Citrus Sinensis ID: 038237

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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-
Protein Sequence
MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Secondary Structure (PSIPRED)
ccHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHccc
Coil and Loop (DISEMBL)
MGFTLEIfgtmknkdvISYTAIVSGYINREQVDIARQCfdqmperdYVLWTTMIDGYLRVNRFREALTLFQEIqtsnimgdeFTIVSILTARANLGALELGEWIKTYIdknkvkndifAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Flexible Loop (DISEMBL)
mgftleifgtmknkdviSYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQeiqtsnimgdEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Low Complexity Region (SEG)
MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Disordered region (IsUnstruct)
**FTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL******
Disordered Region (DISOPRED)
MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Disordered Region (DISEMBL)
MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Disordered Region (DISPRO)
MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	181	2.2.26 [Sep-21-2011]
Q9LSB8	687	Putative pentatricopeptid	yes	no	1.0	0.263	0.535	2e-56
Q9C866	570	Pentatricopeptide repeat-	no	no	0.961	0.305	0.402	2e-37
Q9SJZ3	681	Pentatricopeptide repeat-	no	no	0.961	0.255	0.386	4e-36
Q9SJG6	559	Pentatricopeptide repeat-	no	no	0.966	0.313	0.384	1e-35
Q9MA50	500	Pentatricopeptide repeat-	no	no	0.961	0.348	0.365	9e-34
Q38959	455	Pentatricopeptide repeat-	no	no	0.950	0.378	0.377	5e-33
Q9FG16	622	Pentatricopeptide repeat-	no	no	0.961	0.279	0.359	1e-32
O82380	738	Pentatricopeptide repeat-	no	no	0.961	0.235	0.368	6e-32
Q1PEU4	555	Pentatricopeptide repeat-	no	no	0.955	0.311	0.373	9e-32
Q9SIL5	534	Pentatricopeptide repeat-	no	no	0.966	0.327	0.363	9e-32

>sp|Q9LSB8|PP235_ARATH Putative pentatricopeptide repeat-containing protein At3g15930 OS=Arabidopsis thaliana GN=PCMP-E51 PE=3 SV=2

 Score =  218 bits (554), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 105/196 (53%), Positives = 139/196 (70%), Gaps = 15/196 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   + IF +MK +DVIS+T+IV GY+ R  + +AR  FDQMP RD + WT MIDGYLR 
Sbjct: 287 MDIAVRIFRSMKARDVISWTSIVKGYVERGNLKLARTYFDQMPVRDRISWTIMIDGYLRA 346

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
             F E+L +F+E+Q++ ++ DEFT+VS+LTA A+LG+LE+GEWIKTYIDKNK+KND+  G
Sbjct: 347 GCFNESLEIFREMQSAGMIPDEFTMVSVLTACAHLGSLEIGEWIKTYIDKNKIKNDVVVG 406

Query: 121 NALIDMYCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT M+VGLA +G G +A+ +F QM   SI+
Sbjct: 407 NALIDMYFKCGCSEKAQKVFHDMDQRDKFTWTAMVVGLANNGQGQEAIKVFFQMQDMSIQ 466

Query: 166 PDEVAYVGVLSARTHN 181
           PD++ Y+GVLSA  H+
Sbjct: 467 PDDITYLGVLSACNHS 482

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C866|PPR65_ARATH Pentatricopeptide repeat-containing protein At1g31430 OS=Arabidopsis thaliana GN=PCMP-E55 PE=2 SV=1

 Score =  154 bits (390), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 76/189 (40%), Positives = 119/189 (62%), Gaps = 15/189 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           +F +M++K+V  +T++V GY++  ++D AR  F++ P +D VLWT M++GY++ NRF EA
Sbjct: 204 VFDSMRDKNVKCWTSMVFGYVSTGRIDEARVLFERSPVKDVVLWTAMMNGYVQFNRFDEA 263

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           L LF+ +QT+ I  D F +VS+LT  A  GALE G+WI  YI++N+V  D   G AL+DM
Sbjct: 264 LELFRCMQTAGIRPDNFVLVSLLTGCAQTGALEQGKWIHGYINENRVTVDKVVGTALVDM 323

Query: 127 YCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           Y KC                   +WT++I GLA++G   +ALD++ +M    ++ D + +
Sbjct: 324 YAKCGCIETALEVFYEIKERDTASWTSLIYGLAMNGMSGRALDLYYEMENVGVRLDAITF 383

Query: 172 VGVLSARTH 180
           V VL+A  H
Sbjct: 384 VAVLTACNH 392

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJZ3|PP169_ARATH Pentatricopeptide repeat-containing protein At2g22410, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E28 PE=2 SV=1

 Score =  150 bits (380), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 73/189 (38%), Positives = 115/189 (60%), Gaps = 15/189 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           IF  ++ + ++S+T ++SGY     +D++R+ FD M E+D VLW  MI G ++  R ++A
Sbjct: 314 IFDNLEKRTIVSWTTMISGYARCGLLDVSRKLFDDMEEKDVVLWNAMIGGSVQAKRGQDA 373

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           L LFQE+QTSN   DE T++  L+A + LGAL++G WI  YI+K  +  ++  G +L+DM
Sbjct: 374 LALFQEMQTSNTKPDEITMIHCLSACSQLGALDVGIWIHRYIEKYSLSLNVALGTSLVDM 433

Query: 127 YCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           Y KC                   T+T +I GLA+ G+   A+  F++M+ A I PDE+ +
Sbjct: 434 YAKCGNISEALSVFHGIQTRNSLTYTAIIGGLALHGDASTAISYFNEMIDAGIAPDEITF 493

Query: 172 VGVLSARTH 180
           +G+LSA  H
Sbjct: 494 IGLLSACCH 502

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJG6|PP200_ARATH Pentatricopeptide repeat-containing protein At2g42920, chloroplastic OS=Arabidopsis thaliana GN=PCMP-E75 PE=2 SV=1

 Score =  149 bits (375), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 73/190 (38%), Positives = 118/190 (62%), Gaps = 15/190 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           IF  M   DV+++ +++ G+     +D A+  FD+MP+R+ V W +MI G++R  RF++A
Sbjct: 183 IFLGMIGFDVVAWNSMIMGFAKCGLIDQAQNLFDEMPQRNGVSWNSMISGFVRNGRFKDA 242

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           L +F+E+Q  ++  D FT+VS+L A A LGA E G WI  YI +N+ + +     ALIDM
Sbjct: 243 LDMFREMQEKDVKPDGFTMVSLLNACAYLGASEQGRWIHEYIVRNRFELNSIVVTALIDM 302

Query: 127 YCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           YCKC                    W +MI+GLA +G  ++A+D+FS++ R+ ++PD V++
Sbjct: 303 YCKCGCIEEGLNVFECAPKKQLSCWNSMILGLANNGFEERAMDLFSELERSGLEPDSVSF 362

Query: 172 VGVLSARTHN 181
           +GVL+A  H+
Sbjct: 363 IGVLTACAHS 372

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MA50|PPR13_ARATH Pentatricopeptide repeat-containing protein At1g05750, chloroplastic OS=Arabidopsis thaliana GN=PDE247 PE=2 SV=1

 Score =  142 bits (359), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 69/189 (36%), Positives = 109/189 (57%), Gaps = 15/189 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           +F  M++K+ +++  ++ GY+   QVD A + FD+MPERD + WT MI+G+++     EA
Sbjct: 131 VFDYMEDKNSVTWNTMIDGYMRSGQVDNAAKMFDKMPERDLISWTAMINGFVKKGYQEEA 190

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           L  F+E+Q S +  D   I++ L A  NLGAL  G W+  Y+     KN++   N+LID+
Sbjct: 191 LLWFREMQISGVKPDYVAIIAALNACTNLGALSFGLWVHRYVLSQDFKNNVRVSNSLIDL 250

Query: 127 YCKC-TVKF--------------TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           YC+C  V+F              +W ++IVG A +GN  ++L  F +M     KPD V +
Sbjct: 251 YCRCGCVEFARQVFYNMEKRTVVSWNSVIVGFAANGNAHESLVYFRKMQEKGFKPDAVTF 310

Query: 172 VGVLSARTH 180
            G L+A +H
Sbjct: 311 TGALTACSH 319

Arabidopsis thaliana (taxid: 3702)

>sp|Q38959|PP257_ARATH Pentatricopeptide repeat-containing protein At3g26630, chloroplastic OS=Arabidopsis thaliana GN=PCMP-A6 PE=2 SV=1

 Score =  140 bits (353), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 71/188 (37%), Positives = 105/188 (55%), Gaps = 16/188 (8%)

Query: 6   EIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFRE 65
           ++F  M  + ++S+T ++ G ++  Q+D A   F+QMP R+ V WT MI  Y++  R  E
Sbjct: 175 KVFDKMPGRSIVSWTTMLYGLVSNSQLDSAEIVFNQMPMRNVVSWTAMITAYVKNRRPDE 234

Query: 66  ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
           A  LF+ +Q  ++  +EFTIV++L A   LG+L +G W+  Y  KN    D F G ALID
Sbjct: 235 AFQLFRRMQVDDVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALID 294

Query: 126 MYCKC---------------TVKFTWTTMIVGLAISGNGDKALDMF-SQMLRASIKPDEV 169
           MY KC                   TW +MI  L + G G++AL +F      AS++PD +
Sbjct: 295 MYSKCGSLQDARKVFDVMQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEEASVEPDAI 354

Query: 170 AYVGVLSA 177
            +VGVLSA
Sbjct: 355 TFVGVLSA 362

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g06540 OS=Arabidopsis thaliana GN=PCMP-H88 PE=2 SV=1

 Score =  139 bits (349), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/189 (35%), Positives = 114/189 (60%), Gaps = 15/189 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           IFG M  +DV+S+T++V+GY     V+ AR+ FD+MP R+   W+ MI+GY + N F +A
Sbjct: 174 IFGQMGFRDVVSWTSMVAGYCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFEKA 233

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           + LF+ ++   ++ +E  +VS++++ A+LGALE GE    Y+ K+ +  ++  G AL+DM
Sbjct: 234 IDLFEFMKREGVVANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALVDM 293

Query: 127 YCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           + +C               T   +W+++I GLA+ G+  KA+  FSQM+     P +V +
Sbjct: 294 FWRCGDIEKAIHVFEGLPETDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDVTF 353

Query: 172 VGVLSARTH 180
             VLSA +H
Sbjct: 354 TAVLSACSH 362

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  136 bits (343), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 70/190 (36%), Positives = 112/190 (58%), Gaps = 16/190 (8%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           +F  M+ KD +++T ++ GY   E  + AR+  + MP++D V W  +I  Y +  +  EA
Sbjct: 289 LFDAMEEKDNVTWTTMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEA 348

Query: 67  LTLFQEIQ-TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
           L +F E+Q   N+  ++ T+VS L+A A +GALELG WI +YI K+ ++ +    +ALI 
Sbjct: 349 LIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIH 408

Query: 126 MYCKC-----------TVK----FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVA 170
           MY KC           +V+    F W+ MI GLA+ G G++A+DMF +M  A++KP+ V 
Sbjct: 409 MYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVT 468

Query: 171 YVGVLSARTH 180
           +  V  A +H
Sbjct: 469 FTNVFCACSH 478

Arabidopsis thaliana (taxid: 3702)

>sp|Q1PEU4|PP201_ARATH Pentatricopeptide repeat-containing protein At2g44880 OS=Arabidopsis thaliana GN=PCMP-E9 PE=2 SV=2

 Score =  136 bits (342), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 71/190 (37%), Positives = 110/190 (57%), Gaps = 17/190 (8%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           +F  M +K VI++T ++ GY N + +D AR+ FD MPER+ V W TMI GY +  + +E 
Sbjct: 198 LFDEMTHKTVITWTTMIHGYCNIKDIDAARKLFDAMPERNLVSWNTMIGGYCQNKQPQEG 257

Query: 67  LTLFQEIQ-TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
           + LFQE+Q T+++  D+ TI+S+L A ++ GAL LGEW   ++ + K+   +    A++D
Sbjct: 258 IRLFQEMQATTSLDPDDVTILSVLPAISDTGALSLGEWCHCFVQRKKLDKKVKVCTAILD 317

Query: 126 MYCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVA 170
           MY KC                   +W  MI G A++GN   ALD+F  M+    KPDE+ 
Sbjct: 318 MYSKCGEIEKAKRIFDEMPEKQVASWNAMIHGYALNGNARAALDLFVTMMIEE-KPDEIT 376

Query: 171 YVGVLSARTH 180
            + V++A  H
Sbjct: 377 MLAVITACNH 386

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIL5|PP165_ARATH Pentatricopeptide repeat-containing protein At2g20540 OS=Arabidopsis thaliana GN=PCMP-E78 PE=2 SV=1

 Score =  136 bits (342), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 69/190 (36%), Positives = 109/190 (57%), Gaps = 15/190 (7%)

Query: 6   EIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFRE 65
           ++F  M  +DVIS+ +++SGY    Q+  A+  F  M ++  V WT MI GY  +  + E
Sbjct: 165 KVFDEMYERDVISWNSLLSGYARLGQMKKAKGLFHLMLDKTIVSWTAMISGYTGIGCYVE 224

Query: 66  ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
           A+  F+E+Q + I  DE +++S+L + A LG+LELG+WI  Y ++          NALI+
Sbjct: 225 AMDFFREMQLAGIEPDEISLISVLPSCAQLGSLELGKWIHLYAERRGFLKQTGVCNALIE 284

Query: 126 MYCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVA 170
           MY KC V                 +W+TMI G A  GN   A++ F++M RA +KP+ + 
Sbjct: 285 MYSKCGVISQAIQLFGQMEGKDVISWSTMISGYAYHGNAHGAIETFNEMQRAKVKPNGIT 344

Query: 171 YVGVLSARTH 180
           ++G+LSA +H
Sbjct: 345 FLGLLSACSH 354

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	181
255553251	512	pentatricopeptide repeat-containing prot	0.994	0.351	0.656	8e-67
356528966	712	PREDICTED: putative pentatricopeptide re	0.961	0.244	0.640	1e-64
449491161	744	PREDICTED: LOW QUALITY PROTEIN: putative	0.994	0.241	0.610	3e-64
449436619	723	PREDICTED: putative pentatricopeptide re	0.994	0.248	0.610	3e-64
224134923	635	predicted protein [Populus trichocarpa]	0.922	0.262	0.664	5e-63
357468161	874	Pentatricopeptide repeat-containing prot	0.961	0.199	0.624	8e-63
225442904	724	PREDICTED: putative pentatricopeptide re	1.0	0.25	0.607	2e-60
15233234	687	pentatricopeptide repeat-containing prot	1.0	0.263	0.535	1e-54
9294596	695	unnamed protein product [Arabidopsis tha	1.0	0.260	0.535	1e-54
242051881	627	hypothetical protein SORBIDRAFT_03g00412	0.994	0.287	0.497	3e-50

>gi|255553251|ref|XP_002517668.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223543300|gb|EEF44832.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  258 bits (658), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 128/195 (65%), Positives = 150/195 (76%), Gaps = 15/195 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   L IF +MK++DVIS+TAIV+G+ N  Q+DIAR+ FDQMPERDYV WT MIDGYL+V
Sbjct: 240 MSVALGIFESMKSRDVISWTAIVTGFANIGQLDIARKYFDQMPERDYVSWTAMIDGYLQV 299

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
           N F+EAL LF E+QTSN+  DEFT+VSILTA A LGALELGEW++TYIDKNKVKND + G
Sbjct: 300 NCFKEALVLFHEMQTSNVKPDEFTMVSILTACAQLGALELGEWVRTYIDKNKVKNDAYVG 359

Query: 121 NALIDMYCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT MIVGLAI+G G++ALDMF QML+AS+ 
Sbjct: 360 NALIDMYFKCGNVEKARSIFNSMPRPDKFTWTAMIVGLAINGYGEEALDMFVQMLKASVT 419

Query: 166 PDEVAYVGVLSARTH 180
           PDE+ YVGVL A TH
Sbjct: 420 PDEITYVGVLCACTH 434

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528966|ref|XP_003533068.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15930-like [Glycine max]

 Score =  250 bits (639), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 121/189 (64%), Positives = 146/189 (77%), Gaps = 15/189 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           +F  MKN+DVIS+T+IV+G+ N  Q+D+AR+ FDQ+PERDYV WT MIDGYLR+NRF EA
Sbjct: 265 VFDNMKNRDVISWTSIVTGFANIGQIDLARKYFDQIPERDYVSWTAMIDGYLRMNRFIEA 324

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           L LF+E+Q SN+  DEFT+VSILTA A+LGALELGEW+KTYIDKN +KND F GNALIDM
Sbjct: 325 LALFREMQMSNVKPDEFTMVSILTACAHLGALELGEWVKTYIDKNSIKNDTFVGNALIDM 384

Query: 127 YCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           Y KC                 KFTWT MIVGLAI+G+G++AL MFS M+ ASI PDE+ Y
Sbjct: 385 YFKCGNVGKAKKVFKEMHHKDKFTWTAMIVGLAINGHGEEALAMFSNMIEASITPDEITY 444

Query: 172 VGVLSARTH 180
           +GVL A TH
Sbjct: 445 IGVLCACTH 453

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449491161|ref|XP_004158817.1| PREDICTED: LOW QUALITY PROTEIN: putative pentatricopeptide repeat-containing protein At3g15930-like [Cucumis sativus]

 Score =  249 bits (636), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 119/195 (61%), Positives = 149/195 (76%), Gaps = 15/195 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   L IF +M N+D+IS+T IVSG+ N  ++D+AR  FD+MPE+DYV WT MIDGY+R 
Sbjct: 291 MDSALGIFRSMNNRDIISWTTIVSGFTNLGEIDVARNYFDKMPEKDYVSWTAMIDGYIRS 350

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
           NRF+EAL LF+ +Q +N+  DEFT+VS+LTA A+LGALELGEWI+TYID+NK+KND+F  
Sbjct: 351 NRFKEALELFRNMQATNVKPDEFTMVSVLTACAHLGALELGEWIRTYIDRNKIKNDLFVR 410

Query: 121 NALIDMYCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT MIVGLA++G+G+KALDMFS ML+ASI 
Sbjct: 411 NALIDMYFKCGDVDKAESIFREMSQRDKFTWTAMIVGLAVNGHGEKALDMFSNMLKASIL 470

Query: 166 PDEVAYVGVLSARTH 180
           PDE+ Y+GVLSA TH
Sbjct: 471 PDEITYIGVLSACTH 485

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449436619|ref|XP_004136090.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15930-like [Cucumis sativus]

 Score =  249 bits (636), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 119/195 (61%), Positives = 149/195 (76%), Gaps = 15/195 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   L IF +M N+D+IS+T IVSG+ N  ++D+AR  FD+MPE+DYV WT MIDGY+R 
Sbjct: 270 MDSALGIFRSMNNRDIISWTTIVSGFTNLGEIDVARNYFDKMPEKDYVSWTAMIDGYIRS 329

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
           NRF+EAL LF+ +Q +N+  DEFT+VS+LTA A+LGALELGEWI+TYID+NK+KND+F  
Sbjct: 330 NRFKEALELFRNMQATNVKPDEFTMVSVLTACAHLGALELGEWIRTYIDRNKIKNDLFVR 389

Query: 121 NALIDMYCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT MIVGLA++G+G+KALDMFS ML+ASI 
Sbjct: 390 NALIDMYFKCGDVDKAESIFREMSQRDKFTWTAMIVGLAVNGHGEKALDMFSNMLKASIL 449

Query: 166 PDEVAYVGVLSARTH 180
           PDE+ Y+GVLSA TH
Sbjct: 450 PDEITYIGVLSACTH 464

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134923|ref|XP_002327523.1| predicted protein [Populus trichocarpa] gi|222836077|gb|EEE74498.1| predicted protein [Populus trichocarpa]

 Score =  245 bits (626), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 121/182 (66%), Positives = 143/182 (78%), Gaps = 15/182 (8%)

Query: 14  KDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEI 73
           KDVIS+TAIV+G++N  QVD AR+ F +MPERD+V WT MIDGYLR+N ++EAL LF+E+
Sbjct: 195 KDVISWTAIVTGFVNTGQVDAARKYFHKMPERDHVSWTAMIDGYLRLNCYKEALMLFREM 254

Query: 74  QTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC--- 130
           QTS I  DEFT+VS+LTA A LGALELGEWI+TYIDKNKVKND F GNALIDMY KC   
Sbjct: 255 QTSKIKPDEFTMVSVLTACAQLGALELGEWIRTYIDKNKVKNDTFVGNALIDMYFKCGNV 314

Query: 131 ------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR 178
                         KFTWT M+VGLAI+G G++AL+MFSQML+AS+ PDEV YVGVLSA 
Sbjct: 315 EMALSIFNTLPQRDKFTWTAMVVGLAINGCGEEALNMFSQMLKASVTPDEVTYVGVLSAC 374

Query: 179 TH 180
           TH
Sbjct: 375 TH 376

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357468161|ref|XP_003604365.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355505420|gb|AES86562.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  244 bits (624), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 118/189 (62%), Positives = 145/189 (76%), Gaps = 15/189 (7%)

Query: 7   IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
           +F  MK +DVIS+T+IV+G+ N  ++D+AR+ FDQMPERDYV WT MIDGYLR+NRF+E 
Sbjct: 297 VFDEMKTRDVISWTSIVTGFANTCRIDLARKYFDQMPERDYVSWTAMIDGYLRMNRFKEV 356

Query: 67  LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
           LTLF+++Q SN+  DEFT+VSILTA A+LGALELGEW KTYIDKNK+KND F GNALIDM
Sbjct: 357 LTLFRDMQMSNVKPDEFTMVSILTACAHLGALELGEWAKTYIDKNKIKNDTFIGNALIDM 416

Query: 127 YCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
           Y KC                 KFTWT MIVGLA +G+G++AL MFS ML AS+ PDE+ Y
Sbjct: 417 YFKCGNVEKAKKIFNEMQKKDKFTWTAMIVGLANNGHGEEALTMFSYMLEASVTPDEITY 476

Query: 172 VGVLSARTH 180
           +GV+ A TH
Sbjct: 477 IGVMCACTH 485

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442904|ref|XP_002264123.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15930 [Vitis vinifera]

 Score =  236 bits (603), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 119/196 (60%), Positives = 145/196 (73%), Gaps = 15/196 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   L IF  MK++DVIS+TAIV+G+ N  QV +AR  FD+MPERD+V WT MIDGYL+V
Sbjct: 271 MDTALGIFDNMKSRDVISWTAIVTGFTNLGQVGLARNYFDKMPERDFVSWTAMIDGYLQV 330

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
           NRF+E L+LF+E+Q +NI  DEFT+VSILTA A+LGALELGEWIK YIDKN++K D F G
Sbjct: 331 NRFKEVLSLFREMQAANIKPDEFTMVSILTACAHLGALELGEWIKAYIDKNEIKIDSFVG 390

Query: 121 NALIDMYCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY  C                 K +WT +I GLAI+G G++ALDMFSQML+ASI 
Sbjct: 391 NALIDMYFNCGNVEKAIRIFNAMPHRDKISWTAVIFGLAINGYGEEALDMFSQMLKASIT 450

Query: 166 PDEVAYVGVLSARTHN 181
           PDEV  +GVL A TH+
Sbjct: 451 PDEVTCIGVLCACTHS 466

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233234|ref|NP_188214.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|218546758|sp|Q9LSB8.2|PP235_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At3g15930 gi|332642227|gb|AEE75748.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  218 bits (554), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 105/196 (53%), Positives = 139/196 (70%), Gaps = 15/196 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   + IF +MK +DVIS+T+IV GY+ R  + +AR  FDQMP RD + WT MIDGYLR 
Sbjct: 287 MDIAVRIFRSMKARDVISWTSIVKGYVERGNLKLARTYFDQMPVRDRISWTIMIDGYLRA 346

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
             F E+L +F+E+Q++ ++ DEFT+VS+LTA A+LG+LE+GEWIKTYIDKNK+KND+  G
Sbjct: 347 GCFNESLEIFREMQSAGMIPDEFTMVSVLTACAHLGSLEIGEWIKTYIDKNKIKNDVVVG 406

Query: 121 NALIDMYCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT M+VGLA +G G +A+ +F QM   SI+
Sbjct: 407 NALIDMYFKCGCSEKAQKVFHDMDQRDKFTWTAMVVGLANNGQGQEAIKVFFQMQDMSIQ 466

Query: 166 PDEVAYVGVLSARTHN 181
           PD++ Y+GVLSA  H+
Sbjct: 467 PDDITYLGVLSACNHS 482

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9294596|dbj|BAB02877.1| unnamed protein product [Arabidopsis thaliana]

 Score =  217 bits (553), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 105/196 (53%), Positives = 139/196 (70%), Gaps = 15/196 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           M   + IF +MK +DVIS+T+IV GY+ R  + +AR  FDQMP RD + WT MIDGYLR 
Sbjct: 287 MDIAVRIFRSMKARDVISWTSIVKGYVERGNLKLARTYFDQMPVRDRISWTIMIDGYLRA 346

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
             F E+L +F+E+Q++ ++ DEFT+VS+LTA A+LG+LE+GEWIKTYIDKNK+KND+  G
Sbjct: 347 GCFNESLEIFREMQSAGMIPDEFTMVSVLTACAHLGSLEIGEWIKTYIDKNKIKNDVVVG 406

Query: 121 NALIDMYCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT M+VGLA +G G +A+ +F QM   SI+
Sbjct: 407 NALIDMYFKCGCSEKAQKVFHDMDQRDKFTWTAMVVGLANNGQGQEAIKVFFQMQDMSIQ 466

Query: 166 PDEVAYVGVLSARTHN 181
           PD++ Y+GVLSA  H+
Sbjct: 467 PDDITYLGVLSACNHS 482

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242051881|ref|XP_002455086.1| hypothetical protein SORBIDRAFT_03g004125 [Sorghum bicolor] gi|241927061|gb|EES00206.1| hypothetical protein SORBIDRAFT_03g004125 [Sorghum bicolor]

 Score =  203 bits (516), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 97/195 (49%), Positives = 134/195 (68%), Gaps = 15/195 (7%)

Query: 1   MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
           MG   ++F  M+ + V+S+T+++SG     QVD AR  FD+MPERD V WT MIDGY+  
Sbjct: 174 MGSAWKVFDGMQVRSVVSWTSLLSGLARLGQVDEARDLFDRMPERDTVSWTAMIDGYVWA 233

Query: 61  NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
            RFREAL +F+E+Q SN+  DEFT+VS++TA A LGALE+GEW++ Y+ +  +K D F G
Sbjct: 234 ARFREALEMFREMQYSNVSADEFTMVSVITACAQLGALEMGEWVRVYMSRQGIKMDAFVG 293

Query: 121 NALIDMYCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
           NALIDMY KC                 KFTWT +I+GLA++G  ++A++MF +M+R S  
Sbjct: 294 NALIDMYSKCGSIERALDVFKGMHHRDKFTWTAIILGLAVNGYEEEAIEMFHRMIRVSET 353

Query: 166 PDEVAYVGVLSARTH 180
           PDEV ++GVL+A TH
Sbjct: 354 PDEVTFIGVLTACTH 368

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	181
TAIR|locus:2093920	687	AT3G15930 "AT3G15930" [Arabido	1.0	0.263	0.535	4e-51
TAIR|locus:2206164	570	AT1G31430 [Arabidopsis thalian	0.961	0.305	0.407	2.5e-34
TAIR|locus:2041198	681	SLO1 "SLOW GROWTH 1" [Arabidop	0.961	0.255	0.391	8.6e-33
TAIR|locus:2045580	559	AT2G42920 [Arabidopsis thalian	0.966	0.313	0.389	9e-32
TAIR|locus:2090857	455	AT3G26630 "AT3G26630" [Arabido	0.950	0.378	0.388	6.9e-31
TAIR|locus:2198678	500	PDE247 "pigment defective 247"	0.961	0.348	0.365	8.1e-31
TAIR|locus:2054966	555	AHG11 "ABA hypersensitive germ	0.955	0.311	0.384	4.3e-29
TAIR|locus:2161018	530	AT5G56310 "AT5G56310" [Arabido	0.994	0.339	0.370	9.2e-29
TAIR|locus:2144143	622	AT5G06540 [Arabidopsis thalian	0.961	0.279	0.359	1.9e-28
TAIR|locus:2054789	534	MEF21 "mitochondrial editing f	0.966	0.327	0.368	2.7e-28

TAIR|locus:2093920 AT3G15930 "AT3G15930" [Arabidopsis thaliana (taxid:3702)]

 Score = 531 (192.0 bits), Expect = 4.0e-51, P = 4.0e-51
 Identities = 105/196 (53%), Positives = 139/196 (70%)

Query:     1 MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRV 60
             M   + IF +MK +DVIS+T+IV GY+ R  + +AR  FDQMP RD + WT MIDGYLR 
Sbjct:   287 MDIAVRIFRSMKARDVISWTSIVKGYVERGNLKLARTYFDQMPVRDRISWTIMIDGYLRA 346

Query:    61 NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG 120
               F E+L +F+E+Q++ ++ DEFT+VS+LTA A+LG+LE+GEWIKTYIDKNK+KND+  G
Sbjct:   347 GCFNESLEIFREMQSAGMIPDEFTMVSVLTACAHLGSLEIGEWIKTYIDKNKIKNDVVVG 406

Query:   121 NALIDMYCKCTV---------------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIK 165
             NALIDMY KC                 KFTWT M+VGLA +G G +A+ +F QM   SI+
Sbjct:   407 NALIDMYFKCGCSEKAQKVFHDMDQRDKFTWTAMVVGLANNGQGQEAIKVFFQMQDMSIQ 466

Query:   166 PDEVAYVGVLSARTHN 181
             PD++ Y+GVLSA  H+
Sbjct:   467 PDDITYLGVLSACNHS 482

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2206164 AT1G31430 [Arabidopsis thaliana (taxid:3702)]

 Score = 375 (137.1 bits), Expect = 2.5e-34, P = 2.5e-34
 Identities = 77/189 (40%), Positives = 121/189 (64%)

Query:     7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
             +F +M++K+V  +T++V GY++  ++D AR  F++ P +D VLWT M++GY++ NRF EA
Sbjct:   204 VFDSMRDKNVKCWTSMVFGYVSTGRIDEARVLFERSPVKDVVLWTAMMNGYVQFNRFDEA 263

Query:    67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
             L LF+ +QT+ I  D F +VS+LT  A  GALE G+WI  YI++N+V  D   G AL+DM
Sbjct:   264 LELFRCMQTAGIRPDNFVLVSLLTGCAQTGALEQGKWIHGYINENRVTVDKVVGTALVDM 323

Query:   127 YCKC-----------TVK----FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
             Y KC            +K     +WT++I GLA++G   +ALD++ +M    ++ D + +
Sbjct:   324 YAKCGCIETALEVFYEIKERDTASWTSLIYGLAMNGMSGRALDLYYEMENVGVRLDAITF 383

Query:   172 VGVLSARTH 180
             V VL+A  H
Sbjct:   384 VAVLTACNH 392

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2041198 SLO1 "SLOW GROWTH 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 365 (133.5 bits), Expect = 8.6e-33, P = 8.6e-33
 Identities = 74/189 (39%), Positives = 117/189 (61%)

Query:     7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
             IF  ++ + ++S+T ++SGY     +D++R+ FD M E+D VLW  MI G ++  R ++A
Sbjct:   314 IFDNLEKRTIVSWTTMISGYARCGLLDVSRKLFDDMEEKDVVLWNAMIGGSVQAKRGQDA 373

Query:    67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
             L LFQE+QTSN   DE T++  L+A + LGAL++G WI  YI+K  +  ++  G +L+DM
Sbjct:   374 LALFQEMQTSNTKPDEITMIHCLSACSQLGALDVGIWIHRYIEKYSLSLNVALGTSLVDM 433

Query:   127 YCKC-------TV--------KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
             Y KC       +V          T+T +I GLA+ G+   A+  F++M+ A I PDE+ +
Sbjct:   434 YAKCGNISEALSVFHGIQTRNSLTYTAIIGGLALHGDASTAISYFNEMIDAGIAPDEITF 493

Query:   172 VGVLSARTH 180
             +G+LSA  H
Sbjct:   494 IGLLSACCH 502

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2045580 AT2G42920 [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 9.0e-32, P = 9.0e-32
 Identities = 74/190 (38%), Positives = 121/190 (63%)

Query:     7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
             IF  M   DV+++ +++ G+     +D A+  FD+MP+R+ V W +MI G++R  RF++A
Sbjct:   183 IFLGMIGFDVVAWNSMIMGFAKCGLIDQAQNLFDEMPQRNGVSWNSMISGFVRNGRFKDA 242

Query:    67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
             L +F+E+Q  ++  D FT+VS+L A A LGA E G WI  YI +N+ + +     ALIDM
Sbjct:   243 LDMFREMQEKDVKPDGFTMVSLLNACAYLGASEQGRWIHEYIVRNRFELNSIVVTALIDM 302

Query:   127 YCKC-TVK-----FT---------WTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
             YCKC  ++     F          W +MI+GLA +G  ++A+D+FS++ R+ ++PD V++
Sbjct:   303 YCKCGCIEEGLNVFECAPKKQLSCWNSMILGLANNGFEERAMDLFSELERSGLEPDSVSF 362

Query:   172 VGVLSARTHN 181
             +GVL+A  H+
Sbjct:   363 IGVLTACAHS 372

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2090857 AT3G26630 "AT3G26630" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 73/188 (38%), Positives = 111/188 (59%)

Query:     6 EIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFRE 65
             ++F  M  + ++S+T ++ G ++  Q+D A   F+QMP R+ V WT MI  Y++  R  E
Sbjct:   175 KVFDKMPGRSIVSWTTMLYGLVSNSQLDSAEIVFNQMPMRNVVSWTAMITAYVKNRRPDE 234

Query:    66 ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
             A  LF+ +Q  ++  +EFTIV++L A   LG+L +G W+  Y  KN    D F G ALID
Sbjct:   235 AFQLFRRMQVDDVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALID 294

Query:   126 MYCKC-TVK-----F---------TWTTMIVGLAISGNGDKALDMFSQMLR-ASIKPDEV 169
             MY KC +++     F         TW +MI  L + G G++AL +F +M   AS++PD +
Sbjct:   295 MYSKCGSLQDARKVFDVMQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEEASVEPDAI 354

Query:   170 AYVGVLSA 177
              +VGVLSA
Sbjct:   355 TFVGVLSA 362

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2198678 PDE247 "pigment defective 247" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 8.1e-31, P = 8.1e-31
 Identities = 69/189 (36%), Positives = 109/189 (57%)

Query:     7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
             +F  M++K+ +++  ++ GY+   QVD A + FD+MPERD + WT MI+G+++     EA
Sbjct:   131 VFDYMEDKNSVTWNTMIDGYMRSGQVDNAAKMFDKMPERDLISWTAMINGFVKKGYQEEA 190

Query:    67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
             L  F+E+Q S +  D   I++ L A  NLGAL  G W+  Y+     KN++   N+LID+
Sbjct:   191 LLWFREMQISGVKPDYVAIIAALNACTNLGALSFGLWVHRYVLSQDFKNNVRVSNSLIDL 250

Query:   127 YCKC-TVKF--------------TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
             YC+C  V+F              +W ++IVG A +GN  ++L  F +M     KPD V +
Sbjct:   251 YCRCGCVEFARQVFYNMEKRTVVSWNSVIVGFAANGNAHESLVYFRKMQEKGFKPDAVTF 310

Query:   172 VGVLSARTH 180
              G L+A +H
Sbjct:   311 TGALTACSH 319

GO:0005739 "mitochondrion" evidence=ISM

GO:0009451 "RNA modification" evidence=IMP

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2054966 AHG11 "ABA hypersensitive germination 11" [Arabidopsis thaliana (taxid:3702)]

 Score = 328 (120.5 bits), Expect = 4.3e-29, P = 4.3e-29
 Identities = 73/190 (38%), Positives = 112/190 (58%)

Query:     7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
             +F  M +K VI++T ++ GY N + +D AR+ FD MPER+ V W TMI GY +  + +E 
Sbjct:   198 LFDEMTHKTVITWTTMIHGYCNIKDIDAARKLFDAMPERNLVSWNTMIGGYCQNKQPQEG 257

Query:    67 LTLFQEIQ-TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
             + LFQE+Q T+++  D+ TI+S+L A ++ GAL LGEW   ++ + K+   +    A++D
Sbjct:   258 IRLFQEMQATTSLDPDDVTILSVLPAISDTGALSLGEWCHCFVQRKKLDKKVKVCTAILD 317

Query:   126 MYCKC----TVK--F---------TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVA 170
             MY KC      K  F         +W  MI G A++GN   ALD+F  M+    KPDE+ 
Sbjct:   318 MYSKCGEIEKAKRIFDEMPEKQVASWNAMIHGYALNGNARAALDLFVTMMIEE-KPDEIT 376

Query:   171 YVGVLSARTH 180
              + V++A  H
Sbjct:   377 MLAVITACNH 386

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2161018 AT5G56310 "AT5G56310" [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 9.2e-29, P = 9.2e-29
 Identities = 73/197 (37%), Positives = 118/197 (59%)

Query:     1 MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMP--ERDYVLWTTMIDGYL 58
             +G   ++F  M  KDV  + A+++GY    ++D AR   + MP   R+ V WT +I GY 
Sbjct:   167 LGDARKMFDEMLVKDVNVWNALLAGYGKVGEMDEARSLLEMMPCWVRNEVSWTCVISGYA 226

Query:    59 RVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIF 118
             +  R  EA+ +FQ +   N+  DE T++++L+A A+LG+LELGE I +Y+D   +   + 
Sbjct:   227 KSGRASEAIEVFQRMLMENVEPDEVTLLAVLSACADLGSLELGERICSYVDHRGMNRAVS 286

Query:   119 AGNALIDMYCK------------CTVK---FTWTTMIVGLAISGNGDKALDMFSQMLRAS 163
               NA+IDMY K            C  +    TWTT+I GLA  G+G +AL MF++M++A 
Sbjct:   287 LNNAVIDMYAKSGNITKALDVFECVNERNVVTWTTIIAGLATHGHGAEALAMFNRMVKAG 346

Query:   164 IKPDEVAYVGVLSARTH 180
             ++P++V ++ +LSA +H
Sbjct:   347 VRPNDVTFIAILSACSH 363

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2144143 AT5G06540 [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 68/189 (35%), Positives = 114/189 (60%)

Query:     7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREA 66
             IFG M  +DV+S+T++V+GY     V+ AR+ FD+MP R+   W+ MI+GY + N F +A
Sbjct:   174 IFGQMGFRDVVSWTSMVAGYCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFEKA 233

Query:    67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM 126
             + LF+ ++   ++ +E  +VS++++ A+LGALE GE    Y+ K+ +  ++  G AL+DM
Sbjct:   234 IDLFEFMKREGVVANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALVDM 293

Query:   127 YCKC---------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY 171
             + +C               T   +W+++I GLA+ G+  KA+  FSQM+     P +V +
Sbjct:   294 FWRCGDIEKAIHVFEGLPETDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDVTF 353

Query:   172 VGVLSARTH 180
               VLSA +H
Sbjct:   354 TAVLSACSH 362

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2054789 MEF21 "mitochondrial editing factor 21" [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 2.7e-28, P = 2.7e-28
 Identities = 70/190 (36%), Positives = 110/190 (57%)

Query:     6 EIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFRE 65
             ++F  M  +DVIS+ +++SGY    Q+  A+  F  M ++  V WT MI GY  +  + E
Sbjct:   165 KVFDEMYERDVISWNSLLSGYARLGQMKKAKGLFHLMLDKTIVSWTAMISGYTGIGCYVE 224

Query:    66 ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID 125
             A+  F+E+Q + I  DE +++S+L + A LG+LELG+WI  Y ++          NALI+
Sbjct:   225 AMDFFREMQLAGIEPDEISLISVLPSCAQLGSLELGKWIHLYAERRGFLKQTGVCNALIE 284

Query:   126 MYCKCTV-------------K--FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVA 170
             MY KC V             K   +W+TMI G A  GN   A++ F++M RA +KP+ + 
Sbjct:   285 MYSKCGVISQAIQLFGQMEGKDVISWSTMISGYAYHGNAHGAIETFNEMQRAKVKPNGIT 344

Query:   171 YVGVLSARTH 180
             ++G+LSA +H
Sbjct:   345 FLGLLSACSH 354

GO:0005739 "mitochondrion" evidence=ISM

GO:0080156 "mitochondrial mRNA modification" 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

Your Input: fgenesh4_pg.C_scaffold_44000037 hypothetical protein (635 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	181
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-25
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-25
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-23
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-22
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-20
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.003

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  102 bits (255), Expect = 1e-25
 Identities = 52/183 (28%), Positives = 97/183 (53%), Gaps = 19/183 (10%)

Query: 13  NKDVISYTAIVSGYINR----EQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALT 68
            K +ISY  + +  I      + +D A + F  +PE+D + WT++I G    NR  EAL 
Sbjct: 417 RKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALI 476

Query: 69  LFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC 128
            F+++  + +  +  T+++ L+A A +GAL  G+ I  ++ +  +  D F  NAL+D+Y 
Sbjct: 477 FFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYV 535

Query: 129 KCT------VKF--------TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGV 174
           +C        +F        +W  ++ G    G G  A+++F++M+ + + PDEV ++ +
Sbjct: 536 RCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISL 595

Query: 175 LSA 177
           L A
Sbjct: 596 LCA 598

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  100 bits (250), Expect = 5e-25
 Identities = 48/161 (29%), Positives = 77/161 (47%), Gaps = 15/161 (9%)

Query: 32  VDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA 91
           ++ AR  FD MPE+  V W +M+ GY       EAL L+ E++ S +  D+FT   ++  
Sbjct: 275 IEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI 334

Query: 92  RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC----TVKF-----------TW 136
            + L  LE  +     + +     DI A  AL+D+Y K       +            +W
Sbjct: 335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISW 394

Query: 137 TTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA 177
             +I G    G G KA++MF +M+   + P+ V ++ VLSA
Sbjct: 395 NALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA 435

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 94.1 bits (234), Expect = 9e-23
 Identities = 57/179 (31%), Positives = 92/179 (51%), Gaps = 18/179 (10%)

Query: 15  DVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFRE-ALTLFQEI 73
           DV    +++  Y++      A + F +M  +D V WT MI GY + N   + AL  +  +
Sbjct: 322 DVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEK-NGLPDKALETYALM 380

Query: 74  QTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMY--CKCT 131
           +  N+  DE TI S+L+A A LG L++G  +    ++  + + +   NALI+MY  CKC 
Sbjct: 381 EQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCI 440

Query: 132 VK-------------FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA 177
            K              +WT++I GL ++    +AL  F QML  ++KP+ V  +  LSA
Sbjct: 441 DKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSA 498

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 92.6 bits (230), Expect = 3e-22
 Identities = 60/191 (31%), Positives = 91/191 (47%), Gaps = 24/191 (12%)

Query: 2   GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVN 61
           GF L++       DV++  A+++ Y+    V  AR  FD+MP RD + W  MI GY    
Sbjct: 217 GFELDV-------DVVN--ALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENG 267

Query: 62  RFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGN 121
              E L LF  ++  ++  D  TI S+++A   LG   LG  +  Y+ K     D+   N
Sbjct: 268 ECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCN 327

Query: 122 ALIDMYC---------------KCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP 166
           +LI MY                +     +WT MI G   +G  DKAL+ ++ M + ++ P
Sbjct: 328 SLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSP 387

Query: 167 DEVAYVGVLSA 177
           DE+    VLSA
Sbjct: 388 DEITIASVLSA 398

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 85.3 bits (211), Expect = 9e-20
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 19/151 (12%)

Query: 35  ARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN 94
           AR+ FD+MPER+   W T+I G +    +REA  LF+E+       +  T V +L A A 
Sbjct: 177 ARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG 236

Query: 95  LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC-----------------TVKFTWT 137
           LG+   G+ +   + K  V  D F   ALIDMY KC                 TV   W 
Sbjct: 237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTV--AWN 294

Query: 138 TMIVGLAISGNGDKALDMFSQMLRASIKPDE 168
           +M+ G A+ G  ++AL ++ +M  + +  D+
Sbjct: 295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQ 325

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 71.0 bits (174), Expect = 8e-15
 Identities = 42/154 (27%), Positives = 67/154 (43%), Gaps = 15/154 (9%)

Query: 39  FDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL 98
           F +MPERD   W  ++ GY +   F EAL L+  +  + +  D +T   +L     +  L
Sbjct: 144 FGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDL 203

Query: 99  ELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC---------------TVKFTWTTMIVGL 143
             G  +  ++ +   + D+   NALI MY KC                   +W  MI G 
Sbjct: 204 ARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGY 263

Query: 144 AISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA 177
             +G   + L++F  M   S+ PD +    V+SA
Sbjct: 264 FENGECLEGLELFFTMRELSVDPDLMTITSVISA 297

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 52.6 bits (126), Expect = 2e-08
 Identities = 25/90 (27%), Positives = 48/90 (53%)

Query: 15  DVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQ 74
           D+++ TA+V  Y    +++ AR  FD+MP ++ + W  +I GY    R  +A+ +F+ + 
Sbjct: 359 DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMI 418

Query: 75  TSNIMGDEFTIVSILTARANLGALELGEWI 104
              +  +  T +++L+A    G  E G  I
Sbjct: 419 AEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 43.9 bits (105), Expect = 6e-07
 Identities = 13/44 (29%), Positives = 24/44 (54%)

Query: 134 FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA 177
            T+ T+I G    G  ++AL +F++M +  IKP+   Y  ++  
Sbjct: 4   VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.5 bits (96), Expect = 8e-06
 Identities = 13/35 (37%), Positives = 22/35 (62%)

Query: 134 FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE 168
            T+ T+I GL  +G  ++AL++F +M    I+PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 40.5 bits (96), Expect = 1e-05
 Identities = 13/48 (27%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 14 KDVISYTAIVSGYINREQVDIARQCFDQMPER----DYVLWTTMIDGY 57
           DV++Y  ++ GY  + +V+ A + F++M +R    +   ++ +IDG 
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 39.3 bits (93), Expect = 3e-05
 Identities = 15/46 (32%), Positives = 25/46 (54%)

Query: 46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA 91
          D V + T+IDGY +  +  EAL LF E++   I  + +T   ++  
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 40.6 bits (95), Expect = 2e-04
 Identities = 30/145 (20%), Positives = 61/145 (42%), Gaps = 18/145 (12%)

Query: 52  TMIDGYLRVNRFREALTLFQ--EIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYID 109
           + I+  +   R REAL LF+  E      +    T  +++ A   L ++   + +  +++
Sbjct: 92  SQIEKLVACGRHREALELFEILEAGCPFTLPAS-TYDALVEACIALKSIRCVKAVYWHVE 150

Query: 110 KNKVKNDIFAGNALIDMYCKCTV---------------KFTWTTMIVGLAISGNGDKALD 154
            +  + D +  N ++ M+ KC +                 +W T+I GL  +GN  +A  
Sbjct: 151 SSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFA 210

Query: 155 MFSQMLRASIKPDEVAYVGVLSART 179
           +F +M       +   +V +L A  
Sbjct: 211 LFREMWEDGSDAEPRTFVVMLRASA 235

Length = 697

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.0 bits (87), Expect = 2e-04
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNI 78
          V + ++I GY +  +  EAL LF+E++   +
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 36.3 bits (85), Expect = 4e-04
 Identities = 8/31 (25%), Positives = 18/31 (58%)

Query: 134 FTWTTMIVGLAISGNGDKALDMFSQMLRASI 164
            T+ ++I G   +G  ++AL++F +M    +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.1 bits (82), Expect = 8e-04
 Identities = 13/31 (41%), Positives = 19/31 (61%)

Query: 48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNI 78
          V + T+IDG  +  R  EAL LF+E++   I
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 38.7 bits (90), Expect = 0.001
 Identities = 41/168 (24%), Positives = 70/168 (41%), Gaps = 30/168 (17%)

Query: 19  YTAIVSGYINREQVDIARQCFDQMPER----DYVLWTTMIDGYLRVNRFREALTLFQEIQ 74
           YT  V+    +   D A   +D M ++    D V ++ ++D         +A  + Q+ +
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 75  TSNIMGDEFTIVSILTARANLG----ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC 130
              I     +  S++ A +N      ALEL E IK+     K++  +   NALI   C+ 
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS----IKLRPTVSTMNALITALCE- 731

Query: 131 TVKFTWTTMIVGLAISGNG-DKALDMFSQMLRASIKPDEVAYVGVLSA 177
                           GN   KAL++ S+M R  + P+ + Y  +L A
Sbjct: 732 ----------------GNQLPKALEVLSEMKRLGLCPNTITYSILLVA 763

Length = 1060

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 33.7 bits (78), Expect = 0.003
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 134 FTWTTMIVGLAISGNGDKALDMFSQMLRASIKP 166
            T+  +++ LA +G+ D AL +  +M  + +KP
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	181
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PF13041	50	PPR_2: PPR repeat family	99.72
PF13041	50	PPR_2: PPR repeat family	99.69
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.59
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.53
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.46
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.31
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.28
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.27
PF12854	34	PPR_1: PPR repeat	99.08
PF12854	34	PPR_1: PPR repeat	99.06
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	99.04
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.99
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.97
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.9
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.9
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.88
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.8
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.79
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.77
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.75
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.73
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.73
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.7
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.7
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.68
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.66
PRK12370	553	invasion protein regulator; Provisional	98.65
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.64
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.62
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.58
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.56
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.56
PRK12370	553	invasion protein regulator; Provisional	98.53
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.49
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.45
PRK11189	296	lipoprotein NlpI; Provisional	98.43
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.42
KOG1126	638	consensus DNA-binding cell division cycle control	98.4
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.4
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.4
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.4
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.39
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.35
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.35
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.34
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.31
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.31
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.29
PRK15359	144	type III secretion system chaperone protein SscB;	98.26
PRK15359	144	type III secretion system chaperone protein SscB;	98.24
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.2
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.17
PRK14574	822	hmsH outer membrane protein; Provisional	98.13
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.13
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.12
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.12
KOG2003	840	consensus TPR repeat-containing protein [General f	98.11
KOG1129	478	consensus TPR repeat-containing protein [General f	98.1
PRK14574	822	hmsH outer membrane protein; Provisional	98.09
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.08
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.07
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.01
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.0
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.0
KOG1126	638	consensus DNA-binding cell division cycle control	98.0
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.98
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.97
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.95
KOG2003	840	consensus TPR repeat-containing protein [General f	97.94
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.9
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.88
PRK11189	296	lipoprotein NlpI; Provisional	97.86
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.83
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.81
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.78
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.77
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.76
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.76
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.71
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.7
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.7
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.69
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.68
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.63
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.62
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.59
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.58
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.58
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.55
KOG3941	406	consensus Intermediate in Toll signal transduction	97.52
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.5
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.49
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.49
KOG0547	606	consensus Translocase of outer mitochondrial membr	97.49
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.48
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.4
KOG2076	895	consensus RNA polymerase III transcription factor	97.34
KOG1129	478	consensus TPR repeat-containing protein [General f	97.32
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.31
KOG3941	406	consensus Intermediate in Toll signal transduction	97.29
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.28
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.27
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.26
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.26
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.26
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.22
PLN02789	320	farnesyltranstransferase	97.21
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.2
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.06
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.04
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.0
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.99
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.97
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.93
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.88
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.88
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.88
KOG1915	677	consensus Cell cycle control protein (crooked neck	96.87
KOG2076	895	consensus RNA polymerase III transcription factor	96.86
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.84
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.81
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.79
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.75
PF12688	120	TPR_5: Tetratrico peptide repeat	96.71
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.7
PLN02789	320	farnesyltranstransferase	96.69
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.66
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.66
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.6
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.59
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.57
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.55
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.51
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.48
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.48
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.47
PRK10803	263	tol-pal system protein YbgF; Provisional	96.44
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.41
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.33
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.33
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.31
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.29
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.28
PRK10803	263	tol-pal system protein YbgF; Provisional	96.28
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.26
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.25
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.24
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.19
KOG0495	913	consensus HAT repeat protein [RNA processing and m	96.18
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.16
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.13
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.07
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.06
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.06
PF13371	73	TPR_9: Tetratricopeptide repeat	96.01
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.0
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.85
KOG0553	304	consensus TPR repeat-containing protein [General f	95.83
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.8
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	95.73
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.72
KOG1128	777	consensus Uncharacterized conserved protein, conta	95.68
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.62
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.58
KOG1125	579	consensus TPR repeat-containing protein [General f	95.44
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.43
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.33
PF13371	73	TPR_9: Tetratricopeptide repeat	95.26
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.12
KOG0495	913	consensus HAT repeat protein [RNA processing and m	95.1
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.01
PF13762	145	MNE1: Mitochondrial splicing apparatus component	94.97
PRK14720	906	transcript cleavage factor/unknown domain fusion p	94.94
KOG3785	557	consensus Uncharacterized conserved protein [Funct	94.91
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.87
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	94.85
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.74
KOG0553	304	consensus TPR repeat-containing protein [General f	94.72
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.65
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.61
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.59
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.57
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.45
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.09
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	94.03
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.02
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.95
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.78
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.78
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.61
PF13428	44	TPR_14: Tetratricopeptide repeat	93.45
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.38
PF13929	292	mRNA_stabil: mRNA stabilisation	93.35
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	93.32
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	93.28
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	93.25
PF13512	142	TPR_18: Tetratricopeptide repeat	93.08
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	92.88
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.86
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	92.77
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.73
KOG3060	289	consensus Uncharacterized conserved protein [Funct	92.52
PRK15331	165	chaperone protein SicA; Provisional	92.42
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	92.38
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.35
smart00299	140	CLH Clathrin heavy chain repeat homology.	91.83
PF13428	44	TPR_14: Tetratricopeptide repeat	91.79
PRK04841	903	transcriptional regulator MalT; Provisional	91.78
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	91.7
PF13929	292	mRNA_stabil: mRNA stabilisation	91.62
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	91.6
smart00299	140	CLH Clathrin heavy chain repeat homology.	91.42
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.36
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.36
PF13512	142	TPR_18: Tetratricopeptide repeat	91.16
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.11
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	90.95
KOG1125	579	consensus TPR repeat-containing protein [General f	90.92
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.86
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	90.76
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.63
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	90.63
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	90.59
PRK04841	903	transcriptional regulator MalT; Provisional	90.56
COG4700	251	Uncharacterized protein conserved in bacteria cont	90.45
PRK15331	165	chaperone protein SicA; Provisional	90.39
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.35
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.27
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	90.19
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	90.05
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.81
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	89.37
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.32
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	89.24
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	89.21
PF13762	145	MNE1: Mitochondrial splicing apparatus component	89.04
KOG0037	221	consensus Ca2+-binding protein, EF-Hand protein su	88.54
KOG2796	366	consensus Uncharacterized conserved protein [Funct	88.46
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	88.39
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	88.18
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	88.02
PRK10564	303	maltose regulon periplasmic protein; Provisional	87.35
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	87.26
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.18
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	87.11
PF12688	120	TPR_5: Tetratrico peptide repeat	87.1
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	87.1
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.07
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.9
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	86.19
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.89
KOG2376	652	consensus Signal recognition particle, subunit Srp	85.8
COG3118	304	Thioredoxin domain-containing protein [Posttransla	85.78
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	85.04
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	85.04
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	84.95
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	84.59
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	84.01
PRK10564	303	maltose regulon periplasmic protein; Provisional	83.97
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	83.89
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	83.79
cd08326	84	CARD_CASP9 Caspase activation and recruitment doma	83.64
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	83.45
PRK09687	280	putative lyase; Provisional	83.28
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.24
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	82.95
PF13431	34	TPR_17: Tetratricopeptide repeat	82.59
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	82.35
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	82.02
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	81.98
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	81.96
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	81.85
KOG2041	1189	consensus WD40 repeat protein [General function pr	81.42
PRK14700	300	recombination factor protein RarA; Provisional	81.19
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.17
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	81.1
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	80.65
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	80.47
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	80.32
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	80.25

