHHHHHHHGGGCSCHHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCHhHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            34678888887787788999999988888887663   22  468899999999999999999888887776654

>d1xm9a1 a.118.1.24 (A:244-700) Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Plakophilin 1 helical region
domain: Plakophilin 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.73  E-value=1.7  Score=33.44  Aligned_cols=99  Identities=13%  Similarity=0.131  Sum_probs=71.4

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchhhhhhh
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAMEHSSI   83 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~el~~~   83 (201)
                      .++++|+    ++|.+.|......++++..+.+..    .-..-+|.++.+-.+++.++|+..+.-|...+..+++.-..
T Consensus         6 ~lv~~L~----~~~~~~~~~a~~~l~~l~~~~~~~~~~i~~~g~i~~Lv~lL~~~~~~v~~~a~~aL~~L~~~~~~~~~~   81 (457)
T d1xm9a1           6 KAVQYLS----SQDEKYQAIGAYYIQHTCFQDESAKQQVYQLGGICKLVDLLRSPNQNVQQAAAGALRNLVFRSTTNKLE   81 (457)
T ss_dssp             HHHHHHH----SSCTHHHHHHHHHHHHHTSSCSSHHHHHHHTTHHHHHHHHTTSSCHHHHHHHHHHHHHHHSSCHHHHHH
T ss_pred             HHHHHhC----CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHCCcHHHHHHHHCCCCHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4566665    456668999999999999653322    11233677888888999999999999999999776553222


Q ss_pred             -----HHHHHHHhhc-cCChhHHHHHHhhhhhh
Q 028959           84 -----LMPVLLAFLR-DGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        84 -----~v~~L~~LL~-D~~~~VvK~aI~~~t~l  110 (201)
                           .++.|..++. +.++.+...+..+..++
T Consensus        82 i~~~g~v~~li~~l~~~~~~~~~~~a~~~l~~l  114 (457)
T d1xm9a1          82 TRRQNGIREAVSLLRRTGNAEIQKQLTGLLWNL  114 (457)
T ss_dssp             HHHTTCHHHHHHHHTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHCCChHHHHHHHhccCcHHHHHHHHHHHHHH
Confidence                 3677777775 56777777777776665

>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin beta
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.92  E-value=2  Score=36.46  Aligned_cols=69  Identities=13%  Similarity=0.089  Sum_probs=35.3

Q ss_pred             hHHhhhHHHhhhcc-CcchhHHHHHHHHHHHHhhch----hhhhhhHHHHHHHh---h--ccCChhHHHHHHhhhhhhh
Q 028959           43 LAAELFPYLVELQS-SPESLVRKSLIETIEDIGLKA----MEHSSILMPVLLAF---L--RDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        43 ll~~fl~~il~f~~-d~~~~VRk~v~~fiee~c~~~----~el~~~~v~~L~~L---L--~D~~~~VvK~aI~~~t~ly  111 (201)
                      -.|++++.+++... +.+..+|.-....+..+|...    ..+.+...+.|..+   +  .+.++.|...++.|..+++
T Consensus       131 ~wpeli~~L~~~~~s~~~~~~~~~al~~l~~i~e~~~~~~~~~~~~~~~il~~i~~~~~~~~~~~~v~~~a~~~l~~~~  209 (861)
T d2bpta1         131 AWPELMKIMVDNTGAEQPENVKRASLLALGYMCESADPQSQALVSSSNNILIAIVQGAQSTETSKAVRLAALNALADSL  209 (861)
T ss_dssp             CCHHHHHHHHHHTSTTSCHHHHHHHHHHHHHHHHTSSTTSSTTGGGHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHG
T ss_pred             chHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHH
Confidence            34677777776543 344456666566666666422    22333322222222   2  2445667666766655443

>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Karyopherin beta2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.62  E-value=0.91  Score=40.59  Aligned_cols=70  Identities=23%  Similarity=0.237  Sum_probs=53.5

Q ss_pred             chHHhhhHHHhhhccCcchhHHHHHHHHHHHHhh---c-hhhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhh
Q 028959           42 SLAAELFPYLVELQSSPESLVRKSLIETIEDIGL---K-AMEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFF  111 (201)
Q Consensus        42 ~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~---~-~~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~ly  111 (201)
                      ..++.+++.+.+...+++..+|...+--++.++.   . ...+++.+++.|..+|+|++|.|-..+..|.+.+.
T Consensus       391 ~il~~~l~~l~~~l~s~~~~~reaa~~alg~i~eg~~~~~~~~l~~li~~l~~~l~d~~~~Vr~~a~~~l~~~~  464 (888)
T d1qbkb_         391 ELLPHILPLLKELLFHHEWVVKESGILVLGAIAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYA  464 (888)
T ss_dssp             SSHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHTTTSHHHHTTTHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHHHHhhhhhhhHHHHhcccchhhhHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            4677788877787788889999877766665543   2 25778999999999999999998777766665543