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=1.4e-38  Score=255.32  Aligned_cols=168  Identities=30%  Similarity=0.511  Sum_probs=163.5

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ||..+|+++|++|++.|++++|.++|++|+.+|+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|+
T Consensus       257 ~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~  336 (697)
T PLN03081        257 GDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS  336 (697)
T ss_pred             ccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            56667889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------chHhHHHHHHHHHHcCChhHHHHHHHH
Q 038237           94 NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------VKFTWTTMIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------~~~~~~~li~~~~~~~~~~~a~~~~~~  158 (181)
                      +.|++++|.++++.|.+.|+.||..+|++|+++|++.|               |+.+||+||.+|++.|+.++|+++|++
T Consensus       337 ~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~  416 (697)
T PLN03081        337 RLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER  416 (697)
T ss_pred             hccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999988               899999999999999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHhhhccC
Q 038237          159 MLRASIKPDEVAYVGVLSARTHN  181 (181)
Q Consensus       159 m~~~~~~p~~~t~~~li~~~~~~  181 (181)
                      |.+.|+.||..||+++|.+|+++
T Consensus       417 M~~~g~~Pd~~T~~~ll~a~~~~  439 (697)
T PLN03081        417 MIAEGVAPNHVTFLAVLSACRYS  439 (697)
T ss_pred             HHHhCCCCCHHHHHHHHHHHhcC
Confidence            99999999999999999999874

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.9e-37  Score=252.02  Aligned_cols=179  Identities=20%  Similarity=0.302  Sum_probs=132.9

Q ss_pred             ccHHHHhhhcC------CCChhHHHHHHHHHhccCCHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHH
Q 038237            2 GFTLEIFGTMK------NKDVISYTAIVSGYINREQVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQ   71 (181)
Q Consensus         2 ~~a~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~   71 (181)
                      ++|.++|++|.      .||..+|+++|.+|++.|++++|.++|++|.+    |+..+|+++|.+|++.|++++|.++|+
T Consensus       559 deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~  638 (1060)
T PLN03218        559 DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYD  638 (1060)
T ss_pred             HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            45666666663      26666677777777777777777777776653    456677777777777777777777777


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-------------------c
Q 038237           72 EIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-------------------V  132 (181)
Q Consensus        72 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------------------~  132 (181)
                      +|.+.|+.||..+|++++++|++.|++++|.++++.|.+.|+.||..+|++||.+|++.|                   |
T Consensus       639 eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pd  718 (1060)
T PLN03218        639 DMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT  718 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            777777777777777777777777777777777777777777777777777777777666                   7


Q ss_pred             hHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          133 KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       133 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      ..+||+||.+|++.|++++|+++|++|...|+.||..||++||.+|++
T Consensus       719 vvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k  766 (1060)
T PLN03218        719 VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER  766 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            788888888888888888888888888888888888888888888875

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.8e-37  Score=250.59  Aligned_cols=179  Identities=20%  Similarity=0.326  Sum_probs=135.2

Q ss_pred             ccHHHHhhhcCC----CChhHHHHHHHHHhccCCHHHHHHHhcccC----CCcHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN----KDVISYTAIVSGYINREQVDIARQCFDQMP----ERDYVLWTTMIDGYLRVNRFREALTLFQEI   73 (181)
Q Consensus         2 ~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m   73 (181)
                      ++|+++|+.|.+    ||..+|+++|.+|++.|++++|.++|++|.    .||..+|++||.+|++.|++++|+++|++|
T Consensus       454 e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M  533 (1060)
T PLN03218        454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM  533 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            456677777653    677777777777777777777777777776    367777777777777777777777777777


Q ss_pred             HHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH--cCCCcchHHHHHHHHHhHhcC-------------------c
Q 038237           74 QTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDK--NKVKNDIFAGNALIDMYCKCT-------------------V  132 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~-------------------~  132 (181)
                      .+.|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|++||.+|++.|                   +
T Consensus       534 ~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~  613 (1060)
T PLN03218        534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT  613 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            7777777777777777777777777777777777765  467777777777777777766                   5


Q ss_pred             hHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          133 KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       133 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      ..+||.+|.+|++.|++++|.++|++|.+.|+.||..||++||++|++
T Consensus       614 ~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k  661 (1060)
T PLN03218        614 PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH  661 (1060)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            577777777777777777777777777777777777777777777765

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=9.8e-36  Score=239.01  Aligned_cols=179  Identities=27%  Similarity=0.477  Sum_probs=172.4

Q ss_pred             ccHHHHhhhcC----CCChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237            2 GFTLEIFGTMK----NKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus         2 ~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      +.|.+++..|.    .||..+|+.++++|++.|++++|.++|++|++||.++||++|.+|++.|++++|+++|++|.+.|
T Consensus       140 ~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g  219 (697)
T PLN03081        140 RCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDG  219 (697)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence            45677777775    38999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------chHhHHHHHHH
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------VKFTWTTMIVG  142 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------~~~~~~~li~~  142 (181)
                      +.|+..+|+.++.+|++.|+.+.+.+++..+.+.|+.||..+|++|+++|++.|               |+++||+||.+
T Consensus       220 ~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~  299 (697)
T PLN03081        220 SDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAG  299 (697)
T ss_pred             CCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999998               89999999999


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          143 LAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       143 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      |++.|++++|+++|++|.+.|+.||..||++++++|++
T Consensus       300 y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~  337 (697)
T PLN03081        300 YALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR  337 (697)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999986

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.3e-35  Score=242.90  Aligned_cols=167  Identities=34%  Similarity=0.526  Sum_probs=161.3

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ||+.+|+++|.+|++.|++++|.++|++|+.+|.++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+
T Consensus       220 ~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~  299 (857)
T PLN03077        220 LDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACE  299 (857)
T ss_pred             cccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Confidence            45566688888899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------chHhHHHHHHHHHHcCChhHHHHHHHH
Q 038237           94 NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------VKFTWTTMIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------~~~~~~~li~~~~~~~~~~~a~~~~~~  158 (181)
                      +.|+++.+.+++..+.+.|+.||..+||+|+.+|++.|               |..+||++|.+|++.|++++|+++|++
T Consensus       300 ~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~  379 (857)
T PLN03077        300 LLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYAL  379 (857)
T ss_pred             hcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999988               899999999999999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHhhhcc
Q 038237          159 MLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       159 m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      |.+.|+.||..||++++.+|++
T Consensus       380 M~~~g~~Pd~~t~~~ll~a~~~  401 (857)
T PLN03077        380 MEQDNVSPDEITIASVLSACAC  401 (857)
T ss_pred             HHHhCCCCCceeHHHHHHHHhc
Confidence            9999999999999999999976

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.2e-35  Score=241.65  Aligned_cols=179  Identities=29%  Similarity=0.556  Sum_probs=151.8

Q ss_pred             cHHHHhhhcCC----CChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237            3 FTLEIFGTMKN----KDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus         3 ~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      .|.+++..|..    ||..+|+++|.+|++.|++++|.++|++|..||.++||++|.+|++.|++++|+++|++|.+.|+
T Consensus       306 ~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~  385 (857)
T PLN03077        306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNV  385 (857)
T ss_pred             HHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            34444444432    67778888888888888888899999999888888999999999999999999999999988888


Q ss_pred             CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------------------
Q 038237           79 MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------------------  131 (181)
Q Consensus        79 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------------------  131 (181)
                      .||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|++|+++|++.|                           
T Consensus       386 ~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~  465 (857)
T PLN03077        386 SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGL  465 (857)
T ss_pred             CCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHH
Confidence            88888888888888888888888888888888888887777777777777665                           


Q ss_pred             --------------------------------------------------------------------------------
Q 038237          132 --------------------------------------------------------------------------------  131 (181)
Q Consensus       132 --------------------------------------------------------------------------------  131 (181)
                                                                                                      
T Consensus       466 ~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~  545 (857)
T PLN03077        466 RLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWN  545 (857)
T ss_pred             HHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHH
Confidence                                                                                            


Q ss_pred             -------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhccC
Q 038237          132 -------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTHN  181 (181)
Q Consensus       132 -------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  181 (181)
                             |+.+||+||.+|++.|+.++|+++|++|.+.|+.||.+||+.+|.+|+++
T Consensus       546 ~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  602 (857)
T PLN03077        546 QFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS  602 (857)
T ss_pred             HHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc
Confidence                   34669999999999999999999999999999999999999999999864

>PF13041 PPR_2: PPR repeat family

Probab=99.72  E-value=2.2e-17  Score=88.60  Aligned_cols=49  Identities=29%  Similarity=0.480  Sum_probs=46.0

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      |+.+||++|++|++.|++++|.++|++|++.|++||..||++||++|++
T Consensus         2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             chHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            6778888888888899999999999999999999999999999999986

>PF13041 PPR_2: PPR repeat family

Probab=99.69  E-value=1.3e-16  Score=85.63  Aligned_cols=50  Identities=32%  Similarity=0.603  Sum_probs=44.6

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            68889999999999999999999999999999999999999999998875

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.59  E-value=8.3e-14  Score=102.82  Aligned_cols=168  Identities=13%  Similarity=0.162  Sum_probs=142.1

Q ss_pred             HhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 038237            7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE   82 (181)
Q Consensus         7 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   82 (181)
                      ++.+....+..+|.++|.++||-...+.|.+++++-..    -+..+||.+|.+..-...    .+++.+|....++||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCch
Confidence            34444445778999999999999999999999999885    377888888887654433    7899999999999999


Q ss_pred             HHHHHHHHHHHccCCcch----HHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------------------
Q 038237           83 FTIVSILTARANLGALEL----GEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------------------  131 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------------------  131 (181)
                      .|+|+++.+..+.|+++.    |.+++.+|++-|++|...+|-.+|.-+++.+                           
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p  353 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITP  353 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCC
Confidence            999999999999998876    4678889999999999999999999888765                           


Q ss_pred             -------------------------------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237          132 -------------------------------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus       132 -------------------------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                                                                 ..+.|.-+....++....+..+.+|+.|.-.-+-|+.
T Consensus       354 ~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~  433 (625)
T KOG4422|consen  354 TDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHS  433 (625)
T ss_pred             chhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCc
Confidence                                                       4556778888888999999999999999988888999


Q ss_pred             hhHHHHHhhh
Q 038237          169 VAYVGVLSAR  178 (181)
Q Consensus       169 ~t~~~li~~~  178 (181)
                      .+...++++.
T Consensus       434 ~~m~~~lrA~  443 (625)
T KOG4422|consen  434 QTMIHLLRAL  443 (625)
T ss_pred             hhHHHHHHHH
Confidence            9998888864

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.53  E-value=1.1e-12  Score=99.43  Aligned_cols=173  Identities=10%  Similarity=0.033  Sum_probs=109.0

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCCC--c------HHHHHHHHHHHHhcCcHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPER--D------YVLWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~------~~~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      ++|+++|+++.+   ++..++..+...+.+.|++++|.+.++.+.+.  +      ...+..+...+.+.|++++|.+.|
T Consensus       124 ~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        124 DRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            355666666543   34456666667777777777777776666431  1      113445555666667777777777


Q ss_pred             HHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------------ch
Q 038237           71 QEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------------VK  133 (181)
Q Consensus        71 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------~~  133 (181)
                      +++.+.. +.+...+..+...+.+.|++++|...++++...+......+++.+...|.+.|                 +.
T Consensus       204 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~  282 (389)
T PRK11788        204 KKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGA  282 (389)
T ss_pred             HHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc
Confidence            7766543 12344566666777777777777777777776543333455666666666655                 33


Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      ..++.+...+.+.|++++|.++++++.+.  .|+..+++.++..
T Consensus       283 ~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~  324 (389)
T PRK11788        283 DLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDY  324 (389)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHH
Confidence            44567777777777888888877777664  5777777766654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.46  E-value=1e-11  Score=94.04  Aligned_cols=110  Identities=15%  Similarity=0.127  Sum_probs=58.9

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCCC-------cHHHHHHHHHHHHhcCcHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPER-------DYVLWTTMIDGYLRVNRFREALTLFQ   71 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~   71 (181)
                      ++|++.|.++..  | +..++..+...+.+.|++++|..+++.+...       ....+..+...|.+.|++++|.++|+
T Consensus        52 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~  131 (389)
T PRK11788         52 DKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFL  131 (389)
T ss_pred             HHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            345555555543  3 2334555556666666666666666555431       11345555555666666666666666


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           72 EIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        72 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ++.+.. +++..++..+...+.+.|++++|...++.+.+.+
T Consensus       132 ~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  171 (389)
T PRK11788        132 QLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLG  171 (389)
T ss_pred             HHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhc
Confidence            655431 2244555555555666666666666555555543

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.31  E-value=3.1e-10  Score=93.61  Aligned_cols=174  Identities=11%  Similarity=0.064  Sum_probs=120.0

Q ss_pred             cHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237            3 FTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus         3 ~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      +|.++++.+.+   ++...+..+...+.+.|++++|.+.|+.+..  |+..++..+...+.+.|++++|.+.++++.+..
T Consensus       687 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  766 (899)
T TIGR02917       687 SAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH  766 (899)
T ss_pred             HHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            34444444432   2344555556666666666666666666543  444556666667777777777777777766643


Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------------chHhHHHHH
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------------VKFTWTTMI  140 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------~~~~~~~li  140 (181)
                       +.+...+..+...+.+.|++++|...|+.+.+... .+...++.+...+...+                 +...+..+.
T Consensus       767 -~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  844 (899)
T TIGR02917       767 -PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAP-DNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLG  844 (899)
T ss_pred             -CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHhhCCCCcHHHHHHH
Confidence             34567777777888888888888888888887653 36667777776666554                 556677888


Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          141 VGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       141 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                      ..+.+.|++++|.+.|+++.+.+.. +..++..+..++.
T Consensus       845 ~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~  882 (899)
T TIGR02917       845 WLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALL  882 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHH
Confidence            8889999999999999999987543 7788877777654

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.28  E-value=5.2e-10  Score=92.26  Aligned_cols=157  Identities=9%  Similarity=-0.037  Sum_probs=91.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+..+...+.+.|++++|..+|+.+.+   .+..++..+...+...|++++|.++++.+.+.+ +.+...+..+...+.+
T Consensus       637 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~  715 (899)
T TIGR02917       637 ALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLR  715 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHH
Confidence            344444444444444444444444432   234455555555555555555555555555443 2344555566666666


Q ss_pred             cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHH
Q 038237           95 LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      .|++++|...++.+...+.  +..++..+...+.+.|                  +...++.+...|.+.|++++|.+.|
T Consensus       716 ~g~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  793 (899)
T TIGR02917       716 QKDYPAAIQAYRKALKRAP--SSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHY  793 (899)
T ss_pred             CCCHHHHHHHHHHHHhhCC--CchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            6777777777776666533  2345555555555554                  6677777888888888888888888


Q ss_pred             HHHHHcCCCCChhhHHHHHhhh
Q 038237          157 SQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       157 ~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      +++.+.. +++...++.+...+
T Consensus       794 ~~~~~~~-p~~~~~~~~l~~~~  814 (899)
T TIGR02917       794 RTVVKKA-PDNAVVLNNLAWLY  814 (899)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHH
Confidence            8887653 34556666655443

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.27  E-value=1.4e-10  Score=86.12  Aligned_cols=117  Identities=17%  Similarity=0.241  Sum_probs=99.5

Q ss_pred             CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           44 ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        44 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      ..+..+|.+||.|.|+-...+.|.+++.+-.....+.+..++|.+|.+-.-    .....++.+|......||..|+|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcCCchHhHHHH
Confidence            347789999999999999999999999999998888899999999887543    4448899999999999988888877


Q ss_pred             HHHhHhcCchHhHHHHHHHHHHcCChhH----HHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          124 IDMYCKCTVKFTWTTMIVGLAISGNGDK----ALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       124 l~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      ++...+                .|+++.    |++++.+|++-||.|+-.+|..+|.-+.+
T Consensus       280 L~c~ak----------------fg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~r  324 (625)
T KOG4422|consen  280 LSCAAK----------------FGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKR  324 (625)
T ss_pred             HHHHHH----------------hcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcc
Confidence            776666                787764    57899999999999999999999986553

>PF12854 PPR_1: PPR repeat

Probab=99.08  E-value=1.7e-10  Score=56.23  Aligned_cols=31  Identities=35%  Similarity=0.693  Sum_probs=20.7

Q ss_pred             CCChhHHHHHHHHHhccCCHHHHHHHhcccC
Q 038237           13 NKDVISYTAIVSGYINREQVDIARQCFDQMP   43 (181)
Q Consensus        13 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   43 (181)
                      .||..||+++|++||+.|++++|.++|++|+
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4666666666666666666666666666663

>PF12854 PPR_1: PPR repeat

Probab=99.06  E-value=1.6e-10  Score=56.33  Aligned_cols=32  Identities=9%  Similarity=0.038  Sum_probs=17.3

Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYI  108 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  108 (181)
                      |+.||..||+++|.++++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44555555555555555555555555555544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=99.04  E-value=4.7e-10  Score=55.03  Aligned_cols=35  Identities=40%  Similarity=0.724  Sum_probs=32.8

Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                      .+||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999984

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.99  E-value=9.7e-10  Score=53.62  Aligned_cols=34  Identities=29%  Similarity=0.563  Sum_probs=32.1

Q ss_pred             hHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 038237          133 KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP  166 (181)
Q Consensus       133 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  166 (181)
                      +.+||.+|.+|++.|+++.|.++|++|++.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3689999999999999999999999999999998

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=98.97  E-value=1.5e-08  Score=73.77  Aligned_cols=174  Identities=14%  Similarity=0.115  Sum_probs=88.3

Q ss_pred             ccHHHHhhhcCCC---ChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            2 GFTLEIFGTMKNK---DVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         2 ~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +.|++.|+++...   ++..+..++.. ...+++++|.+++...-+  ++...+...+..+.+.++++++.++++.....
T Consensus        61 ~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~  139 (280)
T PF13429_consen   61 DEAIEAYEKLLASDKANPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEEL  139 (280)
T ss_dssp             ----------------------------------------------------------H-HHHTT-HHHHHHHHHHHHH-
T ss_pred             ccccccccccccccccccccccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhc
Confidence            4566666666542   33356666666 678888888888776643  56677788888888999999999999997753


Q ss_pred             C-CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHH
Q 038237           77 N-IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWT  137 (181)
Q Consensus        77 ~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~  137 (181)
                      . .+++...|..+...+.+.|+.++|...+++..+..+. |....+.++..+...|                  |...|.
T Consensus       140 ~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~  218 (280)
T PF13429_consen  140 PAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWD  218 (280)
T ss_dssp             T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCH
T ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHH
Confidence            3 4567778888888889999999999999999887543 5666777777777665                  667788


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          138 TMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       138 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .+..++...|+.++|+.+|++.... .+.|......+.+++
T Consensus       219 ~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l  258 (280)
T PF13429_consen  219 ALAAAYLQLGRYEEALEYLEKALKL-NPDDPLWLLAYADAL  258 (280)
T ss_dssp             HHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHH
T ss_pred             HHHHHhccccccccccccccccccc-ccccccccccccccc
Confidence            9999999999999999999998774 223555555544443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.90  E-value=2.7e-09  Score=52.27  Aligned_cols=35  Identities=40%  Similarity=0.614  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE   82 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   82 (181)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36889999999999999999999999998988873

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.90  E-value=4.1e-08  Score=78.83  Aligned_cols=165  Identities=10%  Similarity=0.082  Sum_probs=98.1

Q ss_pred             CCCChhHHHHHHHHHhccCCHHHHHHHhcccCC----------------------------CcHHHHHHHHHHHHhcCcH
Q 038237           12 KNKDVISYTAIVSGYINREQVDIARQCFDQMPE----------------------------RDYVLWTTMIDGYLRVNRF   63 (181)
Q Consensus        12 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----------------------------~~~~~~~~li~~~~~~~~~   63 (181)
                      ..||.+||.++|.-||..|+++.|- +|..|+-                            |...+|..|..+|..+||+
T Consensus        21 i~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDl   99 (1088)
T KOG4318|consen   21 ILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDL   99 (1088)
T ss_pred             CCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccch
Confidence            3599999999999999999999998 8888851                            3667999999999999986


Q ss_pred             HH---HHHHHHHHH----HcCC-----------------CccHHH----------HHHHHHHHHcc------C-------
Q 038237           64 RE---ALTLFQEIQ----TSNI-----------------MGDEFT----------IVSILTARANL------G-------   96 (181)
Q Consensus        64 ~~---a~~~~~~m~----~~~~-----------------~p~~~~----------~~~l~~~~~~~------~-------   96 (181)
                      ..   ..+.++...    ..|+                 -||..+          |..++.-..+.      +       
T Consensus       100 i~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLr  179 (1088)
T KOG4318|consen  100 ILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLR  179 (1088)
T ss_pred             HHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHH
Confidence            44   333222211    1222                 122211          11111111000      0       


Q ss_pred             ----CcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-------------------chHhHHHHHHHHHHcCChhHHH
Q 038237           97 ----ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-------------------VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        97 ----~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------------------~~~~~~~li~~~~~~~~~~~a~  153 (181)
                          +....+++....+.....|+..++..+++.-...|                   +.+.|..++-+   .++...+.
T Consensus       180 qnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e  256 (1088)
T KOG4318|consen  180 QNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFE  256 (1088)
T ss_pred             HhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHH
Confidence                11112222222222212366666666666555544                   23333444433   66777888


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          154 DMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       154 ~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      .+++-|.+.||.|+..|+.--+..|..
T Consensus       257 ~vlrgmqe~gv~p~seT~adyvip~l~  283 (1088)
T KOG4318|consen  257 FVLRGMQEKGVQPGSETQADYVIPQLS  283 (1088)
T ss_pred             HHHHHHHHhcCCCCcchhHHHHHhhhc
Confidence            888889999999999998877666543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.88  E-value=1e-06  Score=61.38  Aligned_cols=156  Identities=12%  Similarity=0.051  Sum_probs=108.3

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ...+..+...+.+.|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+..- .+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHH
Confidence            34567777888888888888888887653   2456677777788888888888888888776532 2445666677777


Q ss_pred             HccCCcchHHHHHHHHHHcCCC-cchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVK-NDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      ...|++++|...++........ .....+..+...+...|                  +...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888888887764322 22334444444454444                  4556778888888899999999


Q ss_pred             HHHHHHHHcCCCCChhhHHH
Q 038237          154 DMFSQMLRASIKPDEVAYVG  173 (181)
Q Consensus       154 ~~~~~m~~~~~~p~~~t~~~  173 (181)
                      +.+++.... .+++...+..
T Consensus       190 ~~~~~~~~~-~~~~~~~~~~  208 (234)
T TIGR02521       190 AYLERYQQT-YNQTAESLWL  208 (234)
T ss_pred             HHHHHHHHh-CCCCHHHHHH
Confidence            999999876 2334444433

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.84  E-value=6.9e-09  Score=50.52  Aligned_cols=33  Identities=15%  Similarity=0.318  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG   80 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   80 (181)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888877

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.80  E-value=1e-06  Score=71.39  Aligned_cols=30  Identities=23%  Similarity=0.264  Sum_probs=15.9

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +...+..+...+.+.|++++|.+.|+++..
T Consensus       317 ~~~a~~~La~~l~~~G~~~eA~~~l~~al~  346 (656)
T PRK15174        317 LPYVRAMYARALRQVGQYTAASDEFVQLAR  346 (656)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            334444455555555555555555555554

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=98.79  E-value=3.5e-08  Score=71.78  Aligned_cols=157  Identities=15%  Similarity=0.121  Sum_probs=88.8

Q ss_pred             ccHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccC-----CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMP-----ERDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      ++|.+++...-+  +++..+..++..+.+.++++++.++++...     .++...|..+...+.+.|+.++|.+.+++..
T Consensus        94 ~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al  173 (280)
T PF13429_consen   94 EEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKAL  173 (280)
T ss_dssp             ------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345555554432  566677888888889999999988888854     2467778888888889999999999999987


Q ss_pred             HcCCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHh
Q 038237           75 TSNIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFT  135 (181)
Q Consensus        75 ~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~  135 (181)
                      +..  | |......++..+...|+.+++..+++...+.. +.|...+..+-.+|...|                  |...
T Consensus       174 ~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~  250 (280)
T PF13429_consen  174 ELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLW  250 (280)
T ss_dssp             HH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHH
T ss_pred             HcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccccccccc
Confidence            753  5 46777788888888899888888888887764 445556677777776655                  7888


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ...+.+++.+.|+.++|.++.++...
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            88888999999999999999988754

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.77  E-value=1.3e-06  Score=60.84  Aligned_cols=160  Identities=11%  Similarity=0.028  Sum_probs=118.8

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|.+.+++...  | +...+..+...+...|++++|.+.+++..+   .+...+..+...+...|++++|.+.|++...
T Consensus        48 ~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  127 (234)
T TIGR02521        48 EVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIE  127 (234)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            456666665543  4 455678888899999999999999987764   3566778888888999999999999999876


Q ss_pred             cCC-CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhH
Q 038237           76 SNI-MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTW  136 (181)
Q Consensus        76 ~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~  136 (181)
                      ... ......+..+...+...|++++|...+++..+.... +...+..+...+...|                  +...+
T Consensus       128 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  206 (234)
T TIGR02521       128 DPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESL  206 (234)
T ss_pred             ccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            432 223456667777888899999999999988876432 3455666666666555                  45566


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          137 TTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ..+...+...|+.++|..+.+.+...
T Consensus       207 ~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       207 WLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            67777888899999999988887653

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.75  E-value=1.6e-06  Score=70.31  Aligned_cols=29  Identities=24%  Similarity=0.229  Sum_probs=16.0

Q ss_pred             hHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          133 KFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       133 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ...+..+...+.+.|++++|...+++...
T Consensus       284 ~~a~~~lg~~l~~~g~~~eA~~~l~~al~  312 (656)
T PRK15174        284 VRIVTLYADALIRTGQNEKAIPLLQQSLA  312 (656)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            33455555555555556666555555554

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.73  E-value=1.4e-08  Score=48.24  Aligned_cols=31  Identities=29%  Similarity=0.542  Sum_probs=28.7

Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      ++||++|.+|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4799999999999999999999999999875

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.73  E-value=5.3e-08  Score=78.18  Aligned_cols=133  Identities=17%  Similarity=0.138  Sum_probs=92.9

Q ss_pred             CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC------------------------CccHHHHHHHHHHHHccCCcc
Q 038237           44 ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI------------------------MGDEFTIVSILTARANLGALE   99 (181)
Q Consensus        44 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~------------------------~p~~~~~~~l~~~~~~~~~~~   99 (181)
                      .|+.+||.++|.-||..|+.+.|- +|.-|+....                        .|...||..|..+|.+.||+.
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli  100 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLI  100 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchH
Confidence            478899999999999999999998 8877765433                        366677888888888887754


Q ss_pred             h---HHHHHHHHHH----cCC-----------------Ccch----------HHHHHHHHHhHhcC--------------
Q 038237          100 L---GEWIKTYIDK----NKV-----------------KNDI----------FAGNALIDMYCKCT--------------  131 (181)
Q Consensus       100 ~---a~~~~~~~~~----~~~-----------------~~~~----------~~~~~ll~~~~~~~--------------  131 (181)
                      .   +++-+..+..    .|+                 -||.          ..|..++....+.+              
T Consensus       101 ~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLrq  180 (1088)
T KOG4318|consen  101 LFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQ  180 (1088)
T ss_pred             HHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHHH
Confidence            4   2221211111    111                 1111          11222222222211              


Q ss_pred             ----------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          132 ----------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       132 ----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                                            +..+|.+.+++-..+|+.+.|..++.+|+++|++.+.+-|-.|+-+
T Consensus       181 nv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g  248 (1088)
T KOG4318|consen  181 NVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG  248 (1088)
T ss_pred             hccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc
Confidence                                  8889999999999999999999999999999999999888777655

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.70  E-value=3.6e-06  Score=64.38  Aligned_cols=172  Identities=15%  Similarity=0.129  Sum_probs=122.2

Q ss_pred             ccHHHHhhhcCC--CChhHHH--HHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVISYT--AIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +.|.++|.++.+  |+.....  .....+...|+.+.|.+.++.+.+   .++.....+...|.+.|++++|.+++..+.
T Consensus       135 ~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~  214 (398)
T PRK10747        135 ARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMA  214 (398)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            456777777664  5543333  335677788999999888888875   367778888889999999999998888887


Q ss_pred             HcCCCc-----------------------------------------cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           75 TSNIMG-----------------------------------------DEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        75 ~~~~~p-----------------------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      +.+..+                                         +......+..++.+.|+.++|..++++..+...
T Consensus       215 k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~  294 (398)
T PRK10747        215 KAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQY  294 (398)
T ss_pred             HcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            655331                                         222344556677788899999999888887543


Q ss_pred             CcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          114 KNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      .|....    +.+....+                  |...+.++-..+.+.+++++|.+.|+...+.  .|+..++..+-
T Consensus       295 ~~~l~~----l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La  368 (398)
T PRK10747        295 DERLVL----LIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLA  368 (398)
T ss_pred             CHHHHH----HHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence            332211    11111112                  7777888999999999999999999999974  69988877776


Q ss_pred             hhhc
Q 038237          176 SART  179 (181)
Q Consensus       176 ~~~~  179 (181)
                      ..+.
T Consensus       369 ~~~~  372 (398)
T PRK10747        369 DALD  372 (398)
T ss_pred             HHHH
Confidence            6543

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=98.70  E-value=2.5e-06  Score=68.76  Aligned_cols=159  Identities=11%  Similarity=-0.098  Sum_probs=123.7

Q ss_pred             ccHHHHhhhcCC-----C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN-----K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQE   72 (181)
Q Consensus         2 ~~a~~~~~~~~~-----~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~   72 (181)
                      ++|++.|++...     | +...|..+...+...|++++|...|+...+  | +...|..+...+...|++++|...|++
T Consensus       311 ~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~  390 (615)
T TIGR00990       311 EEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDK  390 (615)
T ss_pred             HHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            356666665542     3 334577777888899999999999998864  3 455788888888999999999999999


Q ss_pred             HHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chH
Q 038237           73 IQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKF  134 (181)
Q Consensus        73 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~  134 (181)
                      ..+.. +-+...|..+...+...|++++|...|++..+.... +...+..+-..+.+.|                  +..
T Consensus       391 al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~  468 (615)
T TIGR00990       391 ALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPD  468 (615)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChH
Confidence            87753 234678888888899999999999999998876433 4555555656665555                  677


Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .|+.+-..+...|++++|.+.|++....
T Consensus       469 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       469 VYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            8888999999999999999999998764

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=98.68  E-value=3.6e-06  Score=67.85  Aligned_cols=94  Identities=3%  Similarity=-0.172  Sum_probs=46.0

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      .+|..+...+...|++++|.+.|++...  | +...+..+...+.+.|++++|+..|++..+.. +-+...++.+-..+.
T Consensus       400 ~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~  478 (615)
T TIGR00990       400 DIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLL  478 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            3444444444555555555555544432  1 33344444455555555555555555544321 112344555555555


Q ss_pred             ccCCcchHHHHHHHHHHc
Q 038237           94 NLGALELGEWIKTYIDKN  111 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~  111 (181)
                      ..|++++|...|+.....
T Consensus       479 ~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       479 DQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HccCHHHHHHHHHHHHhc
Confidence            555555555555555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.66  E-value=2.6e-06  Score=71.51  Aligned_cols=98  Identities=6%  Similarity=-0.208  Sum_probs=48.2

Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------
Q 038237           61 NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------  131 (181)
Q Consensus        61 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------  131 (181)
                      |++++|...|++..+.  .|+...+..+-..+.+.|+.++|...++........ +...++.+-..+...|         
T Consensus       590 Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l  666 (987)
T PRK09782        590 GQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREML  666 (987)
T ss_pred             CCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            5555555555554432  234444555555555555555555555555544322 2233333333333333         


Q ss_pred             ---------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 ---------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 ---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                               +...+..+-.++...|++++|+..|++..+
T Consensus       667 ~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        667 ERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence                     444555555555555555555555555544

>PRK12370 invasion protein regulator; Provisional

Probab=98.65  E-value=3.2e-06  Score=67.32  Aligned_cols=126  Identities=6%  Similarity=-0.103  Sum_probs=86.7

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|.+.+++..+  | +...+..+-..+...|++++|...|++..+  | +...+..+-..+...|++++|...+++..+
T Consensus       321 ~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~  400 (553)
T PRK12370        321 IKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLK  400 (553)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            356666666553  4 555677777888889999999999998764  4 566788888888999999999999999877


Q ss_pred             cCCCccH-HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           76 SNIMGDE-FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        76 ~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      ..  |+. ..+..+...+...|++++|...+++......+-+...+..+-..+..
T Consensus       401 l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~  453 (553)
T PRK12370        401 LD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSL  453 (553)
T ss_pred             cC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHh
Confidence            53  432 22333444566678899999998887765322233334444444444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.64  E-value=2.7e-07  Score=56.67  Aligned_cols=85  Identities=13%  Similarity=0.144  Sum_probs=57.0

Q ss_pred             HHHHHHHccCCcchHHHHHHHHHHcCC-CcchHHHHHHHHHhHhcC-chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237           87 SILTARANLGALELGEWIKTYIDKNKV-KNDIFAGNALIDMYCKCT-VKFTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      .-|..|...+++.....+|+.+++.|+ .|++.+|+.++.+-+++. |.         ..-.++.-+.+.+|++|...++
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~---------~~ie~kl~~LLtvYqDiL~~~l  100 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDS---------EDIENKLTNLLTVYQDILSNKL  100 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccc---------hhHHHHHHHHHHHHHHHHHhcc
Confidence            344455555666666666666666666 666666666666655432 11         1113455678899999999999


Q ss_pred             CCChhhHHHHHhhhcc
Q 038237          165 KPDEVAYVGVLSARTH  180 (181)
Q Consensus       165 ~p~~~t~~~li~~~~~  180 (181)
                      +|+..||+.++.+..+
T Consensus       101 KP~~etYnivl~~Llk  116 (120)
T PF08579_consen  101 KPNDETYNIVLGSLLK  116 (120)
T ss_pred             CCcHHHHHHHHHHHHH
Confidence            9999999999987643

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.62  E-value=5.3e-08  Score=46.22  Aligned_cols=30  Identities=33%  Similarity=0.777  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      +|+++|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677777777777777777777777777653

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>TIGR00540 hemY_coli hemY protein

Probab=98.58  E-value=2.2e-05  Score=60.26  Aligned_cols=176  Identities=10%  Similarity=-0.011  Sum_probs=111.1

Q ss_pred             cHHHHhhhcCC--CChh--HHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--KDVI--SYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         3 ~a~~~~~~~~~--~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      .|.++|.+..+  |+..  ..-.....+.+.|+++.|.+.++.+.+  | +..+...+...+...|++++|.+++..+.+
T Consensus       136 ~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k  215 (409)
T TIGR00540       136 RANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAK  215 (409)
T ss_pred             HHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            44555554322  3332  233345666667777777777777664  2 555666777777777777777777666665


Q ss_pred             cCCC------------------------------------c-----cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           76 SNIM------------------------------------G-----DEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        76 ~~~~------------------------------------p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      .++.                                    |     +...+..+...+...|+.+.|..++++..+....
T Consensus       216 ~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd  295 (409)
T TIGR00540       216 AGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGD  295 (409)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCC
Confidence            5431                                    2     4455556666777788999999999888876443


Q ss_pred             cchHHHHHHHHHhHhc-------------------C-ch--HhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHH
Q 038237          115 NDIFAGNALIDMYCKC-------------------T-VK--FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYV  172 (181)
Q Consensus       115 ~~~~~~~~ll~~~~~~-------------------~-~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  172 (181)
                      .....+. ++..+...                   + |.  ....++-..+.+.|++++|.+.|+........||..++.
T Consensus       296 ~~~~~~~-~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~  374 (409)
T TIGR00540       296 DRAISLP-LCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLA  374 (409)
T ss_pred             cccchhH-HHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHH
Confidence            3211101 22211111                   1 55  666788888999999999999999766555679998888


Q ss_pred             HHHhhhc
Q 038237          173 GVLSART  179 (181)
Q Consensus       173 ~li~~~~  179 (181)
                      .+...+.
T Consensus       375 ~La~ll~  381 (409)
T TIGR00540       375 MAADAFD  381 (409)
T ss_pred             HHHHHHH
Confidence            7765543

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.56  E-value=1.7e-06  Score=53.18  Aligned_cols=81  Identities=16%  Similarity=0.068  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-CccHHHHHHHHHHHHccCC--------cchHHHHHHHHHHcCCCcchHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGDEFTIVSILTARANLGA--------LELGEWIKTYIDKNKVKNDIFA  119 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~--------~~~a~~~~~~~~~~~~~~~~~~  119 (181)
                      +-...|..+...++++....+|+.+++.|+ .|+..+|+.++++.++..-        +.....+++.|...+.+|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            445667777777999999999999999999 9999999999999987542        3356788999999999999999


Q ss_pred             HHHHHHHhHh
Q 038237          120 GNALIDMYCK  129 (181)
Q Consensus       120 ~~~ll~~~~~  129 (181)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999987654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.56  E-value=1.7e-06  Score=65.91  Aligned_cols=119  Identities=14%  Similarity=0.038  Sum_probs=98.3

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc--CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTS--NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      +......+++......+++++..++.+....  ....-..|.+++++.|.+.|..+.+..++..=...|+-||.+++|.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            6667788888888888888899888888764  23233345569999999999999999999999999999988888888


Q ss_pred             HHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          124 IDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       124 l~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      |+.+.+                .|++..|.++.-.|..++...+..|+..-+.+|.+
T Consensus       145 md~fl~----------------~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  145 MDHFLK----------------KGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHhh----------------cccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            877777                99999999999999999888888998888888754

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PRK12370 invasion protein regulator; Provisional

Probab=98.53  E-value=2.5e-05  Score=62.30  Aligned_cols=159  Identities=11%  Similarity=-0.036  Sum_probs=112.7

Q ss_pred             ccHHHHhhhcCC--CCh-hHHHHHHHHHh---------ccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHH
Q 038237            2 GFTLEIFGTMKN--KDV-ISYTAIVSGYI---------NREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREA   66 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~-~~~~~li~~~~---------~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a   66 (181)
                      ++|++.|++..+  |+. ..|..+-.++.         ..++.++|...+++..+   .+..++..+-..+...|++++|
T Consensus       278 ~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A  357 (553)
T PRK12370        278 QQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVG  357 (553)
T ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHH
Confidence            467778887665  543 34544443332         34558899999988875   3777888888888899999999


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------
Q 038237           67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------  131 (181)
Q Consensus        67 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------  131 (181)
                      ...|++..+.+ +-+...+..+-..+...|++++|...++...+....+....+. +...+...|               
T Consensus       358 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~-~~~~~~~~g~~eeA~~~~~~~l~~  435 (553)
T PRK12370        358 SLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGIT-KLWITYYHTGIDDAIRLGDELRSQ  435 (553)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHH-HHHHHHhccCHHHHHHHHHHHHHh
Confidence            99999998864 2245677888889999999999999999998875442222222 222222222               


Q ss_pred             ----chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 ----VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                          +...+..+-..+...|+.++|.+.++++...
T Consensus       436 ~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~  470 (553)
T PRK12370        436 HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ  470 (553)
T ss_pred             ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc
Confidence                3445677777888999999999999887654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.49  E-value=3.7e-05  Score=64.85  Aligned_cols=157  Identities=13%  Similarity=-0.019  Sum_probs=109.9

Q ss_pred             cHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237            3 FTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus         3 ~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      +|...|.+-..  |+......+...+.+.|++++|...|+.+..  ++...+..+...+.+.|++++|.+.+++..+.. 
T Consensus       494 eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-  572 (987)
T PRK09782        494 VALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-  572 (987)
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-
Confidence            45554444332  5544333344455688999999999887664  444556666777888899999999998887754 


Q ss_pred             CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHH
Q 038237           79 MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMI  140 (181)
Q Consensus        79 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li  140 (181)
                      +++...+..+.....+.|++++|...+++..+..  |+...|..+-..+.+.|                  +...++.+-
T Consensus       573 P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG  650 (987)
T PRK09782        573 LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALG  650 (987)
T ss_pred             CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            2222333333344455699999999998888764  45667777777777766                  677788888


Q ss_pred             HHHHHcCChhHHHHHHHHHHHc
Q 038237          141 VGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       141 ~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ..+...|++++|.+.+++..+.
T Consensus       651 ~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        651 YALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            8889999999999999988774

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.45  E-value=1.8e-06  Score=59.35  Aligned_cols=98  Identities=18%  Similarity=0.194  Sum_probs=58.9

Q ss_pred             cHHHHHHHHHHHHc-----cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC--chHhHHHHHHHHHHcCChhHHH
Q 038237           81 DEFTIVSILTARAN-----LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT--VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        81 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      |..+|..+++.+.+     .|..+-....+..|.+.|++-|..+|+.||+.+=+..  ....+-++.-.|  -.+-+-|+
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hy--p~Qq~c~i  123 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHY--PRQQECAI  123 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccC--cHHHHHHH
Confidence            44444444444432     2334444445555555555555555555555554321  111222222222  33667799


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          154 DMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       154 ~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      +++++|...||-||..|+..|++.|.+
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~  150 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGR  150 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhcc
Confidence            999999999999999999999998875

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.43  E-value=6e-05  Score=55.42  Aligned_cols=165  Identities=12%  Similarity=-0.006  Sum_probs=106.9

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +|...|++..+  | +...|+.+-..+.+.|++++|.+.|+...+  | +..+|..+...+...|++++|.+.|+...+.
T Consensus        82 ~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~  161 (296)
T PRK11189         82 LARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD  161 (296)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            45555555432  4 456788888888889999999888888864  3 5667777888888889999999998887764


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC----------------------chH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT----------------------VKF  134 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------------------~~~  134 (181)
                      .  |+..............++.++|...++...... .|+...+. +...+....                      ...
T Consensus       162 ~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~~-~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~e  237 (296)
T PRK11189        162 D--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGWN-IVEFYLGKISEETLMERLKAGATDNTELAERLCE  237 (296)
T ss_pred             C--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHHH-HHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            3  443322222333445677888888886654332 22211111 111110000                      335


Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHH
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYV  172 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  172 (181)
                      .|..+-..+.+.|+.++|...|++....+ +||.+-+.
T Consensus       238 a~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~  274 (296)
T PRK11189        238 TYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHR  274 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHH
Confidence            68888899999999999999999998764 34544443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.42  E-value=1.8e-05  Score=68.18  Aligned_cols=152  Identities=12%  Similarity=0.056  Sum_probs=100.0

Q ss_pred             ccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237            2 GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      ++|+++++.- .++...+..+-..+.+.|+.++|.+.|+...+   .+..++..+...+...|++++|.+.++...+.. 
T Consensus       590 ~eA~~~l~~~-p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-  667 (1157)
T PRK11447        590 AEAEALLRQQ-PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-  667 (1157)
T ss_pred             HHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-
Confidence            3456666532 23445666777788888888888888887764   366778888888888888888888888766532 


Q ss_pred             CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHH
Q 038237           79 MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus        79 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  158 (181)
                      +-+...+..+..++.+.|++++|.++++.+............+.           ..+..+...+.+.|++++|++.|++
T Consensus       668 p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a-----------~~~~~~a~~~~~~G~~~~A~~~y~~  736 (1157)
T PRK11447        668 NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESA-----------LVLRDAARFEAQTGQPQQALETYKD  736 (1157)
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhH-----------HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            12334455566777788888888888888876532211111111           1222334455569999999999999


Q ss_pred             HHHc-CCCC
Q 038237          159 MLRA-SIKP  166 (181)
Q Consensus       159 m~~~-~~~p  166 (181)
                      .... |+.|
T Consensus       737 Al~~~~~~~  745 (1157)
T PRK11447        737 AMVASGITP  745 (1157)
T ss_pred             HHhhcCCCC
Confidence            9753 4543

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=98.40  E-value=7.2e-06  Score=64.26  Aligned_cols=153  Identities=14%  Similarity=0.077  Sum_probs=106.5

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHH---H
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVS---I   88 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~---l   88 (181)
                      .+.+|+++-++|+-.++.+.|++.|+...+-   ...+|+.+-.-+.....+|+|...|..-..    .|...|++   +
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rhYnAwYGl  495 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRHYNAWYGL  495 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchhhHHHHhh
Confidence            6778999999999999999999999998863   556777777777777888888888887655    45555554   4


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChh
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGD  150 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~  150 (181)
                      -..|.+.+.++.|+-.|+...+-+.. +.+....+...+-+.|                  |...---....+...++.+
T Consensus       496 G~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~  574 (638)
T KOG1126|consen  496 GTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYV  574 (638)
T ss_pred             hhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchH
Confidence            45677888888888888887766544 3333333333333332                  3333333445556688999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHH
Q 038237          151 KALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       151 ~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                      +|+..++++++  +.|+..+-..|
T Consensus       575 eal~~LEeLk~--~vP~es~v~~l  596 (638)
T KOG1126|consen  575 EALQELEELKE--LVPQESSVFAL  596 (638)
T ss_pred             HHHHHHHHHHH--hCcchHHHHHH
Confidence            99999999887  45665544443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.40  E-value=6.6e-05  Score=57.52  Aligned_cols=159  Identities=14%  Similarity=0.001  Sum_probs=114.8

Q ss_pred             cHHHHhhhcCC--CChhHHHHH-HHHHhccCCHHHHHHHhcccCC--CcHHHHH--HHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--KDVISYTAI-VSGYINREQVDIARQCFDQMPE--RDYVLWT--TMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         3 ~a~~~~~~~~~--~~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~--~~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      +|++.+...++  +++..+..+ ..+..+.|+.+.|.+.+.++.+  |+.....  .....+...|++++|.+.+++..+
T Consensus       102 ~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~  181 (398)
T PRK10747        102 QVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLE  181 (398)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            45666665444  233444333 4555899999999999999986  4443333  335678889999999999999988


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchH-------HHHHHHHHhHhc------------------
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIF-------AGNALIDMYCKC------------------  130 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~ll~~~~~~------------------  130 (181)
                      .. +-+...+..+...+.+.|+++++..++..+.+.+..++..       .|..++......                  
T Consensus       182 ~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~  260 (398)
T PRK10747        182 VA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTR  260 (398)
T ss_pred             cC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHh
Confidence            65 3366888899999999999999999999999986653221       222222221111                  


Q ss_pred             CchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          131 TVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       131 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+....-.+...+.+.|+.++|.+++++..+.
T Consensus       261 ~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~  292 (398)
T PRK10747        261 HQVALQVAMAEHLIECDDHDTAQQIILDGLKR  292 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            16667788889999999999999999999874

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.40  E-value=7.7e-05  Score=61.79  Aligned_cols=159  Identities=8%  Similarity=-0.066  Sum_probs=91.4

Q ss_pred             ccHHHHhhhcCCC---Chh-HHHHHHHHHhccCCHHHHHHHhcccCCCc-------HHHHHHHHHHHHhcCcHHHHHHHH
Q 038237            2 GFTLEIFGTMKNK---DVI-SYTAIVSGYINREQVDIARQCFDQMPERD-------YVLWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         2 ~~a~~~~~~~~~~---~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------~~~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      ++|+..|+++...   ++. .-..+...+...|++++|...|+...+.+       ......+..++.+.|++++|.+.+
T Consensus       254 ~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l  333 (765)
T PRK10049        254 KDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVT  333 (765)
T ss_pred             HHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            3566666665531   111 11223556777777777777777664311       233455555667777777777777


Q ss_pred             HHHHHcC-----------CCccH---HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----
Q 038237           71 QEIQTSN-----------IMGDE---FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----  131 (181)
Q Consensus        71 ~~m~~~~-----------~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----  131 (181)
                      +.+....           -.|+.   ..+..+...+...|+.++|..+++++...... +...+..+...+...|     
T Consensus       334 ~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~lA~l~~~~g~~~~A  412 (765)
T PRK10049        334 AHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDYASVLQARGWPRAA  412 (765)
T ss_pred             HHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHH
Confidence            7766542           01221   23345556666777777777777777655322 3455555555555444     


Q ss_pred             -------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 -------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 -------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                                   +...+-.....+.+.|++++|+.+++++.+
T Consensus       413 ~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        413 ENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                         344455555566666677777777777665

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.40  E-value=3.9e-06  Score=63.92  Aligned_cols=117  Identities=10%  Similarity=0.087  Sum_probs=100.2

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC-C-----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE-R-----DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVS   87 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   87 (181)
                      -+......+++.+....+++.+..++-..+. |     -.-|..++|..|.+.|..+++++++..=...|+=||..++|.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            4666788889999999999999888887775 2     223556999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC  130 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (181)
                      ||+.+.+.|++..|.++...|...+...+..|+..-+.+|.+-
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999998877766777777766666555

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.39  E-value=2.2e-05  Score=59.55  Aligned_cols=124  Identities=18%  Similarity=0.077  Sum_probs=98.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL   98 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~   98 (181)
                      -..++..+...++++.|.++|+++.+.++...-.+...+...++-.+|.+++++..+.. +-+........+.+.+.++.
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCH
Confidence            45667778888999999999999998777777788888888889999999999988642 23567777777888999999


Q ss_pred             chHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           99 ELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        99 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      +.|..+.++..+..  |+.               ..+|..|..+|.+.|+++.|+-.++.+-
T Consensus       251 ~lAL~iAk~av~ls--P~~---------------f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  251 ELALEIAKKAVELS--PSE---------------FETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHHhC--chh---------------HHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999998763  332               2345555555666999999999998873

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00540 hemY_coli hemY protein

Probab=98.35  E-value=0.00017  Score=55.54  Aligned_cols=160  Identities=11%  Similarity=0.006  Sum_probs=118.2

Q ss_pred             ccHHHHhhhcCC--CChhHH-HHHHHHHhccCCHHHHHHHhcccCC--CcH--HHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVISY-TAIVSGYINREQVDIARQCFDQMPE--RDY--VLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~--~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +.|++.+.+..+  |++..+ -....+..+.|+.+.|.+.+.+..+  |+.  ...-.....+...|+++.|.+.++.+.
T Consensus       101 ~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~  180 (409)
T TIGR00540       101 AKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLL  180 (409)
T ss_pred             HHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            356666665544  554443 3445778889999999999998743  333  233335777888999999999999999


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHH-------HHHHH-------------HHhHhcC---
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFA-------GNALI-------------DMYCKCT---  131 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~ll-------------~~~~~~~---  131 (181)
                      +.. +-+...+..+...+.+.|+++.+...+..+.+.+..+....       +..++             ......+   
T Consensus       181 ~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~  259 (409)
T TIGR00540       181 EMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHR  259 (409)
T ss_pred             HhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHH
Confidence            875 22667888999999999999999999999999875533322       22212             1111122   


Q ss_pred             --chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 --VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                        +...+-.+...+.+.|+.++|.+++++..+.
T Consensus       260 ~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~  292 (409)
T TIGR00540       260 RHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK  292 (409)
T ss_pred             hCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh
Confidence              6788889999999999999999999999986

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.35  E-value=7.2e-06  Score=56.41  Aligned_cols=96  Identities=10%  Similarity=0.128  Sum_probs=76.0

Q ss_pred             HHHhccc--CCCcHHHHHHHHHHHHhc-----CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC------------
Q 038237           36 RQCFDQM--PERDYVLWTTMIDGYLRV-----NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLG------------   96 (181)
Q Consensus        36 ~~~~~~m--~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~------------   96 (181)
                      ...|+..  ...+-.+|..+++.|.+.     |.++-....+..|.+-|+.-|..+|+.|++.+=+..            
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            4555555  456778888888888654     678888888999999999999999999998886532            


Q ss_pred             ----CcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC
Q 038237           97 ----ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT  131 (181)
Q Consensus        97 ----~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (181)
                          .-+-|..++++|...|+.||..|+..|++.+++.+
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence                23457889999999999999999999999987754

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.34  E-value=4.7e-05  Score=65.76  Aligned_cols=160  Identities=11%  Similarity=-0.015  Sum_probs=103.4

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++...  | +...+..+...+.+.|++++|...+++..+  | +...+..+...+...++.++|+..++.+..
T Consensus       478 ~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~  557 (1157)
T PRK11447        478 AQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPR  557 (1157)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCc
Confidence            456666666543  4 344566777788888888888888887643  2 333332222223333444444444333211


Q ss_pred             c---------------------------------------CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcc
Q 038237           76 S---------------------------------------NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKND  116 (181)
Q Consensus        76 ~---------------------------------------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  116 (181)
                      .                                       ..+.+...+..+-..+.+.|+.++|...++...+.... +
T Consensus       558 ~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~  636 (1157)
T PRK11447        558 AQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-N  636 (1157)
T ss_pred             hhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-C
Confidence            1                                       12334455667777888889999999999888876433 5


Q ss_pred             hHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          117 IFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       117 ~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ...+..+...|...|                  +...+..+...+.+.|++++|.++++++...
T Consensus       637 ~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        637 ADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            667777777776665                  4555666777888899999999999998875

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised 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=98.31  E-value=1.2e-05  Score=58.77  Aligned_cols=132  Identities=14%  Similarity=0.049  Sum_probs=62.0

Q ss_pred             HHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH----ccCCcch
Q 038237           25 GYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA----NLGALEL  100 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~~~~~~  100 (181)
                      .+...|++++|.+++..-  .+.......+..|.+.+|++.|.+.++.|.+..  .|. +..-+..++.    -.+.+.+
T Consensus       111 i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g~e~~~~  185 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATGGEKYQD  185 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHTTTCCCH
T ss_pred             HHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhCchhHHH
Confidence            344455555555555443  334444445555555555555555555554431  122 1112222221    1223555


Q ss_pred             HHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCCh-hHHHHHHHHHHH
Q 038237          101 GEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNG-DKALDMFSQMLR  161 (181)
Q Consensus       101 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~  161 (181)
                      |.-+|+++.+. +.+++.+.+.+..++...|                  |..+...+|......|+. +.+.+.+.+++.
T Consensus       186 A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  186 AFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            55555554332 3344444444444444333                  444444555555556766 677788888876


Q ss_pred             c
Q 038237          162 A  162 (181)
Q Consensus       162 ~  162 (181)
                      .
T Consensus       265 ~  265 (290)
T PF04733_consen  265 S  265 (290)
T ss_dssp             H
T ss_pred             h
Confidence            4

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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=98.31  E-value=5.8e-05  Score=54.92  Aligned_cols=113  Identities=14%  Similarity=0.121  Sum_probs=86.0

Q ss_pred             CccHHHHhhhcCCCChhH---HHHHHHHHhccCCHHHHHHHhcccCC-CcHH------HHHHHHHHHHhcCcHHHHHHHH
Q 038237            1 MGFTLEIFGTMKNKDVIS---YTAIVSGYINREQVDIARQCFDQMPE-RDYV------LWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~------~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      .|+|.++|-+|.+-|+.|   .-++-+.|-+.|.++.|+++.+.+.+ ||..      +..-|-.-|..+|-++.|.++|
T Consensus        51 ~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f  130 (389)
T COG2956          51 PDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIF  130 (389)
T ss_pred             cchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            378899999988755555   44677899999999999999998875 4333      3445666788889999999999


Q ss_pred             HHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           71 QEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        71 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      ..+...+.- -....--|+..|-+..+|++|.++-+++.+.+-.
T Consensus       131 ~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q  173 (389)
T COG2956         131 NQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQ  173 (389)
T ss_pred             HHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCc
Confidence            998876532 2344556788888888899988888888776544

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=98.29  E-value=8.3e-05  Score=55.33  Aligned_cols=163  Identities=11%  Similarity=0.066  Sum_probs=102.1

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCCC-----------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPER-----------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE   82 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   82 (181)
                      .++.+......+|.+.|++.....+...|.+.           -..+|+.+++-....+..+.-...+++.+.+ .+-++
T Consensus       185 r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p  263 (400)
T COG3071         185 RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDP  263 (400)
T ss_pred             CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcCh
Confidence            45556666666666777776666666666642           1224555555555555555555555555432 12234


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH------------HHHhH-hcC-chHhHHHHHHHHHHcCC
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL------------IDMYC-KCT-VKFTWTTMIVGLAISGN  148 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------l~~~~-~~~-~~~~~~~li~~~~~~~~  148 (181)
                      ..-..++.-+.+.|+.++|.++.++-.+.+..|+...+---            +.... +.+ +...+.+|-..|.+++.
T Consensus       264 ~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~  343 (400)
T COG3071         264 ELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKL  343 (400)
T ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhH
Confidence            44556677778888888888888888888777662221110            00000 001 67778888888888888


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          149 GDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       149 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                      |.+|.+.|+.-.+  ..|+..+|+.+-+++.
T Consensus       344 w~kA~~~leaAl~--~~~s~~~~~~la~~~~  372 (400)
T COG3071         344 WGKASEALEAALK--LRPSASDYAELADALD  372 (400)
T ss_pred             HHHHHHHHHHHHh--cCCChhhHHHHHHHHH
Confidence            8888888884444  5788888888877664

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.26  E-value=9.8e-05  Score=48.38  Aligned_cols=107  Identities=9%  Similarity=-0.082  Sum_probs=68.0

Q ss_pred             HhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcch
Q 038237           38 CFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDI  117 (181)
Q Consensus        38 ~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  117 (181)
                      +++...+-++..+..+-..+...|++++|...|+......- .+...|..+-..+.+.|++++|...|+........ +.
T Consensus        15 ~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~   92 (144)
T PRK15359         15 ILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HP   92 (144)
T ss_pred             HHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-Cc
Confidence            33333333444455566677777888888888887766432 35667777777777888888888888877765432 33


Q ss_pred             HHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          118 FAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ..+.                .+-.++.+.|++++|...|++....
T Consensus        93 ~a~~----------------~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         93 EPVY----------------QTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             HHHH----------------HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333                3333444478888888888877663

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.24  E-value=7.1e-05  Score=49.04  Aligned_cols=106  Identities=8%  Similarity=0.015  Sum_probs=87.8

Q ss_pred             HHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 038237            6 EIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE   82 (181)
Q Consensus         6 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   82 (181)
                      .+|++..+-++..+...-..+.+.|++++|...|+....   .+...|..+-..+...|++++|...|++..+.. +.+.
T Consensus        14 ~~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~   92 (144)
T PRK15359         14 DILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHP   92 (144)
T ss_pred             HHHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCc
Confidence            344444444454566778888999999999999998875   477889999999999999999999999999854 3467


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..+..+-.++.+.|+.++|...++...+..
T Consensus        93 ~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         93 EPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            888888999999999999999999998764

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.20  E-value=0.00019  Score=54.84  Aligned_cols=141  Identities=14%  Similarity=0.054  Sum_probs=114.6

Q ss_pred             hccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHHccCCcchHH
Q 038237           27 INREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVSILTARANLGALELGE  102 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~  102 (181)
                      -..|+.++|+..++.+..  | |+..+....+-+.+.++..+|.+.++.+...  .|+ ....-.+-.++.+.|++.+|.
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHH
Confidence            356778888888888764  4 6667777888999999999999999999885  466 455667788999999999999


Q ss_pred             HHHHHHHHcCCCcchHHHHHHHHHhHhcC-chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhH
Q 038237          103 WIKTYIDKNKVKNDIFAGNALIDMYCKCT-VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY  171 (181)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  171 (181)
                      .+++........ |...|..|-.+|...| ....--+--.++...|+++.|...+....+. ++++..+|
T Consensus       395 ~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~-~~~~~~~~  462 (484)
T COG4783         395 RILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQ-VKLGFPDW  462 (484)
T ss_pred             HHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-ccCCcHHH
Confidence            999998876544 8899999999999998 4566777788899999999999999998876 34444444

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.17  E-value=0.00027  Score=48.91  Aligned_cols=108  Identities=10%  Similarity=0.111  Sum_probs=78.5

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH-HccCC--cchHHHHHHHHHHcCCCcchHHHH
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR-ANLGA--LELGEWIKTYIDKNKVKNDIFAGN  121 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~  121 (181)
                      .|...|..+-..|...|++++|...|++..+..- -+...+..+-.++ ...|+  .++|..++++..+.... +..   
T Consensus        71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~---  145 (198)
T PRK10370         71 QNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVT---  145 (198)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-Chh---
Confidence            3777888998899999999999999998877542 2556666666654 56666  48899999998887554 333   


Q ss_pred             HHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhH
Q 038237          122 ALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY  171 (181)
Q Consensus       122 ~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  171 (181)
                                   .+..+-..+.+.|++++|...|+++.+. .+|+..-+
T Consensus       146 -------------al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~  181 (198)
T PRK10370        146 -------------ALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRT  181 (198)
T ss_pred             -------------HHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHH
Confidence                         3344444555699999999999999876 44554443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.13  E-value=0.00067  Score=56.44  Aligned_cols=85  Identities=12%  Similarity=-0.059  Sum_probs=38.8

Q ss_pred             HHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchH
Q 038237           25 GYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELG  101 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  101 (181)
                      .+...|++++|.++|+++.+  | ++..+..++..+...++.++|++.+++....  .|+...+-.+...+...++..+|
T Consensus       111 ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~A  188 (822)
T PRK14574        111 AYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDA  188 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHH
Confidence            44444555555555555543  1 3344444455555555555555555555443  23333332222222223333335


Q ss_pred             HHHHHHHHHc
Q 038237          102 EWIKTYIDKN  111 (181)
Q Consensus       102 ~~~~~~~~~~  111 (181)
                      ...++++.+.
T Consensus       189 L~~~ekll~~  198 (822)
T PRK14574        189 LQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHh
Confidence            5555555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.13  E-value=0.00018  Score=59.65  Aligned_cols=139  Identities=11%  Similarity=0.038  Sum_probs=79.9

Q ss_pred             cHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            3 FTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         3 ~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +|++++.+...   .+...+..+...+.+.|++++|.++|++..+   .+...+..+...+...|++++|...+++..+.
T Consensus        33 ~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~  112 (765)
T PRK10049         33 EVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG  112 (765)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            45555555442   2233466666666666666666666666432   24455556666666666666666666666554


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      . +.+.. +..+..++...|+.++|...+++..+....                 +...+..+...+.+.|+.++|++.+
T Consensus       113 ~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-----------------~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049        113 A-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-----------------TQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             C-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-----------------CHHHHHHHHHHHHHCCChHHHHHHH
Confidence            1 12333 555666666666666666666666665333                 2223333444455578888888777


Q ss_pred             HHHH
Q 038237          157 SQML  160 (181)
Q Consensus       157 ~~m~  160 (181)
                      ++..
T Consensus       174 ~~~~  177 (765)
T PRK10049        174 DDAN  177 (765)
T ss_pred             HhCC
Confidence            7544

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.12  E-value=0.00014  Score=51.32  Aligned_cols=130  Identities=16%  Similarity=0.078  Sum_probs=92.3

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      |............+.|++..|..+|++...   +|..+|+.+--+|.+.|++++|..-|.+..+-... +...++.+.-.
T Consensus        99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms  177 (257)
T COG5010          99 DRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMS  177 (257)
T ss_pred             cHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHH
Confidence            444555677777888888888888888775   58888888888888888888888888887764322 44666777777


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.-.|+.+.|..++..-...+.. |..+-..|.-..+                ..|++++|.++-..-...
T Consensus       178 ~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~----------------~~g~~~~A~~i~~~e~~~  231 (257)
T COG5010         178 LLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVG----------------LQGDFREAEDIAVQELLS  231 (257)
T ss_pred             HHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHh----------------hcCChHHHHhhccccccc
Confidence            77788888888888877766543 3333344443333                488999888877665443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.12  E-value=0.00031  Score=59.92  Aligned_cols=117  Identities=13%  Similarity=0.057  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC--------------
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK--------------  114 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------  114 (181)
                      .|..|...|.+.+.+++|-++|+.|.+.- .-....|......+.+.++.+.|..++++..+.-.+              
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            45566666666666666666666665531 124455556666666666666666665554432111              


Q ss_pred             -------cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237          115 -------NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus       115 -------~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                             -....|-.++.+|-+  -+..|+..|+.-.++|+.+.+.++|++....++.|-.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPK--RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPK--RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCcc--chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhH
Confidence                   001122222222222  5678999999999999999999999999998887643

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.11  E-value=0.00017  Score=55.06  Aligned_cols=175  Identities=15%  Similarity=0.147  Sum_probs=105.2

Q ss_pred             CccHHHHhhhcCCCChhHHHHHH---HHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            1 MGFTLEIFGTMKNKDVISYTAIV---SGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +|+|.+.|++..+.|...--++.   -.+-..|++++|++.|-.+..   .++...--+...|-...+...|++++.+..
T Consensus       506 ~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            36677777777665544322322   235567888888888877653   455555556666666667777777765544


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHH-------------HHHHHHHhH----hcCchHhHH
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFA-------------GNALIDMYC----KCTVKFTWT  137 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~ll~~~~----~~~~~~~~~  137 (181)
                      .. ++-|+.+...|-+.|-+.|+-..|++.+-.--.. ++-+..|             |..-|.-+-    -.++..-|.
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwq  663 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQ  663 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHH
Confidence            32 4445667777777777777777776654322111 1112222             111121111    122666677


Q ss_pred             HHHHHHH-HcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          138 TMIVGLA-ISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       138 ~li~~~~-~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .||..|. +.|++.+|+++|+++..+ ++-|......|++-|
T Consensus       664 lmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~  704 (840)
T KOG2003|consen  664 LMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIA  704 (840)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHh
Confidence            7776654 589999999999999875 656666666666554

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.10  E-value=0.0001  Score=53.98  Aligned_cols=159  Identities=10%  Similarity=-0.088  Sum_probs=89.4

Q ss_pred             cHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHH-HHHHHHHhcCcHHHHHHHHH------
Q 038237            3 FTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWT-TMIDGYLRVNRFREALTLFQ------   71 (181)
Q Consensus         3 ~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~-~li~~~~~~~~~~~a~~~~~------   71 (181)
                      +|++.|++...  |-+.||-.+-..|.+..+++.|+.+|.+-..  |..+||- -+...+-..++.++|.++|+      
T Consensus       241 ~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~  320 (478)
T KOG1129|consen  241 RAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH  320 (478)
T ss_pred             hhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC
Confidence            45566665432  7777888889999999999999988887764  3222222 22223333344445555554      


Q ss_pred             ----------------------------HHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcc--hHHHH
Q 038237           72 ----------------------------EIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKND--IFAGN  121 (181)
Q Consensus        72 ----------------------------~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~  121 (181)
                                                  ++.+.|+. +...|+.+--.|.-.+.++.+..-|+........|+  ..+|-
T Consensus       321 ~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWY  399 (478)
T KOG1129|consen  321 PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWY  399 (478)
T ss_pred             CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhh
Confidence                                        44444443 444444444444444444444444444433221111  11121


Q ss_pred             HHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          122 ALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       122 ~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .|-......|                  ....+|.|--.-.+.|+.+.|..+++...+.
T Consensus       400 Nlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  400 NLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             ccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            1111111111                  5677888888888999999999999988765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.09  E-value=0.00025  Score=58.91  Aligned_cols=140  Identities=11%  Similarity=0.005  Sum_probs=74.1

Q ss_pred             cHHHHhhhcCC--CCh--hHHHHHHHHHhccCCHHHHHHHhcccCCCcHHH-HHHH--HHHHHhcCcHHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--KDV--ISYTAIVSGYINREQVDIARQCFDQMPERDYVL-WTTM--IDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         3 ~a~~~~~~~~~--~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~l--i~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      .|++.|++..+  |+.  .++ .++..+...|+.++|...+++...|+... +..+  ...+...|++++|+++|+++.+
T Consensus        52 ~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~  130 (822)
T PRK14574         52 PVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLK  130 (822)
T ss_pred             HHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45555555443  332  133 55566666666666666666666542222 2222  3355555666666666666665


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHH
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDM  155 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  155 (181)
                      ..-. |...+..+...+...++.++|...++.+.+.  .|+...+.                .++..+...++..+|++.
T Consensus       131 ~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l----------------~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        131 KDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYM----------------TLSYLNRATDRNYDALQA  191 (822)
T ss_pred             hCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHH----------------HHHHHHHhcchHHHHHHH
Confidence            4321 2344445556666666666666666666554  22222221                122222225566568888


Q ss_pred             HHHHHHc
Q 038237          156 FSQMLRA  162 (181)
Q Consensus       156 ~~~m~~~  162 (181)
                      ++++.+.
T Consensus       192 ~ekll~~  198 (822)
T PRK14574        192 SSEAVRL  198 (822)
T ss_pred             HHHHHHh
Confidence            8888775

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised 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=98.08  E-value=0.0003  Score=51.54  Aligned_cols=153  Identities=9%  Similarity=0.071  Sum_probs=99.4

Q ss_pred             CCChhHHHHHHHHHhccCCHHHHHHHhcccCC-C---cHHHHHH-HHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHH
Q 038237           13 NKDVISYTAIVSGYINREQVDIARQCFDQMPE-R---DYVLWTT-MIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVS   87 (181)
Q Consensus        13 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~---~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   87 (181)
                      .|.......+...+....+-+.+..-+++... +   +-.++.. .-..+...|++++|++++++-      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            36665555555555554566666666655442 2   1222322 223556679999999998753      36677778


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh--cC--------------------chHhHHHHHHHHHH
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK--CT--------------------VKFTWTTMIVGLAI  145 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~--------------------~~~~~~~li~~~~~  145 (181)
                      .+..+.+.++++.|.+.++.|.+..   +-.+...|..++..  .|                    ++.+.|.+..++..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~  213 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQ  213 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            8899999999999999999998753   22344445554432  11                    67888999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          146 SGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       146 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      .|++++|.+++++..... +-|..|...++
T Consensus       214 ~~~~~eAe~~L~~al~~~-~~~~d~LaNli  242 (290)
T PF04733_consen  214 LGHYEEAEELLEEALEKD-PNDPDTLANLI  242 (290)
T ss_dssp             CT-HHHHHHHHHHHCCC--CCHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence            999999999999976542 22344444444

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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.07  E-value=0.00021  Score=55.96  Aligned_cols=159  Identities=14%  Similarity=0.107  Sum_probs=108.0

Q ss_pred             ccHHHHhhhcCCCC----hhHHHHHHHHHhccCCHHHHHHHhcccCC----------CcHH-HHHHHHHHHHhcCcHHHH
Q 038237            2 GFTLEIFGTMKNKD----VISYTAIVSGYINREQVDIARQCFDQMPE----------RDYV-LWTTMIDGYLRVNRFREA   66 (181)
Q Consensus         2 ~~a~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~----------~~~~-~~~~li~~~~~~~~~~~a   66 (181)
                      ++|+.++.....++    ..+++.|-.+|.+.|++++|...++...+          +.+. .++.+...+...+++++|
T Consensus       265 ~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea  344 (508)
T KOG1840|consen  265 EEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEA  344 (508)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHH
Confidence            34555555444332    23577777789999999888877776652          2222 366777778888889999


Q ss_pred             HHHHHHHHHc---CCCcc----HHHHHHHHHHHHccCCcchHHHHHHHHHHcC----C--Ccc-hHHHHHHHHHhHhcC-
Q 038237           67 LTLFQEIQTS---NIMGD----EFTIVSILTARANLGALELGEWIKTYIDKNK----V--KND-IFAGNALIDMYCKCT-  131 (181)
Q Consensus        67 ~~~~~~m~~~---~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~~~-~~~~~~ll~~~~~~~-  131 (181)
                      ..++....+.   -..++    ..+++.+-..+.+.|++++|..+++..++..    .  .+. ...++.|-..|.+.+ 
T Consensus       345 ~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~  424 (508)
T KOG1840|consen  345 KKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKK  424 (508)
T ss_pred             HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcc
Confidence            8888765431   11122    3678888888899999999999988877531    1  111 223444444444332 


Q ss_pred             ------------------------chHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237          132 ------------------------VKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus       132 ------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                                              ...+|..|...|.+.|++++|.++.+...
T Consensus       425 ~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  425 YEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             cchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                                    57789999999999999999999998876

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=98.01  E-value=0.00024  Score=51.88  Aligned_cols=146  Identities=7%  Similarity=0.001  Sum_probs=88.1

Q ss_pred             CccHHHHhhhcCC-CC--hhHHHHHHHHHhccCCHHHHHHHhcccCCCcHH--------HHHHHHHHHHhcCcHHHHHHH
Q 038237            1 MGFTLEIFGTMKN-KD--VISYTAIVSGYINREQVDIARQCFDQMPERDYV--------LWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus         1 ~~~a~~~~~~~~~-~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--------~~~~li~~~~~~~~~~~a~~~   69 (181)
                      +|+|+.+|..+.+ |.  ....--++..|-+..+|++|.++-+...+.+..        .|.-|-..+....+++.|..+
T Consensus       123 ~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~  202 (389)
T COG2956         123 LDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAREL  202 (389)
T ss_pred             hhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            3566666666655 22  223455666677777777777666655432222        244455555556677777777


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcC
Q 038237           70 FQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISG  147 (181)
Q Consensus        70 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~  147 (181)
                      +.+-.+.+-+ ++..=-.+-+.....|+++.|.+.++.+.+.+...-..+...|..+|...|....+-.++..+.+..
T Consensus       203 l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         203 LKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            7776665321 2222224445666778888888888888877776666777777777777665555555555554433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.00  E-value=0.00052  Score=56.05  Aligned_cols=130  Identities=9%  Similarity=0.016  Sum_probs=102.3

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      ++..+-.+.....+.|..++|..+++...+  | +......+...+.+.+++++|+..+++.....-. +......+-.+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~  163 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKS  163 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHH
Confidence            466788888999999999999999999885  4 6667888889999999999999999999886432 45667778888


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.+.|+.++|..+|++....+.. +...+..+-..+-+                .|+.++|...|++..+.
T Consensus       164 l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~----------------~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        164 WDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTR----------------RGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHH----------------cCCHHHHHHHHHHHHHh
Confidence            88999999999999999984332 34555555555544                77888888888777654

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=98.00  E-value=0.002  Score=48.26  Aligned_cols=168  Identities=15%  Similarity=0.070  Sum_probs=129.7

Q ss_pred             cHHHHhhhcCC--CC-hhHHHHHHHHHhccCCHHHHHHHhcccCCC----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--KD-VISYTAIVSGYINREQVDIARQCFDQMPER----DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         3 ~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      +|+++..+-.+  +. ...|-....+-.+.|+.+.+.+...+.-++    +....-+...-....|+...|..-.++..+
T Consensus       102 qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~  181 (400)
T COG3071         102 QAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLE  181 (400)
T ss_pred             HHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHH
Confidence            45565555443  22 234667778888999999999999988763    444566667778888999999999999888


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcch-------HHHHHHHHHhHhcC-----------------
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDI-------FAGNALIDMYCKCT-----------------  131 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~-----------------  131 (181)
                      .+-. ++........+|.+.|++.....++..+.+.|.-.+.       .+|..++.-....+                 
T Consensus       182 ~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr  260 (400)
T COG3071         182 MTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLR  260 (400)
T ss_pred             hCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhh
Confidence            7643 6778889999999999999999999999998876544       45666666554332                 


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhH
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY  171 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  171 (181)
                       +...--+++.-+.+.|+.++|.++.++-.+++..|+-.++
T Consensus       261 ~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~  301 (400)
T COG3071         261 NDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRL  301 (400)
T ss_pred             cChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHH
Confidence             5666678888899999999999999999999998874433

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=98.00  E-value=0.00036  Score=55.08  Aligned_cols=144  Identities=17%  Similarity=0.112  Sum_probs=95.3

Q ss_pred             CccHHHHhhhcCCCChhHHHHH---HHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            1 MGFTLEIFGTMKNKDVISYTAI---VSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +|.|...|+.....|+..|++.   --.|.|.++.+.|+-.|+...+   .+.+....+...+.+.|+.++|+++|++..
T Consensus       471 ~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~  550 (638)
T KOG1126|consen  471 FDKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAI  550 (638)
T ss_pred             HHhHHHHHHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHH
Confidence            3567777777766676666653   4556777888888887777765   366666677777777788888888888776


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHH
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALD  154 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  154 (181)
                      ...-+ |+.+----...+...++.++|...+++++..-.. +..+                |-.+...|-+.|+.+.|+.
T Consensus       551 ~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~-es~v----------------~~llgki~k~~~~~~~Al~  612 (638)
T KOG1126|consen  551 HLDPK-NPLCKYHRASILFSLGRYVEALQELEELKELVPQ-ESSV----------------FALLGKIYKRLGNTDLALL  612 (638)
T ss_pred             hcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcc-hHHH----------------HHHHHHHHHHHccchHHHH
Confidence            64432 3433334445555667778888888887765222 3333                3344445555999999988


Q ss_pred             HHHHHHHc
Q 038237          155 MFSQMLRA  162 (181)
Q Consensus       155 ~~~~m~~~  162 (181)
                      -|--+.+.
T Consensus       613 ~f~~A~~l  620 (638)
T KOG1126|consen  613 HFSWALDL  620 (638)
T ss_pred             hhHHHhcC
Confidence            88777664

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.98  E-value=0.00051  Score=44.14  Aligned_cols=61  Identities=15%  Similarity=0.056  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ...+...+...|++++|.+.|+.....+ +.+...+..+...+.+.|+++.|...++...+.
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3344445555555555555555554432 124444555555555555555555555555444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=0.00055  Score=52.27  Aligned_cols=125  Identities=10%  Similarity=-0.030  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC  128 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  128 (181)
                      |...+-+-|+-.++.++|...|.+..+-+-. ....|+.+-.-|....+...|.+-++..++-... |-..|-.|-.+|.
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYe  409 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYE  409 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHH
Confidence            4444445555566778888888887775422 3355666666777777777777777777665332 5555665655554


Q ss_pred             hcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHh
Q 038237          129 KCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLS  176 (181)
Q Consensus       129 ~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  176 (181)
                      --+                  |...|.+|-.+|.+.++.++|...|.+....|-. +...+..|-+
T Consensus       410 im~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~Lak  474 (559)
T KOG1155|consen  410 IMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAK  474 (559)
T ss_pred             HhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHH
Confidence            333                  8888888888888888888888888887765422 3344444433

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.95  E-value=0.00012  Score=53.46  Aligned_cols=145  Identities=11%  Similarity=0.077  Sum_probs=100.4

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCCCc---HHHHHHHHHH-HHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPERD---YVLWTTMIDG-YLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      .+|..+++..-+.+.++.|..+|.+..+..   ...|-..... |...++.+.|.++|+...+. +.-+...|..-++-+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            578999999999999999999999998643   3333333333 23356777799999998875 555778888889999


Q ss_pred             HccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYV  172 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  172 (181)
                      .+.++.+.+..+|+..... ..++..             ....|...+.-=.+.|+.+.+..+.+++.+.  .|+...+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~-------------~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~  144 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQ-------------SKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLE  144 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHH-------------CHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhH-------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHH
Confidence            9999999999999999876 222221             1123444445555589999999999998874  45555555


Q ss_pred             HHHhhh
Q 038237          173 GVLSAR  178 (181)
Q Consensus       173 ~li~~~  178 (181)
                      .+++-|
T Consensus       145 ~f~~ry  150 (280)
T PF05843_consen  145 LFSDRY  150 (280)
T ss_dssp             HHHCCT
T ss_pred             HHHHHh
Confidence            555433

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.94  E-value=0.00065  Score=51.96  Aligned_cols=149  Identities=14%  Similarity=0.133  Sum_probs=116.0

Q ss_pred             ccCCHHHHHHHhcccCCCcHHHHHHHHH---HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHH
Q 038237           28 NREQVDIARQCFDQMPERDYVLWTTMID---GYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWI  104 (181)
Q Consensus        28 ~~~~~~~a~~~~~~m~~~~~~~~~~li~---~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  104 (181)
                      -+|++++|.+.+++..+.|...-.+|..   .+-..|++++|++.|-++..- +.-+..+.--+...|--..+...|.++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            4688999999999998876665555444   345568999999999887642 123556666677777777888888887


Q ss_pred             HHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 038237          105 KTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP  166 (181)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  166 (181)
                      +-+... -++.|+.+...|-..|-+.|                  +..+...|-.-|....-++++...|++..-  ++|
T Consensus       581 ~~q~~s-lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp  657 (840)
T KOG2003|consen  581 LMQANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQP  657 (840)
T ss_pred             HHHhcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCc
Confidence            766543 35668889999999998887                  677777788888888889999999998654  799


Q ss_pred             ChhhHHHHHhhhcc
Q 038237          167 DEVAYVGVLSARTH  180 (181)
Q Consensus       167 ~~~t~~~li~~~~~  180 (181)
                      +..-|-.++-+|-+
T Consensus       658 ~~~kwqlmiasc~r  671 (840)
T KOG2003|consen  658 NQSKWQLMIASCFR  671 (840)
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999999999854

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.92  E-value=0.0016  Score=45.45  Aligned_cols=141  Identities=11%  Similarity=0.005  Sum_probs=95.4

Q ss_pred             CCh-hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHHH
Q 038237           14 KDV-ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVSI   88 (181)
Q Consensus        14 ~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l   88 (181)
                      |+. .+|..+-..|-+.|+.+.|.+-|+...+   .+-...|.--.-+|..|++++|...|++-...---|. ..+|..+
T Consensus        66 Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~  145 (250)
T COG3063          66 PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENL  145 (250)
T ss_pred             cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhh
Confidence            443 3688888889999999999998888764   3666777777778888899999999988876532222 3567777


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                      --+..+.|+++.|...|++-.+....- ....-.+...+.                ..|+.-.|...++.....+. ++.
T Consensus       146 G~Cal~~gq~~~A~~~l~raL~~dp~~-~~~~l~~a~~~~----------------~~~~y~~Ar~~~~~~~~~~~-~~A  207 (250)
T COG3063         146 GLCALKAGQFDQAEEYLKRALELDPQF-PPALLELARLHY----------------KAGDYAPARLYLERYQQRGG-AQA  207 (250)
T ss_pred             HHHHhhcCCchhHHHHHHHHHHhCcCC-ChHHHHHHHHHH----------------hcccchHHHHHHHHHHhccc-ccH
Confidence            777788899999999888887764321 112222333333                36666666666666665544 544


Q ss_pred             hhHH
Q 038237          169 VAYV  172 (181)
Q Consensus       169 ~t~~  172 (181)
                      ...-
T Consensus       208 ~sL~  211 (250)
T COG3063         208 ESLL  211 (250)
T ss_pred             HHHH
Confidence            4433

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=97.90  E-value=0.00018  Score=56.83  Aligned_cols=159  Identities=14%  Similarity=0.110  Sum_probs=95.2

Q ss_pred             HHHHhhhcCC--CC-hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237            4 TLEIFGTMKN--KD-VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus         4 a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      |++.|.+...  |+ ...|-.+-+.|...+.++.|..-+.....   ...++|..|-..|...|..+-|++.|++..+. 
T Consensus       237 aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~-  315 (966)
T KOG4626|consen  237 AIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL-  315 (966)
T ss_pred             HHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhc-
Confidence            4444444443  32 12355555555555566655555554432   24455666666666666777777777666553 


Q ss_pred             CCccH-HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHH
Q 038237           78 IMGDE-FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTT  138 (181)
Q Consensus        78 ~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~  138 (181)
                       .|+- ..|+.+..++-..|+..+|...+.+....... .....+.|-..|.+.|                  -...+|.
T Consensus       316 -~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nN  393 (966)
T KOG4626|consen  316 -QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNN  393 (966)
T ss_pred             -CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhh
Confidence             3443 56777777777777777777777766654322 2233444555555444                  3445777


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 038237          139 MIVGLAISGNGDKALDMFSQMLRASIKPD  167 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~m~~~~~~p~  167 (181)
                      |-..|-+.|++++|...|++...  +.|+
T Consensus       394 La~i~kqqgnl~~Ai~~Ykealr--I~P~  420 (966)
T KOG4626|consen  394 LASIYKQQGNLDDAIMCYKEALR--IKPT  420 (966)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHh--cCch
Confidence            77778888888888888887764  5554

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=97.90  E-value=0.0012  Score=52.38  Aligned_cols=161  Identities=13%  Similarity=0.148  Sum_probs=113.5

Q ss_pred             ccHHHHhhhcCC--CC-hhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KD-VISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      |.|++-|++..+  |+ +..|+.+-+++-..|++.+|.+.+.....  | -....+.|-..|...|.+++|..+|..-.+
T Consensus       303 dlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~  382 (966)
T KOG4626|consen  303 DLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE  382 (966)
T ss_pred             HHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh
Confidence            556666766554  44 34688888888888888888888887764  3 455677888888888888888888887766


Q ss_pred             cCCCcc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcch-HHHHHHHHHhHhcC------------------chHh
Q 038237           76 SNIMGD-EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDI-FAGNALIDMYCKCT------------------VKFT  135 (181)
Q Consensus        76 ~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~------------------~~~~  135 (181)
                      -  -|. ...++.|...+-+.|++++|...+++.+.-  .|+- ..|+.+-..|-..|                  -...
T Consensus       383 v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeA  458 (966)
T KOG4626|consen  383 V--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEA  458 (966)
T ss_pred             h--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHH
Confidence            3  233 355778888888888888888888877654  3321 22333333333333                  3456


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                      ++.|-..|-..|+..+|.+-|++..+  ++||.
T Consensus       459 hsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  459 HSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             HhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence            78888888899999999999999876  45553

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.88  E-value=0.00082  Score=47.84  Aligned_cols=95  Identities=14%  Similarity=0.206  Sum_probs=70.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC-CcHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE-RDYVLWTTMIDGYLR----VNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ...=+..+.|..+++-|.+.+++|.+ .+-.+.+-|..++.+    .+...+|+-+|++|.++ .+|+.-+.+-..-++.
T Consensus       140 ~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l  218 (299)
T KOG3081|consen  140 AALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHL  218 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHH
Confidence            33334555566667777777777776 355566656555554    35689999999999874 5688889999999999


Q ss_pred             ccCCcchHHHHHHHHHHcCCC
Q 038237           94 NLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      ..|++++|+.+++....+...
T Consensus       219 ~~~~~eeAe~lL~eaL~kd~~  239 (299)
T KOG3081|consen  219 QLGRYEEAESLLEEALDKDAK  239 (299)
T ss_pred             HhcCHHHHHHHHHHHHhccCC
Confidence            999999999999999887544

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.86  E-value=0.0028  Score=46.64  Aligned_cols=95  Identities=13%  Similarity=-0.054  Sum_probs=80.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVSILTAR   92 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~   92 (181)
                      ..|...-..+.+.|+.++|...|++..+   .+...|+.+-..+...|++++|.+.|++..+.  .|+ ...+..+...+
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l  142 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            3477777788999999999999998874   37788999999999999999999999999874  344 56777788888


Q ss_pred             HccCCcchHHHHHHHHHHcCC
Q 038237           93 ANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ...|++++|...++...+...
T Consensus       143 ~~~g~~~eA~~~~~~al~~~P  163 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQDDP  163 (296)
T ss_pred             HHCCCHHHHHHHHHHHHHhCC
Confidence            899999999999999987643

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.83  E-value=0.00072  Score=43.44  Aligned_cols=97  Identities=11%  Similarity=0.074  Sum_probs=81.3

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +......+...+.+.|+.++|.+.|+....   .+...|..+-..+.+.|++++|...++...+.+ +.+...+..+-..
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            344566777888899999999999988754   477888899999999999999999999987764 3456777778889


Q ss_pred             HHccCCcchHHHHHHHHHHcC
Q 038237           92 RANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      +...|+++.|...++...+..
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHhc
Confidence            999999999999999888864

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.81  E-value=0.00083  Score=47.51  Aligned_cols=147  Identities=10%  Similarity=-0.002  Sum_probs=78.8

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc-H---HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-CccH-HHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--RD-Y---VLWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGDE-FTIV   86 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~-~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~-~~~~   86 (181)
                      ....+-.....+.+.|++++|...|++...  |+ .   .++..+...+.+.|++++|...++++.+..- .|.. ..+.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            344555555666666666666666665543  21 1   2445555666666666666666666654321 1110 1222


Q ss_pred             HHHHHHHcc--------CCcchHHHHHHHHHHcCCCcchHHHH-----------------HHHHHhHhcC----------
Q 038237           87 SILTARANL--------GALELGEWIKTYIDKNKVKNDIFAGN-----------------ALIDMYCKCT----------  131 (181)
Q Consensus        87 ~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~-----------------~ll~~~~~~~----------  131 (181)
                      .+-.++.+.        |+.+.|...++.+.+..... ...+.                 .+-..|.+.|          
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~-~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~  190 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNS-EYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFE  190 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCC-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            222233222        45556666666665542221 10100                 1112232222          


Q ss_pred             -----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 -----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 -----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                 ....+..+..++.+.|++++|...++.+...
T Consensus       191 ~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       191 TVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence                       2356777888888899999999999998765

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.78  E-value=0.00051  Score=43.86  Aligned_cols=48  Identities=6%  Similarity=0.051  Sum_probs=34.3

Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc-CCCcchHHHHHHHH
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKN-KVKNDIFAGNALID  125 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~  125 (181)
                      ..|+..+..+++.+|+..|++..|.++.+.+.+. +++.+..+|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            4577777777777777777777777777777665 66666666666665

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=97.77  E-value=0.00063  Score=47.04  Aligned_cols=100  Identities=6%  Similarity=0.035  Sum_probs=84.3

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHH-HhcCc--HHHHHHHHHHHHHcCCCccHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGY-LRVNR--FREALTLFQEIQTSNIMGDEFTIVS   87 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~-~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~   87 (181)
                      .|...|..+-..+...|++++|...|+...+   .+...+..+-.++ ...|+  .++|.+++++..+.+-. +...+..
T Consensus        71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~  149 (198)
T PRK10370         71 QNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALML  149 (198)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHH
Confidence            4677899999999999999999999998875   4777788877764 67677  59999999999987543 6678888


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      +-..+.+.|++++|...++.+.+...+
T Consensus       150 LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        150 LASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            889999999999999999999887443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.76  E-value=0.00045  Score=40.42  Aligned_cols=93  Identities=13%  Similarity=0.115  Sum_probs=73.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      ++..+...+.+.|++++|...+++..+   .+...+..+...+...+++++|.+.|+....... .+...+..+...+..
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~   80 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHH
Confidence            355667778889999999999988764   3446777788888888999999999998877542 244677788888889


Q ss_pred             cCCcchHHHHHHHHHHc
Q 038237           95 LGALELGEWIKTYIDKN  111 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~  111 (181)
                      .|+.+.|...+....+.
T Consensus        81 ~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          81 LGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHhHHHHHHHHHHHHcc
Confidence            99999999888877654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=97.76  E-value=0.00028  Score=49.84  Aligned_cols=109  Identities=15%  Similarity=0.070  Sum_probs=92.8

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      .+|.+.|++...   +|...|+.+-.+|.+.|+++.|..-|.+..+   .+....|.|--.+.-.|+.++|..++..-..
T Consensus       117 ~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l  196 (257)
T COG5010         117 GEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYL  196 (257)
T ss_pred             HHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHh
Confidence            467777877654   6888999999999999999999999998875   5888899999999999999999999999887


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .+.. |..+-..+.......|+++.|+.+-..-...
T Consensus       197 ~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~e~~~  231 (257)
T COG5010         197 SPAA-DSRVRQNLALVVGLQGDFREAEDIAVQELLS  231 (257)
T ss_pred             CCCC-chHHHHHHHHHHhhcCChHHHHhhccccccc
Confidence            6543 6777788888999999999999887665544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.71  E-value=0.0011  Score=43.41  Aligned_cols=124  Identities=10%  Similarity=0.030  Sum_probs=85.1

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC--CcH-H---HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH--HHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE--RDY-V---LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE--FTIVSI   88 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~-~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l   88 (181)
                      ..|..++..+. .++...+...++.+..  |+. .   ..-.+-..+...|++++|...|+........|+.  ....-+
T Consensus        13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   13 ALYEQALQALQ-AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            45777777774 8888888888888875  222 2   2223446778889999999999999987633332  234446


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      ...+...|++++|...++......+.  ...                +...-+.+.+.|+.++|...|++-
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~--~~~----------------~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFK--ALA----------------AELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchH--HHH----------------HHHHHHHHHHCCCHHHHHHHHHHh
Confidence            67778899999999999764332222  122                223445566699999999999863

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.70  E-value=0.0069  Score=42.82  Aligned_cols=135  Identities=12%  Similarity=-0.022  Sum_probs=87.9

Q ss_pred             CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-Ccc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcch--HH
Q 038237           44 ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGD-EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDI--FA  119 (181)
Q Consensus        44 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  119 (181)
                      ......+-.+...+.+.|++++|...|++.....- .|. ...+..+..++.+.|++++|...++.+.+.......  ..
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            45777888888899999999999999999876431 111 246677888999999999999999999876432111  12


Q ss_pred             HHHHHHHhHhc--------C------------------chHhH-----------------HHHHHHHHHcCChhHHHHHH
Q 038237          120 GNALIDMYCKC--------T------------------VKFTW-----------------TTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus       120 ~~~ll~~~~~~--------~------------------~~~~~-----------------~~li~~~~~~~~~~~a~~~~  156 (181)
                      +..+-..+...        +                  +...+                 -.+-..+.+.|++++|...+
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~  189 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRF  189 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            22222222211        1                  11111                 13445577889999999999


Q ss_pred             HHHHHcC--CCCChhhHHHHHhhh
Q 038237          157 SQMLRAS--IKPDEVAYVGVLSAR  178 (181)
Q Consensus       157 ~~m~~~~--~~p~~~t~~~li~~~  178 (181)
                      ++..+..  -+.....+..+..++
T Consensus       190 ~~al~~~p~~~~~~~a~~~l~~~~  213 (235)
T TIGR03302       190 ETVVENYPDTPATEEALARLVEAY  213 (235)
T ss_pred             HHHHHHCCCCcchHHHHHHHHHHH
Confidence            9998762  122334555554443

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=97.70  E-value=0.0039  Score=49.74  Aligned_cols=166  Identities=13%  Similarity=0.121  Sum_probs=120.5

Q ss_pred             HHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCCC-----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237            4 TLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPER-----DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus         4 a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      ++..+.+|+    ..|-..+..+.+.|++.....+|+.....     ....|...+.-.-..+-++-+.+++++-.+.  
T Consensus        94 ~lv~mHkmp----RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--  167 (835)
T KOG2047|consen   94 CLVFMHKMP----RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--  167 (835)
T ss_pred             HHHHHhcCC----HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--
Confidence            344444444    56777777778888888888888877642     3335777777777888888999999988774  


Q ss_pred             CccHHHHHHHHHHHHccCCcchHHHHHHHHHHc------CCCcchHHHHHHHHHhHhcC---------------------
Q 038237           79 MGDEFTIVSILTARANLGALELGEWIKTYIDKN------KVKNDIFAGNALIDMYCKCT---------------------  131 (181)
Q Consensus        79 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~ll~~~~~~~---------------------  131 (181)
                        ++..-+--+..+++.+++++|.+.+..+...      .-+.+-..|.-+.+..++.+                     
T Consensus       168 --~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftD  245 (835)
T KOG2047|consen  168 --APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTD  245 (835)
T ss_pred             --CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcH
Confidence              4444677788899999999999888877642      22345556666666555544                     


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                       -...|++|.+-|.+.|.+++|.++|++-...-  ....-|..++++|+
T Consensus       246 q~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  246 QLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHH
Confidence             35679999999999999999999999987752  24445666666665

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.69  E-value=0.0004  Score=52.85  Aligned_cols=107  Identities=13%  Similarity=0.096  Sum_probs=91.1

Q ss_pred             ccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237            2 GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      +.|+.+|+++.+.++.....+...+...++-.+|.+++.+..+   .+......-...+.+.++.+.|+++.++..+.  
T Consensus       186 ~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--  263 (395)
T PF09295_consen  186 DEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKYELALEIAKKAVEL--  263 (395)
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--
Confidence            6789999999987777788888988888898999999888875   36666666677889999999999999999885  


Q ss_pred             CccH-HHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           79 MGDE-FTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        79 ~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      .|+. .+|..|..+|.+.|+++.|...++.+..
T Consensus       264 sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  264 SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            4665 6999999999999999999999887753

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.68  E-value=0.0032  Score=49.54  Aligned_cols=144  Identities=11%  Similarity=0.092  Sum_probs=99.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCC-------cHHHH----HHHHHHHHhcCcHHHHHHHHHHHHHc-----C-CCc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPER-------DYVLW----TTMIDGYLRVNRFREALTLFQEIQTS-----N-IMG   80 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~----~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~p   80 (181)
                      +...+...|...|++++|..+++...+.       +....    +.+-..|...+++.+|..+|+++..-     | ..|
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            5666889999999999999999887642       22222    23455777789999999999998642     2 223


Q ss_pred             cH-HHHHHHHHHHHccCCcchHHHHHHHHHHc------CCCcchHHHHH-HHHHhHhcC---------------------
Q 038237           81 DE-FTIVSILTARANLGALELGEWIKTYIDKN------KVKNDIFAGNA-LIDMYCKCT---------------------  131 (181)
Q Consensus        81 ~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~-ll~~~~~~~---------------------  131 (181)
                      .. .+++.|-.+|.+.|++++|...++...+-      ...|.+....+ +...++..+                     
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            32 56777778899999999988877765431      12233332222 222222221                     


Q ss_pred             -----chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 -----VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 -----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                           -..+++.|-..|-..|++++|.+++++...
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~  395 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQ  395 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence                 356799999999999999999999999864

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.63  E-value=0.0018  Score=40.34  Aligned_cols=98  Identities=11%  Similarity=0.029  Sum_probs=77.9

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--CccHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE--RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTSNI--MGDEFTIVSI   88 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l   88 (181)
                      .++......+.+.|++++|.+.|+.+.+  |+    ...+..+...+.+.|++++|.+.|++.....-  +.....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3566777888899999999999999964  32    34666788899999999999999999886431  1124567777


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      ...+.+.|+.++|...++.+......
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~p~  108 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRYPG  108 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHCcC
Confidence            78888999999999999999987543

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.62  E-value=0.011  Score=44.30  Aligned_cols=145  Identities=12%  Similarity=0.025  Sum_probs=99.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-CccH--HHHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGDE--FTIVSILTA   91 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~l~~~   91 (181)
                      ....+...+...|++++|.+.+++..+   .+...+..+-..+...|++++|...+++.....- .|+.  ..|..+...
T Consensus       116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~  195 (355)
T cd05804         116 LLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALF  195 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHH
Confidence            344555678899999999999999875   3566788888899999999999999998776432 2333  345577888


Q ss_pred             HHccCCcchHHHHHHHHHHcCC-CcchHHH-H--HHHHHhHhcC------------c---------hHhHH--HHHHHHH
Q 038237           92 RANLGALELGEWIKTYIDKNKV-KNDIFAG-N--ALIDMYCKCT------------V---------KFTWT--TMIVGLA  144 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~ll~~~~~~~------------~---------~~~~~--~li~~~~  144 (181)
                      +...|++++|..+++....... .+..... +  .++.-+...|            +         ...++  ....++.
T Consensus       196 ~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~  275 (355)
T cd05804         196 YLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALA  275 (355)
T ss_pred             HHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHh
Confidence            8999999999999999864432 1222111 1  1122121112            0         01122  4566677


Q ss_pred             HcCChhHHHHHHHHHHHc
Q 038237          145 ISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       145 ~~~~~~~a~~~~~~m~~~  162 (181)
                      ..|+.+.|..+++.+...
T Consensus       276 ~~~~~~~a~~~L~~l~~~  293 (355)
T cd05804         276 GAGDKDALDKLLAALKGR  293 (355)
T ss_pred             cCCCHHHHHHHHHHHHHH
Confidence            899999999999999764

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.59  E-value=0.0043  Score=50.85  Aligned_cols=123  Identities=9%  Similarity=0.001  Sum_probs=97.3

Q ss_pred             CccHHHHhhhcCC--CChh-HHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            1 MGFTLEIFGTMKN--KDVI-SYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         1 ~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      .|+|+++++...+  |+.. ....+...+.+.+++++|....+....  | +......+-.++.+.|++++|..+|++..
T Consensus       102 ~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~  181 (694)
T PRK15179        102 SDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQSEQADACFERLS  181 (694)
T ss_pred             cHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            3688888888775  6554 577888999999999999999999986  3 55667777778899999999999999999


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      ..+- -+...+..+-.++.+.|+.++|...|+...+.. .|...-|+.++.
T Consensus       182 ~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~  230 (694)
T PRK15179        182 RQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV  230 (694)
T ss_pred             hcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH
Confidence            8432 246788888999999999999999999988752 223344454443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.58  E-value=0.0026  Score=37.01  Aligned_cols=95  Identities=14%  Similarity=0.125  Sum_probs=71.0

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      +..+...+...|++++|...+++..+..- .+...+..+...+...+++++|...++...+.... +...          
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~----------   70 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKA----------   70 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhH----------
Confidence            55667778889999999999999877532 23466777888888999999999999998876433 2223          


Q ss_pred             cCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          130 CTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       130 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                            +..+...+...|+.++|.+.+++..+.
T Consensus        71 ------~~~~~~~~~~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          71 ------YYNLGLAYYKLGKYEEALEAYEKALEL   97 (100)
T ss_pred             ------HHHHHHHHHHHHhHHHHHHHHHHHHcc
Confidence                  334444555589999999999887653

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=97.58  E-value=0.00071  Score=55.76  Aligned_cols=161  Identities=15%  Similarity=0.137  Sum_probs=119.3

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|.+...   .|...-+-+--.++..|++.+|..||.+.++.   +..+|-.+-..|...|++..|+++|+...+
T Consensus       629 ~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lk  708 (1018)
T KOG2002|consen  629 EKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLK  708 (1018)
T ss_pred             HHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHH
Confidence            578888886654   46666677888899999999999999999874   558899999999999999999999999765


Q ss_pred             cC-CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc-----CchHhHHHHHHHHHHcCCh
Q 038237           76 SN-IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC-----TVKFTWTTMIVGLAISGNG  149 (181)
Q Consensus        76 ~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-----~~~~~~~~li~~~~~~~~~  149 (181)
                      .- -.-+..+.+-|-+++.+.|.+.+|.+.+-......+.-..+.+|..+-..-..     ....|   +=......+..
T Consensus       709 kf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t---~eev~~a~~~l  785 (1018)
T KOG2002|consen  709 KFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRT---LEEVLEAVKEL  785 (1018)
T ss_pred             HhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhccccc---HHHHHHHHHHH
Confidence            43 34567888889999999999999988887777766665556666655433211     01111   11112235578


Q ss_pred             hHHHHHHHHHHHcCCC
Q 038237          150 DKALDMFSQMLRASIK  165 (181)
Q Consensus       150 ~~a~~~~~~m~~~~~~  165 (181)
                      +.|.++|..|...+-+
T Consensus       786 e~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  786 EEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHhcCCC
Confidence            8999999999887544

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.55  E-value=0.00064  Score=43.41  Aligned_cols=43  Identities=14%  Similarity=0.135  Sum_probs=34.3

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHc-CCCCChhhHHHHHhh
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLRA-SIKPDEVAYVGVLSA  177 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~t~~~li~~  177 (181)
                      ...+++.+|+.+|++..|+++++...+. +++-+..+|..|++=
T Consensus        54 lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   54 LLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            3334444444599999999999999988 898899999998864

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.52  E-value=0.0015  Score=47.08  Aligned_cols=83  Identities=14%  Similarity=0.158  Sum_probs=56.8

Q ss_pred             CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC--chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHH
Q 038237           96 GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT--VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVG  173 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  173 (181)
                      +..+-....++.|.+.|++-|..+|+.||+.+-+..  -...+...+..|-+  +-+=+.+++++|...||-||..+=..
T Consensus        86 ~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~--QQ~C~I~vLeqME~hGVmPdkE~e~~  163 (406)
T KOG3941|consen   86 THVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQ--QQNCAIKVLEQMEWHGVMPDKEIEDI  163 (406)
T ss_pred             chHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCch--hhhHHHHHHHHHHHcCCCCchHHHHH
Confidence            344445555666666677777777777776665433  23334444444443  33458899999999999999999999


Q ss_pred             HHhhhcc
Q 038237          174 VLSARTH  180 (181)
Q Consensus       174 li~~~~~  180 (181)
                      |++++.+
T Consensus       164 lvn~FGr  170 (406)
T KOG3941|consen  164 LVNAFGR  170 (406)
T ss_pred             HHHHhcc
Confidence            9999875

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.50  E-value=0.0053  Score=46.46  Aligned_cols=86  Identities=10%  Similarity=0.028  Sum_probs=50.3

Q ss_pred             HHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchH
Q 038237           25 GYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELG  101 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  101 (181)
                      .+.+.|++++|.+.|++..+   .+...|..+-.+|.+.|++++|+..+++.....- .+...|..+-.++...|++++|
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCHHHH
Confidence            34455666666666666653   2455555666666666666666666666655321 1344555555666666666666


Q ss_pred             HHHHHHHHHc
Q 038237          102 EWIKTYIDKN  111 (181)
Q Consensus       102 ~~~~~~~~~~  111 (181)
                      ...|+.....
T Consensus        90 ~~~~~~al~l   99 (356)
T PLN03088         90 KAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHh
Confidence            6666666554

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.49  E-value=0.0062  Score=45.74  Aligned_cols=119  Identities=10%  Similarity=0.080  Sum_probs=72.1

Q ss_pred             cCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHH
Q 038237           29 REQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      .+..+.+.+.++....  | .......+-..+...|++++|.+.+++..+.. +.+...+..+-..+...|++++|...+
T Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l  171 (355)
T cd05804          93 SGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFM  171 (355)
T ss_pred             ccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4445555555543222  1 22233344456667777778877777777653 224456666777777777787777777


Q ss_pred             HHHHHcCCC-cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          106 TYIDKNKVK-NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       106 ~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ++....... |+..              ...|..+...+...|++++|.+++++....
T Consensus       172 ~~~l~~~~~~~~~~--------------~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         172 ESWRDTWDCSSMLR--------------GHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             HhhhhccCCCcchh--------------HHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            776654221 1111              112344555667799999999999998543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.49  E-value=0.00023  Score=42.01  Aligned_cols=77  Identities=13%  Similarity=0.183  Sum_probs=50.8

Q ss_pred             cCCHHHHHHHhcccCC--C---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHH
Q 038237           29 REQVDIARQCFDQMPE--R---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEW  103 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~--~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  103 (181)
                      .|+++.|..+++.+..  |   +...+-.+...+.+.|++++|+.+++..... . .+....-.+..++.+.|++++|..
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~-~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLD-P-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHH-H-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            5778888888888764  3   2344555777888888888888888872221 1 122344455777888888888888


Q ss_pred             HHHH
Q 038237          104 IKTY  107 (181)
Q Consensus       104 ~~~~  107 (181)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8764

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.49  E-value=0.0038  Score=48.23  Aligned_cols=132  Identities=11%  Similarity=0.075  Sum_probs=94.2

Q ss_pred             cCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHH
Q 038237           29 REQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      .+++++|..=|++..+   .++.+|--+-.+..+.+++++++..|++.+++ ++-...+|+.....+...++++.|...|
T Consensus       407 L~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~Y  485 (606)
T KOG0547|consen  407 LQQYEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQY  485 (606)
T ss_pred             HHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHH
Confidence            3445555555555543   25667777777888888999999999998775 5556788999999999999999999999