>d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin beta
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.21  E-value=4.2  Score=34.66  Aligned_cols=108  Identities=19%  Similarity=0.204  Sum_probs=73.9

Q ss_pred             HHHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc----hHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhch-----
Q 028959            7 DQALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS----LAAELFPYLVELQSSPESLVRKSLIETIEDIGLKA-----   77 (201)
Q Consensus         7 ~~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~----ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~-----   77 (201)
                      +.+.+.+.+.....+-..|-..+.....+.....+.    +++++++.+++...|+++.||......++..|...     
T Consensus       365 ~~~~~~i~~~l~~~~~~~r~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~d~~~~vr~~a~~~l~~~~~~~~~~~~  444 (876)
T d1qgra_         365 PHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTLIELMKDPSVVVRDTAAWTVGRICELLPEAAI  444 (876)
T ss_dssp             HHHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSCHHHHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHCGGGTS
T ss_pred             hhhHHHHHHhhccchHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHHHHcchhhh
Confidence            345666676666666555544444444444333333    55667777777889999999999999999888744     


Q ss_pred             -hhhhhhHHHHHHHhhccCChhHHHHHHhhhhhhhHHHH
Q 028959           78 -MEHSSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCRVL  115 (201)
Q Consensus        78 -~el~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~~L  115 (201)
                       .++...+++.+...+.+ ++.|..++..+..++.....
T Consensus       445 ~~~~~~~~~~~l~~~l~~-~~~v~~~~~~~l~~l~~~~~  482 (876)
T d1qgra_         445 NDVYLAPLLQCLIEGLSA-EPRVASNVCWAFSSLAEAAY  482 (876)
T ss_dssp             STTTHHHHHHHHHHHTTS-CHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHhhhHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHHH
Confidence             35567788888877765 68888888877777765443

>d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin beta
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.00  E-value=4.4  Score=31.46  Aligned_cols=108  Identities=15%  Similarity=0.144  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHhhcC--CChHHHHHHHHHHHHhhccCC-----CchHHhhhHHHhhhccCcchhHHHHHHHHHHHHhhchh
Q 028959            6 RDQALSLLAAANNH--GDLAVKLSSLKQVRGILSSAD-----PSLAAELFPYLVELQSSPESLVRKSLIETIEDIGLKAM   78 (201)
Q Consensus         6 ~~~v~~lLn~A~~~--~d~~~Kl~~L~q~~elll~~d-----p~ll~~fl~~il~f~~d~~~~VRk~v~~fiee~c~~~~   78 (201)
                      .++++..+......  .+...+...++.+..++....     ....+.+++-+.++..+++.++|+.+.+.+.+++...+
T Consensus       169 ~~~il~~~~~~l~~~~~~~~v~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~i~~~~~  248 (458)
T d1ibrb_         169 SNEILTAIIQGMRKEEPSNNVKLAATNALLNSLEFTKANFDKESERHFIMQVVCEATQCPDTRVRVAALQNLVKIMSLYY  248 (458)
T ss_dssp             HHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHTTTTHHHHTSHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhHhhHHHHhcCCCHHHHHHHHHHHHHHHHHhH
Confidence            34555655555543  344567777777777765432     12444566666678899999999999999999988665


Q ss_pred             hh-----hhhHHHHHHHhhccCChhHHHHHHhhhhhhhHH
Q 028959           79 EH-----SSILMPVLLAFLRDGDSGVAGKSIVCGTNFFCR  113 (201)
Q Consensus        79 el-----~~~~v~~L~~LL~D~~~~VvK~aI~~~t~lyr~  113 (201)
                      +.     .+.+.+.+...+.++++.|.+.++....++...
T Consensus       249 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~a~~~l~~i~~~  288 (458)
T d1ibrb_         249 QYMETYMGPALFAITIEAMKSDIDEVALQGIEFWSNVCDE  288 (458)
T ss_dssp             GGCTTTTTTTHHHHHHHHHHCSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHH
Confidence            33     333444555667788999999999877666443

>d1jdha_ a.118.1.1 (A:) beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: beta-Catenin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.97  E-value=2  Score=35.47  Aligned_cols=102  Identities=16%  Similarity=0.135  Sum_probs=73.9