Q ss_pred             HHHHHcCCC-------cchHHHHHHHHHhHhcC-----------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          106 TYIDKNKVK-------NDIFAGNALIDMYCKCT-----------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       106 ~~~~~~~~~-------~~~~~~~~ll~~~~~~~-----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +..+.....       +.+.+...++-.-.+..                 .-..|-+|-..-.+.|+.++|.++|++-..
T Consensus       486 D~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  486 DKAIELEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHhhccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            887764221       22333333332222211                 456788999999999999999999998653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.48  E-value=0.0084  Score=37.22  Aligned_cols=99  Identities=15%  Similarity=0.002  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc--chHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNI--MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKN--DIFAGNAL  123 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  123 (181)
                      .++-.+...+.+.|++++|.+.|.++....-  ......+..+...+.+.|+++.|...++.+.......  ....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3456677788899999999999999986431  1113466678899999999999999999998753221  12223333


Q ss_pred             HHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          124 IDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       124 l~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                      ...+.+.|+.++|.+.++++.+.
T Consensus        83 ----------------~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 ----------------GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             ----------------HHHHHHhCChHHHHHHHHHHHHH
Confidence                            33445599999999999999987

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.40  E-value=0.015  Score=40.81  Aligned_cols=128  Identities=11%  Similarity=0.027  Sum_probs=95.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHcc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANL   95 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~   95 (181)
                      ..-+--+|.+.|+...|..-+++..+.   +.-+|..+-..|-+.|..+.|.+-|++-....-. +-.+.|..-.-+|..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhC
Confidence            445666788899999999999888763   5557888888899999999999999987764321 345666666667888


Q ss_pred             CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           96 GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      |++++|...|+.....-.-+..               ..+|..+.-+..+.|+++.|.+.|++-.+.
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~---------------s~t~eN~G~Cal~~gq~~~A~~~l~raL~~  168 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEP---------------SDTLENLGLCALKAGQFDQAEEYLKRALEL  168 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCc---------------chhhhhhHHHHhhcCCchhHHHHHHHHHHh
Confidence            8999999999888775222111               124445555566799999999999998875

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=97.34  E-value=0.019  Score=47.40  Aligned_cols=167  Identities=16%  Similarity=0.091  Sum_probs=110.6

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccC---CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMP---ERDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|.+++.+...   .+...|-+|-..|-+.|+.+++...+--..   ..|...|-.+-+-..+.|+++.|.-.|.+..+
T Consensus       156 eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~  235 (895)
T KOG2076|consen  156 EEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQ  235 (895)
T ss_pred             HHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            567777776653   355568888888888888888877665443   34777888888888888888888888888777


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH---------------------HHhHhcC---
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI---------------------DMYCKCT---  131 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll---------------------~~~~~~~---  131 (181)
                      .. +++...+---+..|-+.|+...|..-|.++.+.....|..-.-.++                     .++...+   
T Consensus       236 ~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~  314 (895)
T KOG2076|consen  236 AN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEA  314 (895)
T ss_pred             cC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccc
Confidence            53 2344555555667778888888888888877764422222222222                     2222111   


Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChh
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEV  169 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  169 (181)
                      +...+|.++..+.+..++++|......+......||..
T Consensus       315 ~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~  352 (895)
T KOG2076|consen  315 SLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDS  352 (895)
T ss_pred             cccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChh
Confidence            55567778888888888888888888777644444443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.32  E-value=0.0048  Score=45.53  Aligned_cols=90  Identities=12%  Similarity=0.041  Sum_probs=72.2

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHH-HHHHHHHHHccC
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFT-IVSILTARANLG   96 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~~   96 (181)
                      .-+-.+|-+.|.+.+|.+.|+.-..  |-+.||-.|-..|-+..+++.|+.+|.+-.+.  .|-.+| ..-..+.+-..+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            4567889999999999999887764  78889999999999999999999999887764  344444 445566667778


Q ss_pred             CcchHHHHHHHHHHc
Q 038237           97 ALELGEWIKTYIDKN  111 (181)
Q Consensus        97 ~~~~a~~~~~~~~~~  111 (181)
                      ..+++.++++...+.
T Consensus       305 ~~~~a~~lYk~vlk~  319 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKL  319 (478)
T ss_pred             hHHHHHHHHHHHHhc
Confidence            889999999888775

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.048  Score=42.16  Aligned_cols=48  Identities=17%  Similarity=0.070  Sum_probs=34.1

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      |-..|-.+-++|.-.+.+.-|+-.|++...- -+-|+..|.+|-+.|.+
T Consensus       397 DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG~CY~k  444 (559)
T KOG1155|consen  397 DYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALGECYEK  444 (559)
T ss_pred             hHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHHHHHHH
Confidence            6777777777777777777788777777654 33467777777766643

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.29  E-value=0.005  Score=44.53  Aligned_cols=97  Identities=9%  Similarity=0.064  Sum_probs=77.2

Q ss_pred             HHHHhcccC--CCcHHHHHHHHHHHHhc-----CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC----------
Q 038237           35 ARQCFDQMP--ERDYVLWTTMIDGYLRV-----NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA----------   97 (181)
Q Consensus        35 a~~~~~~m~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~----------   97 (181)
                      .+..|...+  ++|-..|-..+.-+...     +.++-....+..|++.|+..|..+|+.|++.+=+..-          
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345555555  46777777777776554     5688888899999999999999999999998866542          


Q ss_pred             ------cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC
Q 038237           98 ------LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT  131 (181)
Q Consensus        98 ------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (181)
                            -+=+..++++|...|+.||..+-..|+.++++.+
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence                  2236788999999999999999999999998865

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=97.28  E-value=0.0021  Score=51.65  Aligned_cols=78  Identities=14%  Similarity=0.069  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHH
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAI  145 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~  145 (181)
                      +|-.+=.+..+.++++.+.+.|.......+ -+...||.+-.+|.+.+                  +...|...+.....
T Consensus       521 ~wf~~G~~ALqlek~q~av~aF~rcvtL~P-d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvd  599 (777)
T KOG1128|consen  521 TWFGLGCAALQLEKEQAAVKAFHRCVTLEP-DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVD  599 (777)
T ss_pred             HHHhccHHHHHHhhhHHHHHHHHHHhhcCC-CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhh
Confidence            333333344455666666666666554321 13445666666665554                  44556666777777


Q ss_pred             cCChhHHHHHHHHHHHc
Q 038237          146 SGNGDKALDMFSQMLRA  162 (181)
Q Consensus       146 ~~~~~~a~~~~~~m~~~  162 (181)
                      -|.+++|.+.++++.+-
T Consensus       600 vge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  600 VGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             cccHHHHHHHHHHHHHh
Confidence            99999999999998754

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.27  E-value=0.00076  Score=39.71  Aligned_cols=81  Identities=9%  Similarity=0.028  Sum_probs=56.2

Q ss_pred             cCcHHHHHHHHHHHHHcCC-CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHH
Q 038237           60 VNRFREALTLFQEIQTSNI-MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTT  138 (181)
Q Consensus        60 ~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~  138 (181)
                      .|+++.|+.+|+++.+..- .|+...+-.+..++.+.|++++|..+++. .+.  .+......               -.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~~~~~~---------------~l   63 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPSNPDIH---------------YL   63 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHCHHHHH---------------HH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCCCHHHH---------------HH
Confidence            5789999999999987643 23455566689999999999999999988 222  22111111               12


Q ss_pred             HHHHHHHcCChhHHHHHHHH
Q 038237          139 MIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~  158 (181)
                      +-.++.+.|++++|.+.|++
T Consensus        64 ~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   64 LARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHhc
Confidence            24456679999999999986

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=97.26  E-value=0.023  Score=45.12  Aligned_cols=139  Identities=17%  Similarity=0.164  Sum_probs=101.8

Q ss_pred             CChhHH--HHHHHHHhccCCHHHHHHHhcccCC--Cc-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           14 KDVISY--TAIVSGYINREQVDIARQCFDQMPE--RD-YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        14 ~~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      |+...|  .-+-..|...|++++|.+.++....  |+ +..|-.-...+-+.|++.+|.+.++........ |...=+..
T Consensus       190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~  268 (517)
T PF12569_consen  190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKC  268 (517)
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHH
Confidence            444344  5557778899999999999998876  43 456777788899999999999999999887654 78888889


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ...+.++|++++|..++..+.+.+..|-..    |..+-|.    =...-.-.+|.+.|++..|+.-|..+.+
T Consensus       269 aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~----L~~mQc~----Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  269 AKYLLRAGRIEEAEKTASLFTREDVDPLSN----LNDMQCM----WFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhcCCCCCcccC----HHHHHHH----HHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999999999999999998776533221    1111110    0012233456778888888877776654

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.26  E-value=0.0015  Score=36.62  Aligned_cols=53  Identities=15%  Similarity=0.159  Sum_probs=35.6

Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           58 LRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        58 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .+.|++++|++.|++.....-. +...+..+...+.+.|++++|..+++.+...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3567777777777777654322 5566666777777777777777777777765

...

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.26  E-value=0.037  Score=39.73  Aligned_cols=121  Identities=12%  Similarity=0.097  Sum_probs=87.6

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH----cc
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA----NL   95 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~   95 (181)
                      ..-...|++.|++++|.+....  -.+......=+..+.+..+++-|.+.+++|.+-   -+..|.+-|..++.    ..
T Consensus       112 l~aa~i~~~~~~~deAl~~~~~--~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  112 LLAAIIYMHDGDFDEALKALHL--GENLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             HHhhHHhhcCCChHHHHHHHhc--cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccc
Confidence            3345668899999999999887  334444444455677888999999999999885   24556554555544    45


Q ss_pred             CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           96 GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.+.+|.-+|++|-++ ..|++-+.+.....+..                .|++++|..++++..++
T Consensus       187 ek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~----------------~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQ----------------LGRYEEAESLLEEALDK  236 (299)
T ss_pred             hhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHH----------------hcCHHHHHHHHHHHHhc
Confidence            5688899999999763 56666666655555444                89999999999998876

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=97.22  E-value=0.0015  Score=54.01  Aligned_cols=129  Identities=14%  Similarity=0.085  Sum_probs=97.2

Q ss_pred             CCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHH
Q 038237           30 EQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKT  106 (181)
Q Consensus        30 ~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  106 (181)
                      +..++|.++|.+..+   .|..+-|-+-..++..|++++|..+|.+..+.... +..+|-.+...|...|.+..|.++|+
T Consensus       626 k~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AIqmYe  704 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAIQMYE  704 (1018)
T ss_pred             HHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHHHHHH
Confidence            456889999887765   36677777888889999999999999999987652 45677788999999999999999999


Q ss_pred             HHHHc-CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          107 YIDKN-KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       107 ~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      ...+. ....++.+...|-.++-+                +|++.+|.+.+-........-....||..+
T Consensus       705 ~~lkkf~~~~~~~vl~~Lara~y~----------------~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  705 NCLKKFYKKNRSEVLHYLARAWYE----------------AGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHhcccCCHHHHHHHHHHHHH----------------hhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            88776 445566666666666655                888888888877776654444445555443

>PLN02789 farnesyltranstransferase

Probab=97.21  E-value=0.051  Score=40.55  Aligned_cols=174  Identities=9%  Similarity=0.016  Sum_probs=97.0

Q ss_pred             ccHHHHhhhcCC--CChh-HHHHHHHHHhccC-CHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCc--HHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVI-SYTAIVSGYINRE-QVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNR--FREALTLFQE   72 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~-~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~--~~~a~~~~~~   72 (181)
                      ++|+.++++...  |+.. +|+.--..+.+.| ++++++..++++.+   .+..+|+.--..+.+.|+  .++++.++++
T Consensus        54 erAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~k  133 (320)
T PLN02789         54 PRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRK  133 (320)
T ss_pred             HHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHH
Confidence            345555555543  4332 3444444445555 56777777776653   355566654444444454  2567777777


Q ss_pred             HHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc----------------------
Q 038237           73 IQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC----------------------  130 (181)
Q Consensus        73 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----------------------  130 (181)
                      +.+..-+ |...|+-..-++.+.|+++++.+.++++++.++. +...|+.....+.+.                      
T Consensus       134 al~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~  211 (320)
T PLN02789        134 ILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAIL  211 (320)
T ss_pred             HHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHH
Confidence            7765443 6677777777777777888888888887776544 333333322221111                      


Q ss_pred             ---CchHhHHHHHHHHHHc----CChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          131 ---TVKFTWTTMIVGLAIS----GNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       131 ---~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                         .|...|+-+-..+...    ++..+|.+.+.+..+.+ +.+......|++.|
T Consensus       212 ~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~  265 (320)
T PLN02789        212 ANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLL  265 (320)
T ss_pred             hCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHH
Confidence               0666677666666653    23345767776655432 23444444455444

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.20  E-value=0.0085  Score=45.35  Aligned_cols=86  Identities=6%  Similarity=0.083  Sum_probs=67.0

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++...  | +...|..+..++.+.|++++|...++....   .+...|..+-.+|...|++++|...|++..+
T Consensus        19 ~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~   98 (356)
T PLN03088         19 ALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            467777777654  4 455788888899999999999999998874   3677888888899999999999999999887


Q ss_pred             cCCCccHHHHHHHH
Q 038237           76 SNIMGDEFTIVSIL   89 (181)
Q Consensus        76 ~~~~p~~~~~~~l~   89 (181)
                      ..  |+.......+
T Consensus        99 l~--P~~~~~~~~l  110 (356)
T PLN03088         99 LA--PGDSRFTKLI  110 (356)
T ss_pred             hC--CCCHHHHHHH
Confidence            43  5544444444

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.06  E-value=0.044  Score=36.86  Aligned_cols=67  Identities=9%  Similarity=-0.039  Sum_probs=51.5

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD--EFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ....+..+...+...|++++|...|++..+..-.+.  ...+..+...+.+.|++++|...+++.....
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  102 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN  102 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            455677777788888999999999998876543222  3567788888888999999999888887753

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.04  E-value=0.016  Score=38.24  Aligned_cols=94  Identities=6%  Similarity=-0.006  Sum_probs=70.2

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ...-.+-..+...|++++|.++|+....  | +..-|-.|-..+-..|++++|+..|......... |...+-.+-.++.
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L  114 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHH
Confidence            3444556667788888988888888764  3 4445666666777778889999998888776643 6677777788888


Q ss_pred             ccCCcchHHHHHHHHHHc
Q 038237           94 NLGALELGEWIKTYIDKN  111 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~  111 (181)
                      +.|+.+.|..-|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            888888888888877765

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.011  Score=46.35  Aligned_cols=173  Identities=17%  Similarity=0.088  Sum_probs=92.1

Q ss_pred             ccHHHHhhhcCCCCh---hHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKNKDV---ISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|.+...-|.   ..|-..-..|+-.|..++|..-+....+  + ...++--+---|.+.+..+.|.+.|.+...
T Consensus       329 seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a  408 (611)
T KOG1173|consen  329 SEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA  408 (611)
T ss_pred             HHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            467777776554221   2466666666666666665554443322  1 111111122234445555555555554433


Q ss_pred             cCCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHc----CC-C-cchHHHHHHHHHhHhcC-----------------
Q 038237           76 SNIMG-DEFTIVSILTARANLGALELGEWIKTYIDKN----KV-K-NDIFAGNALIDMYCKCT-----------------  131 (181)
Q Consensus        76 ~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~-~~~~~~~~ll~~~~~~~-----------------  131 (181)
                        +-| |+...+-+--.....+.+.+|..+|+.....    +- . ....+++.|-++|.+.+                 
T Consensus       409 --i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~  486 (611)
T KOG1173|consen  409 --IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP  486 (611)
T ss_pred             --cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC
Confidence              222 2233333322333345555555555544411    00 0 12233444444444443                 


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                       |..++.++--.|...|+++.|.+.|++-..  +.||-.+...+++.+
T Consensus       487 k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  487 KDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             CchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence             666677777777779999999999998765  789988888887754

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.99  E-value=0.059  Score=45.69  Aligned_cols=147  Identities=12%  Similarity=0.036  Sum_probs=95.8

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+.+|+.+..+=.+.|.+.+|.+-|-  +..|+..|.-+|+...+.|.+++..+.+....+..-.|...+  .|+-+|++
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyi--kadDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAk 1178 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYI--KADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAK 1178 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHH--hcCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHH
Confidence            34567888888788888888877664  345667788888888888888888888777766666665554  68888888


Q ss_pred             cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237           95 LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      .+++.+.++...       .|+......+-+-|-..+          ++.-|.-+-..++..|++..|.+.-++.     
T Consensus      1179 t~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA----- 1246 (1666)
T KOG0985|consen 1179 TNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA----- 1246 (1666)
T ss_pred             hchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc-----
Confidence            888766655431       233322222222222222          4556677777777777777777665554     


Q ss_pred             CCChhhHHHHHhhh
Q 038237          165 KPDEVAYVGVLSAR  178 (181)
Q Consensus       165 ~p~~~t~~~li~~~  178 (181)
                       .+..||.-+=.+|
T Consensus      1247 -ns~ktWK~VcfaC 1259 (1666)
T KOG0985|consen 1247 -NSTKTWKEVCFAC 1259 (1666)
T ss_pred             -cchhHHHHHHHHH
Confidence             3556666655555

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.97  E-value=0.0018  Score=36.29  Aligned_cols=60  Identities=13%  Similarity=0.216  Sum_probs=45.5

Q ss_pred             hccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           27 INREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      .+.|++++|.++|+.+..  | +...+-.+...|.+.|++++|.++++++....  |+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~--~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD--PDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG--TTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCHHHHHHH
Confidence            467889999999998863  3 77777788899999999999999999988753  554444443

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.93  E-value=0.0079  Score=33.32  Aligned_cols=56  Identities=7%  Similarity=-0.023  Sum_probs=34.8

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           55 DGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ..+.+.|++++|.+.|++..+.. +-+...+..+-..+.+.|++++|...++...+.
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45566667777777777766654 124556666666666777777777777666554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.88  E-value=0.12  Score=41.16  Aligned_cols=139  Identities=9%  Similarity=-0.044  Sum_probs=88.3

Q ss_pred             CChhHHHHHHHHHhcc-----CCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcC--------cHHHHHHHHHHHHHc-
Q 038237           14 KDVISYTAIVSGYINR-----EQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVN--------RFREALTLFQEIQTS-   76 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~-   76 (181)
                      .|...|...+.+....     +..+.|.++|++..+  | ....|..+..++....        +...+.+...+.... 
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~  414 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALP  414 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcc
Confidence            5777899888886542     337799999999875  4 3345555444333221        233444444443332 


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      ....+...|.++--.....|++++|...+++.....  |+...|..+-.                .+...|+.++|.+.+
T Consensus       415 ~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~----------------~~~~~G~~~eA~~~~  476 (517)
T PRK10153        415 ELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGK----------------VYELKGDNRLAADAY  476 (517)
T ss_pred             cCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHH----------------HHHHcCCHHHHHHHH
Confidence            123345667766666666799999999999998876  44444444444                444499999999999


Q ss_pred             HHHHHcCCCCChhhHH
Q 038237          157 SQMLRASIKPDEVAYV  172 (181)
Q Consensus       157 ~~m~~~~~~p~~~t~~  172 (181)
                      ++....  .|...||.
T Consensus       477 ~~A~~L--~P~~pt~~  490 (517)
T PRK10153        477 STAFNL--RPGENTLY  490 (517)
T ss_pred             HHHHhc--CCCCchHH
Confidence            998764  45544443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.88  E-value=0.0096  Score=38.88  Aligned_cols=69  Identities=17%  Similarity=0.118  Sum_probs=35.4

Q ss_pred             HHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH-----H
Q 038237           87 SILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML-----R  161 (181)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~  161 (181)
                      .++..+...|+++.+..+.+......+- +...|..                +|.+|.+.|+...|.+.|+++.     +
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~----------------lm~~~~~~g~~~~A~~~Y~~~~~~l~~e  129 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRL----------------LMRALAAQGRRAEALRVYERYRRRLREE  129 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHH----------------HHHHHHHTT-HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHH----------------HHHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence            4445555666777777766666655332 3333333                3444444777777777777764     2


Q ss_pred             cCCCCChhhHH
Q 038237          162 ASIKPDEVAYV  172 (181)
Q Consensus       162 ~~~~p~~~t~~  172 (181)
                      .|+.|+..|-.
T Consensus       130 lg~~Ps~~~~~  140 (146)
T PF03704_consen  130 LGIEPSPETRA  140 (146)
T ss_dssp             HS----HHHHH
T ss_pred             hCcCcCHHHHH
Confidence            37777776643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=96.88  E-value=0.0099  Score=38.86  Aligned_cols=84  Identities=12%  Similarity=0.091  Sum_probs=65.7

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC--CcH----HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHcc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE--RDY----VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANL   95 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~   95 (181)
                      +-..+...|++++|...|+....  ++.    ...-.|...+...|++++|+..++......  .....+...-+.+.+.
T Consensus        54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~  131 (145)
T PF09976_consen   54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQ  131 (145)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHC
Confidence            44778889999999999999875  333    234456778888999999999997754433  3445667788899999


Q ss_pred             CCcchHHHHHHH
Q 038237           96 GALELGEWIKTY  107 (181)
Q Consensus        96 ~~~~~a~~~~~~  107 (181)
                      |+.++|...|+.
T Consensus       132 g~~~~A~~~y~~  143 (145)
T PF09976_consen  132 GDYDEARAAYQK  143 (145)
T ss_pred             CCHHHHHHHHHH
Confidence            999999999875

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=96.87  E-value=0.12  Score=40.41  Aligned_cols=133  Identities=14%  Similarity=0.150  Sum_probs=90.1

Q ss_pred             ccCCHHHHHHHhcccC--CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHH
Q 038237           28 NREQVDIARQCFDQMP--ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        28 ~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      ..|++..|.++|+...  +|+..+|.+.|+.=.+-..++.|..+|++..-.  .|+..+|--..+-=.+.|....+..++
T Consensus       153 ~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3455666666665554  378888888888888888888888888887764  388888777777667778777777777


Q ss_pred             HHHHHc-CCCcchHHHHHHHHHhHhc----------------------------------------C-------------
Q 038237          106 TYIDKN-KVKNDIFAGNALIDMYCKC----------------------------------------T-------------  131 (181)
Q Consensus       106 ~~~~~~-~~~~~~~~~~~ll~~~~~~----------------------------------------~-------------  131 (181)
                      +..++. |-   ...-..|..+++.-                                        |             
T Consensus       231 erAie~~~~---d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  231 ERAIEFLGD---DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHhhh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            666543 21   11112222222210                                        0             


Q ss_pred             -------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 038237          132 -------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP  166 (181)
Q Consensus       132 -------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  166 (181)
                                   |..+|--.+..-...|+.+...++|++.... ++|
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp  354 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPP  354 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCc
Confidence                         7777888888888889999999999988764 555

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=96.86  E-value=0.11  Score=43.11  Aligned_cols=122  Identities=14%  Similarity=0.157  Sum_probs=90.0

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL   98 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~   98 (181)
                      .-..+++ |+.++|.+++.+..+   ....+|..|-..|-+.|+.+++...+-.....+ +-|..-|..+-+-..+.|.+
T Consensus       146 AN~lfar-g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i  223 (895)
T KOG2076|consen  146 ANNLFAR-GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNI  223 (895)
T ss_pred             HHHHHHh-CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccH
Confidence            3445555 999999999999985   478899999999999999999988876655543 33668888888888999999


Q ss_pred             chHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           99 ELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        99 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.|.-.+.+.++....--...|. -...|                -+.|+...|++-|.++...
T Consensus       224 ~qA~~cy~rAI~~~p~n~~~~~e-rs~L~----------------~~~G~~~~Am~~f~~l~~~  270 (895)
T KOG2076|consen  224 NQARYCYSRAIQANPSNWELIYE-RSSLY----------------QKTGDLKRAMETFLQLLQL  270 (895)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHH-HHHHH----------------HHhChHHHHHHHHHHHHhh
Confidence            99999999999875443222222 12233                3366666666666666654

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=96.84  E-value=0.022  Score=43.99  Aligned_cols=109  Identities=11%  Similarity=0.027  Sum_probs=87.1

Q ss_pred             ccHHHHhhhcCC--CCh-hHHHHHHHHHhccCCHHHHHHHhcccCC--Cc-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDV-ISYTAIVSGYINREQVDIARQCFDQMPE--RD-YVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+..++.+..  ||. .-+....+.+.+.++.++|.+.++.+..  |+ ...+-++-.++.+.|++.+|..++++-..
T Consensus       323 d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~  402 (484)
T COG4783         323 DEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLF  402 (484)
T ss_pred             chHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhh
Confidence            567777776543  654 4556667999999999999999999985  54 55677788899999999999999999877


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .. +-|...|..|-.+|...|+..++..-..+....
T Consensus       403 ~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~  437 (484)
T COG4783         403 ND-PEDPNGWDLLAQAYAELGNRAEALLARAEGYAL  437 (484)
T ss_pred             cC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHHHh
Confidence            64 447899999999999999888887766665543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.81  E-value=0.15  Score=40.31  Aligned_cols=128  Identities=16%  Similarity=0.162  Sum_probs=96.9

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH-HcCCCccHH-HHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-----RDYVLWTTMIDGYLRVNRFREALTLFQEIQ-TSNIMGDEF-TIVSIL   89 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-~~~~~p~~~-~~~~l~   89 (181)
                      .+|...|+..-+..-++.|..+|.+.++     ..+..++++|.-||.. +.+-|.++|+-=. +-   +|.. --..-+
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~csk-D~~~AfrIFeLGLkkf---~d~p~yv~~Yl  442 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSK-DKETAFRIFELGLKKF---GDSPEYVLKYL  442 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcC-ChhHHHHHHHHHHHhc---CCChHHHHHHH
Confidence            3799999999999999999999999986     2777888888877765 7788999998744 44   3433 334667


Q ss_pred             HHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           90 TARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +-+...++-+.+..+|+....++..||.              ....|..+|.--+.-|+...+.++-+++...
T Consensus       443 dfL~~lNdd~N~R~LFEr~l~s~l~~~k--------------s~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  443 DFLSHLNDDNNARALFERVLTSVLSADK--------------SKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHhCcchhHHHHHHHHHhccCChhh--------------hHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            7788899999999999999998666554              2234444555555588888888888777654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.79  E-value=0.018  Score=42.13  Aligned_cols=133  Identities=16%  Similarity=0.098  Sum_probs=88.2

Q ss_pred             HHhccCCHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-------------ccH-----
Q 038237           25 GYINREQVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM-------------GDE-----   82 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------------p~~-----   82 (181)
                      ..-+.|+.+.|.+-|+...+    ....+||..+.- .+.|+...|++...++.++|++             ||.     
T Consensus       153 llykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgN  231 (459)
T KOG4340|consen  153 LLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGN  231 (459)
T ss_pred             eeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccc
Confidence            34578899999999988875    456678776654 4567899999999998888773             222     


Q ss_pred             ---HHHHHHHHHH-------HccCCcchHHHHHHHHHHc-CCCcchHHHHHHHHHhHhc--C---------------chH
Q 038237           83 ---FTIVSILTAR-------ANLGALELGEWIKTYIDKN-KVKNDIFAGNALIDMYCKC--T---------------VKF  134 (181)
Q Consensus        83 ---~~~~~l~~~~-------~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~--~---------------~~~  134 (181)
                         ..-+.++.++       .+.++++.|.+.+-.|.-+ ..+.|++|...+.-.-...  +               -..
T Consensus       232 t~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~~p~~g~~KLqFLL~~nPfP~E  311 (459)
T KOG4340|consen  232 TLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDARPTEGFEKLQFLLQQNPFPPE  311 (459)
T ss_pred             hHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccCCccccHHHHHHHHhcCCCChH
Confidence               1123334333       4678888888888877654 4455666654433222221  1               466


Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHH
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~  158 (181)
                      ||..++-.||++.-++-|-+++-+
T Consensus       312 TFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  312 TFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHHHHHhhhHHHhHHHHHHhh
Confidence            777788888888888777777654

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.75  E-value=0.018  Score=37.52  Aligned_cols=71  Identities=15%  Similarity=0.101  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH-----cCCCcchHHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDK-----NKVKNDIFAG  120 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  120 (181)
                      +...++..+...|++++|.++........ +.|...|..+|.++.+.|+...|..+|+.+.+     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            45667777888999999999999998754 34778999999999999999999999988753     4888887663

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.71  E-value=0.069  Score=33.80  Aligned_cols=109  Identities=15%  Similarity=0.134  Sum_probs=74.0

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc
Q 038237           53 MIDGYLRVNRFREALTLFQEIQTSNIMGD--EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC  130 (181)
Q Consensus        53 li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (181)
                      +-.++-..|+.++|+.+|++-...|....  ...+-.+-..+...|+.++|..+++......  |+...... +.     
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~-l~-----   78 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAA-LR-----   78 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHH-HH-----
Confidence            34566778999999999999999887655  3456667788889999999999999888753  32111111 11     


Q ss_pred             CchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          131 TVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       131 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                            -.+-.++...|+.++|++++-.....    +...|.--|..|+
T Consensus        79 ------~f~Al~L~~~gr~~eAl~~~l~~la~----~~~~y~ra~~~ya  117 (120)
T PF12688_consen   79 ------VFLALALYNLGRPKEALEWLLEALAE----TLPRYRRAIRFYA  117 (120)
T ss_pred             ------HHHHHHHHHCCCHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence                  01122445589999999988776543    3336666665554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.70  E-value=0.09  Score=35.37  Aligned_cols=82  Identities=12%  Similarity=0.060  Sum_probs=62.5

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      ....+..+...+.+.|++++|...|++...  ++    ...+..+...+.+.|++++|...+.+.....- -+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHH
Confidence            344577778888899999999999998863  22    45788888999999999999999999887532 134556666


Q ss_pred             HHHHHccCC
Q 038237           89 LTARANLGA   97 (181)
Q Consensus        89 ~~~~~~~~~   97 (181)
                      ...+...|+
T Consensus       113 g~~~~~~g~  121 (172)
T PRK02603        113 AVIYHKRGE  121 (172)
T ss_pred             HHHHHHcCC
Confidence            666766665

>PLN02789 farnesyltranstransferase

Probab=96.69  E-value=0.16  Score=38.00  Aligned_cols=129  Identities=14%  Similarity=0.106  Sum_probs=84.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVN-RFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ++..+-..+.+.++.++|+.+.+++.+  | +..+|+.--..+...| ++++++..++++.+.+-+ +..+|+..-..+.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~  117 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHH
Confidence            455566667778899999999998875  3 4445655444555556 589999999998876543 5556665544445


Q ss_pred             ccCCc--chHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237           94 NLGAL--ELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus        94 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      +.|+.  +.+....+.+.+...+                 |..+|+-.--.+.+.|+++++++.++++.+...
T Consensus       118 ~l~~~~~~~el~~~~kal~~dpk-----------------Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~  173 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLDAK-----------------NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV  173 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhCcc-----------------cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC
Confidence            55542  4455566566554333                 444555555555567888888888888877644

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.67  E-value=0.019  Score=32.07  Aligned_cols=64  Identities=16%  Similarity=0.123  Sum_probs=38.4

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC-CcchHHHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLG-ALELGEWIKTYIDK  110 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  110 (181)
                      +...|..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++.+.| ++++|...++...+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34556666666666666777777666666543 114455666666666666 56666666665554

...

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.66  E-value=0.14  Score=36.68  Aligned_cols=130  Identities=9%  Similarity=0.016  Sum_probs=91.1

Q ss_pred             cCCHHHHHHHhcccCC--------C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH-HHHHccCCc
Q 038237           29 REQVDIARQCFDQMPE--------R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSIL-TARANLGAL   98 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~--------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~-~~~~~~~~~   98 (181)
                      ..+.++..+++.++..        + -...|.-++-+....|+.+.|..+++++...-  |...-...+= --+-..|.+
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            3456777777777753        1 23457777778888899999999999987753  4432222111 112346888


Q ss_pred             chHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           99 ELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        99 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      ++|.++++.+.... +.|.+++-.=+-..-..|                  |...|.-+-..|...|++++|.-.++++.
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            99999999998876 445666553333332233                  89999999999999999999999999997


Q ss_pred             H
Q 038237          161 R  161 (181)
Q Consensus       161 ~  161 (181)
                      -
T Consensus       182 l  182 (289)
T KOG3060|consen  182 L  182 (289)
T ss_pred             H
Confidence            6

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.66  E-value=0.018  Score=42.90  Aligned_cols=123  Identities=13%  Similarity=0.124  Sum_probs=85.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      +.+..|.-+...|+...|.++..+..=|+-.-|-..|.+++..++|++..++-..      +-++.-|...+.+|.+.|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            4455677778889999999999988889999999999999999999887665332      1245778889999999999


Q ss_pred             cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           98 LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        98 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      ..+|......+..          .--+..|.+.|   .|.-.+....+.++.+.-..+.+..
T Consensus       253 ~~eA~~yI~k~~~----------~~rv~~y~~~~---~~~~A~~~A~~~kd~~~L~~i~~~~  301 (319)
T PF04840_consen  253 KKEASKYIPKIPD----------EERVEMYLKCG---DYKEAAQEAFKEKDIDLLKQILKRC  301 (319)
T ss_pred             HHHHHHHHHhCCh----------HHHHHHHHHCC---CHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            8888877777221          22233333332   2344555555666665555555444

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.60  E-value=0.0095  Score=32.98  Aligned_cols=55  Identities=16%  Similarity=0.240  Sum_probs=46.5

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +-..+.+.|++++|.+.|++..+  | +...+..+-..+...|++++|...|++..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34567889999999999999986  3 6778888889999999999999999998764

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.59  E-value=0.0084  Score=33.61  Aligned_cols=61  Identities=13%  Similarity=0.265  Sum_probs=53.7

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcC-cHHHHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVN-RFREALTLFQEIQT   75 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~   75 (181)
                      +..+|..+-..+.+.|++++|...|++..+   .++..|..+-.++.+.| ++++|++.|++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            456788899999999999999999999874   47778999999999999 79999999998765

...

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.57  E-value=0.11  Score=34.42  Aligned_cols=109  Identities=12%  Similarity=-0.012  Sum_probs=78.6

Q ss_pred             HHHhcccC-CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           36 RQCFDQMP-ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        36 ~~~~~~m~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      +..+.++. ..+....-.+-.-+...|++++|.++|+........ +..-|-.|--.+-..|++++|...+.......+.
T Consensus        23 l~~l~~~~~~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d  101 (157)
T PRK15363         23 LRMLLDDDVTQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID  101 (157)
T ss_pred             HHHHHCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence            34445555 555555556666778899999999999998875432 4455667777778899999999999999887653


Q ss_pred             cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          115 NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       115 ~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                       |+..+-.+-..+.                ..|+.+.|.+-|+.....
T Consensus       102 -dp~~~~~ag~c~L----------------~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        102 -APQAPWAAAECYL----------------ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             -CchHHHHHHHHHH----------------HcCCHHHHHHHHHHHHHH
Confidence             4444444444444                488888888888877665

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=96.55  E-value=0.18  Score=44.21  Aligned_cols=153  Identities=17%  Similarity=0.079  Sum_probs=109.8

Q ss_pred             HHHHhhhcCC-CChh-HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237            4 TLEIFGTMKN-KDVI-SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus         4 a~~~~~~~~~-~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      ..++|++..+ -|+. +|..|...|.+.+..++|.++++.|.+   .....|...++.+.+.++-+.|.+++.+..+.  
T Consensus      1516 l~kVFeRAcqycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-- 1593 (1710)
T KOG1070|consen 1516 LKKVFERACQYCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKS-- 1593 (1710)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--
Confidence            4556666554 3444 588889999999999999999999986   47788999999999999999999999987764  


Q ss_pred             Ccc---HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHH-HHHcCChhHHHH
Q 038237           79 MGD---EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVG-LAISGNGDKALD  154 (181)
Q Consensus        79 ~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~  154 (181)
                      .|.   ..........-.+.|+.+.+..+|+.....-++ -...|+.+++.=.+.++...---++.- +...=...++..
T Consensus      1594 lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKf 1672 (1710)
T KOG1070|consen 1594 LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKF 1672 (1710)
T ss_pred             cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHH
Confidence            233   223333444446789999999999999887444 677899999998888754444444333 223334445555


Q ss_pred             HHHHH
Q 038237          155 MFSQM  159 (181)
Q Consensus       155 ~~~~m  159 (181)
                      +|.+.
T Consensus      1673 ffKkw 1677 (1710)
T KOG1070|consen 1673 FFKKW 1677 (1710)
T ss_pred             HHHHH
Confidence            55444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.51  E-value=0.021  Score=46.73  Aligned_cols=96  Identities=19%  Similarity=0.309  Sum_probs=66.7

Q ss_pred             cHHHHhhhcCCCChhH--HHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 038237            3 FTLEIFGTMKNKDVIS--YTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG   80 (181)
Q Consensus         3 ~a~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   80 (181)
                      +|+.+++.++..++.+  |.-+.+.|+..|+++.|.++|.+..     .++-.|..|.+.|+|++|.++-++...  -..
T Consensus       750 kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~~--~e~  822 (1636)
T KOG3616|consen  750 KAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECHG--PEA  822 (1636)
T ss_pred             hhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhcC--chh
Confidence            5667777776655443  7777888899999999999887654     467778899999999999988776543  223


Q ss_pred             cHHHHHHHHHHHHccCCcchHHHHH
Q 038237           81 DEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        81 ~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      ....|-+-..-+-+.|++.+|++++
T Consensus       823 t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  823 TISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHhHHhHHhhcchhhhhhee
Confidence            4445555555555666666666654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.48  E-value=0.27  Score=39.01  Aligned_cols=113  Identities=13%  Similarity=0.192  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHHHcC-CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc-chHHHHHHHHHhHhcC---------
Q 038237           63 FREALTLFQEIQTSN-IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKN-DIFAGNALIDMYCKCT---------  131 (181)
Q Consensus        63 ~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~---------  131 (181)
                      .+.....+++.+..- +.| +.+|...|+...+..-++.|..+|.+.++.+..+ +++++++++.-||...         
T Consensus       347 ~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cskD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcCChhHHHHHHH
Confidence            455556666665533 333 3567778888888888999999999999988777 9999999999998765         


Q ss_pred             --------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh--hhHHHHHh
Q 038237          132 --------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE--VAYVGVLS  176 (181)
Q Consensus       132 --------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~t~~~li~  176 (181)
                              +...-+..++-+...++-..+..+|++....++.|+.  ..|..+|+
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~  480 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLE  480 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHH
Confidence                    4455566677777788888899999999888665543  56666554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.48  E-value=0.12  Score=38.56  Aligned_cols=101  Identities=12%  Similarity=-0.009  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC  128 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  128 (181)
                      +.+.-|.-+...|+...|.++-.+.+-    |+..-|..-+.+++..++|++-+.+-.. +     -.+..|-..+..|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv----~dkrfw~lki~aLa~~~~w~eL~~fa~s-k-----KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKV----PDKRFWWLKIKALAENKDWDELEKFAKS-K-----KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCC----cHHHHHHHHHHHHHhcCCHHHHHHHHhC-C-----CCCCChHHHHHHHH
Confidence            344556667778888888777666533    7999999999999999999887765432 1     23355666677766


Q ss_pred             hcC---------chHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          129 KCT---------VKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       129 ~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      +.|         .-..+.--+..|.+.|++.+|.+.--+.
T Consensus       249 ~~~~~~eA~~yI~k~~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPKIPDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHhCChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            666         3355678888889999999887664443

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=96.47  E-value=0.34  Score=41.15  Aligned_cols=128  Identities=7%  Similarity=-0.001  Sum_probs=74.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+..+..+|-+.|+.++|..++++..+   .|+.+.|.+-..|+.. ++++|.+++.+....               +..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~  181 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIK  181 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHh
Confidence            444555555566666666666666654   3566666666666666 666666666654443               444


Q ss_pred             cCCcchHHHHHHHHHHcCCCcchHHHH----HHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           95 LGALELGEWIKTYIDKNKVKNDIFAGN----ALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~~~~~~~~~~~----~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ...+..+..++..+....+. +...+-    .+...-....-+.++--+-..|-..++++++.++++.+.+.
T Consensus       182 ~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~  252 (906)
T PRK14720        182 KKQYVGIEEIWSKLVHYNSD-DFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH  252 (906)
T ss_pred             hhcchHHHHHHHHHHhcCcc-cchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc
Confidence            44555555555555554322 111111    11111111114556667777788899999999999999875

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.44  E-value=0.11  Score=37.65  Aligned_cols=99  Identities=18%  Similarity=0.138  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH----HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE----FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      ..|...+.-..+.|++++|...|+.+.+.-  |+.    ..+-.+-..+...|++++|...|+.+.+.-.. +.....++
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~-s~~~~dAl  220 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPK-SPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CcchhHHH
Confidence            356666666677799999999999988743  433    35567788888999999999999999875222 11122222


Q ss_pred             HHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          124 IDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       124 l~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .             -+...+...|+.++|.+.|++..+.
T Consensus       221 ~-------------klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 F-------------KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             H-------------HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            1             1223344589999999999988875

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.41  E-value=0.15  Score=34.10  Aligned_cols=104  Identities=13%  Similarity=-0.061  Sum_probs=69.6

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG--DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      ....|..+...+...|++++|...|++.....-.|  ...++..+-..+...|+.++|...++........ ....+..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHH
Confidence            34566777778888899999999999987653222  2357888888889999999999999888865322 23334444


Q ss_pred             HHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          124 IDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       124 l~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      ...+..         +-..+.+.|+++.|+..+++-
T Consensus       113 a~i~~~---------~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHY---------RGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHH---------hhHHHHHcccHHHHHHHHHHH
Confidence            333332         222334688888666666554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.33  E-value=0.096  Score=35.04  Aligned_cols=91  Identities=11%  Similarity=-0.065  Sum_probs=67.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE--RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSIL   89 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~   89 (181)
                      ...|..+...+...|++++|...|+....  ++    ..+|..+-..+...|++++|+..+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            34567778888899999999999998852  22    3478888899999999999999999987642 22334555555


Q ss_pred             HHHH-------ccCCcchHHHHHHH
Q 038237           90 TARA-------NLGALELGEWIKTY  107 (181)
Q Consensus        90 ~~~~-------~~~~~~~a~~~~~~  107 (181)
                      ..+.       +.|+++.|...+++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHH
Confidence            5555       77787766555543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=96.33  E-value=0.31  Score=39.51  Aligned_cols=90  Identities=17%  Similarity=0.253  Sum_probs=58.8

Q ss_pred             cHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCCC-------------------------------------
Q 038237            3 FTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPER-------------------------------------   45 (181)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------------------------------------   45 (181)
                      .+.++|++...-++..-.-.|..+++.+++++|-+.+......                                     
T Consensus       156 ts~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdai  235 (835)
T KOG2047|consen  156 TSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAI  235 (835)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHH
Confidence            3556666555555555667777888888888887777766531                                     


Q ss_pred             ---------c--HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           46 ---------D--YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        46 ---------~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                               |  -..|++|.+-|.+.|++++|..+|++-...-  .+..-++.+.++|.+
T Consensus       236 iR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~  293 (835)
T KOG2047|consen  236 IRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQ  293 (835)
T ss_pred             HHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHH
Confidence                     0  1147778888888888888888887755432  244556666676654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.31  E-value=0.14  Score=37.64  Aligned_cols=110  Identities=10%  Similarity=-0.004  Sum_probs=76.4

Q ss_pred             cHHHHhhhcCC-CChhHHHHHHHH--HhccCCHHHHHHHhcccCC-CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-cC
Q 038237            3 FTLEIFGTMKN-KDVISYTAIVSG--YINREQVDIARQCFDQMPE-RDYVLWTTMIDGYLRVNRFREALTLFQEIQT-SN   77 (181)
Q Consensus         3 ~a~~~~~~~~~-~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~   77 (181)
                      .|+++...|.. |+...-..=+.+  .-..+++..+..+.++.+. .+..+.+..-.-..+.|+++.|.+-|....+ .|
T Consensus        96 DALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsG  175 (459)
T KOG4340|consen   96 DALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSG  175 (459)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcC
Confidence            46666666665 433332222222  2356778888888888884 5666677766777889999999999999876 55


Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      ..| ...|+..+- ..+.++...|.....+++.+|+.
T Consensus       176 yqp-llAYniALa-Hy~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  176 YQP-LLAYNLALA-HYSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             CCc-hhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhh
Confidence            654 456766554 44568889999999999887764

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.29  E-value=0.15  Score=37.40  Aligned_cols=97  Identities=11%  Similarity=0.087  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcC-CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSN-IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      .+|..+|...-+.+..+.|..+|.+..+.+ .........+.+.-+ ..++.+.|..||+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            578889999999999999999999998643 233444444444332 246666799999998876 33455555555555


Q ss_pred             hHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          127 YCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       127 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +..                .++.+.|..+|++....
T Consensus        80 l~~----------------~~d~~~aR~lfer~i~~   99 (280)
T PF05843_consen   80 LIK----------------LNDINNARALFERAISS   99 (280)
T ss_dssp             HHH----------------TT-HHHHHHHHHHHCCT
T ss_pred             HHH----------------hCcHHHHHHHHHHHHHh
Confidence            544                88999999999998766

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.28  E-value=0.056  Score=42.13  Aligned_cols=125  Identities=13%  Similarity=0.096  Sum_probs=89.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHHc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG-DEFTIVSILTARAN   94 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~   94 (181)
                      |.-+-..|.+..+.++.++.|++...   .|+.+|..=-..+.-.+++++|..=|++...-  .| +...|--+--+.-|
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr  440 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAYAYIQLCCALYR  440 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHH
Confidence            77788889999999999999998875   35566665555566667888888888887764  23 23444444444457


Q ss_pred             cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           95 LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+.+++++..|++.+++ ++..+.+|+..-                ..+...+++++|.+.|+...+.
T Consensus       441 ~~k~~~~m~~Fee~kkk-FP~~~Evy~~fA----------------eiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKK-FPNCPEVYNLFA----------------EILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCchHHHHHH----------------HHHhhHHhHHHHHHHHHHHHhh
Confidence            88999999999999876 333444444444                4444599999999999988764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.28  E-value=0.088  Score=38.16  Aligned_cols=95  Identities=11%  Similarity=0.016  Sum_probs=73.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC--CcH----HHHHHHHHHHHhcCcHHHHHHHHHHHHHcC--CCccHHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE--RDY----VLWTTMIDGYLRVNRFREALTLFQEIQTSN--IMGDEFTIVSIL   89 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~l~   89 (181)
                      .|...+..+.+.|++++|...|+.+.+  |+.    .++--+-..|...|++++|...|..+.+.-  -+.....+-.+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            477777777778999999999999875  433    467778889999999999999999997642  111234444556


Q ss_pred             HHHHccCCcchHHHHHHHHHHcC
Q 038237           90 TARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..+...|+.+.|..+++.+++.-
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            67778999999999999998763

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.26  E-value=0.27  Score=35.55  Aligned_cols=123  Identities=13%  Similarity=0.130  Sum_probs=84.7

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      -+.++..+.-.+.+.-.+.++++..+..-+-++.....+.+.-.+.||.+.|...|+...+..-..+..+.+.++..-.+
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34455555556777788888888887665667777888888889999999999999988876555555555554432211


Q ss_pred             c---C--------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 038237          130 C---T--------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       130 ~---~--------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                      .   |                    |...-|.=.-++.-.|+..+|.+..+.|+..  .|...+-+++
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence            1   0                    5555555444455578999999999999874  5655555543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.25  E-value=0.017  Score=33.18  Aligned_cols=63  Identities=16%  Similarity=0.115  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHc----C-CCcc-HHHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTS----N-IMGD-EFTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      .+|+.+-..|...|++++|++.|++..+.    | -.|+ ..++..+-..+...|++++|...+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35677777777778888888877776532    1 1132 45677777777788888888887776543

...

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.24  E-value=0.28  Score=39.17  Aligned_cols=135  Identities=13%  Similarity=0.127  Sum_probs=83.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHH--HHHHH--HhcCcHHHHHHHHHHHHHcCCCccH-HHHHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERDYVLWTT--MIDGY--LRVNRFREALTLFQEIQTSNIMGDE-FTIVSILTAR   92 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~   92 (181)
                      .+.+=+-++.+.+++++|+.+.+.-...  .+++.  +=.+|  .+.++.++|+..++     |..++. .+...-...|
T Consensus        48 a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvl  120 (652)
T KOG2376|consen   48 AIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVL  120 (652)
T ss_pred             hHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHH
Confidence            4666667777888888888666544321  11122  23333  45678888888877     333333 3555566778


Q ss_pred             HccCCcchHHHHHHHHHHcCCC-cchHHHHHHHHHhHhcC----------chHhHHHHH---HHHHHcCChhHHHHHHHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVK-NDIFAGNALIDMYCKCT----------VKFTWTTMI---VGLAISGNGDKALDMFSQ  158 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~----------~~~~~~~li---~~~~~~~~~~~a~~~~~~  158 (181)
                      -+.|++++|..+++.+.+.+.+ -+...-..++.+-....          ...+|..+.   -.+...|++.+|+++++.
T Consensus       121 Yrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~k  200 (652)
T KOG2376|consen  121 YRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEK  200 (652)
T ss_pred             HHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            8999999999999999877543 23333333333322211          222333333   235579999999999998


Q ss_pred             H
Q 038237          159 M  159 (181)
Q Consensus       159 m  159 (181)
                      -
T Consensus       201 A  201 (652)
T KOG2376|consen  201 A  201 (652)
T ss_pred             H
Confidence            8

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.19  E-value=0.063  Score=39.28  Aligned_cols=141  Identities=11%  Similarity=0.133  Sum_probs=79.1

Q ss_pred             cHHHHhhhcCCCChh--HHHHHHHHHhcc-CCHHHHHHHhcccCC-----C----cHHHHHHHHHHHHhcCcHHHHHHHH
Q 038237            3 FTLEIFGTMKNKDVI--SYTAIVSGYINR-EQVDIARQCFDQMPE-----R----DYVLWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         3 ~a~~~~~~~~~~~~~--~~~~li~~~~~~-~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      +|.++|....+|+..  .+..+-..|-+. |++++|.+.|++...     .    -...+..+...+.+.|++++|.++|
T Consensus        99 ~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~  178 (282)
T PF14938_consen   99 KAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIY  178 (282)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            455555555554433  456666667777 788777777777653     1    2234667777888889999999999


Q ss_pred             HHHHHcCC-----CccHH-HHHHHHHHHHccCCcchHHHHHHHHHHc--CCCcc--hHHHHHHHHHhHhcCchHhHHHHH
Q 038237           71 QEIQTSNI-----MGDEF-TIVSILTARANLGALELGEWIKTYIDKN--KVKND--IFAGNALIDMYCKCTVKFTWTTMI  140 (181)
Q Consensus        71 ~~m~~~~~-----~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~ll~~~~~~~~~~~~~~li  140 (181)
                      ++....-.     +++.. .+-..+-.+...||...|...++.....  ++..+  ......||.++-. +|...+...+
T Consensus       179 e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~-~D~e~f~~av  257 (282)
T PF14938_consen  179 EEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE-GDVEAFTEAV  257 (282)
T ss_dssp             HHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT-T-CCCHHHHC
T ss_pred             HHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh-CCHHHHHHHH
Confidence            98866432     22232 2333444666778888888888888754  33322  3334444554432 3444444444


Q ss_pred             HHHH
Q 038237          141 VGLA  144 (181)
Q Consensus       141 ~~~~  144 (181)
                      .-|-
T Consensus       258 ~~~d  261 (282)
T PF14938_consen  258 AEYD  261 (282)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            4443

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=96.18  E-value=0.55  Score=38.33  Aligned_cols=150  Identities=12%  Similarity=0.100  Sum_probs=87.9

Q ss_pred             HHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcch
Q 038237           24 SGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALEL  100 (181)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  100 (181)
                      ..+-+.++++.|.+.|..=.+  | .+..|-+|..-=-+.|.+.+|..+|++-.-.+-+ |...|-..|+.=.+.|..+.
T Consensus       693 Qi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~  771 (913)
T KOG0495|consen  693 QIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQ  771 (913)
T ss_pred             HHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHH
Confidence            334444444444444433332  2 3445666655556667788888888887766543 66778888888888888888


Q ss_pred             HHHHHHHHHHcCCCcchHHHHHHHHH-------------hHhcC-chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 038237          101 GEWIKTYIDKNKVKNDIFAGNALIDM-------------YCKCT-VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP  166 (181)
Q Consensus       101 a~~~~~~~~~~~~~~~~~~~~~ll~~-------------~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  166 (181)
                      |..++.+..+. ++.+...|.--|-.             +-++. |.+..-++-..+=...++++|.++|++..+.+ +-
T Consensus       772 a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d  849 (913)
T KOG0495|consen  772 AELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PD  849 (913)
T ss_pred             HHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-Cc
Confidence            88877766654 22233334333332             22221 56666666666666777778888887776642 12


Q ss_pred             ChhhHHHHHh
Q 038237          167 DEVAYVGVLS  176 (181)
Q Consensus       167 ~~~t~~~li~  176 (181)
                      +..+|..+..
T Consensus       850 ~GD~wa~fyk  859 (913)
T KOG0495|consen  850 NGDAWAWFYK  859 (913)
T ss_pred             cchHHHHHHH
Confidence            3455555544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.16  E-value=0.094  Score=39.43  Aligned_cols=82  Identities=13%  Similarity=0.152  Sum_probs=42.2

Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH-hHhcC----------------chHhH-HHHHHHHHHcCChh
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM-YCKCT----------------VKFTW-TTMIVGLAISGNGD  150 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~----------------~~~~~-~~li~~~~~~~~~~  150 (181)
                      ..+.+..|...+|+++|-.+....++ |..+|.+++.- |.+.+                +..+. ..+..-|-+.+++-
T Consensus       400 AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFy  478 (557)
T KOG3785|consen  400 AQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFY  478 (557)
T ss_pred             HHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence            34445556666677666555433333 55555554433 33333                11111 12223345677777


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHH
Q 038237          151 KALDMFSQMLRASIKPDEVAYVG  173 (181)
Q Consensus       151 ~a~~~~~~m~~~~~~p~~~t~~~  173 (181)
                      -|-+.|+.+..  ..|++..|.-
T Consensus       479 yaaKAFd~lE~--lDP~pEnWeG  499 (557)
T KOG3785|consen  479 YAAKAFDELEI--LDPTPENWEG  499 (557)
T ss_pred             HHHHhhhHHHc--cCCCccccCC
Confidence            77777777765  4566666543

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.062  Score=42.43  Aligned_cols=124  Identities=17%  Similarity=0.080  Sum_probs=90.7

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCCC----------cHHHHHHHHHHHHhcCcHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPER----------DYVLWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----------~~~~~~~li~~~~~~~~~~~a~~~   69 (181)
                      .|.++|.+...  | |+.+.+-+--..-+.+.+.+|...|+....+          -..+++.|-.+|.+.+++++|+..
T Consensus       398 LAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  398 LAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            46666666543  3 6667777766667778888888888877621          233577777788889999999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           70 FQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        70 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      |++-.... +-|..++.++--.+...|+++.|.+.|.+-.  ...|+-.+-..++..+..
T Consensus       478 ~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  478 YQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHH
Confidence            99877653 3477888888888889999999999888765  446777666666665544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.12  E-value=0.086  Score=43.39  Aligned_cols=125  Identities=14%  Similarity=0.067  Sum_probs=81.3

Q ss_pred             HHHhccCCHHHHHHHhcccCCCcHH--HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchH
Q 038237           24 SGYINREQVDIARQCFDQMPERDYV--LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELG  101 (181)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  101 (181)
                      .+.....+|.+|..+++.++..++.  -|..+.+-|+..|+++-|.++|.+--         .++-.|..|.+.|+|+.|
T Consensus       740 eaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHH
Confidence            3344566777778887777755443  47888889999999999999997632         234568899999999999


Q ss_pred             HHHHHHHHHcCCCcchHHHHHHHHHhHhcC----------chHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          102 EWIKTYIDKNKVKNDIFAGNALIDMYCKCT----------VKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      ..+-++.  .|.+.....|-.-..-.-+.|          ++..-.-.|..|-+.|..++.+++.++-
T Consensus       811 ~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  811 FKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHHHHh
Confidence            8875544  355555555544443333433          2333344566666666666666665543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.07  E-value=0.044  Score=31.45  Aligned_cols=67  Identities=12%  Similarity=0.032  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHc--CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKN--KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      .+|+.+-..+...|++++|...+++..+.  ...++.   ..         -..+++.+-..+...|++++|++.+++-.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~---~~---------~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDH---PD---------TANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHH---HH---------HHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCC---HH---------HHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            57888899999999999999999988865  111111   11         12356677778888999999999999865


Q ss_pred             H
Q 038237          161 R  161 (181)
Q Consensus       161 ~  161 (181)
                      +
T Consensus        74 ~   74 (78)
T PF13424_consen   74 D   74 (78)
T ss_dssp             H
T ss_pred             h
Confidence            4

...

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=96.06  E-value=0.57  Score=37.46  Aligned_cols=133  Identities=12%  Similarity=0.129  Sum_probs=95.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccC------------------CCcHHHH--HHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMP------------------ERDYVLW--TTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~------------------~~~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      +.+|+.+-..|......+-..+++....                  .|+...|  .-+-..|...|++++|++.+++...
T Consensus       143 PslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~  222 (517)
T PF12569_consen  143 PSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE  222 (517)
T ss_pred             chHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            3456777777776666555555555542                  1233334  4455667789999999999998777


Q ss_pred             cCCCcc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHH
Q 038237           76 SNIMGD-EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALD  154 (181)
Q Consensus        76 ~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  154 (181)
                      .  .|+ +..|..-.+.+-..|++.+|...++..+..... |.+.-+.....+.                |+|+.++|.+
T Consensus       223 h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~L----------------Ra~~~e~A~~  283 (517)
T PF12569_consen  223 H--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLL----------------RAGRIEEAEK  283 (517)
T ss_pred             c--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHH----------------HCCCHHHHHH
Confidence            5  355 577888888899999999999999999887544 5555444444444                4999999999


Q ss_pred             HHHHHHHcCCCCC
Q 038237          155 MFSQMLRASIKPD  167 (181)
Q Consensus       155 ~~~~m~~~~~~p~  167 (181)
                      ++......+..|-
T Consensus       284 ~~~~Ftr~~~~~~  296 (517)
T PF12569_consen  284 TASLFTREDVDPL  296 (517)
T ss_pred             HHHhhcCCCCCcc
Confidence            9999988776443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.06  E-value=0.45  Score=36.26  Aligned_cols=142  Identities=11%  Similarity=0.076  Sum_probs=90.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCC-------cHHHHHHHHHHHHh---cCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPER-------DYVLWTTMIDGYLR---VNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      -..++-.|-...+++...++++.++..       +...-....-++.+   .|+.++|++++.......-.++..+|..+
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~  223 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLL  223 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHH
Confidence            345566788999999999999999873       22222233445556   78999999999997766666788888877


Q ss_pred             HHHHHcc---------CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH------------------------hcC----
Q 038237           89 LTARANL---------GALELGEWIKTYIDKNKVKNDIFAGNALIDMYC------------------------KCT----  131 (181)
Q Consensus        89 ~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~------------------------~~~----  131 (181)
                      -+.|-..         ...+.|...+.+--.  ..||.+.--.+...+.                        +.|    
T Consensus       224 GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  224 GRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            7766432         123334443332221  1232222111111111                        111    


Q ss_pred             --chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 --VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                        |.=.+.+++.+..-.|+.++|.+..++|...
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence              3444667888899999999999999999876

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.01  E-value=0.045  Score=30.91  Aligned_cols=58  Identities=16%  Similarity=0.034  Sum_probs=38.8

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           55 DGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ..|.+.+++++|.+.++.+...+- .+...+...-..+.+.|++++|...++...+.+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            356677777777777777776532 2445555666667777777777777777776543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.00  E-value=0.4  Score=35.10  Aligned_cols=149  Identities=15%  Similarity=0.144  Sum_probs=83.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC-------Cc--HHHHHHHHHHHHhc-CcHHHHHHHHHHHHH----cCCCc-cHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE-------RD--YVLWTTMIDGYLRV-NRFREALTLFQEIQT----SNIMG-DEF   83 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~-------~~--~~~~~~li~~~~~~-~~~~~a~~~~~~m~~----~~~~p-~~~   83 (181)
                      |......+-+. ++++|.+.+++...       ++  ...+..+-..|-+. |++++|++.|++-.+    .|-.- -..
T Consensus        78 ~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~  156 (282)
T PF14938_consen   78 YEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAE  156 (282)
T ss_dssp             HHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHH
Confidence            44444444333 66666665555542       22  22456666677777 899999999888643    33111 135


Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc-
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA-  162 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-  162 (181)
                      ++..+...+.+.|++++|..+|+++...-...+..-|+ .=.         .|-..+-++...|+...|.+.|++.... 
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~-~~~---------~~l~a~l~~L~~~D~v~A~~~~~~~~~~~  226 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS-AKE---------YFLKAILCHLAMGDYVAARKALERYCSQD  226 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH-HHH---------HHHHHHHHHHHTT-HHHHHHHHHHHGTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh-HHH---------HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            56777888899999999999999998764332211111 000         1111222334478888888888888754 


Q ss_pred             -CCCCC--hhhHHHHHhhh
Q 038237          163 -SIKPD--EVAYVGVLSAR  178 (181)
Q Consensus       163 -~~~p~--~~t~~~li~~~  178 (181)
                       ++..+  ......||.+|
T Consensus       227 ~~F~~s~E~~~~~~l~~A~  245 (282)
T PF14938_consen  227 PSFASSREYKFLEDLLEAY  245 (282)
T ss_dssp             TTSTTSHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHH
Confidence             33222  33444455554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.85  E-value=0.11  Score=38.34  Aligned_cols=128  Identities=10%  Similarity=0.177  Sum_probs=72.4

Q ss_pred             cHHHHHHHHHHHHhc--CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc--cC----CcchHHHHHHHHHHcCC---C
Q 038237           46 DYVLWTTMIDGYLRV--NRFREALTLFQEIQTSNIMGDEFTIVSILTARAN--LG----ALELGEWIKTYIDKNKV---K  114 (181)
Q Consensus        46 ~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~  114 (181)
                      ...++.+++......  ..+.+.+.+++.|.+.|++-+..+|-+.......  ..    ....+..+++.|++..+   .
T Consensus        59 ~~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs  138 (297)
T PF13170_consen   59 HRFILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS  138 (297)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC
Confidence            444555555554441  2366777788888888888777776554333333  22    23457788888887643   2


Q ss_pred             cchHHHHHHHHHhHhc----------------------Cc-hHhHHHHHHHHHHcCC--hhHHHHHHHHHHHcCCCCChh
Q 038237          115 NDIFAGNALIDMYCKC----------------------TV-KFTWTTMIVGLAISGN--GDKALDMFSQMLRASIKPDEV  169 (181)
Q Consensus       115 ~~~~~~~~ll~~~~~~----------------------~~-~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~  169 (181)
                      ++-.++..|+..-...                      || ....+.++.......+  ..++.++++.+++.|+++-..
T Consensus       139 ~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~  218 (297)
T PF13170_consen  139 PEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYM  218 (297)
T ss_pred             ccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccc
Confidence            3444455544432111                      12 2333333333322222  347899999999999887666


Q ss_pred             hHHH
Q 038237          170 AYVG  173 (181)
Q Consensus       170 t~~~  173 (181)
                      .|..
T Consensus       219 ~yp~  222 (297)
T PF13170_consen  219 HYPT  222 (297)
T ss_pred             cccH
Confidence            5543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.83  E-value=0.28  Score=35.87  Aligned_cols=101  Identities=16%  Similarity=0.207  Sum_probs=70.1

Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHh
Q 038237           56 GYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFT  135 (181)
Q Consensus        56 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  135 (181)
                      -+.+.+++.+|+..|.+..+.. +-|.+-|..-..+|.+.|.++.|.+=.+.-+.-    |..        |     ..+
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i----Dp~--------y-----ska  151 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI----DPH--------Y-----SKA  151 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc----ChH--------H-----HHH
Confidence            3456678888888888877753 235677777888888888888877655444433    221        1     225


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHh
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLS  176 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  176 (181)
                      |..|=.+|...|++++|.+.|++..+  +.|+-.+|-.=|+
T Consensus       152 y~RLG~A~~~~gk~~~A~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  152 YGRLGLAYLALGKYEEAIEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHHHccCcHHHHHHHHHhhhc--cCCCcHHHHHHHH
Confidence            66677777779999999999888776  6788777765544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.80  E-value=0.077  Score=31.97  Aligned_cols=63  Identities=11%  Similarity=0.000  Sum_probs=50.3

Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc-CCCcchHHHHHHHHH
Q 038237           62 RFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN-KVKNDIFAGNALIDM  126 (181)
Q Consensus        62 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~  126 (181)
                      +.=++.+-++.+....+.|++.+..+.+++|.|.+|+..|..+++.++.+ |.  +...|..++.-
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHHH
Confidence            44466777788888889999999999999999999999999999998855 32  34466666543

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=95.73  E-value=0.076  Score=32.35  Aligned_cols=61  Identities=13%  Similarity=0.020  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc-CCCcchHHHHHHHHH
Q 038237           64 REALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN-KVKNDIFAGNALIDM  126 (181)
Q Consensus        64 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~  126 (181)
                      =+..+-+..+....+.|++.+..+.+++|.|.+++..|..+++.++.+ |-.  ...|..++.-
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lqE   88 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHHH
Confidence            356667777778889999999999999999999999999999999876 322  2266666643

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.72  E-value=0.17  Score=39.28  Aligned_cols=62  Identities=8%  Similarity=-0.037  Sum_probs=53.9

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcH----HHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--RDY----VLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +...|+.+-.+|.+.|++++|...|+...+  |+.    .+|..+-.+|...|+.++|++.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456799999999999999999999998764  543    35999999999999999999999998875

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=95.68  E-value=0.17  Score=41.31  Aligned_cols=33  Identities=9%  Similarity=0.209  Sum_probs=29.7

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      +...||.+-.+|.+.|+-.+|...+.+..+.+.
T Consensus       552 ~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~  584 (777)
T KOG1128|consen  552 NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY  584 (777)
T ss_pred             chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC
Confidence            788899999999999999999999999887653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.62  E-value=0.27  Score=39.31  Aligned_cols=116  Identities=10%  Similarity=0.008  Sum_probs=78.7

Q ss_pred             ccHHHHhhhcCC--CCh-hHHHHHHHHHhcc--------CCHHHHHHHhcccC-----CCcHHHHHHHHHHHHhcCcHHH
Q 038237            2 GFTLEIFGTMKN--KDV-ISYTAIVSGYINR--------EQVDIARQCFDQMP-----ERDYVLWTTMIDGYLRVNRFRE   65 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~-~~~~~li~~~~~~--------~~~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~~~~~   65 (181)
                      +.|.++|++..+  |+- ..|..+..++...        .++..+.+..+...     ..+...|.++--.....|++++
T Consensus       359 ~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~  438 (517)
T PRK10153        359 NKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDE  438 (517)
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHH
Confidence            357777777765  543 2344433322211        22344444444422     2355678877666777899999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC-CcchHH
Q 038237           66 ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV-KNDIFA  119 (181)
Q Consensus        66 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~  119 (181)
                      |...+++....+  |+...|..+-..+...|+.++|...+++...... .|+...
T Consensus       439 A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~~~  491 (517)
T PRK10153        439 AYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTLYW  491 (517)
T ss_pred             HHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchHHH
Confidence            999999998876  6888999999999999999999999988877643 343333

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.58  E-value=0.6  Score=36.46  Aligned_cols=127  Identities=10%  Similarity=0.076  Sum_probs=85.5

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC-----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHH-HHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE-----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTI-VSIL   89 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~l~   89 (181)
                      ..+|++.|++.-+..-++.|..+|.+.++     +++..++++|.-++. |+..-|..+|+-=...  -||...| +..+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            45688899999999999999999999875     577888898887765 4667788888764332  2455443 4667


Q ss_pred             HHHHccCCcchHHHHHHHHHHcCCC-cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           90 TARANLGALELGEWIKTYIDKNKVK-NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .-+.+.++-+.|..+|+.-+.+-.. --...|..+|+-=..                -|+...+..+=++|..
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~----------------~G~lN~v~sLe~rf~e  530 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESM----------------VGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHh----------------hcchHHHHhHHHHHHH
Confidence            7778889999999999854432100 113455555554444                5555555555555543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.44  E-value=0.23  Score=39.39  Aligned_cols=94  Identities=19%  Similarity=0.145  Sum_probs=78.2

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH-HHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE-FTIVSIL   89 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~   89 (181)
                      +|+.+++.|--.|--.|++++|..-|+....  | |...||-|-..+++..+.++|+..|.+.++-  +|+- .....|-
T Consensus       428 ~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlg  505 (579)
T KOG1125|consen  428 IDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLG  505 (579)
T ss_pred             CChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhh
Confidence            6778889999999999999999999999875  4 8889999999999999999999999999874  5664 3444566


Q ss_pred             HHHHccCCcchHHHHHHHHH
Q 038237           90 TARANLGALELGEWIKTYID  109 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~  109 (181)
                      -+|+..|.+.+|...|=..+
T Consensus       506 IS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  506 ISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             hhhhhhhhHHHHHHHHHHHH
Confidence            67899999999877665443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.43  E-value=0.61  Score=36.63  Aligned_cols=144  Identities=14%  Similarity=0.142  Sum_probs=97.0

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHh----ccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYI----NREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQE   72 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~   72 (181)
                      +.++++|+....   ....||.-+=-.|+    ++.++..|.+++.....  |...+|..-|..=.+.+.++....+|++
T Consensus       383 ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEk  462 (677)
T KOG1915|consen  383 ERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEK  462 (677)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            455666655443   34455555433333    56778888888877764  6777777777777788888888888888


Q ss_pred             HHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc-CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhH
Q 038237           73 IQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN-KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDK  151 (181)
Q Consensus        73 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~  151 (181)
                      ..+-+- -|..+|......=...|+.+.|..+|+-.++. ....-...|.+.|+                --...|.+++
T Consensus       463 fle~~P-e~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYId----------------FEi~~~E~ek  525 (677)
T KOG1915|consen  463 FLEFSP-ENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYID----------------FEIEEGEFEK  525 (677)
T ss_pred             HHhcCh-HhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhh----------------hhhhcchHHH
Confidence            887642 24566665555556778888888888877764 22223333444444                4444999999


Q ss_pred             HHHHHHHHHHc
Q 038237          152 ALDMFSQMLRA  162 (181)
Q Consensus       152 a~~~~~~m~~~  162 (181)
                      |..+|+++.+.
T Consensus       526 aR~LYerlL~r  536 (677)
T KOG1915|consen  526 ARALYERLLDR  536 (677)
T ss_pred             HHHHHHHHHHh
Confidence            99999999876

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.33  E-value=0.54  Score=31.95  Aligned_cols=102  Identities=13%  Similarity=0.134  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH--HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc-chHHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE--FTIVSILTARANLGALELGEWIKTYIDKNKVKN-DIFAGNALI  124 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll  124 (181)
                      ..+..+..-|++.|+.++|++.|.++......|..  ..+-.+|+.....+++..+.....+....-..+ |...-|- +
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nr-l  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNR-L  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHH-H
Confidence            46888999999999999999999999887655544  456788889999999999998888776642222 2222121 2


Q ss_pred             HHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          125 DMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       125 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .+         |..+.  +...+++..|-+.|-+...
T Consensus       116 k~---------~~gL~--~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KV---------YEGLA--NLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HH---------HHHHH--HHHhchHHHHHHHHHccCc
Confidence            11         12221  2236788888888877653

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.26  E-value=0.059  Score=30.40  Aligned_cols=54  Identities=20%  Similarity=0.337  Sum_probs=46.8

Q ss_pred             HHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237           24 SGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      ..+.+.+++++|.++++.+..   .++..|...-..+.+.|++++|.+.|+...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            567889999999999999985   366678888889999999999999999998753

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.12  E-value=0.7  Score=36.03  Aligned_cols=144  Identities=8%  Similarity=0.069  Sum_probs=92.4

Q ss_pred             HhccCCHHHHHHHhcccCCC---c------HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH--Hc
Q 038237           26 YINREQVDIARQCFDQMPER---D------YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR--AN   94 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~~---~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~--~~   94 (181)
                      +-+.++..+|.++|......   +      .+.-+.+|++|... +.+.....+....+.  .| ...|-.+..+.  -+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHH
Confidence            34778899999999888642   2      23345677777665 455555555554442  23 34455566555  36


Q ss_pred             cCCcchHHHHHHHHHHc--CCCc---chHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcC----CC
Q 038237           95 LGALELGEWIKTYIDKN--KVKN---DIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRAS----IK  165 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~--~~~~---~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~  165 (181)
                      .+.+++|.+.+..-...  +..|   |...+..+-       |...=+..++++...|++.++..++++|...=    ..
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~-------df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~  164 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFS-------DFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECE  164 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhh-------HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhc
Confidence            78888888887776654  3322   222222111       33444678888899999999999999998653    44


Q ss_pred             CChhhHHHHHhhhcc
Q 038237          166 PDEVAYVGVLSARTH  180 (181)
Q Consensus       166 p~~~t~~~li~~~~~  180 (181)
                      .|..+|+.++-.+++
T Consensus       165 w~~d~yd~~vlmlsr  179 (549)
T PF07079_consen  165 WNSDMYDRAVLMLSR  179 (549)
T ss_pred             ccHHHHHHHHHHHhH
Confidence            899999986554443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=95.10  E-value=1.6  Score=35.90  Aligned_cols=169  Identities=15%  Similarity=0.102  Sum_probs=107.6

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      .|+.++.+.-+  | +...|-..+..-..+.+++.|..+|...+.  ++.-.|--=+..-.-.+..++|++++++..+. 
T Consensus       602 ~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-  680 (913)
T KOG0495|consen  602 AARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKS-  680 (913)
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-
Confidence            34555554432  3 556799999999999999999999999885  45555554444445567788899988887663 


Q ss_pred             CCccH-HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHH
Q 038237           78 IMGDE-FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTT  138 (181)
Q Consensus        78 ~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~  138 (181)
                       -|+- -.|..+-..+-+.++++.|...|..=.+. ++-....|-.|...=-+.|                  |...|-.
T Consensus       681 -fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle  758 (913)
T KOG0495|consen  681 -FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLE  758 (913)
T ss_pred             -CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHH
Confidence             2444 33444445556667777776655432222 1222333433333222221                  7788888


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          139 MIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      .|..-.|.|..+.|..+..+..+. ++-+...|.--|
T Consensus       759 ~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI  794 (913)
T KOG0495|consen  759 SIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAI  794 (913)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHH
Confidence            888888999999999888877664 444555554444

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=95.01  E-value=0.37  Score=40.32  Aligned_cols=101  Identities=15%  Similarity=0.208  Sum_probs=63.3

Q ss_pred             HhccCCHHHHHHHhcccCCC-cHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHH
Q 038237           26 YINREQVDIARQCFDQMPER-DYVLWTTMIDGY--LRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGE  102 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~~-~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  102 (181)
                      ....+++.+|.+-.....+. .-..|..++.++  .+.|+.++|..+++.....+.. |..|...+-..|.+.+..+++.
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            34556777777766666542 222344444444  5567888888777777665555 7778888888888888888888


Q ss_pred             HHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237          103 WIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      .+++...+.  .|+......+..+|.|
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR  122 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVR  122 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHH
Confidence            888877765  3333333333333333

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=94.97  E-value=0.61  Score=30.54  Aligned_cols=98  Identities=16%  Similarity=0.104  Sum_probs=69.5

Q ss_pred             HHHcCCCccH--HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCC-h
Q 038237           73 IQTSNIMGDE--FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGN-G  149 (181)
Q Consensus        73 m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~-~  149 (181)
                      |.+.+..++.  ...+.++.-....+++.....+++.+..-  .++      .+.   ...+...|++++.+.++..- -
T Consensus        28 ~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l--~~~------~~~---~~~~~ssf~~if~SlsnSsSaK   96 (145)
T PF13762_consen   28 MQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFL--NTD------NII---GWLDNSSFHIIFKSLSNSSSAK   96 (145)
T ss_pred             hhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHh--hHH------HHh---hhcccchHHHHHHHHccChHHH
Confidence            4555666555  44678888888888898888888888221  110      011   11156678888888876666 4


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHhhhccC
Q 038237          150 DKALDMFSQMLRASIKPDEVAYVGVLSARTHN  181 (181)
Q Consensus       150 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  181 (181)
                      --+..+|+-|++.+.+++..-|..+|++|.+.
T Consensus        97 ~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen   97 LTSLTLFNFLKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcC
Confidence            45688899999888999999999999998763

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=94.94  E-value=2.1  Score=36.63  Aligned_cols=146  Identities=10%  Similarity=0.032  Sum_probs=98.5

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHH-HHHHHHHHHhcCcHHHHHHH------------------HHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVL-WTTMIDGYLRVNRFREALTL------------------FQE   72 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~-~~~li~~~~~~~~~~~a~~~------------------~~~   72 (181)
                      .+...+..|+..+-..+++++|.++.++...  |+... |-.+-..+.+.++.+++.-+                  ...
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~  108 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDK  108 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHH
Confidence            3566788999999999999999999886653  32221 11111134444444443333                  233


Q ss_pred             HHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---chHhHHHHHHHHHHcCCh
Q 038237           73 IQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---VKFTWTTMIVGLAISGNG  149 (181)
Q Consensus        73 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~~~~li~~~~~~~~~  149 (181)
                      |...  .-+...+-.+..+|-+.|+.+++..+++++.+.. +-|....|.+-..|+...   -...+.-.+.-+...+++
T Consensus       109 i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~dL~KA~~m~~KAV~~~i~~kq~  185 (906)
T PRK14720        109 ILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEEDKEKAITYLKKAIYRFIKKKQY  185 (906)
T ss_pred             HHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhcc
Confidence            3332  1233566778888888899999999999999987 347788888888877652   234455666667777888


Q ss_pred             hHHHHHHHHHHHc
Q 038237          150 DKALDMFSQMLRA  162 (181)
Q Consensus       150 ~~a~~~~~~m~~~  162 (181)
                      ..+.++|.++...
T Consensus       186 ~~~~e~W~k~~~~  198 (906)
T PRK14720        186 VGIEEIWSKLVHY  198 (906)
T ss_pred             hHHHHHHHHHHhc
Confidence            8888888888774

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.91  E-value=0.46  Score=35.91  Aligned_cols=89  Identities=11%  Similarity=0.166  Sum_probs=60.9

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHH-HHHhcCcHHHHHHHHHHHHHcCCCccHHH-HHHHHHHHHcc
Q 038237           21 AIVSGYINREQVDIARQCFDQMPER---DYVLWTTMID-GYLRVNRFREALTLFQEIQTSNIMGDEFT-IVSILTARANL   95 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~   95 (181)
                      .+..+.+-.|...+|+++|-....|   |-.+|.+++. .|.+++.++.|+.++-.+...   .+..+ .-.+..-|-+.
T Consensus       398 N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  398 NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHH
Confidence            3556777788888888888877764   6677776655 667788888888877665442   22322 23445667777


Q ss_pred             CCcchHHHHHHHHHHcC
Q 038237           96 GALELGEWIKTYIDKNK  112 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~  112 (181)
                      +.+=-|...|+.+....
T Consensus       475 ~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEILD  491 (557)
T ss_pred             HHHHHHHHhhhHHHccC
Confidence            77777777777777653

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.87  E-value=0.54  Score=34.36  Aligned_cols=76  Identities=11%  Similarity=0.054  Sum_probs=52.1

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH---
Q 038237           85 IVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR---  161 (181)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---  161 (181)
                      +..++..+...|+++.+...++++...... +.                ..|-.+|.+|.+.|+...|.+.|+++.+   
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E----------------~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~  218 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDPY-DE----------------PAYLRLMEAYLVNGRQSAAIRAYRQLKKTLA  218 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCcc-ch----------------HHHHHHHHHHHHcCCchHHHHHHHHHHHHhh
Confidence            444556666667777777777777665433 33                3445555555559999999999998865   


Q ss_pred             --cCCCCChhhHHHHHhh
Q 038237          162 --ASIKPDEVAYVGVLSA  177 (181)
Q Consensus       162 --~~~~p~~~t~~~li~~  177 (181)
                        .|+.|...+.....+.
T Consensus       219 edlgi~P~~~~~~~y~~~  236 (280)
T COG3629         219 EELGIDPAPELRALYEEI  236 (280)
T ss_pred             hhcCCCccHHHHHHHHHH
Confidence              4899988887776654

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=94.85  E-value=1.4  Score=34.12  Aligned_cols=146  Identities=7%  Similarity=-0.123  Sum_probs=68.3

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHH---HHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTM---IDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      |+.....+-+.+...|+.++|...|+....-|+.+..+|   ---+.+.|++++...+.+.+.... +-....|-.-...
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~  309 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQL  309 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhh
Confidence            344455566666666666666666666555443333221   011234455555555555443321 0011111111122


Q ss_pred             HHccCCcchHHHHHHHHHHcCCC--cchHHHHHHHHHhHhcC---------------chHhHHHHHHHHHHcCChhHHHH
Q 038237           92 RANLGALELGEWIKTYIDKNKVK--NDIFAGNALIDMYCKCT---------------VKFTWTTMIVGLAISGNGDKALD  154 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~---------------~~~~~~~li~~~~~~~~~~~a~~  154 (181)
                      .....+++.|..+-++.++....  |....-..++....+..               +...|..|+++|...|++++|..
T Consensus       310 l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~  389 (564)
T KOG1174|consen  310 LYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANA  389 (564)
T ss_pred             hhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHH
Confidence            22334444555554444443211  11111111111111110               77888889999988999998887


Q ss_pred             HHHHHHH
Q 038237          155 MFSQMLR  161 (181)
Q Consensus       155 ~~~~m~~  161 (181)
                      +-+....
T Consensus       390 ~An~~~~  396 (564)
T KOG1174|consen  390 LANWTIR  396 (564)
T ss_pred             HHHHHHH
Confidence            7665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.74  E-value=0.84  Score=33.41  Aligned_cols=80  Identities=9%  Similarity=0.032  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH-----cCCCcchHHHHHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDK-----NKVKNDIFAGNAL  123 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  123 (181)
                      ++..++..+...|+++.+.+.++++.... +-+...|.-+|.++.+.|+...|...++++.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            56778888888899999999999988764 34778899999999999999999999988876     4889998888887


Q ss_pred             HHHhHh
Q 038237          124 IDMYCK  129 (181)
Q Consensus       124 l~~~~~  129 (181)
                      ......
T Consensus       234 ~~~~~~  239 (280)
T COG3629         234 EEILRQ  239 (280)
T ss_pred             HHHhcc
Confidence            777443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.72  E-value=0.45  Score=34.88  Aligned_cols=98  Identities=10%  Similarity=0.032  Sum_probs=72.3

Q ss_pred             HhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH-HHHHHHHHHHHccCCcchH
Q 038237           26 YINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE-FTIVSILTARANLGALELG  101 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a  101 (181)
                      +.+.+++++|...|.+..+   .|.+-|..=-.+|++.|.++.|++=-+.-...  .|.. ..|..|=.++...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHHHH
Confidence            5567888888888888875   47778888888899999888888766665553  3443 6788888888888888888


Q ss_pred             HHHHHHHHHcCCCcchHHHHHHHHHh
Q 038237          102 EWIKTYIDKNKVKNDIFAGNALIDMY  127 (181)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~ll~~~  127 (181)
                      .+.|++-..  +.|+-.+|-.=|..-
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            888766554  466666666555543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.65  E-value=1.2  Score=32.58  Aligned_cols=111  Identities=10%  Similarity=0.062  Sum_probs=75.5

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC---CcchHHHHHHHHHHcCCCcchHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLG---ALELGEWIKTYIDKNKVKNDIFAGNA  122 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~  122 (181)
                      |...|-.|-..|...|+++.|..-|..-.+-- .+|...+..+-.++....   .-.++..+|++..+..  |+      
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D--~~------  225 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD--PA------  225 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC--Cc------
Confidence            77789999999999999999999998876631 234555555555554433   3345778888887653  22      


Q ss_pred             HHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHh
Q 038237          123 LIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLS  176 (181)
Q Consensus       123 ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  176 (181)
                               |+.+-..+-..+...|++.+|...|+.|.+.  -|....+..+|+
T Consensus       226 ---------~iral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         226 ---------NIRALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             ---------cHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence                     2223333444555699999999999999985  455555555554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.61  E-value=0.11  Score=25.00  Aligned_cols=26  Identities=19%  Similarity=0.259  Sum_probs=21.8

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      +|+.|-..|.+.|++++|.++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46778888999999999999999954

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 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=94.59  E-value=0.013  Score=38.06  Aligned_cols=117  Identities=12%  Similarity=0.075  Sum_probs=63.1

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCc
Q 038237           53 MIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTV  132 (181)
Q Consensus        53 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (181)
                      +|..+.+.+.+....++++.+...+..-+....+.++..|++.++.+....+++   ..+    .+-...++..|-+.  
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~---~~~----~yd~~~~~~~c~~~--   83 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK---TSN----NYDLDKALRLCEKH--   83 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT---SSS----SS-CTHHHHHHHTT--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc---ccc----ccCHHHHHHHHHhc--
Confidence            455555666666667777777665544556667777777777766666666555   111    11112233333332  


Q ss_pred             hHhHHHHHHHHHHcCChhHHHHHHHHHHHc-------CCCCChhhHHHHHhhhc
Q 038237          133 KFTWTTMIVGLAISGNGDKALDMFSQMLRA-------SIKPDEVAYVGVLSART  179 (181)
Q Consensus       133 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~t~~~li~~~~  179 (181)
                       ..|...+..|.+.|++++|++++..+..-       .-.+|...|..+++.|.
T Consensus        84 -~l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l  136 (143)
T PF00637_consen   84 -GLYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCL  136 (143)
T ss_dssp             -TSHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHC
T ss_pred             -chHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence             24555555666677777766653333211       12346677777776664

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) 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 [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.57  E-value=0.88  Score=33.33  Aligned_cols=99  Identities=7%  Similarity=-0.006  Sum_probs=81.2

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhc---CcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRV---NRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      |...|-.|-..|.+.|+.+.|..-|....+   +++..+..+-.++...   .+..++..+|++..+..- -|+.....+
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~~iral~lL  233 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIRALSLL  233 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHHHHHHH
Confidence            777899999999999999999999998875   5777777666655444   356799999999988643 366777788


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      -..+...|++.+|...|+.|.+....
T Consensus       234 A~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         234 AFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            88899999999999999999987543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.45  E-value=0.57  Score=37.03  Aligned_cols=108  Identities=12%  Similarity=0.037  Sum_probs=74.5

Q ss_pred             ccHHHHhhhcCC--CChhHHHHHH-HHHhccCCHHHHHHHhcccCC--C-----cHHHHHHHHHHHHhcCcHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVISYTAIV-SGYINREQVDIARQCFDQMPE--R-----DYVLWTTMIDGYLRVNRFREALTLFQ   71 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~--~-----~~~~~~~li~~~~~~~~~~~a~~~~~   71 (181)
                      +.|.+++..+..  |+...|...- +.+...|++++|.+.|+....  .     ....+--+...+.-.++|++|.+.|.
T Consensus       250 ~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~  329 (468)
T PF10300_consen  250 EEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFL  329 (468)
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHH
Confidence            468888888887  8887776553 666788999999999997653  1     22233345556777789999999999


Q ss_pred             HHHHcCCCccHHHHHHHHHHH-HccCCc-------chHHHHHHHHHH
Q 038237           72 EIQTSNIMGDEFTIVSILTAR-ANLGAL-------ELGEWIKTYIDK  110 (181)
Q Consensus        72 ~m~~~~~~p~~~~~~~l~~~~-~~~~~~-------~~a~~~~~~~~~  110 (181)
                      .+.+..- .+..+|.-+.-+| ...++.       ++|..+|.+...
T Consensus       330 ~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  330 RLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            9988543 2444444443333 345666       777778776653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.09  E-value=0.19  Score=24.19  Aligned_cols=26  Identities=8%  Similarity=0.210  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +|+.|-..|.+.|++++|.++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35667777777777777777777743

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=94.03  E-value=2.8  Score=34.20  Aligned_cols=136  Identities=15%  Similarity=0.158  Sum_probs=94.7

Q ss_pred             CChhHHH--HHHHHHhccCCHHHHHHHhcccCCCcHHHHHHH---HHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           14 KDVISYT--AIVSGYINREQVDIARQCFDQMPERDYVLWTTM---IDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        14 ~~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      |.+..|+  .+...+-+.|+++.|...++.....++..+...   -..+...|+.++|..++++..+-.. ||...=+.-
T Consensus       367 PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKc  445 (700)
T KOG1156|consen  367 PTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKC  445 (700)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHH
Confidence            5555554  467889999999999999999988666655544   4678889999999999999887643 566665577


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHH--HHHHHcCChhHHHHHHHHHH
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMI--VGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li--~~~~~~~~~~~a~~~~~~m~  160 (181)
                      ..-..++++.++|..+...+.+.|.  +..  +.|-.+-|      .|-.+=  .+|.+.|++..|+.=|+.+.
T Consensus       446 AKYmLrAn~i~eA~~~~skFTr~~~--~~~--~~L~~mqc------mWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  446 AKYMLRANEIEEAEEVLSKFTREGF--GAV--NNLAEMQC------MWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             HHHHHHccccHHHHHHHHHhhhccc--chh--hhHHHhhh------HHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence            7788899999999999999988876  222  22222111      121111  23555666666666665554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.02  E-value=0.43  Score=37.13  Aligned_cols=64  Identities=8%  Similarity=-0.106  Sum_probs=56.3

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH----HHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE----FTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      +...|+.+-.+|.+.|++++|+..|++-.+.  .|+.    ..|..+-.+|.+.|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6778999999999999999999999997775  3664    35889999999999999999999988875

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.95  E-value=0.37  Score=35.76  Aligned_cols=93  Identities=13%  Similarity=0.141  Sum_probs=71.0

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCCC---------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPER---------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTI   85 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~   85 (181)
                      +..+-..++..-....+++.+...+-.++..         +.++|-.++.    .-+.++++.++..-...|+-||.++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll----ky~pq~~i~~l~npIqYGiF~dqf~~  138 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL----KYDPQKAIYTLVNPIQYGIFPDQFTF  138 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH----ccChHHHHHHHhCcchhccccchhhH
Confidence            4445566666667778888888877777642         3344444433    33677999999999999999999999


Q ss_pred             HHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           86 VSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      +.+|+.+.+.+++.+|.++.-.|+..
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999998887777665

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.78  E-value=1.4  Score=29.72  Aligned_cols=90  Identities=13%  Similarity=-0.021  Sum_probs=56.5

Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------chH
Q 038237           67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------VKF  134 (181)
Q Consensus        67 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------~~~  134 (181)
                      ++.+.-+.+.+++|+...+..+++.+.+.|.+..    +.++.+.++-+|.......+-.+....            -..
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            3445555677888888888888888888876543    344444444444333333222222111            223


Q ss_pred             -hHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237          135 -TWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus       135 -~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                       .+..+++.+...|+.-+|+++.++..
T Consensus        90 ~~~~~iievLL~~g~vl~ALr~ar~~~  116 (167)
T PF07035_consen   90 TAYEEIIEVLLSKGQVLEALRYARQYH  116 (167)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence             67778888888999999999998863

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.78  E-value=1.7  Score=34.39  Aligned_cols=138  Identities=11%  Similarity=0.068  Sum_probs=87.4

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCC--C---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHHc
Q 038237           21 AIVSGYINREQVDIARQCFDQMPE--R---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG-DEFTIVSILTARAN   94 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~--~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~   94 (181)
                      .+-.++-+.|+.++|.+.|++|.+  |   .......||.++...+++.++..++.+-.+...+. -..+|+..+-....
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRa  343 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARA  343 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHh
Confidence            355566688999999999999964  2   34478899999999999999999998864432222 23667766644433


Q ss_pred             cCCc---c------------hH-HHHHHHHHHcCCCcchHHHH-------HHHHHhHhcCchHhHHHHHHHHHHcCChhH
Q 038237           95 LGAL---E------------LG-EWIKTYIDKNKVKNDIFAGN-------ALIDMYCKCTVKFTWTTMIVGLAISGNGDK  151 (181)
Q Consensus        95 ~~~~---~------------~a-~~~~~~~~~~~~~~~~~~~~-------~ll~~~~~~~~~~~~~~li~~~~~~~~~~~  151 (181)
                      .++-   +            .| +.+.+.+...   |.+.-|-       .--..+.+.||...-.-....+..-.+.+.
T Consensus       344 v~d~fs~e~a~rRGls~ae~~aveAi~RAvefN---PHVp~YLLe~K~LilPPehilkrGDSEAiaYAf~hL~hWk~veG  420 (539)
T PF04184_consen  344 VGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFN---PHVPKYLLEMKSLILPPEHILKRGDSEAIAYAFFHLQHWKRVEG  420 (539)
T ss_pred             hccccCchhhhhcCCChhHHHHHHHHHHHHHhC---CCCchhhhccCCCCCChHHhcCCCcHHHHHHHHHHHHHHhcCHh
Confidence            3331   1            11 2233333322   1111111       111234556677766666677777888999


Q ss_pred             HHHHHHHHHH
Q 038237          152 ALDMFSQMLR  161 (181)
Q Consensus       152 a~~~~~~m~~  161 (181)
                      |+.+++.-.+
T Consensus       421 AL~lL~~twe  430 (539)
T PF04184_consen  421 ALNLLHCTWE  430 (539)
T ss_pred             HHHHHHHHhc
Confidence            9999988765

The molecular function of this protein is uncertain.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.61  E-value=1.2  Score=28.76  Aligned_cols=65  Identities=15%  Similarity=0.075  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ......++...+.|.-+.-..+...+.+. -.+++...-.+-.+|.+                .|+..++.+++++..+.
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~k----------------lg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKK----------------LGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHH----------------TT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHH----------------hcchhhHHHHHHHHHHh
Confidence            34556677777777777777777777653 34455555555555555                77777777777777777


Q ss_pred             CC
Q 038237          163 SI  164 (181)
Q Consensus       163 ~~  164 (181)
                      |+
T Consensus       150 G~  151 (161)
T PF09205_consen  150 GL  151 (161)
T ss_dssp             T-
T ss_pred             ch
Confidence            65

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.45  E-value=0.47  Score=23.86  Aligned_cols=28  Identities=18%  Similarity=0.335  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +|..+-..|.+.|++++|.++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5667788888999999999999999985

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.38  E-value=1.4  Score=28.57  Aligned_cols=68  Identities=13%  Similarity=0.055  Sum_probs=50.5

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      +....+..++...+.|+-+..-+++.++.+ +-.|++...-.+..||.+.|+..++.+++.+.-+.|.+
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            555677888888999999998899988875 33467888889999999999999999999999888865

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=93.35  E-value=2.1  Score=31.40  Aligned_cols=107  Identities=14%  Similarity=0.000  Sum_probs=69.2

Q ss_pred             cCCHHHHHHHhcccCC-----CcHHHHHHHHHHHHh-cC-cHHHHHHHHHHHH-HcCCCccHHHHHHHHHHHHccCCcch
Q 038237           29 REQVDIARQCFDQMPE-----RDYVLWTTMIDGYLR-VN-RFREALTLFQEIQ-TSNIMGDEFTIVSILTARANLGALEL  100 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~-~~~~~p~~~~~~~l~~~~~~~~~~~~  100 (181)
                      +..+.+|+++|+....     .|..+...++..... .+ ....-.++.+-+. +.+-.++..+...+++.+++.+++..
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            4456777888873221     366666666666655 22 3344444444443 33456778888888999999999988


Q ss_pred             HHHHHHHHHHc-CCCcchHHHHHHHHHhHhcCchHh
Q 038237          101 GEWIKTYIDKN-KVKNDIFAGNALIDMYCKCTVKFT  135 (181)
Q Consensus       101 a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~  135 (181)
                      -.++++..... +..-|...|..+|+.-..+||...
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~  256 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEV  256 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHH
Confidence            88888887766 666666666666666666444433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=93.32  E-value=0.87  Score=38.92  Aligned_cols=51  Identities=22%  Similarity=0.383  Sum_probs=28.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~   69 (181)
                      |+.|-..|....+...|.+-|+...+   -+..++....+-|++...++.|..+
T Consensus       495 f~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  495 FAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHH
Confidence            55555555555555555555555544   2444555666666666666666665

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.28  E-value=0.73  Score=39.61  Aligned_cols=139  Identities=9%  Similarity=0.018  Sum_probs=86.0

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      -|+..|--+++...+.|.+++-.+.+.-.++  +-+..=+.||-+|++.++..+..+++.-       ||......+-+-
T Consensus      1131 dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAkt~rl~elE~fi~g-------pN~A~i~~vGdr 1203 (1666)
T KOG0985|consen 1131 DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSELIFAYAKTNRLTELEEFIAG-------PNVANIQQVGDR 1203 (1666)
T ss_pred             CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHHHHHHHHhchHHHHHHHhcC-------CCchhHHHHhHH
Confidence            4677899999999999999999998876554  3444456899999999998776655432       555555555555


Q ss_pred             HHccCCcchHHHHHHHHHHcC--------------------CCcchHHHHHHHHHhHhcC--------------chHhHH
Q 038237           92 RANLGALELGEWIKTYIDKNK--------------------VKNDIFAGNALIDMYCKCT--------------VKFTWT  137 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~ll~~~~~~~--------------~~~~~~  137 (181)
                      |...+.++.|.-++..+-..+                    -..+..||.-+-.+|...+              ...-..
T Consensus      1204 cf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLe 1283 (1666)
T KOG0985|consen 1204 CFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELE 1283 (1666)
T ss_pred             HhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHH
Confidence            555566655555544332210                    0123445555555554333              233345


Q ss_pred             HHHHHHHHcCChhHHHHHHHHH
Q 038237          138 TMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       138 ~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      -+|.-|-..|-+++-..+++.-
T Consensus      1284 eli~~Yq~rGyFeElIsl~Ea~ 1305 (1666)
T KOG0985|consen 1284 ELIEYYQDRGYFEELISLLEAG 1305 (1666)
T ss_pred             HHHHHHHhcCcHHHHHHHHHhh
Confidence            5666666666666666665543

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=93.25  E-value=0.64  Score=29.64  Aligned_cols=60  Identities=10%  Similarity=0.021  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           65 EALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        65 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      +..+.+..+....+.|++......+++|.+.+|+..|..+|+.++.+ +.+...+|..++.
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHH
Confidence            45666777788899999999999999999999999999999999876 2222235555554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.08  E-value=1.6  Score=28.49  Aligned_cols=71  Identities=11%  Similarity=-0.017  Sum_probs=41.1

Q ss_pred             HHhcCcHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHh
Q 038237           57 YLRVNRFREALTLFQEIQTSNI--MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMY  127 (181)
Q Consensus        57 ~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  127 (181)
                      ..+.|++++|.+.|+.+...--  .-....--.++.++.+.+++++|...++++++.....-..-|-..+.++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            3556677777777777765310  1122344566777777777777777777777764432233444444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.88  E-value=2.7  Score=30.49  Aligned_cols=95  Identities=20%  Similarity=0.182  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcC----CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-c-chHHHHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSN----IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK-N-DIFAGNA  122 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~  122 (181)
                      .|+.-++. .+.|++.+|...|....+..    ..||..-|  |-.++...|++++|..+|..+.+.-.. | .+..+--
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            47776655 56677999999999987643    44555444  889999999999999999998876222 1 1122222


Q ss_pred             HHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          123 LIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       123 ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                      +-.+..+.|+.++|-..|++..++
T Consensus       221 ----------------lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 ----------------LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             ----------------HHHHHHHhcCHHHHHHHHHHHHHH
Confidence                            233445599999999999999876

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.86  E-value=3.4  Score=32.81  Aligned_cols=127  Identities=13%  Similarity=0.068  Sum_probs=84.8

Q ss_pred             HHHHHHHHHhc----cCCHHHHHHHhcccCC--CcHHHHHHHHH-HHHhcCcHHHHHHHHHHHHHcC---CCccHHHHHH
Q 038237           18 SYTAIVSGYIN----REQVDIARQCFDQMPE--RDYVLWTTMID-GYLRVNRFREALTLFQEIQTSN---IMGDEFTIVS   87 (181)
Q Consensus        18 ~~~~li~~~~~----~~~~~~a~~~~~~m~~--~~~~~~~~li~-~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~   87 (181)
                      .|...+..++.    ....+.|.++++.+.+  |+...|.-.-. .+...|++++|++.|++.....   -......+--
T Consensus       231 ~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~E  310 (468)
T PF10300_consen  231 WYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFE  310 (468)
T ss_pred             HHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHH
Confidence            35555555554    4578999999999987  88887765554 3455689999999999754311   1122344555


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCCh-------hHHHHHHHHHH
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNG-------DKALDMFSQML  160 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~-------~~a~~~~~~m~  160 (181)
                      +.-.+.-..+|++|...|..+.+..-. +..+|.-+.-+|               +...|+.       ++|.++|++..
T Consensus       311 l~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c---------------~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  311 LAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAAAC---------------LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHHHH---------------HHhhccchhhhhhHHHHHHHHHHHH
Confidence            666677889999999999999986333 334444333332               2235555       88888888774

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=92.77  E-value=5.5  Score=33.83  Aligned_cols=86  Identities=12%  Similarity=0.168  Sum_probs=63.4

Q ss_pred             CChhHHHHHHHHHh--ccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           14 KDVISYTAIVSGYI--NREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        14 ~~~~~~~~li~~~~--~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      ||. .|..++.++.  |.|+.++|..+++....   .|..|...+-..|-..++.++|..+|++..+.  -|+..-...+
T Consensus        40 Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~l  116 (932)
T KOG2053|consen   40 PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHL  116 (932)
T ss_pred             CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHH
Confidence            554 4566666654  67888888888777664   37778888888888889999999999887654  4777777777


Q ss_pred             HHHHHccCCcchHH
Q 038237           89 LTARANLGALELGE  102 (181)
Q Consensus        89 ~~~~~~~~~~~~a~  102 (181)
                      +.++.|.+++.+-.
T Consensus       117 FmayvR~~~yk~qQ  130 (932)
T KOG2053|consen  117 FMAYVREKSYKKQQ  130 (932)
T ss_pred             HHHHHHHHHHHHHH
Confidence            78888777665433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.73  E-value=0.4  Score=23.40  Aligned_cols=29  Identities=14%  Similarity=0.263  Sum_probs=24.1

Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+++.+-..|...|++++|.+++++...-
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            46788888899999999999999998653

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.52  E-value=2.8  Score=30.29  Aligned_cols=111  Identities=13%  Similarity=0.092  Sum_probs=56.9

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|+...+  | |.++|--=+...--.|+.-+|.+-+.+...   .|..+|.-+-..|...|++++|.-.++++.-
T Consensus       103 ~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            355666665553  3 333444333333334444444444444432   4777777777777777777777777777654


Q ss_pred             cCCCccHHHHHHHHHHH---HccCCcchHHHHHHHHHHcCC
Q 038237           76 SNIMGDEFTIVSILTAR---ANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      .. +.+...+.-+-+.+   +...+.+.+...+.+-.+...
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            31 11222222333332   223345556666666665543

>PRK15331 chaperone protein SicA; Provisional

Probab=92.42  E-value=0.79  Score=30.67  Aligned_cols=89  Identities=10%  Similarity=-0.024  Sum_probs=63.8

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL   98 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~   98 (181)
                      .-.-+-+.|++++|..+|+-+..  + +..-|-.|-..+-..+.+++|+..|...-..+.. |...+--.-..+...|+.
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCH
Confidence            34445678999999999998764  3 4444555666666678899999999887654431 333344466778888999


Q ss_pred             chHHHHHHHHHHc
Q 038237           99 ELGEWIKTYIDKN  111 (181)
Q Consensus        99 ~~a~~~~~~~~~~  111 (181)
                      +.|...|+..+..
T Consensus       122 ~~A~~~f~~a~~~  134 (165)
T PRK15331        122 AKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999998888874

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=92.38  E-value=2.6  Score=29.19  Aligned_cols=136  Identities=7%  Similarity=-0.028  Sum_probs=75.6

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCC--C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC-CCccHHHHHHHHHHHH
Q 038237           21 AIVSGYINREQVDIARQCFDQMPE--R----DYVLWTTMIDGYLRVNRFREALTLFQEIQTSN-IMGDEFTIVSILTARA   93 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~   93 (181)
                      .....+.+.|++++|.+.|+.+..  |    -....-.+..++.+.|++++|...++++.+.- -.|.. -+...+.|.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHHHH
Confidence            344556788999999999999974  2    23345567889999999999999999987632 12221 1222222222


Q ss_pred             c-------------cCCcchHHHHHHHHHHcCCC----cchHHHHHHHH-HhHhcCchHhHHHHHHHHHHcCChhHHHHH
Q 038237           94 N-------------LGALELGEWIKTYIDKNKVK----NDIFAGNALID-MYCKCTVKFTWTTMIVGLAISGNGDKALDM  155 (181)
Q Consensus        94 ~-------------~~~~~~a~~~~~~~~~~~~~----~~~~~~~~ll~-~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  155 (181)
                      .             .+....|...|+.+++.-+.    ++....-..+. ..++     .--.+..-|.+.|.+..|..-
T Consensus        89 ~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~-----~e~~ia~~Y~~~~~y~aA~~r  163 (203)
T PF13525_consen   89 YYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAE-----HELYIARFYYKRGKYKAAIIR  163 (203)
T ss_dssp             HHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHH-----HHHHHHHHHHCTT-HHHHHHH
T ss_pred             HHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHcccHHHHHHH
Confidence            1             11233566667777655221    11111111111 1111     112245557788888888888


Q ss_pred             HHHHHHc
Q 038237          156 FSQMLRA  162 (181)
Q Consensus       156 ~~~m~~~  162 (181)
                      ++.+.+.
T Consensus       164 ~~~v~~~  170 (203)
T PF13525_consen  164 FQYVIEN  170 (203)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8888776

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.35  E-value=0.8  Score=33.90  Aligned_cols=121  Identities=13%  Similarity=0.127  Sum_probs=74.9

Q ss_pred             cHHHHhhhcCC----CChhHHHHHHHHHhc--c----CCHHHHHHHhcccCC-------CcHHHHHHHHHHHHhcC--cH
Q 038237            3 FTLEIFGTMKN----KDVISYTAIVSGYIN--R----EQVDIARQCFDQMPE-------RDYVLWTTMIDGYLRVN--RF   63 (181)
Q Consensus         3 ~a~~~~~~~~~----~~~~~~~~li~~~~~--~----~~~~~a~~~~~~m~~-------~~~~~~~~li~~~~~~~--~~   63 (181)
                      +.+++++.+.+    .+..+|-+.......  .    .....|.++|+.|++       ++-.++..|+..-...-  -.
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~l~  159 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEELA  159 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHHHH
Confidence            44556666654    454555443333222  2    235788999999985       46667788777622221  24


Q ss_pred             HHHHHHHHHHHHcCCCccH-HHHHHHHHHHHccCC---cchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           64 REALTLFQEIQTSNIMGDE-FTIVSILTARANLGA---LELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        64 ~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      +.+.++|+.+...|+..+- .-+.+-+-++.....   ...+..+++.+.+.|+++....|..+
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence            6778888889998876544 334444444443332   33577889999999999877776643

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=91.83  E-value=1.5  Score=28.22  Aligned_cols=122  Identities=10%  Similarity=0.063  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           47 YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        47 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      ......+|..+.+.+.......+++.+...+. .+...++.++..+++...- ...   +.+...   ++.+.....++.
T Consensus         7 ~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~~-~ll---~~l~~~---~~~yd~~~~~~~   78 (140)
T smart00299        7 PIDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDPQ-KEI---ERLDNK---SNHYDIEKVGKL   78 (140)
T ss_pred             cCCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCHH-HHH---HHHHhc---cccCCHHHHHHH
Confidence            34456788899888999999999999988773 6778899999999886432 222   333311   122222334444


Q ss_pred             hHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH----H---Hc-CCCCChhhHHHHHhhhc
Q 038237          127 YCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM----L---RA-SIKPDEVAYVGVLSART  179 (181)
Q Consensus       127 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~---~~-~~~p~~~t~~~li~~~~  179 (181)
                      |.+.+   .|...+..|.+.|++++|+++.=+-    .   +- .-.-+...|..+++.|-
T Consensus        79 c~~~~---l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~~~~lw~~~~~~~l  136 (140)
T smart00299       79 CEKAK---LYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQNNPELWAEVLKALL  136 (140)
T ss_pred             HHHcC---cHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            44332   2445555555555555555444221    0   00 01236667877777654

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.79  E-value=0.72  Score=23.17  Aligned_cols=28  Identities=21%  Similarity=0.375  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +|..+-..|...|++++|.++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555555555555555555543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=91.78  E-value=5.8  Score=34.04  Aligned_cols=129  Identities=8%  Similarity=-0.080  Sum_probs=79.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC-------Cc--HHHHHHHHHHHHhcCcHHHHHHHHHHHHH----cCCC--c-cH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE-------RD--YVLWTTMIDGYLRVNRFREALTLFQEIQT----SNIM--G-DE   82 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~-------~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~--p-~~   82 (181)
                      .+.+-..+...|++++|...+++...       +.  ..+...+-..+...|++++|.+.+++...    .+..  | ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            34455566778999888888877652       11  22344556667788999999888877644    2211  1 12