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhhccCCCc---hH--HhhhHHHhhhc-cCcchhHHHHHHHHHHHHhhchhhh-
Q 028959            8 QALSLLAAANNHGDLAVKLSSLKQVRGILSSADPS---LA--AELFPYLVELQ-SSPESLVRKSLIETIEDIGLKAMEH-   80 (201)
Q Consensus         8 ~v~~lLn~A~~~~d~~~Kl~~L~q~~elll~~dp~---ll--~~fl~~il~f~-~d~~~~VRk~v~~fiee~c~~~~el-   80 (201)
                      +.+..|.+.....|...+......+.++.-+ ++.   +.  .++++.++.+- ...+.++++..+..+...|..+..- 
T Consensus        17 ~aip~L~~lL~~~~~~v~~~A~~~l~~l~~~-~~~~~~~~~~~~~v~~l~~~L~~~~~~~~~~~a~~~L~~l~~~~~~~~   95 (529)
T d1jdha_          17 RAIPELTKLLNDEDQVVVNKAAVMVHQLSKK-EASRHAIMRSPQMVSAIVRTMQNTNDVETARCTAGTLHNLSHHREGLL   95 (529)
T ss_dssp             CHHHHHHHHHTCSCHHHHHHHHHHHHHHHTS-HHHHHHHHTCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTTSHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-cHHHHHHHHhhhHHHHHHHHHcCCCCHHHHHHHHHHHHHHhCCchhHH
Confidence            3445555555567777888888888887643 332   21  46788888544 5677899999999999998744211 


Q ss_pred             ---hhhHHHHHHHhhccCChhHHHHHHhhhhhh
Q 028959           81 ---SSILMPVLLAFLRDGDSGVAGKSIVCGTNF  110 (201)
Q Consensus        81 ---~~~~v~~L~~LL~D~~~~VvK~aI~~~t~l  110 (201)
                         -...+|.|..+|+++++.|.+.++.+..+|
T Consensus        96 ~i~~~g~i~~Li~lL~~~~~~v~~~a~~aL~~l  128 (529)
T d1jdha_          96 AIFKSGGIPALVKMLGSPVDSVLFYAITTLHNL  128 (529)
T ss_dssp             HHHHTTHHHHHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHhCCCCHHHHHHHHHHHHHh
Confidence               124589999999999999999999887776

>d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin beta
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.15  E-value=11  Score=31.85  Aligned_cols=87  Identities=15%  Similarity=0.130  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHhhcc---CCCchHHhhhHHHhhh-ccCcchhHHHHHHHHHHHHhhch----hhhhhhHHHHHHHhhccC
Q 028959           24 VKLSSLKQVRGILSS---ADPSLAAELFPYLVEL-QSSPESLVRKSLIETIEDIGLKA----MEHSSILMPVLLAFLRDG   95 (201)
Q Consensus        24 ~Kl~~L~q~~elll~---~dp~ll~~fl~~il~f-~~d~~~~VRk~v~~fiee~c~~~----~el~~~~v~~L~~LL~D~   95 (201)
                      .+...+.....++-.   .-..+++.++|.++.. +...+.++|...++.++.+++..    ..++..+++.+...|.++
T Consensus       624 ~~~~~l~~l~~l~~~~~~~~~~~l~~ii~~l~~~l~~~~~~~v~~~a~~~l~~l~~~~~~~~~~~~~~i~~~l~~~l~~~  703 (876)
T d1qgra_         624 VQEDALMAVSTLVEVLGGEFLKYMEAFKPFLGIGLKNYAEYQVCLAAVGLVGDLCRALQSNIIPFCDEVMQLLLENLGNE  703 (876)
T ss_dssp             HHHHHHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHHHHHTCT
T ss_pred             hHHHHHHHHHHHHHHcchhhHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHhHHhhhhhHHHHHHHHHHHhCCc
Confidence            454555554444422   1234788889888864 45556789999999988777644    345777888888888765


Q ss_pred             C--hhHHHHHHhhhhhh
Q 028959           96 D--SGVAGKSIVCGTNF  110 (201)
Q Consensus        96 ~--~~VvK~aI~~~t~l  110 (201)
                      +  +.|--.++.|.+.+
T Consensus       704 ~~~~~~k~~~~~~i~~i  720 (876)
T d1qgra_         704 NVHRSVKPQILSVFGDI  720 (876)
T ss_dssp             TSCGGGHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            3  44444555555443