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcC--CCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNK--VKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      ..+..+-..+...|++++|...+++.....  ..+...              ...+..+...+...|+.+.|.+.+++..
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~--------------~~~~~~la~~~~~~G~~~~A~~~l~~a~  639 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQ--------------LQCLAMLAKISLARGDLDNARRYLNRLE  639 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHH--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334444455666799999988887765531  111111              1122334445566899999988888875


Q ss_pred             H
Q 038237          161 R  161 (181)
Q Consensus       161 ~  161 (181)
                      .
T Consensus       640 ~  640 (903)
T PRK04841        640 N  640 (903)
T ss_pred             H
Confidence            4

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised 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=91.70  E-value=5.5  Score=31.41  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=70.3

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLG   96 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~   96 (181)
                      .-.+.++.-+-+.|..+.|+++-++-.        .-.+-..+.|+++.|.++-++.      .+...|..|-+...+.|
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D~~--------~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g  361 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTDPD--------HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQG  361 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS-HH--------HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCChH--------HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcC
Confidence            347888888999999999998876532        2233445566666666554332      25557777777777777


Q ss_pred             CcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-------------chHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           97 ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-------------VKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        97 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------------~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      +++.|+..+++..+.         ..|+-.|.-.|             ...-+|..+.++...|+.++..+++.+-
T Consensus       362 ~~~lAe~c~~k~~d~---------~~L~lLy~~~g~~~~L~kl~~~a~~~~~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  362 NIELAEECYQKAKDF---------SGLLLLYSSTGDREKLSKLAKIAEERGDINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             BHHHHHHHHHHCT-H---------HHHHHHHHHCT-HHHHHHHHHHHHHTT-HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             CHHHHHHHHHhhcCc---------cccHHHHHHhCCHHHHHHHHHHHHHccCHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            777777766655432         22222222222             1223566666666678888887777654

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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.62  E-value=3.7  Score=30.20  Aligned_cols=124  Identities=10%  Similarity=0.085  Sum_probs=83.9

Q ss_pred             ccHHHHhhhcCC-----CChhHHHHHHHHHhccC--CHHHHHHHhcccC-----CCcHHHHHHHHHHHHhcCcHHHHHHH
Q 038237            2 GFTLEIFGTMKN-----KDVISYTAIVSGYINRE--QVDIARQCFDQMP-----ERDYVLWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus         2 ~~a~~~~~~~~~-----~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~~~~~a~~~   69 (181)
                      .+|+++|+....     .|..+-..+++......  ....-.++.+-+.     .++..+...+|..+++.+++.+.+++
T Consensus       145 v~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~f  224 (292)
T PF13929_consen  145 VEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQF  224 (292)
T ss_pred             HHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHH
Confidence            467778874321     47777777777777622  3333344444443     25788889999999999999999999


Q ss_pred             HHHHHHc-CCCccHHHHHHHHHHHHccCCcchHHHHHHH-----HHHcCCCcchHHHHHHHH
Q 038237           70 FQEIQTS-NIMGDEFTIVSILTARANLGALELGEWIKTY-----IDKNKVKNDIFAGNALID  125 (181)
Q Consensus        70 ~~~m~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~ll~  125 (181)
                      ++.-... +..-|...|...|+.....|+.+-...+..+     +++.++..+...-..|-.
T Consensus       225 W~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~  286 (292)
T PF13929_consen  225 WEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSE  286 (292)
T ss_pred             HHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHH
Confidence            9987654 5566889999999999999998665555432     223344545444444433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=91.60  E-value=3.8  Score=29.39  Aligned_cols=54  Identities=7%  Similarity=-0.031  Sum_probs=33.0

Q ss_pred             HHHHhccCCHHHHHHHhcccCC--CcH-HHH---HHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           23 VSGYINREQVDIARQCFDQMPE--RDY-VLW---TTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        23 i~~~~~~~~~~~a~~~~~~m~~--~~~-~~~---~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      ...+.+.|++++|.+.|++...  |+. ...   -.+..++.+.+++++|...|++..+.
T Consensus        39 A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         39 AQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3344556777777777777764  322 221   23445667777777777777777653

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=91.42  E-value=2.6  Score=27.11  Aligned_cols=85  Identities=9%  Similarity=0.100  Sum_probs=63.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .-..++..+.+.+..+.....++.+..   .+...++.++..|++.. .++.++.+..      ..+......+++.|.+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            346788888888999999999888764   36778999999999874 3455555552      1344445568999999


Q ss_pred             cCCcchHHHHHHHHH
Q 038237           95 LGALELGEWIKTYID  109 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~  109 (181)
                      .+.++++.-++..+.
T Consensus        82 ~~l~~~~~~l~~k~~   96 (140)
T smart00299       82 AKLYEEAVELYKKDG   96 (140)
T ss_pred             cCcHHHHHHHHHhhc
Confidence            999988888887764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.36  E-value=0.81  Score=22.21  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      .+++.|-..|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4566666677777777777777766543

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 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=91.36  E-value=0.022  Score=37.02  Aligned_cols=120  Identities=12%  Similarity=0.156  Sum_probs=57.7

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           22 IVSGYINREQVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      +|..+.+.+.++...+.++.+..    .+....+.++..|++.++.++..++++....  ..+     ..+++.|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~--yd~-----~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN--YDL-----DKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS--S-C-----THHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc--cCH-----HHHHHHHHhcch
Confidence            34555555555555555555441    3455666666677766666666666552111  111     234555555555


Q ss_pred             cchHHHHHHHHHHcCCC----cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCC
Q 038237           98 LELGEWIKTYIDKNKVK----NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGN  148 (181)
Q Consensus        98 ~~~a~~~~~~~~~~~~~----~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~  148 (181)
                      ++.+.-++.++....--    -...-+...+..+.+.++...|..++..+...+.
T Consensus        86 ~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   86 YEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHHhcCc
Confidence            55555555544332111    1112222333444444455666666665554443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) 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 [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=91.16  E-value=3  Score=27.29  Aligned_cols=75  Identities=7%  Similarity=0.088  Sum_probs=54.8

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCCC------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-CccHHHHHHHHHHH
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPER------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGDEFTIVSILTAR   92 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~   92 (181)
                      -.--....+.|++++|.+.|+.+...      ...+--.|+.+|.+.+++++|...+++..+..- .|+ .-|-..+.|+
T Consensus        14 y~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL   92 (142)
T PF13512_consen   14 YQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHH
Confidence            33344456789999999999999862      445666789999999999999999999987542 232 3455556665


Q ss_pred             Hcc
Q 038237           93 ANL   95 (181)
Q Consensus        93 ~~~   95 (181)
                      +..
T Consensus        93 ~~~   95 (142)
T PF13512_consen   93 SYY   95 (142)
T ss_pred             HHH
Confidence            543

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.11  E-value=3.5  Score=28.11  Aligned_cols=132  Identities=14%  Similarity=0.093  Sum_probs=70.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHH-----HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH---
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMID-----GYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILT---   90 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~-----~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~---   90 (181)
                      |-..++. .+.+..++|+.-|.++...+...|-.|-.     ...+.|+...|...|++.-...-.|-..-=..-++   
T Consensus        62 flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~  140 (221)
T COG4649          62 FLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAY  140 (221)
T ss_pred             HHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHH
Confidence            4443332 45566677777777776654444443322     33455777777777777766544444331111111   


Q ss_pred             HHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 038237           91 ARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPD  167 (181)
Q Consensus        91 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  167 (181)
                      .+...|.++....-.+.+-..+-......         +       .+|--+--+.|++.+|..+|..+...--.|-
T Consensus       141 lLvD~gsy~dV~srvepLa~d~n~mR~sA---------r-------EALglAa~kagd~a~A~~~F~qia~Da~apr  201 (221)
T COG4649         141 LLVDNGSYDDVSSRVEPLAGDGNPMRHSA---------R-------EALGLAAYKAGDFAKAKSWFVQIANDAQAPR  201 (221)
T ss_pred             HHhccccHHHHHHHhhhccCCCChhHHHH---------H-------HHHhHHHHhccchHHHHHHHHHHHccccCcH
Confidence            23455666665555554433322211111         1       2333333469999999999999987644443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=90.95  E-value=7.8  Score=31.80  Aligned_cols=94  Identities=15%  Similarity=0.094  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcC-CCcchHHHHHHHHHhH------hcC-----------------c-hHhHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNK-VKNDIFAGNALIDMYC------KCT-----------------V-KFTWT  137 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~------~~~-----------------~-~~~~~  137 (181)
                      ..|..+..+..-.|+...|..++++.++.. ..|+...+.-.....-      +.|                 | ...-.
T Consensus       144 a~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e  223 (700)
T KOG1156|consen  144 ASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEE  223 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhh
Confidence            445566666667788888888888888764 3455555543333222      222                 1 22223


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          138 TMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       138 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .--.-+.+.++.++|..++..+...  -||-.-|.-.+..|
T Consensus       224 ~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~  262 (700)
T KOG1156|consen  224 TKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKA  262 (700)
T ss_pred             hHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHH
Confidence            3344566788999999999999875  46666666555443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.92  E-value=7.3  Score=31.41  Aligned_cols=82  Identities=7%  Similarity=0.055  Sum_probs=52.5

Q ss_pred             HhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHH
Q 038237           26 YINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGE  102 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  102 (181)
                      +.+.|++.+|.-.|+...+.   +..+|.-|-......++-..|+..+.+..+..-. |......|.-.|...|.-..|.
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHHH
Confidence            45788888888888887753   5556777777777777777777777777764321 3444555555555555555555


Q ss_pred             HHHHHH
Q 038237          103 WIKTYI  108 (181)
Q Consensus       103 ~~~~~~  108 (181)
                      ..++.-
T Consensus       374 ~~L~~W  379 (579)
T KOG1125|consen  374 KMLDKW  379 (579)
T ss_pred             HHHHHH
Confidence            555544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.86  E-value=6.2  Score=31.40  Aligned_cols=76  Identities=14%  Similarity=0.084  Sum_probs=55.8

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcC-CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc-CCCcchHHHHHHHHHh
Q 038237           52 TMIDGYLRVNRFREALTLFQEIQTSN-IMGDEFTIVSILTARANLGALELGEWIKTYIDKN-KVKNDIFAGNALIDMY  127 (181)
Q Consensus        52 ~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~  127 (181)
                      .+-....+.|+.++|.+.|.+|.+.. ..-+......|+.++...+++.++..++.+.-+. ..+.....|+..+-..
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLka  341 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKA  341 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHH
Confidence            34555567799999999999997653 2224457789999999999999999999997543 2344556677655443

The molecular function of this protein is uncertain.

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=90.76  E-value=0.36  Score=31.05  Aligned_cols=32  Identities=25%  Similarity=0.430  Sum_probs=27.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          146 SGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       146 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                      -|.-.+|..+|++|.+.|-+||  .|+.|+..+.
T Consensus       108 ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a~  139 (140)
T PF11663_consen  108 YGSKTDAYAVFRKMLERGNPPD--DWDALLKEAK  139 (140)
T ss_pred             hccCCcHHHHHHHHHhCCCCCc--cHHHHHHHhc
Confidence            6777889999999999999998  4888887764

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=90.63  E-value=5.2  Score=29.25  Aligned_cols=148  Identities=8%  Similarity=0.030  Sum_probs=78.0

Q ss_pred             ccHHHHhhhcCC--CC-hhHHHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHH---HhcCcHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KD-VISYTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGY---LRVNRFREALTLFQE   72 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~---~~~~~~~~a~~~~~~   72 (181)
                      ++|.++.+.+.+  |+ +.++..-+..+.+.++.+.+.+++..|...   ....+..++..+   ... ....+...++.
T Consensus       104 ~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~i~~l~~~-~~~~a~~~ld~  182 (278)
T PF08631_consen  104 EKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHHIKQLAEK-SPELAAFCLDY  182 (278)
T ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHHHHHHHhh-CcHHHHHHHHH
Confidence            345566665543  54 445666677777778888888888887752   334455555544   332 34566777777


Q ss_pred             HHHcCCCccHH-HHHHHHH----HHHccCC------cchHHHHHHHHHHc-CCCcchHHHHHHHHHhHhcCchHhHHHHH
Q 038237           73 IQTSNIMGDEF-TIVSILT----ARANLGA------LELGEWIKTYIDKN-KVKNDIFAGNALIDMYCKCTVKFTWTTMI  140 (181)
Q Consensus        73 m~~~~~~p~~~-~~~~l~~----~~~~~~~------~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~~~~li  140 (181)
                      +....+.|... ....++-    ...+.++      ++....++..+... +.+.+..+-..+...        .||..-
T Consensus       183 ~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~L--------LW~~~~  254 (278)
T PF08631_consen  183 LLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTL--------LWNKGK  254 (278)
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH--------HHHHHH
Confidence            66655555553 1111111    1112112      23333344433332 334444444443332        344433


Q ss_pred             HHHHHcCChhHHHHHHHHH
Q 038237          141 VGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       141 ~~~~~~~~~~~a~~~~~~m  159 (181)
                      . +-+.++++.|.++|+--
T Consensus       255 ~-~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  255 K-HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             H-HHhhcCHHHHHHHHHHH
Confidence            3 34588999999999843

It is also involved in sporulation [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=90.63  E-value=6.4  Score=30.24  Aligned_cols=108  Identities=11%  Similarity=0.084  Sum_probs=70.2

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC---CCccHHHHHHHHHHHHc---cCCcchHHHHHHHHHHcCCCcchHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSN---IMGDEFTIVSILTARAN---LGALELGEWIKTYIDKNKVKNDIFA  119 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  119 (181)
                      +..+.-.++-+|....+++...++.+.|....   +.-....---..-++.+   .|+-++|.+++..+......++..+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            33344466667999999999999999998752   11122222233344455   8999999999999777777778888


Q ss_pred             HHHHHHHhHhcCchHhHHHHHHH-HHHcCChhHHHHHHHHHHH
Q 038237          120 GNALIDMYCKCTVKFTWTTMIVG-LAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       120 ~~~ll~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~  161 (181)
                      |..+-..|-..        .+.+ +.....+++|.+.|++--+
T Consensus       220 ~gL~GRIyKD~--------~~~s~~~d~~~ldkAi~~Y~kgFe  254 (374)
T PF13281_consen  220 LGLLGRIYKDL--------FLESNFTDRESLDKAIEWYRKGFE  254 (374)
T ss_pred             HHHHHHHHHHH--------HHHcCccchHHHHHHHHHHHHHHc
Confidence            88877777541        1111 1122346777777776554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=90.59  E-value=7.2  Score=30.76  Aligned_cols=128  Identities=11%  Similarity=0.118  Sum_probs=80.1

Q ss_pred             ccHHHHhhhcCC---CC------hhHHHHHHHHHhccCCHHHHHHHhcccCC-CcHHHHHHHHHHH--HhcCcHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KD------VISYTAIVSGYINREQVDIARQCFDQMPE-RDYVLWTTMIDGY--LRVNRFREALTL   69 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~--~~~~~~~~a~~~   69 (181)
                      .+|+++|.+.-+   .+      .+.-+.++++|... +++.......+.++ .....|-.+..+.  .+.+.+++|.+.
T Consensus        23 ~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~~~kal~~  101 (549)
T PF07079_consen   23 QESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKEYRKALQA  101 (549)
T ss_pred             hHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhhHHHHHHH
Confidence            567777777654   12      22345677887754 34444444444443 1233444444443  456788888888


Q ss_pred             HHHHHHc--CCC------------ccHHHHHHHHHHHHccCCcchHHHHHHHHHHc----CCCcchHHHHHHHHHhHhc
Q 038237           70 FQEIQTS--NIM------------GDEFTIVSILTARANLGALELGEWIKTYIDKN----KVKNDIFAGNALIDMYCKC  130 (181)
Q Consensus        70 ~~~m~~~--~~~------------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~  130 (181)
                      +..=...  +-.            +|..-=++....+...|++.++..+++++...    ...-+..+|+.++-.++++
T Consensus       102 ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS  180 (549)
T PF07079_consen  102 LSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS  180 (549)
T ss_pred             HHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence            7665433  211            22333456778888999999999999888765    4447889999977777764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=90.56  E-value=10  Score=32.55  Aligned_cols=93  Identities=10%  Similarity=-0.022  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC-------C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc--CCCc--cH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE-------R----DYVLWTTMIDGYLRVNRFREALTLFQEIQTS--NIMG--DE   82 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p--~~   82 (181)
                      ++..+-..+...|+++.|.+.+++...       +    ....+..+-..+...|++++|...+.+....  ...+  ..
T Consensus       533 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~  612 (903)
T PRK04841        533 SLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQL  612 (903)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHH
Confidence            344555667788999999888776542       1    1223444455667779999999988886542  1112  23


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      ..+..+.......|+.+.|...++....
T Consensus       613 ~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        613 QCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444455667788999999888877754

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=90.45  E-value=4.4  Score=28.07  Aligned_cols=100  Identities=11%  Similarity=0.030  Sum_probs=76.4

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC---CCccHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN---IMGDEFTIV   86 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~   86 (181)
                      |++...-.+-.++.+.|+..+|...|++...    .|....-.+..+....+++..+...++++-+.+   -.||.  .-
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--HL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--hH
Confidence            5666666788889999999999999988875    477777777777777889999999999887643   34544  33


Q ss_pred             HHHHHHHccCCcchHHHHHHHHHHcCCCc
Q 038237           87 SILTARANLGALELGEWIKTYIDKNKVKN  115 (181)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  115 (181)
                      .+-+.+...|...+|+.-|+.....-..|
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg~  193 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPGP  193 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCCH
Confidence            56778888899999999998888763333

>PRK15331 chaperone protein SicA; Provisional

Probab=90.39  E-value=3.9  Score=27.43  Aligned_cols=92  Identities=9%  Similarity=-0.069  Sum_probs=62.1

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC-CcchHHHHHHHHHhHhc
Q 038237           52 TMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV-KNDIFAGNALIDMYCKC  130 (181)
Q Consensus        52 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~  130 (181)
                      ..-..+...|++++|..+|.-+...+.. |..-+..|-..+-..+.+++|...+......+. .|.+..           
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f-----------  109 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVF-----------  109 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccc-----------
Confidence            3444567789999999999998875532 445555666666678899999998877665432 222221           


Q ss_pred             CchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          131 TVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       131 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                             -.-.++...|+.+.|.+.|+...++
T Consensus       110 -------~agqC~l~l~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        110 -------FTGQCQLLMRKAAKARQCFELVNER  134 (165)
T ss_pred             -------hHHHHHHHhCCHHHHHHHHHHHHhC
Confidence                   2223445578888888888877763

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=90.35  E-value=3.9  Score=27.31  Aligned_cols=70  Identities=13%  Similarity=0.046  Sum_probs=42.1

Q ss_pred             HHHHhccCCHHHHHHHhcccC--CCcHHHHHHH-HHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           23 VSGYINREQVDIARQCFDQMP--ERDYVLWTTM-IDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        23 i~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      +..-.+.++.+++..+++-++  +|.......+ -.-+.+.|+|.+|.++|+++....  |.......|+..|..
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLY   89 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHH
Confidence            334456778888888888776  3433333222 224567788899999998876653  333333444444443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.27  E-value=3.1  Score=28.28  Aligned_cols=93  Identities=3%  Similarity=-0.014  Sum_probs=65.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCC------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH---cCCCccHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPER------DYVLWTTMIDGYLRVNRFREALTLFQEIQT---SNIMGDEFTIVSI   88 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p~~~~~~~l   88 (181)
                      .+..+.+.|.+.|+.++|.+.|..+...      -...+-.+|......+++..+.....+...   .|-+++...--.+
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            5778889999999999999999999863      333566788888888999999988877654   3333333332233


Q ss_pred             HHHH--HccCCcchHHHHHHHHHH
Q 038237           89 LTAR--ANLGALELGEWIKTYIDK  110 (181)
Q Consensus        89 ~~~~--~~~~~~~~a~~~~~~~~~  110 (181)
                      ..|+  ...+++..|.+.|-....
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccCc
Confidence            3333  346788888777766543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=90.19  E-value=10  Score=31.82  Aligned_cols=125  Identities=14%  Similarity=0.063  Sum_probs=86.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHHc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVSILTARAN   94 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~   94 (181)
                      |......+.+.+..++|..-+.+....   .+..|...-..+-..|.+++|.+.|..-..-  .|+ +.+..++-..+.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHH
Confidence            556667777788888887776666653   3334554445566677888888888877664  344 3667778888888


Q ss_pred             cCCcchHHH--HHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           95 LGALELGEW--IKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        95 ~~~~~~a~~--~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .|+...+..  ++..+.+.+.. +...|..|-..                +-+.|+.+.|.+.|.--.+.
T Consensus       731 ~G~~~la~~~~~L~dalr~dp~-n~eaW~~LG~v----------------~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDPL-NHEAWYYLGEV----------------FKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCCC-CHHHHHHHHHH----------------HHHccchHHHHHHHHHHHhh
Confidence            888777776  77777776544 44455555444                44499999999999887654

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised 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=90.05  E-value=4.7  Score=31.77  Aligned_cols=113  Identities=17%  Similarity=0.095  Sum_probs=68.8

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcch
Q 038237           21 AIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALEL  100 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  100 (181)
                      .-.....+.|+++.|.++-++..  +...|..|-+...+.|+++-|.+.|.+...         +..|+--+.-.|+.+.
T Consensus       323 ~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~  391 (443)
T PF04053_consen  323 HRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREK  391 (443)
T ss_dssp             HHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHH
T ss_pred             HHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHH
Confidence            34556678899999998877665  566899999999999999999998887654         2345555666677766


Q ss_pred             HHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHH
Q 038237          101 GEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus       101 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      ...+.+.....|-. +...-+.++.     ||   ....++.+.+.|++-+|.
T Consensus       392 L~kl~~~a~~~~~~-n~af~~~~~l-----gd---~~~cv~lL~~~~~~~~A~  435 (443)
T PF04053_consen  392 LSKLAKIAEERGDI-NIAFQAALLL-----GD---VEECVDLLIETGRLPEAA  435 (443)
T ss_dssp             HHHHHHHHHHTT-H-HHHHHHHHHH-----T----HHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHccCH-HHHHHHHHHc-----CC---HHHHHHHHHHcCCchHHH
Confidence            66666665555432 2222222221     11   123455566666666553

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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.81  E-value=2.4  Score=31.72  Aligned_cols=99  Identities=10%  Similarity=0.043  Sum_probs=71.1

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc---CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTS---NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNA  122 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  122 (181)
                      .+.+...+++.-....+++++...+-++.+.   -..|+...+ ++++-|.+. +++++..++..-++.|+-||.++...
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllky-~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLKY-DPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHcc-ChHHHHHHHhCcchhccccchhhHHH
Confidence            6667777888777778899999988887653   234444433 445555554 45688888888889999999988888


Q ss_pred             HHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          123 LIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       123 ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +|+.+.+                .++..+|..+.-.|..+
T Consensus       141 l~D~flk----------------~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  141 LMDSFLK----------------KENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHh----------------cccHHHHHHHHHHHHHH
Confidence            8888777                66666666666666544

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=89.37  E-value=6.3  Score=33.62  Aligned_cols=26  Identities=19%  Similarity=0.510  Sum_probs=12.0

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhccc
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQM   42 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m   42 (181)
                      .+|..|.+.|.+..+++-|.=.+..|
T Consensus       758 ~vW~nmA~McVkT~RLDVAkVClGhm  783 (1416)
T KOG3617|consen  758 SVWDNMASMCVKTRRLDVAKVCLGHM  783 (1416)
T ss_pred             HHHHHHHHHhhhhccccHHHHhhhhh
Confidence            34555555555544444444433333

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.32  E-value=1.3  Score=20.48  Aligned_cols=29  Identities=14%  Similarity=0.193  Sum_probs=24.1

Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ..|..+-..|...|++++|++.|++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            46778888899999999999999998763

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=89.24  E-value=2.3  Score=33.38  Aligned_cols=76  Identities=16%  Similarity=0.175  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHccCCcchHHHHHHHHHHcC-CCcchHHHHHHHHHhHhcC-----------------chHhHHHHHHHH
Q 038237           82 EFTIVSILTARANLGALELGEWIKTYIDKNK-VKNDIFAGNALIDMYCKCT-----------------VKFTWTTMIVGL  143 (181)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~-----------------~~~~~~~li~~~  143 (181)
                      +..|...+.+..+..-++.|..+|-+..+.| ..++++++++++..++...                 +...-+-.+.-+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            3455666777777777777778888877777 5677777788777777654                 222223334444


Q ss_pred             HHcCChhHHHHHHH
Q 038237          144 AISGNGDKALDMFS  157 (181)
Q Consensus       144 ~~~~~~~~a~~~~~  157 (181)
                      .+-++-..|..+|+
T Consensus       477 i~inde~naraLFe  490 (660)
T COG5107         477 IRINDEENARALFE  490 (660)
T ss_pred             HHhCcHHHHHHHHH
Confidence            55566666666666

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=89.21  E-value=9  Score=33.29  Aligned_cols=108  Identities=14%  Similarity=0.053  Sum_probs=71.8

Q ss_pred             cHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCCCc-----HHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPERD-----YVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         3 ~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +|.+-|++..+   -+...+..+.+.|++...++.|..+.-..-+.+     ..-|--.--.|.+.++..++..-|..-.
T Consensus       510 RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsAL  589 (1238)
T KOG1127|consen  510 RAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSAL  589 (1238)
T ss_pred             HHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHh
Confidence            35555555544   345568888999999999999988833222211     1112223335566777788877777766


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      +...+ |...|..+..+|.+.|++..|..+|.+....
T Consensus       590 R~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  590 RTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             cCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            64332 6677888888888888888888888776654

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=89.04  E-value=4.8  Score=26.45  Aligned_cols=77  Identities=10%  Similarity=0.079  Sum_probs=45.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---------CcHHHHHHHHHHHHhcCc-HHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---------RDYVLWTTMIDGYLRVNR-FREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      .++++.-....+.+.-..++++.+..         .+...|++++.+.+++.- ---+..+|..|++.+.+++..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            55566666666666666666665542         244456666666655544 33455666666666666666666666


Q ss_pred             HHHHHcc
Q 038237           89 LTARANL   95 (181)
Q Consensus        89 ~~~~~~~   95 (181)
                      |.++.+.
T Consensus       122 i~~~l~g  128 (145)
T PF13762_consen  122 IKAALRG  128 (145)
T ss_pred             HHHHHcC
Confidence            6666654

>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]

Probab=88.54  E-value=6.2  Score=27.69  Aligned_cols=107  Identities=12%  Similarity=0.053  Sum_probs=72.7

Q ss_pred             cHHHHHHHHHHHHhcCc----HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcc-hHHHHHHHHHHcCCCcchHHH
Q 038237           46 DYVLWTTMIDGYLRVNR----FREALTLFQEIQTSNIMGDEFTIVSILTARANLGALE-LGEWIKTYIDKNKVKNDIFAG  120 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~----~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~  120 (181)
                      +..|.-.||..+-+...    +.+-.++|.-+..         |-.+...+=+-+.-. .-.++-+.+...|+..+..++
T Consensus        92 s~~TcrlmI~mfd~~~~G~i~f~EF~~Lw~~i~~---------Wr~vF~~~D~D~SG~I~~sEL~~Al~~~Gy~Lspq~~  162 (221)
T KOG0037|consen   92 SIETCRLMISMFDRDNSGTIGFKEFKALWKYINQ---------WRNVFRTYDRDRSGTIDSSELRQALTQLGYRLSPQFY  162 (221)
T ss_pred             CHHHHHHHHHHhcCCCCCccCHHHHHHHHHHHHH---------HHHHHHhcccCCCCcccHHHHHHHHHHcCcCCCHHHH
Confidence            77788888888877642    4555555554433         344455554333322 234566667777999999999


Q ss_pred             HHHHHHhHhc-CchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          121 NALIDMYCKC-TVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       121 ~~ll~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +.+++-|.+. +....+.-.|.+|.+....-++.+-++.-.+
T Consensus       163 ~~lv~kyd~~~~g~i~FD~FI~ccv~L~~lt~~Fr~~D~~q~  204 (221)
T KOG0037|consen  163 NLLVRKYDRFGGGRIDFDDFIQCCVVLQRLTEAFRRRDTAQQ  204 (221)
T ss_pred             HHHHHHhccccCCceeHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            9999999987 5677788899999887666666665554443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.46  E-value=3.6  Score=30.05  Aligned_cols=107  Identities=14%  Similarity=0.084  Sum_probs=66.9

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC----CcHHHHHHHH-----HHHHhcCcHHHHHHHHHHHHHcCCCccHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE----RDYVLWTTMI-----DGYLRVNRFREALTLFQEIQTSNIMGDEFTI   85 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li-----~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~   85 (181)
                      ++.....+.+.-.+.|+++.|...|++..+    -|-.+.+.++     ..|.-.+++.+|...|++.....- -|+...
T Consensus       211 ~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~  289 (366)
T KOG2796|consen  211 EPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVAN  289 (366)
T ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCC-Cchhhh
Confidence            455566666667788999999998886653    2333333332     234445678888888888776532 133444


Q ss_pred             HHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           86 VSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      |.=.-...-.|+..+|...++.+++.  .|...+-++++
T Consensus       290 NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  290 NNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            44334444568888999999988876  44444444444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=88.39  E-value=7.5  Score=27.90  Aligned_cols=66  Identities=9%  Similarity=-0.025  Sum_probs=48.0

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHH----HHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFT----IVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      +...+-.....+.+.|++++|.+.|+++...-  |+...    .-.+..++.+.+++++|...+++..+...
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P  100 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNP  100 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc
Confidence            44433344555577899999999999998743  33322    23556788899999999999999988743

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=88.18  E-value=11  Score=29.53  Aligned_cols=48  Identities=8%  Similarity=0.002  Sum_probs=29.6

Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHH
Q 038237           56 GYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWI  104 (181)
Q Consensus        56 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  104 (181)
                      .+...+++++|.=-|.....-. +-+..+|.-|+..|...|++.+|.-.
T Consensus       343 lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~  390 (564)
T KOG1174|consen  343 LLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANAL  390 (564)
T ss_pred             HHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHH
Confidence            4455566666666666544321 12447777788888777777766543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.02  E-value=5.8  Score=28.80  Aligned_cols=93  Identities=11%  Similarity=0.072  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC--C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC-CCcc-HHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE--R----DYVLWTTMIDGYLRVNRFREALTLFQEIQTSN-IMGD-EFTIVSIL   89 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~-~~~~~~l~   89 (181)
                      .|+..+.. .+.|++..|.+-|....+  |    ...++-=|-..+...|++++|-..|..+.+.- -.|- +..+-.|-
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            47777766 467779999999998875  2    33344457789999999999999999987642 2222 26677888


Q ss_pred             HHHHccCCcchHHHHHHHHHHc
Q 038237           90 TARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ....+.|+-++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            8889999999999999999886

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=87.35  E-value=1.6  Score=32.21  Aligned_cols=46  Identities=15%  Similarity=0.250  Sum_probs=38.7

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      ....||..|..-.+.|+.++|+.++++.+..|+.--..||..-+++
T Consensus       256 Te~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V~~  301 (303)
T PRK10564        256 TESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSVKG  301 (303)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHhhc
Confidence            3445788999999999999999999999999998888887766543

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=87.26  E-value=1.6  Score=27.05  Aligned_cols=28  Identities=14%  Similarity=0.178  Sum_probs=25.5

Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .-|..++.-|-..|.+++|++++.++.+
T Consensus        40 ~~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   40 GKYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CCHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            3588899999999999999999999988

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.18  E-value=1.6  Score=22.20  Aligned_cols=23  Identities=17%  Similarity=0.138  Sum_probs=11.8

Q ss_pred             HHHHHHccCCcchHHHHHHHHHH
Q 038237           88 ILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      +..+|...|+.+.|..+++++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34455555555555555555553

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=87.11  E-value=6.8  Score=27.16  Aligned_cols=57  Identities=7%  Similarity=0.163  Sum_probs=46.8

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCC--------------CccHHHHHHHHHHHHccCCcchHHHHHH
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNI--------------MGDEFTIVSILTARANLGALELGEWIKT  106 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~--------------~p~~~~~~~l~~~~~~~~~~~~a~~~~~  106 (181)
                      --++|..|.+.-+|.+..++++.|.+..+              .+.-...|.....|.+.|.++.|..+++
T Consensus       135 GiS~m~~Yhk~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLr  205 (233)
T PF14669_consen  135 GISLMYSYHKTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLR  205 (233)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHh
Confidence            34788889999999999999998876544              2344568889999999999999999987

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=87.10  E-value=5.7  Score=25.13  Aligned_cols=102  Identities=15%  Similarity=0.029  Sum_probs=68.5

Q ss_pred             HHHHHhccCCHHHHHHHhcccCCC---c---HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc----HHHHHHHHHH
Q 038237           22 IVSGYINREQVDIARQCFDQMPER---D---YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD----EFTIVSILTA   91 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~~---~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l~~~   91 (181)
                      +-.++-..|+.++|..+|+.....   +   ...+-.+-..+...|++++|..+|++.....  |+    ......+..+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHH
Confidence            345566789999999999988752   2   2345556678888899999999999987642  33    1222223346


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      +...|+.++|...+-....    ++..-|.--|..|..
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYAD  118 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            6778999998887765543    233356665555543

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=87.10  E-value=1.4  Score=19.30  Aligned_cols=20  Identities=15%  Similarity=0.242  Sum_probs=9.9

Q ss_pred             HHHHHHhccCCHHHHHHHhc
Q 038237           21 AIVSGYINREQVDIARQCFD   40 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~   40 (181)
                      .+-..+...|++++|.++++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34444555555555555443

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.07  E-value=11  Score=30.92  Aligned_cols=125  Identities=13%  Similarity=0.026  Sum_probs=68.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      ..+.+..-+.+.|..++|+++-.+-.+    -|    .-..+.|+++.|.++-.+.      -+..-|..|-++....++
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s~D~d~----rF----elal~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~  681 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELSTDPDQ----RF----ELALKLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGE  681 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcCCChhh----hh----hhhhhcCcHHHHHHHHHhh------cchHHHHHHHHHHhhccc
Confidence            345556666666666666655322211    11    1223456666665554432      245667778888888888


Q ss_pred             cchHHHHHHHHHHcCCCc-------chHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           98 LELGEWIKTYIDKNKVKN-------DIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        98 ~~~a~~~~~~~~~~~~~~-------~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      +..|.+.|..-.+.+--.       +......|-....   .....|.-+-+|-..|+++++++++.+-
T Consensus       682 l~lA~EC~~~a~d~~~LlLl~t~~g~~~~l~~la~~~~---~~g~~N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  682 LPLASECFLRARDLGSLLLLYTSSGNAEGLAVLASLAK---KQGKNNLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             chhHHHHHHhhcchhhhhhhhhhcCChhHHHHHHHHHH---hhcccchHHHHHHHcCCHHHHHHHHHhc
Confidence            888888777665432110       1111111111111   2233566666777789999988887665

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.90  E-value=2.9  Score=21.61  Aligned_cols=35  Identities=9%  Similarity=0.072  Sum_probs=30.2

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          143 LAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       143 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      ..+.|-..++..++++|.+.|+.-+...+..+++-
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            34578888999999999999999999999888764

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=86.19  E-value=14  Score=28.60  Aligned_cols=89  Identities=11%  Similarity=0.123  Sum_probs=67.7

Q ss_pred             HHHhccCCHHHHHHHhcccCC------------------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHH
Q 038237           24 SGYINREQVDIARQCFDQMPE------------------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTI   85 (181)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~m~~------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~   85 (181)
                      +.+.|.|++..|..-|+....                  .-..++..|.-.+.+.+++..|++.-+..+..+- +|.-..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhHH
Confidence            457788888888887766431                  1444688888999999999999999999887542 355444


Q ss_pred             HHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           86 VSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      -=--.++...|+++.|...|+.+++...
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~~P  322 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKLEP  322 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhCC
Confidence            4445678888999999999999998743

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=85.89  E-value=9.4  Score=26.60  Aligned_cols=42  Identities=10%  Similarity=0.002  Sum_probs=22.9

Q ss_pred             cCcHHHHHHHHHHHHH---cCCCccHHHHHHHHHHHHccCCcchH
Q 038237           60 VNRFREALTLFQEIQT---SNIMGDEFTIVSILTARANLGALELG  101 (181)
Q Consensus        60 ~~~~~~a~~~~~~m~~---~~~~p~~~~~~~l~~~~~~~~~~~~a  101 (181)
                      ..+.+++++++....+   .+-.+|+..+.+|.+.+.+.|+++.|
T Consensus       153 krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  153 KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            4455666666555543   22245555666666666666655544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.80  E-value=18  Score=29.57  Aligned_cols=134  Identities=13%  Similarity=0.044  Sum_probs=80.4

Q ss_pred             HHHHHHHhcccCC--C--cHHHHHHHHHHHHhcCcHHHHHHHHH--------HHHHcCCCccHHHHHHHHHHHHccCCcc
Q 038237           32 VDIARQCFDQMPE--R--DYVLWTTMIDGYLRVNRFREALTLFQ--------EIQTSNIMGDEFTIVSILTARANLGALE   99 (181)
Q Consensus        32 ~~~a~~~~~~m~~--~--~~~~~~~li~~~~~~~~~~~a~~~~~--------~m~~~~~~p~~~~~~~l~~~~~~~~~~~   99 (181)
                      ..++.+++...-.  |  ..+.--.++.-....|+++.|++++.        ...+.+..|-.+  ..+..-+.+.++-+
T Consensus       357 ~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V--~aiv~l~~~~~~~~  434 (652)
T KOG2376|consen  357 HKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTV--GAIVALYYKIKDND  434 (652)
T ss_pred             HhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHH--HHHHHHHHhccCCc
Confidence            4445554444432  1  23344455556667788888888777        555555445443  34555666666666


Q ss_pred             hHHHHHHHHHHc--CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          100 LGEWIKTYIDKN--KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       100 ~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      .|..++..-.+.  ...+......+++            .-....--+.|+-++|..+++++.+. .++|..+..-++.+
T Consensus       435 ~a~~vl~~Ai~~~~~~~t~s~~l~~~~------------~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a  501 (652)
T KOG2376|consen  435 SASAVLDSAIKWWRKQQTGSIALLSLM------------REAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTA  501 (652)
T ss_pred             cHHHHHHHHHHHHHHhcccchHHHhHH------------HHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHH
Confidence            677776666542  1122222222222            22333334689999999999999986 46788888888888


Q ss_pred             hcc
Q 038237          178 RTH  180 (181)
Q Consensus       178 ~~~  180 (181)
                      |++
T Consensus       502 ~~~  504 (652)
T KOG2376|consen  502 YAR  504 (652)
T ss_pred             HHh
Confidence            774

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=85.78  E-value=12  Score=27.69  Aligned_cols=84  Identities=8%  Similarity=0.011  Sum_probs=45.4

Q ss_pred             HHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchH
Q 038237           25 GYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELG  101 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  101 (181)
                      .....|+..+|..+|+....   .+...--.+...|...|+++.|..++..++..--.........-+..+.+.....+.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34456666666666666553   244555566667777777777777777766543222222222334444444444444


Q ss_pred             HHHHHHH
Q 038237          102 EWIKTYI  108 (181)
Q Consensus       102 ~~~~~~~  108 (181)
                      ..+-+..
T Consensus       223 ~~l~~~~  229 (304)
T COG3118         223 QDLQRRL  229 (304)
T ss_pred             HHHHHHH
Confidence            4444333

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.04  E-value=3.8  Score=34.07  Aligned_cols=86  Identities=14%  Similarity=0.117  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      +.+--+.-+...|+-.+|.++-.+.+-||-..|-.-+.+++..++|++..++=..++      ++.-|.....+|.+.|+
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n  759 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGN  759 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhccc
Confidence            344455666677888888888888888888888777888888888777555443332      23445557788888888


Q ss_pred             cchHHHHHHHHH
Q 038237           98 LELGEWIKTYID  109 (181)
Q Consensus        98 ~~~a~~~~~~~~  109 (181)
                      .++|...+.++.
T Consensus       760 ~~EA~KYiprv~  771 (829)
T KOG2280|consen  760 KDEAKKYIPRVG  771 (829)
T ss_pred             HHHHhhhhhccC
Confidence            888877766554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=85.04  E-value=2.7  Score=19.39  Aligned_cols=28  Identities=18%  Similarity=0.417  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      .+|..+-..|...|++++|+..|++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3566666777777777777777777655

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=84.95  E-value=2.4  Score=21.55  Aligned_cols=29  Identities=7%  Similarity=0.174  Sum_probs=23.6

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 038237          139 MIVGLAISGNGDKALDMFSQMLRASIKPD  167 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~m~~~~~~p~  167 (181)
                      +-.+|...|+.+.|.+++++....|-.|-
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~~~~q   33 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEGDEAQ   33 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCHHH
Confidence            55678889999999999999997654443

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.59  E-value=8.6  Score=32.16  Aligned_cols=50  Identities=18%  Similarity=0.042  Sum_probs=28.3

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHH
Q 038237           55 DGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYI  108 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  108 (181)
                      .-+..-|+..+|.++-.+.+-    ||...|-.=+.+++..++|++-+++-+..
T Consensus       692 ~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAksk  741 (829)
T KOG2280|consen  692 TTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSK  741 (829)
T ss_pred             HHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhcc
Confidence            334455566666555554443    56666666666666666665555544433

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=84.01  E-value=18  Score=29.08  Aligned_cols=82  Identities=15%  Similarity=0.075  Sum_probs=41.6

Q ss_pred             HHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH-HHHHHHHHHHHccCCcch
Q 038237           25 GYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE-FTIVSILTARANLGALEL  100 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~  100 (181)
                      +.+..|+++.|...|.+...   +|.+.|..=..+|++.|++++|++==.+-.+  +.|+= --|+-.-.++.-.|++++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHH
Confidence            34455666666666665543   3555566666666666666665543333222  22332 233444444444555555


Q ss_pred             HHHHHHHH
Q 038237          101 GEWIKTYI  108 (181)
Q Consensus       101 a~~~~~~~  108 (181)
                      |..-|.+=
T Consensus        89 A~~ay~~G   96 (539)
T KOG0548|consen   89 AILAYSEG   96 (539)
T ss_pred             HHHHHHHH
Confidence            55555443

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=83.97  E-value=3.2  Score=30.71  Aligned_cols=38  Identities=16%  Similarity=0.234  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIV   86 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   86 (181)
                      -|+..|....+.||+++|++++++-++.|+.--..+|-
T Consensus       259 Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFi  296 (303)
T PRK10564        259 YFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFI  296 (303)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            47788888899999999999999998888764444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=83.89  E-value=25  Score=29.66  Aligned_cols=61  Identities=15%  Similarity=0.213  Sum_probs=36.5

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      .|..+|..+..++.+.|+++.+.+.|++...   .....|..+-..|.-+|.-..|..++++-.
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~  384 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESL  384 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhc
Confidence            3555666666666666666666666665543   244456666666666666666666665543

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=83.79  E-value=9.9  Score=24.93  Aligned_cols=63  Identities=3%  Similarity=-0.029  Sum_probs=48.5

Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC
Q 038237           68 TLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT  131 (181)
Q Consensus        68 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (181)
                      ++.+.+++.|++++..- ..+++.+.+.++...|.++++.+.+.+...+..|--.-|+.+...|
T Consensus         7 ~~~~~lk~~glr~T~qR-~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735           7 DAIERLKEAGLRLTPQR-LAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHHHHHcCCCcCHHH-HHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            45566778888766543 4678888888888999999999999888877777666677777766

>cd08326 CARD_CASP9 Caspase activation and recruitment domain of Caspase-9

Probab=83.64  E-value=4.7  Score=23.74  Aligned_cols=34  Identities=15%  Similarity=0.189  Sum_probs=16.8

Q ss_pred             ccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcC
Q 038237           28 NREQVDIARQCFDQMPERDYVLWTTMIDGYLRVN   61 (181)
Q Consensus        28 ~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~   61 (181)
                      ...+.+++.++++.++.++..+|.++.+++-..|
T Consensus        42 ~~tr~~q~~~LLd~L~~RG~~AF~~F~~aL~~~~   75 (84)
T cd08326          42 AGSRRDQARQLLIDLETRGKQAFPAFLSALRETG   75 (84)
T ss_pred             CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            3344455555555555555555555555544444

Caspase activation and recruitment domain (CARD) similar to that found in caspase-9 (CASP9, MCH6, APAF3), which interacts with the CARD of apoptotic protease-activating factor 1 (APAF-1). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Initiator caspases are the first to be activated following death- or inflammation-inducing signals. Caspase-9 is the initiator caspase associated with the intrinsic or mitochondrial pathway of apoptosis, induced by many pro-apoptotic signals. Together with APAF-1, it forms the heptameric 'apoptosome' in response to the release of cytochrome c from mitochondria. Activated caspase-9 cleaves and activates downstream effector caspases, like caspase-3, caspase-6, and caspase-7, resulting in apoptosis. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apopt

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=83.45  E-value=15  Score=29.50  Aligned_cols=90  Identities=10%  Similarity=0.136  Sum_probs=66.0

Q ss_pred             ccHHHHhhhcC---CCChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHH-HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMK---NKDVISYTAIVSGYINREQVDIARQCFDQMPE--RDYV-LWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      +.|...|-.-.   ++|.+.|+.-..+|.+.|++++|.+==.+-.+  |++. .|+..-.++.-.|++++|+.-|.+=++
T Consensus        19 ~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~   98 (539)
T KOG0548|consen   19 ETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAILAYSEGLE   98 (539)
T ss_pred             HHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHHHHHHHHhh
Confidence            45666666543   36888899999999999999998876555543  5554 688888888889999999999998776


Q ss_pred             cCCCccHHHHHHHHHHH
Q 038237           76 SNIMGDEFTIVSILTAR   92 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~   92 (181)
                      ..- -|...++-+..+.
T Consensus        99 ~d~-~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   99 KDP-SNKQLKTGLAQAY  114 (539)
T ss_pred             cCC-chHHHHHhHHHhh
Confidence            432 2445555555554

>PRK09687 putative lyase; Provisional

Probab=83.28  E-value=16  Score=26.91  Aligned_cols=125  Identities=9%  Similarity=-0.125  Sum_probs=61.7

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC-cchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA-LELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      +..+--..+.++.+.++ .++...+-.+.+.   +|..+-...+.++++.+. -+.+...+..+.   ..++..+-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L---~D~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAML---QDKNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHh---cCCChHHHHHHH
Confidence            33444444445544444 3344444444432   344444445555554421 222333333332   223444445555


Q ss_pred             HHhHhcCchH-------------hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          125 DMYCKCTVKF-------------TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       125 ~~~~~~~~~~-------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      .++++.++..             ..-..+.+++..|.. +|+..+.++.+.  .||...-...+.+|.+
T Consensus       214 ~aLg~~~~~~av~~Li~~L~~~~~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~~  279 (280)
T PRK09687        214 IGLALRKDKRVLSVLIKELKKGTVGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLKR  279 (280)
T ss_pred             HHHHccCChhHHHHHHHHHcCCchHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHhc
Confidence            5555444222             233456666777775 577777777753  3577777777777654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.24  E-value=13  Score=26.52  Aligned_cols=54  Identities=9%  Similarity=-0.005  Sum_probs=27.3

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEI   73 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m   73 (181)
                      +..++.+.+.+++.+++...++=.+  | |...-..++.-++-.|++++|..-++-.
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            3344455555555555555444332  2 4444555555555566666555554443

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=82.95  E-value=15  Score=26.52  Aligned_cols=59  Identities=19%  Similarity=0.301  Sum_probs=45.1

Q ss_pred             HHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           34 IARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        34 ~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+..+|+-..+|.+.....++..+.+ +++++|.+.+.++++.|..|... .+++++.+-.
T Consensus       226 n~enVfKv~d~PhP~~v~~ml~~~~~-~~~~~A~~il~~lw~lgysp~Di-i~~~FRv~K~  284 (333)
T KOG0991|consen  226 NQENVFKVCDEPHPLLVKKMLQACLK-RNIDEALKILAELWKLGYSPEDI-ITTLFRVVKN  284 (333)
T ss_pred             chhhhhhccCCCChHHHHHHHHHHHh-ccHHHHHHHHHHHHHcCCCHHHH-HHHHHHHHHh
Confidence            34667777777888888888887655 58999999999999999987653 3556666544

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=82.59  E-value=1.5  Score=20.75  Aligned_cols=22  Identities=9%  Similarity=0.073  Sum_probs=16.8

Q ss_pred             chHhHHHHHHHHHHcCChhHHH
Q 038237          132 VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      |...|+.+-..|...|++++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            5566777777777799999885

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=82.35  E-value=21  Score=29.74  Aligned_cols=102  Identities=8%  Similarity=0.050  Sum_probs=58.7

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHH-HHHH
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFA-GNAL  123 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l  123 (181)
                      .+..+...+-.-+-+...+.-|-++|..|-..         ..++......++|++|+.+-+...+.  .||++. |.-.
T Consensus       745 ~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqw  813 (1081)
T KOG1538|consen  745 AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQW  813 (1081)
T ss_pred             hhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHH
Confidence            34444444444444555566666666665442         23556666777788877776655432  333321 1111


Q ss_pred             HHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 038237          124 IDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRAS  163 (181)
Q Consensus       124 l~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  163 (181)
                      +   +   ...-|.-.-.+|.++|+-.+|.++++++....
T Consensus       814 L---A---E~DrFeEAqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  814 L---A---ENDRFEEAQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             h---h---hhhhHHHHHHHHHHhcchHHHHHHHHHhhhhh
Confidence            1   1   11223344567888999999999999997653

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=82.02  E-value=5.4  Score=20.62  Aligned_cols=29  Identities=3%  Similarity=-0.036  Sum_probs=14.4

Q ss_pred             CCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           96 GALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      |-.+++..+++.|.+.|+..+...+..++
T Consensus        16 GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   16 GLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             CChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            44445555555555555554444444444

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=81.98  E-value=19  Score=26.90  Aligned_cols=140  Identities=12%  Similarity=0.133  Sum_probs=79.1

Q ss_pred             HHHHHhccCCHHHHHHHhcccCCC--cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC---C-ccHHHHHHHHHHHHcc
Q 038237           22 IVSGYINREQVDIARQCFDQMPER--DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI---M-GDEFTIVSILTARANL   95 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~-p~~~~~~~l~~~~~~~   95 (181)
                      ...+..+.|+++...+........  +...+.++...  +.++++++....+.....-.   . .....|........+.
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~l   81 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNEDSPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKL   81 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCCChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            346677788888877777766653  34444444433  66777777777766543211   0 1112222222222222


Q ss_pred             C---CcchHHH--------------HHHHHHHc--CCCcchHHHHHHHHHh----H----hcCchHhHHHHHHHHHHcCC
Q 038237           96 G---ALELGEW--------------IKTYIDKN--KVKNDIFAGNALIDMY----C----KCTVKFTWTTMIVGLAISGN  148 (181)
Q Consensus        96 ~---~~~~a~~--------------~~~~~~~~--~~~~~~~~~~~ll~~~----~----~~~~~~~~~~li~~~~~~~~  148 (181)
                      .   .++++..              +++....+  ...++..+|..++..-    .    ......+|..+...+-+.|+
T Consensus        82 q~L~Elee~~~~~~~~~~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk~g~  161 (352)
T PF02259_consen   82 QQLVELEEIIELKSNLSQNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARKAGN  161 (352)
T ss_pred             hHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHCCC
Confidence            1   1222222              22222221  3456677777666532    1    22266789999999999999


Q ss_pred             hhHHHHHHHHHHHcC
Q 038237          149 GDKALDMFSQMLRAS  163 (181)
Q Consensus       149 ~~~a~~~~~~m~~~~  163 (181)
                      ++.|...+.++...+
T Consensus       162 ~~~A~~~l~~~~~~~  176 (352)
T PF02259_consen  162 FQLALSALNRLFQLN  176 (352)
T ss_pred             cHHHHHHHHHHhccC
Confidence            999999999998754

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.96  E-value=3.7  Score=18.71  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=22.2

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .|..+-..+.+.|++++|.+.|++..+.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4566677788899999999999998763

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=81.85  E-value=1.7  Score=19.69  Aligned_cols=24  Identities=17%  Similarity=0.368  Sum_probs=19.9

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHc
Q 038237          139 MIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +-.++.+.|++++|.+.|+++.+.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHH
Confidence            445666799999999999999875

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=81.42  E-value=26  Score=29.56  Aligned_cols=17  Identities=18%  Similarity=0.280  Sum_probs=10.6

Q ss_pred             CCHHHHHHHhcccCCCc
Q 038237           30 EQVDIARQCFDQMPERD   46 (181)
Q Consensus        30 ~~~~~a~~~~~~m~~~~   46 (181)
                      |++++|++++-+|.++|
T Consensus       748 g~feeaek~yld~drrD  764 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD  764 (1189)
T ss_pred             cchhHhhhhhhccchhh
Confidence            56666666666666543

>PRK14700 recombination factor protein RarA; Provisional

Probab=81.19  E-value=20  Score=26.68  Aligned_cols=95  Identities=4%  Similarity=-0.022  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHhc---CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcc-----hHHHHHHHHHHcCCCcchHHH
Q 038237           49 LWTTMIDGYLRV---NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALE-----LGEWIKTYIDKNKVKNDIFAG  120 (181)
Q Consensus        49 ~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~-----~a~~~~~~~~~~~~~~~~~~~  120 (181)
                      .+-.+|+++.|+   .|.+.|+-.+.+|.+.|-.|....--.++-+.-..|..+     .|...++....-|.+-.....
T Consensus       125 ~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~IaRRLii~AsEDIGlAdP~al~~a~aa~~A~~~iG~PEa~i~L  204 (300)
T PRK14700        125 EFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLVIARRMLCIASEDIGNADPQALRVAMDAWNAYEKLGMPEGRLVL  204 (300)
T ss_pred             hhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhCChHHHHHH
Confidence            344457888775   689999999999999999999988888888888888543     455666666677765433333


Q ss_pred             HHHHHHhHhcC-chHhHHHHHHHH
Q 038237          121 NALIDMYCKCT-VKFTWTTMIVGL  143 (181)
Q Consensus       121 ~~ll~~~~~~~-~~~~~~~li~~~  143 (181)
                      .-.+--++..+ +..+|.++-.+.
T Consensus       205 a~aviyLA~aPKSNs~y~A~~~A~  228 (300)
T PRK14700        205 AQAAIYLAVAPKSNACYKALAQAQ  228 (300)
T ss_pred             HHHHHHHHcCCCchHHHHHHHHHH
Confidence            32222233322 555555554443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.17  E-value=10  Score=23.31  Aligned_cols=28  Identities=21%  Similarity=0.262  Sum_probs=12.6

Q ss_pred             HhccCCHHHHHHHhcccCCCcHHHHHHH
Q 038237           26 YINREQVDIARQCFDQMPERDYVLWTTM   53 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~~~~~~~~~l   53 (181)
                      +...|++++|..+.+....||...|-+|
T Consensus        49 LmNrG~Yq~Al~l~~~~~~pdlepw~AL   76 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKLCYPDLEPWLAL   76 (115)
T ss_pred             HHccchHHHHHHhcCCCCCchHHHHHHH
Confidence            3344444444444444444444444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=81.10  E-value=4.1  Score=18.65  Aligned_cols=27  Identities=19%  Similarity=0.266  Sum_probs=23.0

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +|..+-..|.+.|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            566777788889999999999998765

...

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=80.65  E-value=2.1  Score=27.67  Aligned_cols=31  Identities=13%  Similarity=0.186  Sum_probs=22.2

Q ss_pred             cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           60 VNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        60 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      .|.-.+|..+|.+|++.|-+||.  |+.|+..+
T Consensus       108 ygsk~DaY~VF~kML~~G~pPdd--W~~Ll~~a  138 (140)
T PF11663_consen  108 YGSKTDAYAVFRKMLERGNPPDD--WDALLKEA  138 (140)
T ss_pred             hccCCcHHHHHHHHHhCCCCCcc--HHHHHHHh
Confidence            35557788888999888888875  45565543

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.47  E-value=14  Score=31.52  Aligned_cols=81  Identities=11%  Similarity=0.124  Sum_probs=51.5

Q ss_pred             HhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHH
Q 038237           26 YINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      +-+.|++++|..-+-+-..-  .--..+|.-|..+.+...-...++.+.+.|+. +...-..|+.+|.+.++.++-.+..
T Consensus       378 Ly~Kgdf~~A~~qYI~tI~~--le~s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI  454 (933)
T KOG2114|consen  378 LYGKGDFDEATDQYIETIGF--LEPSEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFI  454 (933)
T ss_pred             HHhcCCHHHHHHHHHHHccc--CChHHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHH
Confidence            44667777776655544321  01123455666666777777777888888875 5556678888888888877666555


Q ss_pred             HHHH
Q 038237          106 TYID  109 (181)
Q Consensus       106 ~~~~  109 (181)
                      +..-
T Consensus       455 ~~~~  458 (933)
T KOG2114|consen  455 SKCD  458 (933)
T ss_pred             hcCC
Confidence            4444

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=80.32  E-value=3.1  Score=22.88  Aligned_cols=26  Identities=19%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          137 TTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      -.+|.++.+.|++++|.+.++++.+.
T Consensus        27 LqvI~gllqlg~~~~a~eYi~~~~~~   52 (62)
T PF14689_consen   27 LQVIYGLLQLGKYEEAKEYIKELSKD   52 (62)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            35688888899999999999998763

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=80.25  E-value=13  Score=25.54  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=15.8

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHH
Q 038237          139 MIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ++..+...|+.++|.++.+++..
T Consensus       150 ~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  150 YALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            33334448888888888888765

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	181
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.5 bits (98), Expect = 3e-05
 Identities = 15/124 (12%), Positives = 37/124 (29%), Gaps = 13/124 (10%)

Query: 54  IDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV 113
           +                 +   + + G +  +++          L L   +       + 
Sbjct: 99  LQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQ 158

Query: 114 KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVG 173
           K  +      +DMY           +++G A  G   + + +   +  A + PD ++Y  
Sbjct: 159 KRKLLT----LDMY---------NAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA 205

Query: 174 VLSA 177
            L  
Sbjct: 206 ALQC 209

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	181
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.93
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.92
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.77
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.72
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.44
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.39
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.39
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.37
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.35
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.33
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.33
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.28
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.27
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.25
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.24
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.22
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.2
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.18
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.18
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.17
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.17
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.16
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.16
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.15
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.15
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.14
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.14
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.14
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.11
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.09
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.08
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.07
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.06
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.98
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.98
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.98
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.98
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.98
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.97
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.96
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.93
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.91
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.9
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.9
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.86
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.85
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.84
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.77
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.77
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.77
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.77
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.74
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.74
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.74
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.73
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.72
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.72
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.72
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.7
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.69
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.63
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.62
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.61
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.55
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.53
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.51
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.49
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.48
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.47
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.47
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.45
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.44
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.43
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.43
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.42
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.41
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.41
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.41
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.41
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.4
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.39
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.39
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.39
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.38
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.38
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.38
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.36
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.36
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.35
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.34
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.33
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.32
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.3
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.28
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.27
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.27
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.26
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.26
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.26
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.24
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.24
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.23
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.21
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.21
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.2
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.2
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.19
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.19
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.18
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.18
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.18
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.18
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.18
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.18
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.17
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.17
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.17
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.17
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.17
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.17
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.17
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.16
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.15
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.15
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.15
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.11
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.11
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.11
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.1
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.09
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.07
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.06
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.06
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.06
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.05
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.02
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.01
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.99
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.99
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.98
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.93
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.92
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.9
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.89
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.89
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.88
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.87
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.86
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.86
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.85
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.85
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.85
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.84
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.83
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.79
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.78
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.75
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.73
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.72
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.71
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.65
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.6
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.59
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.52
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.51
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.43
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.43
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.41
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.39
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.39
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.35
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.35
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.32
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.32
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.3
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.27
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.23
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.21
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.18
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.16
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.14
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.11
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.07
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.07
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.06
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.0
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.0
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.93
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.93
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.92
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.91
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.86
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.85
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.65
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.63
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	96.6
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	96.42
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.3
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	95.96
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.93
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.84
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.77
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.73
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.48
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.42
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.03
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	94.83
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	94.82
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.65
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.35
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.32
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	93.99
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.85
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.75
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.67
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.66
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.55
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.5
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	93.47
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.88
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.45
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.84
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.78
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.16
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	89.71
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	89.56
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.49
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	89.42
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.86
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.59
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	88.04
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	87.88
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	86.48
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	84.57
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	84.5
3l6a_A	364	Eukaryotic translation initiation factor 4 gamma;	84.39
1ug3_A	339	EIF4GI, eukaryotic protein synthesis initiation fa	84.18
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	83.94
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	82.0
2p58_C	116	Putative type III secretion protein YSCG; type III	81.23
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	80.62

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=2.1e-36  Score=233.46  Aligned_cols=177  Identities=7%  Similarity=0.035  Sum_probs=156.8

Q ss_pred             HHHHhhhcCC----CCh-hHHHHHHHHHhccCCHHHHHHHhcccC----CCcHHHHHHHHHHHHhcCc---------HHH
Q 038237            4 TLEIFGTMKN----KDV-ISYTAIVSGYINREQVDIARQCFDQMP----ERDYVLWTTMIDGYLRVNR---------FRE   65 (181)
Q Consensus         4 a~~~~~~~~~----~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~---------~~~   65 (181)
                      ++.+.+++++    +.+ .+++.+|++|+|.|++++|.++|++|.    .||..+||+||.+|++.+.         +++
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            4445555553    233 368899999999999999999999998    4899999999999987654         789


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC--------------
Q 038237           66 ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT--------------  131 (181)
Q Consensus        66 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--------------  131 (181)
                      |.++|++|...|+.||..||+++|.+|++.|++++|..+|++|.+.|+.||..||++||.+|++.|              
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999999999999999999988              


Q ss_pred             -----chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          132 -----VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       132 -----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                           |..+|++||.+|++.|++++|.++|++|++.|+.|+..||+.|+..|++
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence                 9999999999999999999999999999999999999999999998764

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=9.7e-31  Score=201.91  Aligned_cols=149  Identities=15%  Similarity=0.155  Sum_probs=128.8

Q ss_pred             HHHHHHhcccCCC-----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC---------c
Q 038237           33 DIARQCFDQMPER-----DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA---------L   98 (181)
Q Consensus        33 ~~a~~~~~~m~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~---------~   98 (181)
                      ..+..+.+++.+.     ....++.+|++|++.|++++|+++|++|.+.|++||..|||++|.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3455666666642     3346899999999999999999999999999999999999999999998775         4


Q ss_pred             chHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-------------------chHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           99 ELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-------------------VKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        99 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      +.|.++|++|+..|+.||..||++||.+|++.|                   |..+||++|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            679999999999999999999999999999988                   9999999999999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHhhhccC
Q 038237          160 LRASIKPDEVAYVGVLSARTHN  181 (181)
Q Consensus       160 ~~~~~~p~~~t~~~li~~~~~~  181 (181)
                      .+.|+.||..||++||++|+++
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HhcCCCCCHHHHHHHHHHHhhC
Confidence            9999999999999999999864

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.93  E-value=6.9e-26  Score=182.45  Aligned_cols=114  Identities=11%  Similarity=0.101  Sum_probs=103.7

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccC-------CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMP-------ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      ..||+++|++||+.|++++|.++|++|.       .||++|||+||+||++.|++++|.++|++|.+.|+.||..|||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3479999999999999999999998764       489999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCc-chHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           89 LTARANLGAL-ELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        89 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      |.++++.|+. ++|..+|++|.+.|+.||..+|++++.++.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            9999999985 6789999999999999999999999876655

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.92  E-value=2.8e-25  Score=178.93  Aligned_cols=119  Identities=11%  Similarity=0.074  Sum_probs=108.3

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHH---HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQ---TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNA  122 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  122 (181)
                      -..+||+||++|++.|++++|.++|++|.   ..|+.||..|||++|++|++.|++++|.++|++|+..|+.||.+|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            34589999999999999999999998876   468999999999999999999999999999999999999999988888


Q ss_pred             HHHHhHhcCchHhHHHHHHHHHHcCCh-hHHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          123 LIDMYCKCTVKFTWTTMIVGLAISGNG-DKALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       123 ll~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      ||+++++                .|+. ++|.++|++|.+.|+.||.+||++++.++.+
T Consensus       206 LI~glcK----------------~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          206 ALQCMGR----------------QDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHH----------------HTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHHh----------------CCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            7777766                8885 7899999999999999999999988877643

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.77  E-value=3.8e-17  Score=127.88  Aligned_cols=177  Identities=12%  Similarity=-0.006  Sum_probs=133.2

Q ss_pred             ccHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccCC-----------------------------------
Q 038237            2 GFTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMPE-----------------------------------   44 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----------------------------------   44 (181)
                      ++|+++|+++.+  ++..+|+.++.++.+.|++++|.++|+++.+                                   
T Consensus       289 ~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  368 (597)
T 2xpi_A          289 RRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR  368 (597)
T ss_dssp             HHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Confidence            457777777766  6777777777777777777777777777642                                   


Q ss_pred             --CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHH
Q 038237           45 --RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNA  122 (181)
Q Consensus        45 --~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  122 (181)
                        .+..+|+.+...|.+.|++++|.++|+++.+.. +.+..+|+.+..++.+.|++++|..+|+++.+.+. .+..+|+.
T Consensus       369 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~  446 (597)
T 2xpi_A          369 HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLF  446 (597)
T ss_dssp             CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHH
T ss_pred             CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHH
Confidence              245677777777777888888888887776642 22466778888888888888888888888776543 36677777


Q ss_pred             HHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCC--hhhHHHHHhhh
Q 038237          123 LIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA----SIKPD--EVAYVGVLSAR  178 (181)
Q Consensus       123 ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~--~~t~~~li~~~  178 (181)
                      +...|.+.|                  +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|
T Consensus       447 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~  526 (597)
T 2xpi_A          447 LGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAY  526 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHH
Confidence            877777766                  6788999999999999999999999998776    67787  67888888877


Q ss_pred             cc
Q 038237          179 TH  180 (181)
Q Consensus       179 ~~  180 (181)
                      .+
T Consensus       527 ~~  528 (597)
T 2xpi_A          527 RK  528 (597)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.72  E-value=2.3e-16  Score=123.50  Aligned_cols=175  Identities=14%  Similarity=0.090  Sum_probs=103.6

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|+++..   .+..+|+.+...|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+
T Consensus       356 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  435 (597)
T 2xpi_A          356 NKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR  435 (597)
T ss_dssp             HHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345556655532   3455666666666666666666666666542   3455666666666666666666666666655


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------------------c
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------------------V  132 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------------~  132 (181)
                      .+ +.+..+|..+..+|.+.|++++|..+|+.+.+.... +..+|+.+...|.+.|                       +
T Consensus       436 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          436 LF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEK  513 (597)
T ss_dssp             TT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSG
T ss_pred             hC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchh
Confidence            43 235566666666666666666666666666654322 4555666666665555                       1


Q ss_pred             --hHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          133 --KFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       133 --~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                        ..+|+.+..+|.+.|++++|.+.|+++.+.+ +.+..+|..+..+|.
T Consensus       514 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~  561 (597)
T 2xpi_A          514 PWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYL  561 (597)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence              4456666666666666666666666665543 235556665555543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.44  E-value=3.4e-14  Score=107.01  Aligned_cols=161  Identities=11%  Similarity=0.056  Sum_probs=48.0

Q ss_pred             CccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 038237            1 MGFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG   80 (181)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   80 (181)
                      +++|.++++++.+|+  +|..+..++.+.|++++|.+.|..  .+|..+|..++.++...|++++|.+.++...+.  .+
T Consensus        19 ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfik--a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~   92 (449)
T 1b89_A           19 LDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--AR   92 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--Cc
Confidence            468888888886664  899999999999999999999975  467779999999999999999999977666553  45


Q ss_pred             cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC----------chHhHHHHHHHHHHcCChh
Q 038237           81 DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT----------VKFTWTTMIVGLAISGNGD  150 (181)
Q Consensus        81 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~~~~li~~~~~~~~~~  150 (181)
                      +..+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|          ....|+.+..++.+.|+++
T Consensus        93 ~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A           93 ESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             ----------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHTTCHHHHHHHHHTTTCHH
T ss_pred             cchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHhhhHHHHHHHHHHhccHH
Confidence            67888999999999999999887775       367779999999998887          6778999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHhhhcc
Q 038237          151 KALDMFSQMLRASIKPDEVAYVGVLSARTH  180 (181)
Q Consensus       151 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  180 (181)
                      .|.+.++++      .+..||..++.+|..
T Consensus       166 ~AVea~~KA------~~~~~Wk~v~~aCv~  189 (449)
T 1b89_A          166 AAVDGARKA------NSTRTWKEVCFACVD  189 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHH
Confidence            999999999      388999999998863

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.39  E-value=6.9e-11  Score=87.95  Aligned_cols=57  Identities=14%  Similarity=0.159  Sum_probs=28.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      +..+...+.+.|++++|.+.|+++.+   .+..+|..+...+.+.|++++|.+.|+++.+
T Consensus       138 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  197 (388)
T 1w3b_A          138 RSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVT  197 (388)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33344444444555555555544432   2344555555555555555555555555544

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.39  E-value=3.5e-11  Score=89.55  Aligned_cols=158  Identities=9%  Similarity=0.023  Sum_probs=95.0

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-------------------------------
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-------------------------------   45 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-------------------------------   45 (181)
                      ++|++.|+++..  | +..+|..+...+.+.|++++|.+.|+++.+  |                               
T Consensus       152 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  231 (388)
T 1w3b_A          152 EEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            355666665542  3 345677777777777777777777766542  1                               


Q ss_pred             ----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHH
Q 038237           46 ----DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGN  121 (181)
Q Consensus        46 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  121 (181)
                          +..++..+...+.+.|++++|.+.|+++.+.+- .+..+|..+...+.+.|++++|...++++.+.. +.+..++.
T Consensus       232 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~  309 (388)
T 1w3b_A          232 LSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLN  309 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHH
Confidence                344555666666666666666666666655421 134556666666666666666666666666543 23455566


Q ss_pred             HHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          122 ALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       122 ~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .+...+.+.|                  +..+|..+...+.+.|++++|.+.|+++.+
T Consensus       310 ~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          310 NLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666655554                  445566666666666666666666666664

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.37  E-value=7.4e-11  Score=82.51  Aligned_cols=170  Identities=9%  Similarity=-0.012  Sum_probs=118.9

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++...   .+...+..+...+.+.|++++|.+.|+++.+   .+...+..+...+...|++++|.+.|++..+
T Consensus        54 ~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  133 (252)
T 2ho1_A           54 EQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQ  133 (252)
T ss_dssp             GGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            566677766542   3556677778888888888888888877653   3667777788888888888888888888776


Q ss_pred             cCCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhH
Q 038237           76 SNIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTW  136 (181)
Q Consensus        76 ~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~  136 (181)
                      .+..| +...+..+...+.+.|++++|...++...+.... +...+..+...|...|                  +...+
T Consensus       134 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  212 (252)
T 2ho1_A          134 DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSL  212 (252)
T ss_dssp             CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHH
Confidence            43344 4466777777888888888888888887776432 4556666666666655                  45567


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 038237          137 TTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                      ..+...+.+.|+.++|.+.++++.+.  .|+...+..+
T Consensus       213 ~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~  248 (252)
T 2ho1_A          213 LLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQEF  248 (252)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHHH
Confidence            77777777788888888888877664  3444444433

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.35  E-value=3.9e-11  Score=90.67  Aligned_cols=165  Identities=13%  Similarity=0.033  Sum_probs=122.1

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|+++..   .+...|..+..++.+.|++++|.+.|+.+.+   .+..++..+...|.+.|++++|.+.|+++.+
T Consensus        43 ~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  122 (450)
T 2y4t_A           43 ADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLK  122 (450)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            467777776543   3566788888888888888888888887764   3567788888888888888888888888876


Q ss_pred             cCCCccH----HHHHHH------------HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC--------
Q 038237           76 SNIMGDE----FTIVSI------------LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT--------  131 (181)
Q Consensus        76 ~~~~p~~----~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--------  131 (181)
                      ..  |+.    ..+..+            ...+.+.|++++|...++.+.+... .+...+..+...|.+.|        
T Consensus       123 ~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~  199 (450)
T 2y4t_A          123 SN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISD  199 (450)
T ss_dssp             SC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHH
T ss_pred             cC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHH
Confidence            43  332    444444            3337778888888888888877643 36667777777777766        


Q ss_pred             ----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhH
Q 038237          132 ----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY  171 (181)
Q Consensus       132 ----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  171 (181)
                                +..+|+.+...|.+.|++++|.+.|+++...  .|+....
T Consensus       200 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~  247 (450)
T 2y4t_A          200 LKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRC  247 (450)
T ss_dssp             HHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHH
Confidence                      6788889999999999999999999998864  4554443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.33  E-value=1.2e-11  Score=93.30  Aligned_cols=158  Identities=7%  Similarity=0.014  Sum_probs=85.9

Q ss_pred             ccHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 038237            2 GFTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM   79 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   79 (181)
                      ++|+++++..++  +++.+.+.++.+|.+.|+++++.++++   .|+..+|+.+.+.|...|++++|...|..+      
T Consensus        78 EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           78 EELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             -------------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            566776665553  566778888888888888888888775   367778999999999999999999999876      


Q ss_pred             ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC--------------chHhHHHHHHHHHH
Q 038237           80 GDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT--------------VKFTWTTMIVGLAI  145 (181)
Q Consensus        80 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--------------~~~~~~~li~~~~~  145 (181)
                         ..|..+..++.+.|++++|.+.+++.      .++.+|..++.+|...|              .......++..|.+
T Consensus       149 ---~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek  219 (449)
T 1b89_A          149 ---SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQD  219 (449)
T ss_dssp             ---TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHH
Confidence               47888899999999999998888877      37889999999998876              33334468888999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          146 SGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       146 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .|++++|..+++...... +--...|.-|--.+
T Consensus       220 ~G~~eEai~lLe~aL~le-~ah~~~ftel~il~  251 (449)
T 1b89_A          220 RGYFEELITMLEAALGLE-RAHMGMFTELAILY  251 (449)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHH
Confidence            999999999999887543 23333444443333

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.33  E-value=1.2e-10  Score=88.03  Aligned_cols=158  Identities=11%  Similarity=0.020  Sum_probs=97.1

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cH---HHHHHHHHH------------HHhc
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DY---VLWTTMIDG------------YLRV   60 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~---~~~~~li~~------------~~~~   60 (181)
                      ++|++.|+++.+  | +...+..+...+.+.|++++|.+.|+++.+  | +.   ..+..+...            +.+.
T Consensus        77 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  156 (450)
T 2y4t_A           77 KAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGS  156 (450)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            456666666543  3 455677777777777777777777777754  2 22   445444333            6667


Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------
Q 038237           61 NRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------  131 (181)
Q Consensus        61 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------  131 (181)
                      |++++|.+.|+++.+.. +.+...+..+...+.+.|++++|...++.+.+... .+...|..+...|...|         
T Consensus       157 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~  234 (450)
T 2y4t_A          157 GDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEV  234 (450)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            77777777777776542 22556666677777777777777777777665432 24556666666666555         


Q ss_pred             ---------chHhHHHH------------HHHHHHcCChhHHHHHHHHHHH
Q 038237          132 ---------VKFTWTTM------------IVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 ---------~~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~  161 (181)
                               +...+..+            ...+.+.|++++|.+.|+++.+
T Consensus       235 ~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~  285 (450)
T 2y4t_A          235 RECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK  285 (450)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                     22333333            5556666666666666666655

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.28  E-value=5.5e-10  Score=80.57  Aligned_cols=92  Identities=9%  Similarity=0.022  Sum_probs=42.9

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccC----CC-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMP----ER-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      |+..++..+...+.+.++.++|.+.++++.    .| +...+..+-..+.+.|++++|++.+++      +.+...+..+
T Consensus        63 ~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l  136 (291)
T 3mkr_A           63 PELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMT  136 (291)
T ss_dssp             HHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHH
T ss_pred             hhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHH
Confidence            334444444445555555555555554432    12 233333333444455555555555444      2344444445


Q ss_pred             HHHHHccCCcchHHHHHHHHHHc
Q 038237           89 LTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ...+.+.|++++|...++.+.+.
T Consensus       137 ~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A          137 VQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh
Confidence            55555555555555555555444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.27  E-value=5.5e-11  Score=87.69  Aligned_cols=174  Identities=10%  Similarity=0.008  Sum_probs=104.1

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|++...  | +...|..+...+.+.|++++|.+.|+++.+   .+..+|..+...|.+.|++++|.+.|+++.+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  161 (365)
T 4eqf_A           82 PVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIK  161 (365)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHH
Confidence            456666665542  3 455677777777777777777777777653   3566777777777777777777777777665


Q ss_pred             cCCCcc-----------HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-cchHHHHHHHHHhHhcC------------
Q 038237           76 SNIMGD-----------EFTIVSILTARANLGALELGEWIKTYIDKNKVK-NDIFAGNALIDMYCKCT------------  131 (181)
Q Consensus        76 ~~~~p~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~------------  131 (181)
                      ..  |+           ...+..+...+.+.|++++|...+++..+.... ++...+..+...|...|            
T Consensus       162 ~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  239 (365)
T 4eqf_A          162 QN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAA  239 (365)
T ss_dssp             HC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            32  21           111223345555666666666666666655322 14566666666666555            


Q ss_pred             ------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          132 ------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       132 ------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                            +..+|+.+...|.+.|++++|.+.|++..+.. +.+...+..+...|
T Consensus       240 l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  291 (365)
T 4eqf_A          240 LTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISC  291 (365)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHH
Confidence                  56677777777777888888888887777641 22345555554443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.25  E-value=4.2e-10  Score=78.02  Aligned_cols=159  Identities=16%  Similarity=0.101  Sum_probs=125.5

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|++..+  | +...+..+...+.+.|++++|.+.|++..+   .+...+..+...+...|++++|.+.|++..+
T Consensus        40 ~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  119 (243)
T 2q7f_A           40 EKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALR  119 (243)
T ss_dssp             --CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            445555665533  3 566788888999999999999999988763   4777888888999999999999999999887


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHH
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWT  137 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~  137 (181)
                      .. +.+...+..+...+.+.|++++|...+++..+.... +...+..+...+.+.|                  +...|.
T Consensus       120 ~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  197 (243)
T 2q7f_A          120 AG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFY  197 (243)
T ss_dssp             HT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHH
Confidence            54 236677888888999999999999999998876433 5566777777776665                  567788


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          138 TMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       138 ~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+...+.+.|++++|.+.+++..+.
T Consensus       198 ~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          198 NAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHcc
Confidence            8888999999999999999998874

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.24  E-value=9e-10  Score=75.28  Aligned_cols=125  Identities=12%  Similarity=-0.042  Sum_probs=66.6

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhc-CcHHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRV-NRFREALTLFQEIQT   75 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~   75 (181)
                      +|++.|++...  | +...+..+...+.+.|++++|.+.++...+   .+..++..+...+... |++++|.+.|++..+
T Consensus        26 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~  105 (225)
T 2vq2_A           26 QATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALA  105 (225)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHc
Confidence            44455544332  2 344555566666666666666666665542   2455566666666666 666666666666655


Q ss_pred             cCCCcc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH
Q 038237           76 SNIMGD-EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC  128 (181)
Q Consensus        76 ~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  128 (181)
                      .+..|+ ...+..+...+.+.|++++|...++...+.... +...+..+...+.
T Consensus       106 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~  158 (225)
T 2vq2_A          106 DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKM  158 (225)
T ss_dssp             STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHH
Confidence            222222 345555556666666666666666666554322 2333444444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.22  E-value=2e-09  Score=73.47  Aligned_cols=160  Identities=8%  Similarity=-0.094  Sum_probs=129.5

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...|..+...+.+.|++++|.+.|+.+.+   .+...+..+...+...|++++|.+.|++..+.. +.+...+..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            456788889999999999999999998764   467889999999999999999999999998754 2367788899999


Q ss_pred             HHcc-CCcchHHHHHHHHHHcCCCc-chHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhH
Q 038237           92 RANL-GALELGEWIKTYIDKNKVKN-DIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDK  151 (181)
Q Consensus        92 ~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~  151 (181)
                      +... |++++|...++...+.+..| +...+..+...+...|                  +...|..+...+.+.|++++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            9999 99999999999998843233 3567777777777766                  57788899999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHH
Q 038237          152 ALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       152 a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      |.+.+++..+..-..+...+..+.
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~  189 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGW  189 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHH
Confidence            999999988753213445554443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.20  E-value=3.1e-09  Score=76.58  Aligned_cols=156  Identities=13%  Similarity=0.054  Sum_probs=120.4

Q ss_pred             ccHHHHhhhcC----CCC-hhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            2 GFTLEIFGTMK----NKD-VISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         2 ~~a~~~~~~~~----~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      ++|++.++++.    .|+ ...+..+-..+.+.|++++|.+.++.  ..+..++..+...+.+.|++++|.+.|+++.+.
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            46777787652    364 44566677999999999999999998  568889999999999999999999999999886


Q ss_pred             CCCccHHHH---HHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHh
Q 038237           77 NIMGDEFTI---VSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFT  135 (181)
Q Consensus        77 ~~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~  135 (181)
                      .  |+....   ..++..+...|++++|..+|+++.+. .+.+...++.+...+.+.|                  +..+
T Consensus       160 ~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~  236 (291)
T 3mkr_A          160 D--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPET  236 (291)
T ss_dssp             C--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             C--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence            4  554321   22334444568999999999999987 3457778888888887766                  6777


Q ss_pred             HHHHHHHHHHcCChhH-HHHHHHHHHHc
Q 038237          136 WTTMIVGLAISGNGDK-ALDMFSQMLRA  162 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~-a~~~~~~m~~~  162 (181)
                      ++.++..+...|+.++ +.++++++.+.
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            8888888888888765 56777777653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.18  E-value=2.4e-10  Score=84.23  Aligned_cols=176  Identities=11%  Similarity=-0.040  Sum_probs=131.7

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc-----------HHHHHHHHHHHHhcCcHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--RD-----------YVLWTTMIDGYLRVNRFRE   65 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~-----------~~~~~~li~~~~~~~~~~~   65 (181)
                      ++|++.|++...  | +...|..+...+.+.|++++|.+.|+++.+  |+           ...+..+...+.+.|++++
T Consensus       116 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  195 (365)
T 4eqf_A          116 QAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEG  195 (365)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHH
Confidence            567778877653  4 567899999999999999999999999874  21           2233445778889999999


Q ss_pred             HHHHHHHHHHcCCC-ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-------------
Q 038237           66 ALTLFQEIQTSNIM-GDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-------------  131 (181)
Q Consensus        66 a~~~~~~m~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------------  131 (181)
                      |.+.|+++.+..-. ++..++..+...+.+.|++++|...+++..+.... +..+|..+...|...|             
T Consensus       196 A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al  274 (365)
T 4eqf_A          196 VKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRAL  274 (365)
T ss_dssp             HHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999875421 25788999999999999999999999999887433 6778888888888877             


Q ss_pred             -----chHhHHHHHHHHHHcCChhHHHHHHHHHHHcC---CCC--------ChhhHHHHHhhh
Q 038237          132 -----VKFTWTTMIVGLAISGNGDKALDMFSQMLRAS---IKP--------DEVAYVGVLSAR  178 (181)
Q Consensus       132 -----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p--------~~~t~~~li~~~  178 (181)
                           +...|..+...|.+.|++++|.+.|++..+..   ..|        +...|..+-.++
T Consensus       275 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  337 (365)
T 4eqf_A          275 EIQPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIAL  337 (365)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHH
T ss_pred             hcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHH
Confidence                 67889999999999999999999999997642   111        356666666554

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.18  E-value=1.5e-09  Score=78.38  Aligned_cols=158  Identities=15%  Similarity=0.017  Sum_probs=89.8

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +|++.|++...  | +...|..+...+.+.|++++|.+.|+...+   .+...+..+...+...|++++|.+.|++..+.
T Consensus       109 ~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  188 (330)
T 3hym_B          109 HARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSI  188 (330)
T ss_dssp             HHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            34555554432  2 344555566666666666666666655542   23445555666666666666666666666554


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC--------CCcchHHHHHHHHHhHhcC-----------------
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK--------VKNDIFAGNALIDMYCKCT-----------------  131 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~ll~~~~~~~-----------------  131 (181)
                      . +.+...+..+...+.+.|++++|...++...+..        .+.....+..+...|...|                 
T Consensus       189 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  267 (330)
T 3hym_B          189 A-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIP  267 (330)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             C-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCc
Confidence            2 2244556666666666666666666666665431        1223345555555555544                 


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                       +...|..+...+.+.|++++|.+.|++..+
T Consensus       268 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          268 QNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             cchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence             455666666666667777777777666654

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.17  E-value=6.5e-10  Score=81.77  Aligned_cols=94  Identities=6%  Similarity=-0.055  Sum_probs=53.9

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ..+..+...+.+.|++++|...|+++.+   .+..+|..+...+.+.|++++|.+.|++..+.. +.+..++..+...+.
T Consensus        65 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  143 (368)
T 1fch_A           65 PQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFT  143 (368)
T ss_dssp             SSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3455556666666666666666665542   244555566666666666666666666655543 124455555666666


Q ss_pred             ccCCcchHHHHHHHHHHc
Q 038237           94 NLGALELGEWIKTYIDKN  111 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~  111 (181)
                      ..|++++|...++.....
T Consensus       144 ~~g~~~~A~~~~~~~~~~  161 (368)
T 1fch_A          144 NESLQRQACEILRDWLRY  161 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666665555543

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.17  E-value=3.8e-09  Score=73.71  Aligned_cols=160  Identities=8%  Similarity=-0.086  Sum_probs=130.2

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ...|..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.|++..+..- .+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHH
Confidence            45688888999999999999999998863   4778899999999999999999999999987642 3678888999999


Q ss_pred             HccCCcchHHHHHHHHHHcCCCc-chHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVKN-DIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      ...|++++|...++...+.+..| +...+..+...+...|                  +...|..+...+.+.|++++|.
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999998843334 5667777777777666                  5778899999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHhh
Q 038237          154 DMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       154 ~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      +.+++..+.. +.+...+..+...
T Consensus       196 ~~~~~~~~~~-~~~~~~~~~~~~~  218 (252)
T 2ho1_A          196 QYYDLFAQGG-GQNARSLLLGIRL  218 (252)
T ss_dssp             HHHHHHHTTS-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cCcHHHHHHHHHH
Confidence            9999987742 2344455544443

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.16  E-value=2.4e-09  Score=77.18  Aligned_cols=160  Identities=10%  Similarity=-0.042  Sum_probs=107.1

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|++..+  | +...+..+...+.+.|++++|.+.|+++.+   .+..++..+...+...|++++|.+.|++..+
T Consensus        38 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  117 (327)
T 3cv0_A           38 AEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLL  117 (327)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456666666542  3 455677777788888888888888877653   3566777777777777777777777766654


Q ss_pred             cCC------------------------------------------------CccHHHHHHHHHHHHccCCcchHHHHHHH
Q 038237           76 SNI------------------------------------------------MGDEFTIVSILTARANLGALELGEWIKTY  107 (181)
Q Consensus        76 ~~~------------------------------------------------~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  107 (181)
                      ..-                                                +.+...+..+...+.+.|++++|...++.
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  197 (327)
T 3cv0_A          118 SQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRR  197 (327)
T ss_dssp             TSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            210                                                12345566666677777777777777777


Q ss_pred             HHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          108 IDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       108 ~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ..+.... +...+..+...+...|                  +...|..+...+.+.|++++|.+.+++....
T Consensus       198 ~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          198 AVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            7665322 4555666666665555                  5666777777777788888888888777654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.16  E-value=7.2e-10  Score=76.43  Aligned_cols=153  Identities=15%  Similarity=0.066  Sum_probs=84.0

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhc-----------CcHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRV-----------NRFRE   65 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~-----------~~~~~   65 (181)
                      +|+..|++...  | +...+..+-..+.+.|++++|...|+...+   .+...+..+-..+.+.           |++++
T Consensus        23 ~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~  102 (217)
T 2pl2_A           23 AALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQ  102 (217)
T ss_dssp             HHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHH
Confidence            44455554332  2 334455555556666666666666655542   2444555555555555           66666


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHH
Q 038237           66 ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAI  145 (181)
Q Consensus        66 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~  145 (181)
                      |...|++..+..- -+...+..+-..+...|++++|...+++..+..  .+..                .|..+-..+..
T Consensus       103 A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~----------------~~~~la~~~~~  163 (217)
T 2pl2_A          103 ALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPE----------------IRSALAELYLS  163 (217)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHH----------------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchH----------------HHHHHHHHHHH
Confidence            6666665554321 133455555555556666666666666655554  3333                44455555556


Q ss_pred             cCChhHHHHHHHHHHHcCCCC-ChhhHHHHHh
Q 038237          146 SGNGDKALDMFSQMLRASIKP-DEVAYVGVLS  176 (181)
Q Consensus       146 ~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~  176 (181)
                      .|++++|.+.|++..+.  .| +...+..+..
T Consensus       164 ~g~~~~A~~~~~~al~~--~P~~~~~~~~la~  193 (217)
T 2pl2_A          164 MGRLDEALAQYAKALEQ--APKDLDLRVRYAS  193 (217)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHH
Confidence            88888888888888764  23 3344444433

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.15  E-value=1.6e-08  Score=66.81  Aligned_cols=142  Identities=8%  Similarity=-0.012  Sum_probs=84.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHcc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANL   95 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~   95 (181)
                      |..+...+.+.|++++|.+.++++.+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHh
Confidence            44555556666666666666666553   245555666666666666666666666655432 12445555556666666


Q ss_pred             CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHH
Q 038237           96 GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFS  157 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~  157 (181)
                      |++++|...++...+.... +...+..+...+...|                  +...|..+...+...|++++|.+.++
T Consensus        90 ~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEANPI-NFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6666666666666554322 3344444444444433                  44566667777777888999988888


Q ss_pred             HHHHc
Q 038237          158 QMLRA  162 (181)
Q Consensus       158 ~m~~~  162 (181)
                      +..+.
T Consensus       169 ~~~~~  173 (186)
T 3as5_A          169 KANEL  173 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            88764

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.15  E-value=1.8e-09  Score=78.02  Aligned_cols=175  Identities=9%  Similarity=-0.061  Sum_probs=129.0

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcC-cHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVN-RFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~   74 (181)
                      ++|+++|++...  | +...+..+...+.+.|++++|..+++++.+   .+...|..+...+...| ++++|.+.|++..
T Consensus        39 ~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~  118 (330)
T 3hym_B           39 KMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKAT  118 (330)
T ss_dssp             HHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            456777776543  3 444566777888888888888888888764   36777888888888888 8899999998887


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhH
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTW  136 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~  136 (181)
                      +.. +.+...+..+...+...|++++|...++...+.... +...+..+...|...|                  +...|
T Consensus       119 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~  196 (330)
T 3hym_B          119 TLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVM  196 (330)
T ss_dssp             TTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHH
T ss_pred             HhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHH
Confidence            653 224567888888888899999999998888876443 3445555666666655                  67788


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcC--------CCCChhhHHHHHhhh
Q 038237          137 TTMIVGLAISGNGDKALDMFSQMLRAS--------IKPDEVAYVGVLSAR  178 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a~~~~~~m~~~~--------~~p~~~t~~~li~~~  178 (181)
                      ..+...+.+.|++++|.+.+++..+..        .+.+...+..+...+
T Consensus       197 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~  246 (330)
T 3hym_B          197 HEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVC  246 (330)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHH
Confidence            889999999999999999999987641        133345666555544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.14  E-value=1.2e-09  Score=76.13  Aligned_cols=174  Identities=9%  Similarity=0.011  Sum_probs=130.8

Q ss_pred             ccHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc--------HHHHHHHHHHHHhcCcHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMPE--RD--------YVLWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~--------~~~~~~li~~~~~~~~~~~a~~~   69 (181)
                      ++|+++|++..+  ++...|..+...+.+.|++++|.+.++...+  |+        ...|..+...+.+.|++++|.+.
T Consensus        22 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  101 (258)
T 3uq3_A           22 DEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEY  101 (258)
T ss_dssp             HHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            456666655432  6677888899999999999999999988764  21        57888888999999999999999


Q ss_pred             HHHHHHcC------------------------CCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           70 FQEIQTSN------------------------IMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        70 ~~~m~~~~------------------------~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      |++..+..                        ..| +...+..+...+...|++++|...++...+.... +...+..+.
T Consensus       102 ~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~  180 (258)
T 3uq3_A          102 YQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRA  180 (258)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcc-cHHHHHHHH
Confidence            99887732                        222 3456777888888999999999999998876533 566777777


Q ss_pred             HHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcC----CCCChhhHHHHHh
Q 038237          125 DMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRAS----IKPDEVAYVGVLS  176 (181)
Q Consensus       125 ~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~t~~~li~  176 (181)
                      ..|...|                  +...|..+...+.+.|++++|.+.|++..+..    ..|+.......+.
T Consensus       181 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~  254 (258)
T 3uq3_A          181 AALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYY  254 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHH
Confidence            7777766                  57778888888999999999999999887642    2355544444443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.14  E-value=3.2e-09  Score=81.22  Aligned_cols=92  Identities=7%  Similarity=-0.179  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLA  144 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~  144 (181)
                      ..+..+...+...|++++|...++...+....  ...+..+...|...|                  +...|..+...+.
T Consensus       238 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  315 (514)
T 2gw1_A          238 ISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNF  315 (514)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHH
Confidence            34445555556666666666666666655433  555666666665554                  5556777777777


Q ss_pred             HcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          145 ISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       145 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      ..|++++|.+.|++..+.. +.+...+..+...
T Consensus       316 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  347 (514)
T 2gw1_A          316 ILQNYDQAGKDFDKAKELD-PENIFPYIQLACL  347 (514)
T ss_dssp             HTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHH
Confidence            7777777777777776642 1233444444433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.14  E-value=8.8e-09  Score=68.66  Aligned_cols=151  Identities=10%  Similarity=0.022  Sum_probs=97.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +..+|..+-..+.+.|++++|.+.|++..+   .+..+|..+...|.+.|++++|...+......... +...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHH
Confidence            344566666777777777777777766653   35566666666777777777777777666554322 34455555566


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHH
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      +...++++.+...+....+.... +...+..+-..|.+.|                  +...|..+-..|.+.|++++|.
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHH
Confidence            66666666666666666654322 3444555555554444                  5667777888888899999999


Q ss_pred             HHHHHHHHcCCCCChh
Q 038237          154 DMFSQMLRASIKPDEV  169 (181)
Q Consensus       154 ~~~~~m~~~~~~p~~~  169 (181)
                      +.|++..+.  .|+..
T Consensus       162 ~~~~~al~~--~p~~a  175 (184)
T 3vtx_A          162 KYFKKALEK--EEKKA  175 (184)
T ss_dssp             HHHHHHHHT--THHHH
T ss_pred             HHHHHHHhC--CccCH
Confidence            999998763  45443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.11  E-value=6.4e-09  Score=64.99  Aligned_cols=128  Identities=14%  Similarity=0.192  Sum_probs=104.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ..|..+...+.+.|++++|.++|+++.+   .+...+..+...+...|++++|.+.|+++.+.+ +.+...+..+...+.
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            3577788899999999999999998763   467788889999999999999999999998764 235677888999999


Q ss_pred             ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           94 NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.|++++|...++.+.+.... +...                |..+...+.+.|++++|.+.++++...
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~-~~~~----------------~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPR-SAEA----------------WYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHH----------------HHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-ChHH----------------HHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            999999999999999876432 2333                344555566699999999999998764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.09  E-value=1.9e-08  Score=69.21  Aligned_cols=145  Identities=13%  Similarity=-0.019  Sum_probs=117.0

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILT   90 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~   90 (181)
                      ++...+..+-..+.+.|++++|...|+...+   .+...+..+-..+.+.|++++|...|++..+.. +-+...+..+-.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            5667888899999999999999999998764   477889999999999999999999999998754 225678888888


Q ss_pred             HHHcc-----------CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           91 ARANL-----------GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        91 ~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      .+.+.           |++++|...+++..+.... +..                .|..+-..+.+.|++++|.+.|++.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~----------------~~~~lg~~~~~~g~~~~A~~~~~~a  144 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAP----------------LHLQRGLVYALLGERDKAEASLKQA  144 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHH----------------HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHH----------------HHHHHHHHHHHcCChHHHHHHHHHH
Confidence            99999           9999999999999886433 233                3344445556699999999999999


Q ss_pred             HHcCCCCChhhHHHHHhhh
Q 038237          160 LRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       160 ~~~~~~p~~~t~~~li~~~  178 (181)
                      .+..  .+...+..+-..+
T Consensus       145 l~~~--~~~~~~~~la~~~  161 (217)
T 2pl2_A          145 LALE--DTPEIRSALAELY  161 (217)
T ss_dssp             HHHC--CCHHHHHHHHHHH
T ss_pred             Hhcc--cchHHHHHHHHHH
Confidence            9887  6777776665544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.08  E-value=1.6e-09  Score=79.59  Aligned_cols=160  Identities=12%  Similarity=0.015  Sum_probs=117.8

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++..+   .+...|..+..++.+.|++++|.+.|+.+.+   .+..++..+...+...|++++|.+.|+++.+
T Consensus        81 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  160 (368)
T 1fch_A           81 PNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLR  160 (368)
T ss_dssp             HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467777776643   3556788888888888888888888887753   4677788888888888888888888877655


Q ss_pred             cCC-----------------------------------------------Cc---cHHHHHHHHHHHHccCCcchHHHHH
Q 038237           76 SNI-----------------------------------------------MG---DEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        76 ~~~-----------------------------------------------~p---~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      ..-                                               .|   +..++..+...+.+.|++++|...+
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~  240 (368)
T 1fch_A          161 YTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCF  240 (368)
T ss_dssp             TSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            321                                               12   3567777788888888888888888


Q ss_pred             HHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          106 TYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       106 ~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +...+... .+...+..+...+...|                  +...|..+...+.+.|++++|.+.|++....
T Consensus       241 ~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          241 TAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            88777632 24566777777776665                  5667888888888888888888888888754

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.07  E-value=7.1e-09  Score=71.72  Aligned_cols=162  Identities=11%  Similarity=-0.005  Sum_probs=114.8

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILT   90 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~   90 (181)
                      .+...|..+...+.+.|++++|...|+++.+   .+...+..+...+.+.|++++|.+.|++..+..- .+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHH
Confidence            3555678888889999999999999998864   4778899999999999999999999999887642 36788888999


Q ss_pred             HHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHH
Q 038237           91 ARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKA  152 (181)
Q Consensus        91 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a  152 (181)
                      .+...|++++|...++...+.... +...+..+...+...|                  +...|..+...+.+.|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999999887533 5667777777777766                  677888899999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          153 LDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       153 ~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .+.+++..+.. +.+..++..+...+
T Consensus       179 ~~~~~~~~~~~-~~~~~~~~~la~~~  203 (243)
T 2q7f_A          179 LSQFAAVTEQD-PGHADAFYNAGVTY  203 (243)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            99999998762 23455665555544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.06  E-value=1.6e-08  Score=71.24  Aligned_cols=159  Identities=12%  Similarity=0.006  Sum_probs=111.3

Q ss_pred             ccHHHHhhhcCC------C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN------K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQ   71 (181)
Q Consensus         2 ~~a~~~~~~~~~------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~   71 (181)
                      ++|++.|+++.+      | +..+|..+...+.+.|++++|.+.|++..+   .+..+|..+...+...|++++|.+.|+
T Consensus        22 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  101 (275)
T 1xnf_A           22 EVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFD  101 (275)
T ss_dssp             HHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            456666666543      1 345677788888888888888888887763   367778888888888888888888888


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcch--------------------------------HH
Q 038237           72 EIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDI--------------------------------FA  119 (181)
Q Consensus        72 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------------------------~~  119 (181)
                      +..+.. +.+...+..+...+.+.|++++|...++...+.......                                ..
T Consensus       102 ~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  180 (275)
T 1xnf_A          102 SVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWG  180 (275)
T ss_dssp             HHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTH
T ss_pred             HHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHH
Confidence            877643 224677777888888888888888888887765322110                                00


Q ss_pred             HHHHHHHhHhcC----------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          120 GNALIDMYCKCT----------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       120 ~~~ll~~~~~~~----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +. +...+...+                      +...|..+...+.+.|++++|.+.|++....
T Consensus       181 ~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          181 WN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            11 111111111                      2578889999999999999999999999875

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=98.98  E-value=3e-08  Score=74.20  Aligned_cols=173  Identities=7%  Similarity=-0.012  Sum_probs=128.7

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCC-HHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQ-VDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      ++|++.|++...  | +...|..+-.++.+.|+ +++|.+.|++...   .+...|..+-..+.+.|++++|+..|++..
T Consensus       114 ~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal  193 (382)
T 2h6f_A          114 ERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADIL  193 (382)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            567777776653  4 45568888888888996 9999999988874   477788888889999999999999999988


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh-cC----------------------
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK-CT----------------------  131 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~----------------------  131 (181)
                      +..-. +...|..+-.++.+.|++++|...+++.++.... +...|+.+-..+.+ .+                      
T Consensus       194 ~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P  271 (382)
T 2h6f_A          194 NQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVP  271 (382)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHST
T ss_pred             HhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCC
Confidence            75432 6688888888888999999999999998887544 55566665555544 22                      


Q ss_pred             -chHhHHHHHHHHHHcC--ChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          132 -VKFTWTTMIVGLAISG--NGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                       +...|+.+...+.+.|  +.++|++.++++  ..-+.+...+..+...+
T Consensus       272 ~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~--~~~p~~~~al~~La~~~  319 (382)
T 2h6f_A          272 HNESAWNYLKGILQDRGLSKYPNLLNQLLDL--QPSHSSPYLIAFLVDIY  319 (382)
T ss_dssp             TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH--TTTCCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHccCccchHHHHHHHHHh--ccCCCCHHHHHHHHHHH
Confidence             5667888787888777  688898888887  32333445555555444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.98  E-value=4e-08  Score=68.36  Aligned_cols=161  Identities=12%  Similarity=0.030  Sum_probs=121.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--Ccc----HHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI--MGD----EFTIVS   87 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~~   87 (181)
                      ...|..+-..+.+.|++++|.+.|++..+  .+...|..+...+...|++++|.+.|++..+..-  .|+    ...+..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            34678888999999999999999988753  6788899999999999999999999999876421  112    578889


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCC------------------------C-cchHHHHHHHHHhHhcC-----------
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKV------------------------K-NDIFAGNALIDMYCKCT-----------  131 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~------------------------~-~~~~~~~~ll~~~~~~~-----------  131 (181)
                      +...+.+.|++++|...++...+...                        . .+...+..+...+...|           
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  164 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTE  164 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            99999999999999999999988431                        1 23344555555555554           


Q ss_pred             -------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          132 -------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       132 -------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                             +...|..+...+.+.|++++|.+.+++..+.. +.+...+..+-..
T Consensus       165 a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~  216 (258)
T 3uq3_A          165 MIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA  216 (258)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHH
Confidence                   56677888888888888888888888887652 2234445444443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.98  E-value=1.7e-08  Score=77.78  Aligned_cols=159  Identities=9%  Similarity=-0.066  Sum_probs=126.2

Q ss_pred             ccHHHHhhhcCC--CC--------hhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KD--------VISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~--------~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~   69 (181)
                      ++|.++|+++.+  |+        ..++..+...+...|++++|.+.|+...+  |+...|..+...+...|++++|.+.
T Consensus       219 ~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  298 (537)
T 3fp2_A          219 TKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKF  298 (537)
T ss_dssp             HHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHH
Confidence            456777776654  43        22466667788889999999999998864  6677888888899999999999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------
Q 038237           70 FQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------  131 (181)
Q Consensus        70 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------  131 (181)
                      |++..+..- .+..++..+...+...|++++|...++...+.... +...+..+...|...|                  
T Consensus       299 ~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~  376 (537)
T 3fp2_A          299 FQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT  376 (537)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            999887542 35678888889999999999999999998886533 4566777777777666                  


Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +...|..+...+.+.|++++|.+.|++..+.
T Consensus       377 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          377 LPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            5678888888999999999999999998764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.98  E-value=2.5e-08  Score=72.64  Aligned_cols=158  Identities=11%  Similarity=0.007  Sum_probs=124.6

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++...  | +...+..+...+.+.|++++|.+.|+.+.+   .+...|..+...+...|++++|.+.|++..+
T Consensus        20 ~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~   99 (359)
T 3ieg_A           20 ADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLK   99 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHh
Confidence            467777776643  3 566788888999999999999999988764   3677888899999999999999999999877


Q ss_pred             cCCCc----cHHHHHHH------------HHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC--------
Q 038237           76 SNIMG----DEFTIVSI------------LTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT--------  131 (181)
Q Consensus        76 ~~~~p----~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--------  131 (181)
                      ..  |    +...+..+            ...+...|++++|...++...+.... +...+..+...+...|        
T Consensus       100 ~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~  176 (359)
T 3ieg_A          100 SN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISD  176 (359)
T ss_dssp             SC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHH
Confidence            53  4    33444333            47788899999999999998876443 5566777777777666        


Q ss_pred             ----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 ----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 ----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                +...|..+...+.+.|++++|.+.|++..+.
T Consensus       177 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  217 (359)
T 3ieg_A          177 LKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  217 (359)
T ss_dssp             HHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence                      6778888999999999999999999998865

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.98  E-value=1.1e-08  Score=78.33  Aligned_cols=145  Identities=12%  Similarity=0.015  Sum_probs=69.1

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ...|..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|.+.|++..+.. +.+...+..+...+
T Consensus       304 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  382 (514)
T 2gw1_A          304 SSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEIL  382 (514)
T ss_dssp             THHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHH
Confidence            33444555555555555555555554431   234445555555555555555555555554431 11334444555555


Q ss_pred             HccCCcchHHHHHHHHHHcCCC-cc----hHHHHHHHHHhHh---cC------------------chHhHHHHHHHHHHc
Q 038237           93 ANLGALELGEWIKTYIDKNKVK-ND----IFAGNALIDMYCK---CT------------------VKFTWTTMIVGLAIS  146 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~---~~------------------~~~~~~~li~~~~~~  146 (181)
                      .+.|++++|...++...+.... ++    ...+..+...+..   .|                  +...|..+...+.+.
T Consensus       383 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~  462 (514)
T 2gw1_A          383 TDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQ  462 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHh
Confidence            5555555555555555443111 11    2244444444444   33                  344445555555555


Q ss_pred             CChhHHHHHHHHHHH
Q 038237          147 GNGDKALDMFSQMLR  161 (181)
Q Consensus       147 ~~~~~a~~~~~~m~~  161 (181)
                      |++++|.+.|++..+
T Consensus       463 g~~~~A~~~~~~a~~  477 (514)
T 2gw1_A          463 EDIDEAITLFEESAD  477 (514)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            555555555555544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.97  E-value=1.2e-07  Score=69.02  Aligned_cols=170  Identities=8%  Similarity=-0.003  Sum_probs=125.9

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++..+   .+...+..+...+.+.|++++|.+.++...+   .+..++..+...+...|++++|.+.|++..+
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456677776543   4667788999999999999999999998864   4778899999999999999999999999887


Q ss_pred             cCCCccHHHHH------------HHHHHHHccCCcchHHHHHHHHHHcCCCcch---HHHHHHHHHhHhcC---------
Q 038237           76 SNIMGDEFTIV------------SILTARANLGALELGEWIKTYIDKNKVKNDI---FAGNALIDMYCKCT---------  131 (181)
Q Consensus        76 ~~~~p~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~---------  131 (181)
                      ..- .+...+.            .+...+.+.|++++|...++...+.......   ..+..+...+...|         
T Consensus       217 ~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  295 (359)
T 3ieg_A          217 LDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRIC  295 (359)
T ss_dssp             HCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            532 1222222            2356688899999999999999886543211   22334455555555         


Q ss_pred             ---------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh-hhHHHH
Q 038237          132 ---------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE-VAYVGV  174 (181)
Q Consensus       132 ---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~~l  174 (181)
                               +...|..+...+.+.|++++|.+.|++..+.  .|+. ..+..+
T Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l  346 (359)
T 3ieg_A          296 SEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGL  346 (359)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHH
T ss_pred             HHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHH
Confidence                     6778889999999999999999999999874  4553 333333

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.96  E-value=3.4e-08  Score=79.55  Aligned_cols=143  Identities=8%  Similarity=-0.028  Sum_probs=106.3

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG-DEFTIVSILTA   91 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~   91 (181)
                      ...|+.+-..+.+.|++++|.+.|++..+   .+..+|..+-..|.+.|++++|++.|++..+..  | +...|..+-..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            44677777888888888888888877653   356777888888888888888888888776643  3 35677777788


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHH
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      +.+.|++++|.+.+++..+.... +...|+.+-..|.+.|                  +...|..+...+...|++++|.
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            88888888888888877766433 4556666666666655                  5677788888888899999888


Q ss_pred             HHHHHHHH
Q 038237          154 DMFSQMLR  161 (181)
Q Consensus       154 ~~~~~m~~  161 (181)
                      +.+++..+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887753

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.93  E-value=3.1e-08  Score=76.32  Aligned_cols=107  Identities=9%  Similarity=0.034  Sum_probs=59.9

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +|++.|++...  | +..+|..+...+.+.|++++|.+.|++..+   .+...|..+...+...|++++|.+.|++..+.
T Consensus       294 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  373 (537)
T 3fp2_A          294 EFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLK  373 (537)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44444444332  2 344555555666666666666666655542   24455666666666666666666666666554


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      . +.+...+..+...+.+.|++++|...++...+
T Consensus       374 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          374 F-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             C-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            2 12344555666666666666666666666554

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.91  E-value=2.5e-08  Score=70.21  Aligned_cols=96  Identities=10%  Similarity=0.016  Sum_probs=65.8

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC-----------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc------C-
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE-----------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS------N-   77 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~-   77 (181)
                      ..++..+...+...|++++|.+.+++...           ....++..+...+...|++++|.+.|++....      . 
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            34567777777788888888777776642           13446777777777788888888887776543      1 


Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      -+.....+..+...+...|++++|...+++..+.
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  156 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEI  156 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            1223466677777777788888888777777654

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=98.90  E-value=2e-08  Score=72.36  Aligned_cols=153  Identities=16%  Similarity=0.121  Sum_probs=113.6

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++++++...   .+...+..+...+.+.|++++|.+.++++.+   .+..+|..+...+...|++++|.+.|++..+
T Consensus       155 ~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  234 (327)
T 3cv0_A          155 RECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALD  234 (327)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456666766543   3567889999999999999999999998763   4678899999999999999999999999877


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHH
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDM  155 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  155 (181)
                      .. +.+...+..+...+.+.|++++|...++...+............     ....+...|..+...+.+.|++++|.++
T Consensus       235 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~  308 (327)
T 3cv0_A          235 IN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEA-----SREATRSMWDFFRMLLNVMNRPDLVELT  308 (327)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC----------CCTHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccc-----hhhcCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            53 23577888999999999999999999998887543310000000     0000233555666667779999999999


Q ss_pred             HHHHH
Q 038237          156 FSQML  160 (181)
Q Consensus       156 ~~~m~  160 (181)
                      +++..
T Consensus       309 ~~~~l  313 (327)
T 3cv0_A          309 YAQNV  313 (327)
T ss_dssp             TTCCS
T ss_pred             HHHHH
Confidence            87654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.90  E-value=6.3e-08  Score=74.36  Aligned_cols=157  Identities=12%  Similarity=-0.006  Sum_probs=125.2

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCH-HHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQV-DIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++++.++....  | +...+..+-..+...|++ ++|.+.|++..+   .+..+|..+-..|.+.|++++|.+.|++..+
T Consensus        86 ~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  165 (474)
T 4abn_A           86 KTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALT  165 (474)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34445544332  3 566788888899999999 999999988763   3677899999999999999999999999887


Q ss_pred             cCCCccHHHHHHHHHHHHcc---------CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc--------C-------
Q 038237           76 SNIMGDEFTIVSILTARANL---------GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC--------T-------  131 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--------~-------  131 (181)
                      ..  |+...+..+-..+...         |++++|...+++..+.... +...|..+-..|...        +       
T Consensus       166 ~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~  242 (474)
T 4abn_A          166 HC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQQALS  242 (474)
T ss_dssp             TC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             hC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHHHHHH
Confidence            54  7778888888888888         9999999999998887533 456666666666544        2       


Q ss_pred             --------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 --------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 --------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                    +...|..+-..|.+.|++++|.+.|++..+.
T Consensus       243 ~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  287 (474)
T 4abn_A          243 AYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL  287 (474)
T ss_dssp             HHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                          5677888999999999999999999999875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.86  E-value=2e-07  Score=67.42  Aligned_cols=171  Identities=8%  Similarity=0.058  Sum_probs=119.6

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHh-------ccCCH-------HHHHHHhcccCC---C-cHHHHHHHHHHHHhcC
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYI-------NREQV-------DIARQCFDQMPE---R-DYVLWTTMIDGYLRVN   61 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~-------~~~~~-------~~a~~~~~~m~~---~-~~~~~~~li~~~~~~~   61 (181)
                      +|+.+|++...  | ++..|..+...+.       +.|++       ++|..+|+...+   | +...|..+...+.+.|
T Consensus        34 ~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~  113 (308)
T 2ond_A           34 RVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM  113 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC
Confidence            45667776654  4 5556777776665       35775       888888887754   3 5568888888888899


Q ss_pred             cHHHHHHHHHHHHHcCCCccH-H-HHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH-hcC-------
Q 038237           62 RFREALTLFQEIQTSNIMGDE-F-TIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC-KCT-------  131 (181)
Q Consensus        62 ~~~~a~~~~~~m~~~~~~p~~-~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~-------  131 (181)
                      ++++|.++|++..+.  .|+. . .|..+...+.+.|++++|..+|++..+.... +...|........ ..|       
T Consensus       114 ~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          114 KYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             CHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999998873  4543 3 7888888888889999999999888876432 3333332222211 112       


Q ss_pred             -----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCC--hhhHHHHHh
Q 038237          132 -----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRAS-IKPD--EVAYVGVLS  176 (181)
Q Consensus       132 -----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~--~~t~~~li~  176 (181)
                                 +...|..++..+.+.|++++|..+|++..... +.|+  ...|..++.
T Consensus       191 ~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~  249 (308)
T 2ond_A          191 IFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLA  249 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence                       67788888888889999999999999998873 5653  345554443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.85  E-value=6.9e-07  Score=63.13  Aligned_cols=156  Identities=10%  Similarity=-0.081  Sum_probs=115.2

Q ss_pred             ccHHHHhhhcCCC-ChhHHHHHHHHHhc----cCCHHHHHHHhcccCC-CcHHHHHHHHHHHHh----cCcHHHHHHHHH
Q 038237            2 GFTLEIFGTMKNK-DVISYTAIVSGYIN----REQVDIARQCFDQMPE-RDYVLWTTMIDGYLR----VNRFREALTLFQ   71 (181)
Q Consensus         2 ~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~   71 (181)
                      ++|++.|++..+| +...+..+-..+.+    .+++++|.+.|++..+ .+...+..+-..|..    .+++++|++.|+
T Consensus        23 ~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~  102 (273)
T 1ouv_A           23 TQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYS  102 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHH
Confidence            4567777765544 44567777777888    8888888888887764 467778888888888    888899999888


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHc----cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh----cC------------
Q 038237           72 EIQTSNIMGDEFTIVSILTARAN----LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK----CT------------  131 (181)
Q Consensus        72 ~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~------------  131 (181)
                      +..+.+   +...+..+-..+..    .+++++|...+++..+.+   +...+..+-..|..    .+            
T Consensus       103 ~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a  176 (273)
T 1ouv_A          103 KACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKA  176 (273)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            888764   66777777777877    888888888888888765   33444445444443    22            


Q ss_pred             ----chHhHHHHHHHHHH----cCChhHHHHHHHHHHHcC
Q 038237          132 ----VKFTWTTMIVGLAI----SGNGDKALDMFSQMLRAS  163 (181)
Q Consensus       132 ----~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  163 (181)
                          +...+..+-..|..    .+++++|.+.|++..+.+
T Consensus       177 ~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          177 CDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  216 (273)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC
Confidence                56677777778888    888888888888887764

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.84  E-value=5.3e-07  Score=61.21  Aligned_cols=143  Identities=10%  Similarity=-0.119  Sum_probs=109.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      .+..+-..+.+.|++++|.+.|++...++...|..+...+.+.|++++|.+.|++..+.. +.+...+..+-..+.+.|+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHccc
Confidence            355667788899999999999999998899999999999999999999999999988754 3366788899999999999


Q ss_pred             cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           98 LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        98 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +++|...++...+.........|..+.. -....+...|..+-..+.+.|++++|.+.|++..+.
T Consensus        87 ~~~A~~~~~~al~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           87 YDLAIKDLKEALIQLRGNQLIDYKILGL-QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTB-CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHhcc-ccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            9999999999988533211000000000 000003345666777778899999999999999875

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.79  E-value=7.4e-08  Score=68.84  Aligned_cols=146  Identities=12%  Similarity=0.005  Sum_probs=108.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC-----------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc------CC
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE-----------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS------NI   78 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~   78 (181)
                      ...+..+...+...|++++|.+.|++..+           .....+..+...+...|++++|.+.|++..+.      +-
T Consensus       111 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  190 (311)
T 3nf1_A          111 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPD  190 (311)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTT
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            45688889999999999999999998763           14456888889999999999999999998764      22


Q ss_pred             Ccc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcC-------CCcchHHHHHHHHHhHhcC-------------------
Q 038237           79 MGD-EFTIVSILTARANLGALELGEWIKTYIDKNK-------VKNDIFAGNALIDMYCKCT-------------------  131 (181)
Q Consensus        79 ~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~ll~~~~~~~-------------------  131 (181)
                      .|+ ..++..+...+.+.|++++|...+++..+..       ..+...........+...+                   
T Consensus       191 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  270 (311)
T 3nf1_A          191 DPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKAC  270 (311)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC------
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhc
Confidence            333 4678888999999999999999999888631       1111111111111111110                   


Q ss_pred             ------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 ------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 ------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                            +..+|..+...|.+.|++++|.+.|++..+
T Consensus       271 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          271 KVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                  567788999999999999999999998865

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.77  E-value=6.2e-07  Score=62.99  Aligned_cols=108  Identities=11%  Similarity=0.022  Sum_probs=58.6

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--RD----YVLWTTMIDGYLRVNRFREALTLFQEI   73 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m   73 (181)
                      +|+++|++..+  | +...+..+...+.+.|++++|.+.+++..+  ++    ...|..+...+...|++++|.+.|++.
T Consensus        21 ~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  100 (272)
T 3u4t_A           21 EAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAA  100 (272)
T ss_dssp             HHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            45555554432  2 233555555666666666666666655543  11    223555566666666666666666665


Q ss_pred             HHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           74 QTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .+..- -+...+..+...+...|++++|...+++..+.
T Consensus       101 ~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  137 (272)
T 3u4t_A          101 VDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP  137 (272)
T ss_dssp             HHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS
T ss_pred             HhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc
Confidence            55321 13355556666666666666666666555544

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.77  E-value=2.2e-06  Score=60.55  Aligned_cols=143  Identities=9%  Similarity=-0.046  Sum_probs=119.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCCC-cHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPER-DYVLWTTMIDGYLR----VNRFREALTLFQEIQTSNIMGDEFTIVSIL   89 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~   89 (181)
                      +...+..+-..+.+.|++++|.+.|+...++ +..++..+-..|..    .+++++|.+.|++..+.+   +...+..+-
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            5567788888999999999999999988764 66778888888999    999999999999998876   677888888


Q ss_pred             HHHHc----cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh----cC----------------chHhHHHHHHHHHH
Q 038237           90 TARAN----LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK----CT----------------VKFTWTTMIVGLAI  145 (181)
Q Consensus        90 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~----------------~~~~~~~li~~~~~  145 (181)
                      ..+..    .+++++|...+++..+.+   +...+..+-..|..    .+                +...+..+-..|..
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~  158 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDA  158 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHHHHc
Confidence            88888    999999999999998875   55566666666665    33                66677778788887


Q ss_pred             ----cCChhHHHHHHHHHHHcC
Q 038237          146 ----SGNGDKALDMFSQMLRAS  163 (181)
Q Consensus       146 ----~~~~~~a~~~~~~m~~~~  163 (181)
                          .+++++|.+.|++..+.+
T Consensus       159 ~~~~~~~~~~A~~~~~~a~~~~  180 (273)
T 1ouv_A          159 GRGTPKDLKKALASYDKACDLK  180 (273)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHCC
Confidence                899999999999988764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.77  E-value=3e-08  Score=76.21  Aligned_cols=157  Identities=9%  Similarity=-0.059  Sum_probs=128.7

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhc---------CcHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRV---------NRFREAL   67 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~---------~~~~~a~   67 (181)
                      ++|++.|++..+  | +...|..+-.++.+.|++++|.+.|+...+  |+...+..+-..+...         |++++|.
T Consensus       120 ~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~  199 (474)
T 4abn_A          120 PEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSV  199 (474)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHH
Confidence            678888887653  4 466899999999999999999999998874  6778888899999999         9999999


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHcc--------CCcchHHHHHHHHHHcCCC--cchHHHHHHHHHhHhcC------
Q 038237           68 TLFQEIQTSNIMGDEFTIVSILTARANL--------GALELGEWIKTYIDKNKVK--NDIFAGNALIDMYCKCT------  131 (181)
Q Consensus        68 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~------  131 (181)
                      +.|++..+..- -+...|..+-.++...        |++++|...+++..+....  .+...|..+-..|...|      
T Consensus       200 ~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~  278 (474)
T 4abn_A          200 RQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEAL  278 (474)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHH
Confidence            99999887542 2567888888888888        8999999999999887431  36777888888887777      


Q ss_pred             ------------chHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          132 ------------VKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       132 ------------~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                                  +...+..+-..+...|++++|.+.++++
T Consensus       279 ~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          279 EGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                        6667888888888889999988766554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.77  E-value=3.1e-07  Score=71.85  Aligned_cols=144  Identities=8%  Similarity=-0.056  Sum_probs=106.8

Q ss_pred             CccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            1 MGFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         1 ~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +++|++.|++..+  | +...|..+-..+.+.|++++|.+.|++..+   .+...|..+-..+...|++++|.+.|++..
T Consensus         5 ~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   84 (568)
T 2vsy_A            5 GPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQAS   84 (568)
T ss_dssp             ----------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3678888887764  4 466788999999999999999999998875   367789999999999999999999999988


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHc---CChhH
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAIS---GNGDK  151 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~---~~~~~  151 (181)
                      +..- -+...+..+-..+.+.|++++|...+++..+.... +...+.                .+...+...   |+.++
T Consensus        85 ~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~----------------~l~~~~~~~~~~g~~~~  146 (568)
T 2vsy_A           85 DAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITA----------------QLLNWRRRLCDWRALDV  146 (568)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH----------------HHHHHHHHTTCCTTHHH
T ss_pred             hcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHH----------------HHHHHHHHhhccccHHH
Confidence            7542 35678889999999999999999999999887433 333333                344445558   99999


Q ss_pred             HHHHHHHHHHc
Q 038237          152 ALDMFSQMLRA  162 (181)
Q Consensus       152 a~~~~~~m~~~  162 (181)
                      |.+.+++..+.
T Consensus       147 A~~~~~~al~~  157 (568)
T 2vsy_A          147 LSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999998875

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.74  E-value=4.7e-07  Score=59.55  Aligned_cols=129  Identities=14%  Similarity=0.073  Sum_probs=108.2

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++...  | +...+..+...+.+.|++++|.+.+++..+   .+...+..+...+...|++++|.+.|++..+
T Consensus        25 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~  104 (186)
T 3as5_A           25 SQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAE  104 (186)
T ss_dssp             HHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            568888888765  3 566788899999999999999999998763   4778889999999999999999999999887


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCc
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTV  132 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (181)
                      .. +.+...+..+...+.+.|++++|...++...+... .+...+..+...+...|+
T Consensus       105 ~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~  159 (186)
T 3as5_A          105 AN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGR  159 (186)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             cC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCC
Confidence            63 34677888899999999999999999999988753 356778888888887774

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.74  E-value=1.6e-06  Score=59.63  Aligned_cols=141  Identities=11%  Similarity=-0.030  Sum_probs=112.3

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSIL   89 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~   89 (181)
                      .|+..+...-..+.+.|++++|.+.|+...+    ++...+..+-..+...|++++|++.|++..+..-. +...+..+-
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4667888888999999999999999998763    67777777888999999999999999999875422 557788899


Q ss_pred             HHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 038237           90 TARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPD  167 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  167 (181)
                      ..+...|++++|...++...+.... +...+..+..         .|..+-..+.+.|++++|.+.|++..+.  .|+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~---------~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~  149 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAI---------YYLKEGQKFQQAGNIEKAEENYKHATDV--TSK  149 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHH---------HHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHH---------HHHHHhHHHHHhccHHHHHHHHHHHHhc--CCC
Confidence            9999999999999999999886433 3333333333         3444556677899999999999999874  555

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.74  E-value=9.5e-07  Score=63.82  Aligned_cols=159  Identities=11%  Similarity=0.044  Sum_probs=117.3

Q ss_pred             ccHHHHhhhcCC---C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHH-HHHHHHHHHHhcCcHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYV-LWTTMIDGYLRVNRFREALTLFQEI   73 (181)
Q Consensus         2 ~~a~~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~-~~~~li~~~~~~~~~~~a~~~~~~m   73 (181)
                      ++|+.+|++...   | +...|..+...+.+.|++++|.++|+...+  | +.. .|..+...+.+.|++++|.++|++.
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  160 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            567788876543   4 445788899999999999999999998875  3 343 7888888888999999999999998


Q ss_pred             HHcCCCccHHHHHHHHHHHH-ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------------
Q 038237           74 QTSNIMGDEFTIVSILTARA-NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------------  131 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------------  131 (181)
                      .+..- ++...|........ ..|+.+.|..+|+...+... .+...|..+...+.+.|                     
T Consensus       161 ~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~  238 (308)
T 2ond_A          161 REDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHH
Confidence            77532 23344433322221 36888899999988877532 25667777777666554                     


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                       ....|..++..+.+.|+.+.|..+++++.+.
T Consensus       239 ~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          239 KSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             2346888888888899999999999999875

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.73  E-value=1.3e-07  Score=58.93  Aligned_cols=110  Identities=12%  Similarity=0.150  Sum_probs=92.1

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|+++..   .+...+..+...+.+.|++++|...|+++..   .+...+..+...+...|++++|.+.++++.+
T Consensus        18 ~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~   97 (136)
T 2fo7_A           18 DEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE   97 (136)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            467777776643   3566788889999999999999999998863   4677888999999999999999999999987


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      .. +.+...+..+...+.+.|++++|...++.+....
T Consensus        98 ~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           98 LD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            54 2356788889999999999999999999987653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.72  E-value=1.5e-07  Score=66.28  Aligned_cols=144  Identities=7%  Similarity=-0.074  Sum_probs=107.8

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD--EFTIVSILTA   91 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~   91 (181)
                      ..+......+.+.|++++|.+.|++..+   .+...+..+...+...|++++|.+.|++..+..-.|+  ...|..+...
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            3455666778889999999999988753   3555788888889999999999999999887432222  2347788888


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHH-HHHHHcCChhHH
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMI-VGLAISGNGDKA  152 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li-~~~~~~~~~~~a  152 (181)
                      +.+.|++++|...++...+.... +...+..+-..|...|                  +...|..+. ..+. .+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~-~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYY-NKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHH-HHHHHHH
Confidence            88999999999999988876433 5567777777777766                  566666666 4444 5588889


Q ss_pred             HHHHHHHHHc
Q 038237          153 LDMFSQMLRA  162 (181)
Q Consensus       153 ~~~~~~m~~~  162 (181)
                      .+.|++..+.
T Consensus       162 ~~~~~~a~~~  171 (272)
T 3u4t_A          162 DSSFVKVLEL  171 (272)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            8888888764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.72  E-value=5.8e-07  Score=64.12  Aligned_cols=146  Identities=14%  Similarity=0.072  Sum_probs=99.2

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC--------C---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc------CC
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE--------R---DYVLWTTMIDGYLRVNRFREALTLFQEIQTS------NI   78 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~--------~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~   78 (181)
                      ..++..+...+...|++++|..+|+++.+        .   ....+..+...+...|++++|.+.|++..+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            34567777777788888888887777653        1   3345667777777788888888887776543      21


Q ss_pred             -CccHHHHHHHHHHHHccCCcchHHHHHHHHHHc------CCCc-chHHHHHHHHHhHhcC-------------------
Q 038237           79 -MGDEFTIVSILTARANLGALELGEWIKTYIDKN------KVKN-DIFAGNALIDMYCKCT-------------------  131 (181)
Q Consensus        79 -~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~ll~~~~~~~-------------------  131 (181)
                       +.....+..+...+...|++++|...+++..+.      +..| ....+..+...|...|                   
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence             223456777777777888888888777777653      2222 3344555555555444                   


Q ss_pred             -------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 -------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 -------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                             ....+..+...+.+.|++++|.+.+++..+
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                   344677788888889999999999999875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.72  E-value=1.2e-06  Score=59.79  Aligned_cols=151  Identities=13%  Similarity=0.066  Sum_probs=108.6

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHH----------------HHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTT----------------MIDGYLRVNRFREALTLFQEIQTSNIMG   80 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~p   80 (181)
                      -.....+.+.|++++|...|++..+  | +...|..                +-..+.+.|++++|...|++..+..- -
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~   86 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAP-N   86 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-T
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-C
Confidence            3344566788999999999998875  3 4445666                78888899999999999999887532 2


Q ss_pred             cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------------ch--HhHHHHHH
Q 038237           81 DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------------VK--FTWTTMIV  141 (181)
Q Consensus        81 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------~~--~~~~~li~  141 (181)
                      +...+..+-..+...|++++|...|++..+.... +...|..+-..|...+                 +.  ..+...-.
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~  165 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGL  165 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHH
Confidence            5678888888999999999999999999887543 4556666665553332                 11  12233344


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 038237          142 GLAISGNGDKALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       142 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                      ++...|++++|...|++..+  ..|+......+
T Consensus       166 ~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l  196 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVIL--RFPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH--hCCCHHHHHHH
Confidence            55668899999999999986  46776655544

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=98.70  E-value=2e-06  Score=64.29  Aligned_cols=157  Identities=13%  Similarity=0.054  Sum_probs=125.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCc-HHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNR-FREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      ...|..+-..+.+.|++++|.+.+++...   .+..+|+.+-..+...|+ +++|+..|++..+..-. +...|..+-..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            44688888899999999999999998874   477889999999999997 99999999999886433 67889999999


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHH-cCChhHH
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAI-SGNGDKA  152 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~-~~~~~~a  152 (181)
                      +.+.|++++|...+++.+..... +...|..+-..+.+.|                  +...|+.+-..+.+ .|..++|
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHH
Confidence            99999999999999999987544 6667777777766655                  67888888888888 6665777


Q ss_pred             -----HHHHHHHHHcCCCCC-hhhHHHHHh
Q 038237          153 -----LDMFSQMLRASIKPD-EVAYVGVLS  176 (181)
Q Consensus       153 -----~~~~~~m~~~~~~p~-~~t~~~li~  176 (181)
                           ++.|++....  .|+ ...|+.+-.
T Consensus       255 ~~~~el~~~~~Al~l--~P~~~~a~~~l~~  282 (382)
T 2h6f_A          255 VLEREVQYTLEMIKL--VPHNESAWNYLKG  282 (382)
T ss_dssp             HHHHHHHHHHHHHHH--STTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence                 4777777663  343 444544443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.69  E-value=3e-06  Score=56.18  Aligned_cols=130  Identities=11%  Similarity=0.023  Sum_probs=100.8

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      ++..|..+-..|.+.|++++|++.|++..+..- -+...+..+...+.+.|++++|...+......... +...+..+-.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            577899999999999999999999999887542 25678889999999999999999999998877544 3344444444


Q ss_pred             HhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          126 MYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       126 ~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .+...+                  +...+..+-..+.+.|++++|++.|++..+.. +-+...|..+-..+
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~  151 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAY  151 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHH
Confidence            444433                  67788999999999999999999999998752 23445555554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.63  E-value=2.1e-06  Score=60.25  Aligned_cols=134  Identities=7%  Similarity=-0.163  Sum_probs=98.5

Q ss_pred             hccCCHHHHHHHhcccCCC-------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcc
Q 038237           27 INREQVDIARQCFDQMPER-------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALE   99 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~   99 (181)
                      ...|++++|.+.|+++.+.       +..+|..+...+...|++++|.+.|++..+..- .+...+..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHH
Confidence            4568899999999988752       566788999999999999999999999988642 36788999999999999999


Q ss_pred             hHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          100 LGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       100 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +|...++...+.... +...+..+...|...|                 +.......+..+...|++++|...+++....
T Consensus        95 ~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           95 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            999999999986433 4566666666666655                 1112222333334456666666666655543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.62  E-value=1.1e-06  Score=53.88  Aligned_cols=109  Identities=12%  Similarity=0.126  Sum_probs=89.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ...|..+...+.+.|++++|.+.|+++.+   .+...+..+...+.+.|++++|...|+++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            46788888999999999999999998863   467789999999999999999999999998754 23677888999999


Q ss_pred             HccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      .+.|++++|...++...+.... +...+..+-..
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~  120 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNA  120 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            9999999999999999876433 33344444333

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.61  E-value=3e-06  Score=56.07  Aligned_cols=141  Identities=13%  Similarity=0.083  Sum_probs=93.4

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHH--HHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDG--YLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~   74 (181)
                      ++|+..|++...  | +...+..+...+.+.|++++|...|+....  |+...+ .+...  +...+...++.+.|++..
T Consensus        23 ~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~-~~~~~~~~~~~~~~~~a~~~~~~al  101 (176)
T 2r5s_A           23 AQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYK-SLIAKLELHQQAAESPELKRLEQEL  101 (176)
T ss_dssp             HHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHH-HHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHH-HHHHHHHHHhhcccchHHHHHHHHH
Confidence            457777777664  3 455677888888888888888888888765  333322 22211  112222334677777776


Q ss_pred             HcCCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc-chHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHH
Q 038237           75 TSNIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVKN-DIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKA  152 (181)
Q Consensus        75 ~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a  152 (181)
                      +.  .| +...+..+-..+.+.|++++|...+++..+....+ +...+..                +...+...|+.++|
T Consensus       102 ~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~----------------l~~~~~~~g~~~~A  163 (176)
T 2r5s_A          102 AA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKT----------------FMDILSALGQGNAI  163 (176)
T ss_dssp             HH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHH----------------HHHHHHHHCSSCHH
T ss_pred             Hh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHH----------------HHHHHHHhCCCCcH
Confidence            54  24 46777788888888888888888888888765432 2334444                44445559999999


Q ss_pred             HHHHHHHHH
Q 038237          153 LDMFSQMLR  161 (181)
Q Consensus       153 ~~~~~~m~~  161 (181)
                      ...|++...
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998754

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.56  E-value=2.6e-06  Score=57.70  Aligned_cols=114  Identities=12%  Similarity=0.007  Sum_probs=97.6

Q ss_pred             ccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC-
Q 038237            2 GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN-   77 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-   77 (181)
                      ++|++.|++..+|+...|..+...+.+.|++++|.+.|++..+   .+...|..+-..+...|++++|.+.|++..+.. 
T Consensus        23 ~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~  102 (213)
T 1hh8_A           23 KGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLR  102 (213)
T ss_dssp             HHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCC
Confidence            5788999998888999999999999999999999999998763   477889999999999999999999999988743 


Q ss_pred             -------------CCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc
Q 038237           78 -------------IMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVKN  115 (181)
Q Consensus        78 -------------~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  115 (181)
                                   ..| ....+..+...+.+.|++++|...++...+.....
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A          103 GNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             TCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             CccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence                         112 22678888899999999999999999998875443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.55  E-value=1.5e-06  Score=56.13  Aligned_cols=124  Identities=9%  Similarity=-0.081  Sum_probs=92.3

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      |+|+..+.....  | +...+-.+-..|.+.|++++|.+.|++..+   .+..+|..+-..|.+.|++++|...|++..+
T Consensus        14 e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~   93 (150)
T 4ga2_A           14 ERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAVECYRRSVE   93 (150)
T ss_dssp             HHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            567777776655  2 334566788889999999999999998864   4788899999999999999999999999887


Q ss_pred             cCCCc-cHHHHHHHHHHHHccCCcchHHHH-HHHHHHcCCCcchHHHHHHHHHhH
Q 038237           76 SNIMG-DEFTIVSILTARANLGALELGEWI-KTYIDKNKVKNDIFAGNALIDMYC  128 (181)
Q Consensus        76 ~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~ll~~~~  128 (181)
                      ..  | +...+..+-..+.+.|+.+++... ++...+..+. +..+|...-..+.
T Consensus        94 ~~--p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~  145 (150)
T 4ga2_A           94 LN--PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLD  145 (150)
T ss_dssp             HC--TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             hC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHH
Confidence            53  4 467788888899999998876554 5776665332 4455554444443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.53  E-value=1.7e-06  Score=64.20  Aligned_cols=160  Identities=11%  Similarity=-0.004  Sum_probs=117.4

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC-----C----cHHHHHHHHHHHHhcCcHHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE-----R----DYVLWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      +|++++.....  + ...++..+-..+...|++++|.+.|++..+     +    ...++..+-..|...|++++|.+.|
T Consensus       168 ~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~  247 (383)
T 3ulq_A          168 QAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYF  247 (383)
T ss_dssp             HHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            45555555432  1 234688888999999999999999988763     1    2247888999999999999999999


Q ss_pred             HHHHHc----CC-CccHHHHHHHHHHHHccCCcchHHHHHHHHHHc----CCCcchHHHHHHHHHhHhcC----------
Q 038237           71 QEIQTS----NI-MGDEFTIVSILTARANLGALELGEWIKTYIDKN----KVKNDIFAGNALIDMYCKCT----------  131 (181)
Q Consensus        71 ~~m~~~----~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~----------  131 (181)
                      ++..+.    +- +....++..+...+.+.|++++|...+++....    +-+.....+..+-..|...+          
T Consensus       248 ~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~  327 (383)
T 3ulq_A          248 KRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFD  327 (383)
T ss_dssp             HHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHH
T ss_pred             HHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            998762    33 344577889999999999999999999887653    12222223444555554444          


Q ss_pred             ----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 ----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 ----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                ....+..+-..|.+.|++++|.+.|++..+.
T Consensus       328 ~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          328 FLESKMLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence                      2446778888899999999999999998653

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.51  E-value=2.1e-06  Score=58.93  Aligned_cols=167  Identities=11%  Similarity=0.036  Sum_probs=119.5

Q ss_pred             ccHHHHhhhcCC----CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN----KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      ++|++.|++...    ++...+..+..++.+.|++++|.+.|+...+   .+...|..+-..+...|++++|.+.|++..
T Consensus        24 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  103 (228)
T 4i17_A           24 AVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTEGI  103 (228)
T ss_dssp             HHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            467777776542    5777777789999999999999999998864   366788999999999999999999999988


Q ss_pred             HcCCCccH-------HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcc---hHHHHHHHHHhHhcCch-----------
Q 038237           75 TSNIMGDE-------FTIVSILTARANLGALELGEWIKTYIDKNKVKND---IFAGNALIDMYCKCTVK-----------  133 (181)
Q Consensus        75 ~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~-----------  133 (181)
                      +..- -+.       ..|..+-..+...|++++|...++...+.  .|+   ...|..+-..|...|..           
T Consensus       104 ~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~~~~~a~~~~~~  180 (228)
T 4i17_A          104 KAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGADVLRKATPLASS  180 (228)
T ss_dssp             HHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTT
T ss_pred             HHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence            7532 133       45777778888999999999999999876  343   45555555555543311           


Q ss_pred             --HhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          134 --FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       134 --~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                        ..|....  ....+.+++|+..|++..+.  .|+......++
T Consensus       181 ~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~~~~l  220 (228)
T 4i17_A          181 NKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEIKQMQ  220 (228)
T ss_dssp             CHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHHHHHH
Confidence              1122221  22345568999999999874  46554444433

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.49  E-value=1e-06  Score=70.60  Aligned_cols=141  Identities=14%  Similarity=0.073  Sum_probs=109.6

Q ss_pred             ccHHHHhhhcC-----------CCChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHH
Q 038237            2 GFTLEIFGTMK-----------NKDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREAL   67 (181)
Q Consensus         2 ~~a~~~~~~~~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~   67 (181)
                      ++|++.|++..           ..+...+..+..++.+.|++++|.+.|++..+   .+...|..+-..+...|++++|.
T Consensus       408 ~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~  487 (681)
T 2pzi_A          408 VQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSAT  487 (681)
T ss_dssp             HHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHH
Confidence            45677777654           23556788889999999999999999998875   47788999999999999999999


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcC
Q 038237           68 TLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISG  147 (181)
Q Consensus        68 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~  147 (181)
                      +.|++..+..- -+...+..+-..+.+.|++++ ...+++..+.... +...|..+-..                +.+.|
T Consensus       488 ~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~----------------~~~~g  548 (681)
T 2pzi_A          488 KHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARA----------------RSAEG  548 (681)
T ss_dssp             HHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHH----------------HHHTT
T ss_pred             HHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHH----------------HHHcC
Confidence            99999887542 255778888999999999999 9999998876543 33444444444                44477


Q ss_pred             ChhHHHHHHHHHHH
Q 038237          148 NGDKALDMFSQMLR  161 (181)
Q Consensus       148 ~~~~a~~~~~~m~~  161 (181)
                      ++++|.+.|++..+
T Consensus       549 ~~~~A~~~~~~al~  562 (681)
T 2pzi_A          549 DRVGAVRTLDEVPP  562 (681)
T ss_dssp             CHHHHHHHHHTSCT
T ss_pred             CHHHHHHHHHhhcc
Confidence            77777777776654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.48  E-value=5.1e-06  Score=53.74  Aligned_cols=130  Identities=12%  Similarity=0.002  Sum_probs=100.6

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ...+..+...+.+.|++++|...|+...+   .+...+..+...+...|++++|.+.|++..+.. +.+...+..+...+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            34577788889999999999999998763   478889999999999999999999999988754 23567888888999


Q ss_pred             HccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .+.|++++|...+++..+.... +...+..+              .....+.+.|++++|.+.+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~--------------~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPH-DKDAKMKY--------------QECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCC-CHHHHHHH--------------HHHHHHHHHHHHHHHHHcccchHH
Confidence            9999999999999999876433 22222111              122224457899999999887653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.47  E-value=1.1e-05  Score=62.50  Aligned_cols=157  Identities=8%  Similarity=0.122  Sum_probs=112.4

Q ss_pred             HHHHhhhcCC--C-ChhHHHHHHHHHhc-------cCCHH-------HHHHHhcccCC---C-cHHHHHHHHHHHHhcCc
Q 038237            4 TLEIFGTMKN--K-DVISYTAIVSGYIN-------REQVD-------IARQCFDQMPE---R-DYVLWTTMIDGYLRVNR   62 (181)
Q Consensus         4 a~~~~~~~~~--~-~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~m~~---~-~~~~~~~li~~~~~~~~   62 (181)
                      +..+|++...  | +...|......+.+       .|+++       +|.++|+...+   | +...|..+...+.+.|+
T Consensus       257 a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~  336 (530)
T 2ooe_A          257 VMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMK  336 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCC
Confidence            3445555443  3 55567777777765       68876       88888888764   3 57788888888888999


Q ss_pred             HHHHHHHHHHHHHcCCCccH--HHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-cchHHHHHHHHHhHhcC--------
Q 038237           63 FREALTLFQEIQTSNIMGDE--FTIVSILTARANLGALELGEWIKTYIDKNKVK-NDIFAGNALIDMYCKCT--------  131 (181)
Q Consensus        63 ~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~--------  131 (181)
                      +++|.++|++..+.  .|+.  ..|........+.|+++.|..+|+...+.... +.......++... ..|        
T Consensus       337 ~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~-~~~~~~~A~~~  413 (530)
T 2ooe_A          337 YEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYY-CSKDKSVAFKI  413 (530)
T ss_dssp             HHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHH-HTCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHH-HcCChhHHHHH
Confidence            99999999998874  4542  47888888888888899999999888775321 1222222223211 112        


Q ss_pred             ----------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 038237          132 ----------VKFTWTTMIVGLAISGNGDKALDMFSQMLRAS  163 (181)
Q Consensus       132 ----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  163 (181)
                                +...|..++..+.+.|+.++|..+|++....+
T Consensus       414 ~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          414 FELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence                      67888888888889999999999999998863

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.47  E-value=3.2e-06  Score=54.62  Aligned_cols=125  Identities=6%  Similarity=-0.153  Sum_probs=93.7

Q ss_pred             HHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcch
Q 038237           24 SGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALEL  100 (181)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  100 (181)
                      ..+...|++++|.+.++.....   +...+-.+-..|.+.|++++|.+.|++..+..- -+...|..+-..+.+.|++++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHH
Confidence            4455678999999999988764   444666788899999999999999999987542 267889999999999999999


Q ss_pred             HHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHH-HHHHHHcCCCCCh
Q 038237          101 GEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDM-FSQMLRASIKPDE  168 (181)
Q Consensus       101 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~m~~~~~~p~~  168 (181)
                      |...|+...+.... +...|..                +-..|.+.|+.++|.+. +++..+.  .|+.
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~----------------la~~~~~~~~~~~aa~~~~~~al~l--~P~~  133 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLK----------------IAELLCKNDVTDGRAKYWVERAAKL--FPGS  133 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHH----------------HHHHHHHHCSSSSHHHHHHHHHHHH--STTC
T ss_pred             HHHHHHHHHHhCCC-CHHHHHH----------------HHHHHHHcCChHHHHHHHHHHHHHh--CcCC
Confidence            99999999887433 3334444                44445558998876665 5776653  4543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.45  E-value=1.9e-05  Score=49.38  Aligned_cols=103  Identities=11%  Similarity=0.026  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHh
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMY  127 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  127 (181)
                      ..+...-..|.+.|++++|++.|++..+.. +-+...|..+-.++.+.|++++|...++..++.... +.          
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~----------   81 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FI----------   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CH----------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hh----------
Confidence            455666677777888888888887776643 225667777777778888888888888777765332 22          


Q ss_pred             HhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhh
Q 038237          128 CKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVA  170 (181)
Q Consensus       128 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  170 (181)
                            ..|..+-.++...|++++|.+.|++..+.  .|+...
T Consensus        82 ------~a~~~lg~~~~~~~~~~~A~~~~~~al~l--~P~~~~  116 (126)
T 4gco_A           82 ------KGYIRKAACLVAMREWSKAQRAYEDALQV--DPSNEE  116 (126)
T ss_dssp             ------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             ------HHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcCCHH
Confidence                  23344444555588888888888887763  454443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.44  E-value=6.5e-06  Score=58.96  Aligned_cols=129  Identities=12%  Similarity=-0.007  Sum_probs=76.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH-HHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIV-SILT   90 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~l~~   90 (181)
                      +...+..+-..+.+.|++++|.+.|++...   .+...+..+...+.+.|++++|.+.+++....  .|+..... ....
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~  193 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHH
Confidence            334455666667777777777777777653   35666777777777777788777777776553  24433222 2222


Q ss_pred             HHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           91 ARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        91 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+.+.++.+.|...+++....... +...+..+-..                +.+.|++++|++.|++....
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~----------------l~~~g~~~~A~~~l~~~l~~  248 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQ----------------LHQVGRNEEALELLFGHLRX  248 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHH----------------HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHH----------------HHHcccHHHHHHHHHHHHhc
Confidence            244556666666666666655332 33333333333                33466666666666666654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=2e-05  Score=48.01  Aligned_cols=99  Identities=12%  Similarity=0.165  Sum_probs=79.9

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      +...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+.+.|++++|...++...+.... +..       
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~-------   78 (125)
T 1na0_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAE-------   78 (125)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH-------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHH-------
Confidence            35678888899999999999999999998753 235678888999999999999999999999876432 333       


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                               .|..+...+.+.|++++|.+.++++.+.
T Consensus        79 ---------~~~~la~~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           79 ---------AWYNLGNAYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             ---------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence                     3444555566699999999999999875

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.43  E-value=1.1e-05  Score=58.46  Aligned_cols=139  Identities=11%  Similarity=0.037  Sum_probs=96.5

Q ss_pred             HHHHhhhcC---CCChhHHHHHHHHHhccCCHHHHHHHhcccCC-----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            4 TLEIFGTMK---NKDVISYTAIVSGYINREQVDIARQCFDQMPE-----RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         4 a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      |+..|++..   .++..++..+..++...|++++|++++.+-..     .+...+-.++..+.+.|+.+.|.+.+++|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            344455443   24555556777888889999999999888732     3667788888899999999999999999977


Q ss_pred             cCCCc-----cHHHHHHHHHHH--HccC--CcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHc
Q 038237           76 SNIMG-----DEFTIVSILTAR--ANLG--ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAIS  146 (181)
Q Consensus        76 ~~~~p-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~  146 (181)
                      .  .|     +..+..-+..+.  ...|  +..+|..+|+++.+..  |+..+-..|+.                ++.+.
T Consensus       165 ~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln----------------~~~~~  224 (310)
T 3mv2_B          165 A--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLN----------------LHLQQ  224 (310)
T ss_dssp             H--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHH----------------HHHHH
T ss_pred             c--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHH----------------HHHHc
Confidence            5  45     355555566553  3334  8889999999986553  33222222222                45559


Q ss_pred             CChhHHHHHHHHHHHc
Q 038237          147 GNGDKALDMFSQMLRA  162 (181)
Q Consensus       147 ~~~~~a~~~~~~m~~~  162 (181)
                      |++++|.+.++.+.+.
T Consensus       225 g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          225 RNIAEAQGIVELLLSD  240 (310)
T ss_dssp             TCHHHHHHHHHHHHSH
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999987653

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.43  E-value=8.6e-07  Score=65.08  Aligned_cols=127  Identities=9%  Similarity=-0.007  Sum_probs=99.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----------------HHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--RD----------------YVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +...|..+-..+.+.|++++|.+.|++..+  |+                ..+|..+-..|.+.|++++|+..|++..+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455688888999999999999999998863  32                578999999999999999999999999886


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHH-HHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKA-LDM  155 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a-~~~  155 (181)
                      . +.+...|..+-.++...|++++|...|++..+.... +...+..+-..+                .+.|+.++| ...
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~----------------~~~~~~~~a~~~~  287 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQ----------------QRIRRQLAREKKL  287 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHH----------------HHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH----------------HHHHHHHHHHHHH
Confidence            4 236788889999999999999999999999887433 334444444444                446666666 445


Q ss_pred             HHHH
Q 038237          156 FSQM  159 (181)
Q Consensus       156 ~~~m  159 (181)
                      |+.|
T Consensus       288 ~~~~  291 (336)
T 1p5q_A          288 YANM  291 (336)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5555

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.42  E-value=3.4e-05  Score=54.02  Aligned_cols=148  Identities=7%  Similarity=-0.089  Sum_probs=107.9

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-c---HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-Ccc-HHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE--R-D---YVLWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGD-EFTI   85 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~-~~~~   85 (181)
                      .+...+-.....+.+.|++++|.+.|+...+  | +   ...+..+-..+.+.|++++|...|++..+..- .|. ...+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            4566777788889999999999999999875  3 3   56788888999999999999999999987531 122 3556


Q ss_pred             HHHHHHHHc--------cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH-hcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           86 VSILTARAN--------LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC-KCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        86 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      ..+-.++.+        .|++++|...|+...+.... +......+..... +......+..+-..|.+.|++++|...|
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            667777777        99999999999999986432 2222222211100 0002223455667788899999999999


Q ss_pred             HHHHHc
Q 038237          157 SQMLRA  162 (181)
Q Consensus       157 ~~m~~~  162 (181)
                      ++..+.
T Consensus       172 ~~~l~~  177 (261)
T 3qky_A          172 EAVFDA  177 (261)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999875

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.42  E-value=1.5e-05  Score=61.75  Aligned_cols=157  Identities=11%  Similarity=0.048  Sum_probs=119.2

Q ss_pred             cHHHHhhhcCC---C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cH-HHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN---K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DY-VLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         3 ~a~~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~-~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      +|+.+|++...   | +...|..+...+.+.|++++|.++|+.+.+  | +. ..|...+..+.+.|++++|.++|++..
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al  383 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAR  383 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            68888887653   5 466789999999999999999999998864  4 33 478888888889999999999999987


Q ss_pred             HcCCCcc-HHHHHHHHHH-HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------c--
Q 038237           75 TSNIMGD-EFTIVSILTA-RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------V--  132 (181)
Q Consensus        75 ~~~~~p~-~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~--  132 (181)
                      +..  |+ ...|...... +...|+.+.|..+|+...+... .+...|..++..+.+.|                  +  
T Consensus       384 ~~~--~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~  460 (530)
T 2ooe_A          384 EDA--RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  460 (530)
T ss_dssp             TCT--TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGG
T ss_pred             hcc--CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHH
Confidence            752  32 2222221111 2358999999999998887632 35677888888776665                  2  


Q ss_pred             --hHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          133 --KFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       133 --~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                        ...|...+....+.|+.+.+..+++++.+.
T Consensus       461 ~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          461 KSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             GCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              227888888888899999999999998764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.41  E-value=2.3e-06  Score=61.40  Aligned_cols=136  Identities=7%  Similarity=-0.063  Sum_probs=96.4

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCCC-----c----HHHHHHHHHHHHhc-CcHHHHHHHHHHHHHcC----CCcc
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPER-----D----YVLWTTMIDGYLRV-NRFREALTLFQEIQTSN----IMGD   81 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~----~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~----~~p~   81 (181)
                      ..+|+.+-.+|.+.|++++|...+++..+-     +    ..+++.+-..|... |++++|+..|++..+..    -.+.
T Consensus        77 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~  156 (292)
T 1qqe_A           77 GNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVAL  156 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHH
Confidence            457888889999999999998888877631     1    34788888888886 99999999998876521    1111


Q ss_pred             -HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           82 -EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        82 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                       ..++..+...+.+.|++++|...++...+.........|.          ....|..+..++...|++++|...|++..
T Consensus       157 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~----------~~~~~~~lg~~~~~~g~~~~A~~~~~~al  226 (292)
T 1qqe_A          157 SNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS----------LKDYFLKKGLCQLAATDAVAAARTLQEGQ  226 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG----------HHHHHHHHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH----------HHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             3567888888999999999999999988764432221110          01133445555666888999988888876


Q ss_pred             H
Q 038237          161 R  161 (181)
Q Consensus       161 ~  161 (181)
                      +
T Consensus       227 ~  227 (292)
T 1qqe_A          227 S  227 (292)
T ss_dssp             C
T ss_pred             h
Confidence            5

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.41  E-value=6.7e-06  Score=51.02  Aligned_cols=111  Identities=9%  Similarity=-0.056  Sum_probs=89.6

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...|..+...+.+.|++++|.+.|++..+   .+...+..+...+...|++++|.+.|++..+..- .+...+..+...
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHHH
Confidence            455688889999999999999999998764   3778899999999999999999999999887532 356788889999


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHh
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMY  127 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  127 (181)
                      +.+.|++++|...+++..+.... +...+..+-..+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~  128 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCM  128 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHH
Confidence            99999999999999998876432 334444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.41  E-value=1.1e-05  Score=53.93  Aligned_cols=149  Identities=10%  Similarity=-0.077  Sum_probs=105.5

Q ss_pred             ccHHH---HhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC------C---cHHHHHHHHHHHHhcCcHHHHHHH
Q 038237            2 GFTLE---IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE------R---DYVLWTTMIDGYLRVNRFREALTL   69 (181)
Q Consensus         2 ~~a~~---~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~------~---~~~~~~~li~~~~~~~~~~~a~~~   69 (181)
                      ++|++   ++..-+......+..+-..+...|++++|...+++...      .   ...++..+-..+...|++++|.+.
T Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~   88 (203)
T 3gw4_A            9 ALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRC   88 (203)
T ss_dssp             HHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            45666   55443323556788888999999999999999888764      1   445678888899999999999999


Q ss_pred             HHHHHHc----CCCc--cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC-CcchHHHHHHHHHhHhcCchHhHHHHHHH
Q 038237           70 FQEIQTS----NIMG--DEFTIVSILTARANLGALELGEWIKTYIDKNKV-KNDIFAGNALIDMYCKCTVKFTWTTMIVG  142 (181)
Q Consensus        70 ~~~m~~~----~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~~~~li~~  142 (181)
                      +++..+.    +-.|  ....+..+-..+...|++++|...+++...... ..+....            ..++..+-..
T Consensus        89 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~------------~~~~~~la~~  156 (203)
T 3gw4_A           89 FLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAI------------ACAFRGLGDL  156 (203)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHH------------HHHHHHHHHH
Confidence            9887553    2112  235577788888899999999999988775311 1111110            1234556667


Q ss_pred             HHHcCChhHHHHHHHHHHHc
Q 038237          143 LAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       143 ~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.+.|++++|.+.+++..+.
T Consensus       157 ~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          157 AQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCcCHHHHHHHHHHHHHH
Confidence            77799999999999888654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.41  E-value=1.9e-05  Score=63.70  Aligned_cols=127  Identities=13%  Similarity=0.014  Sum_probs=105.6

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      +..+|+.|-..+.+.|++++|++.|++..+..  | +...|..+-..+.+.|++++|...|++..+.... +...|..+-
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            46689999999999999999999999988753  4 4688999999999999999999999999887543 567788888


Q ss_pred             HHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHhh
Q 038237          125 DMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPD-EVAYVGVLSA  177 (181)
Q Consensus       125 ~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~  177 (181)
                      ..|.+.|                  +...|+.+-..|.+.|++++|++.|++..+.  .|+ ...+..+...
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~  154 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHC  154 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhH
Confidence            8887776                  7888999999999999999999999999874  454 3444444433

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=98.40  E-value=2.7e-05  Score=66.42  Aligned_cols=157  Identities=11%  Similarity=0.042  Sum_probs=102.9

Q ss_pred             cHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 038237            3 FTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE   82 (181)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   82 (181)
                      +|.++.++.  -++.+|..+-.++.+.|++++|.+-|...  .|...|..++..+.+.|++++|.+.|..-.+..  ++.
T Consensus      1094 rAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~ 1167 (1630)
T 1xi4_A         1094 RAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RES 1167 (1630)
T ss_pred             HHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccc
Confidence            344444433  23556778888888888888888888553  667777778888888888888888887655543  333


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC----------chHhHHHHHHHHHHcCChhHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT----------VKFTWTTMIVGLAISGNGDKA  152 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~~~~li~~~~~~~~~~~a  152 (181)
                      ...+.+..+|++.+++++....    ++   .++...|..+-..|-..|          ....|..+...|.+.|+++.|
T Consensus      1168 ~Idt~LafaYAKl~rleele~f----I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~ny~rLA~tLvkLge~q~A 1240 (1630)
T 1xi4_A         1168 YVETELIFALAKTNRLAELEEF----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAA 1240 (1630)
T ss_pred             cccHHHHHHHHhhcCHHHHHHH----Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhhhHHHHHHHHHHHhCCHHHH
Confidence            2333477777777776643333    22   234444555555554444          466888999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          153 LDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       153 ~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      .+.+++..      |..+|.-+-.+|
T Consensus      1241 IEaarKA~------n~~aWkev~~ac 1260 (1630)
T 1xi4_A         1241 VDGARKAN------STRTWKEVCFAC 1260 (1630)
T ss_pred             HHHHHHhC------CHHHHHHHHHHH
Confidence            99998773      456665444333

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.39  E-value=1.4e-05  Score=59.19  Aligned_cols=159  Identities=13%  Similarity=0.009  Sum_probs=115.2

Q ss_pred             cHHHHhhhcCCC---ChhHHHHHHHHHhccCCHHHHHHHhcccCC-----C----cHHHHHHHHHHHHhcCcHHHHHHHH
Q 038237            3 FTLEIFGTMKNK---DVISYTAIVSGYINREQVDIARQCFDQMPE-----R----DYVLWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         3 ~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      +|++++......   ...+++.+-..+.+.|++++|.+.|++..+     +    ...++..+-..|...|++++|.+.|
T Consensus       166 ~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~  245 (378)
T 3q15_A          166 QALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHF  245 (378)
T ss_dssp             HHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            455555554431   234678888999999999999999987763     1    2346888888999999999999999


Q ss_pred             HHHHH----cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC----CcchHHHHHHHHHhHhcC-----------
Q 038237           71 QEIQT----SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV----KNDIFAGNALIDMYCKCT-----------  131 (181)
Q Consensus        71 ~~m~~----~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~ll~~~~~~~-----------  131 (181)
                      ++..+    .+-+....++..+...+.+.|++++|...+++..+...    +.....+..+-..|...+           
T Consensus       246 ~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~  325 (378)
T 3q15_A          246 QKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSY  325 (378)
T ss_dssp             HHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            99876    12233367788899999999999999999998887522    222233344433443333           


Q ss_pred             ---------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 ---------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 ---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                               ....+..+-..|.+.|++++|.+.|++..+
T Consensus       326 ~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          326 FEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                     233566788888999999999999998864

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.39  E-value=2.6e-06  Score=56.21  Aligned_cols=118  Identities=9%  Similarity=0.108  Sum_probs=77.7

Q ss_pred             hccCCHHHHHHHhcccC---CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH-HHccCCc--ch
Q 038237           27 INREQVDIARQCFDQMP---ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA-RANLGAL--EL  100 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~--~~  100 (181)
                      ...|++++|...++...   ..+...|..+-..|...|++++|...|++..+..- .+...+..+... +...|++  ++
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchHH
Confidence            45566677766666554   24667788888888888888888888888776431 245566666666 6677887  88


Q ss_pred             HHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          101 GEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       101 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      |...++........ +...                |..+...+.+.|++++|.+.|++..+.
T Consensus       100 A~~~~~~al~~~p~-~~~~----------------~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDSN-EITA----------------LMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCTT-CHHH----------------HHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCC-cHHH----------------HHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            88888888776432 2222                333444455588888888888888765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.39  E-value=1.1e-05  Score=56.56  Aligned_cols=136  Identities=14%  Similarity=0.024  Sum_probs=100.1

Q ss_pred             hccCCHHHHHHHhcccCC-------C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc------CC-CccHHHHHHH
Q 038237           27 INREQVDIARQCFDQMPE-------R----DYVLWTTMIDGYLRVNRFREALTLFQEIQTS------NI-MGDEFTIVSI   88 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~-~p~~~~~~~l   88 (181)
                      ...|++++|.+.|++..+       +    ...++..+-..+...|++++|...|++..+.      +- +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            345555555555555432       2    4567888999999999999999999998754      22 2345778899


Q ss_pred             HHHHHccCCcchHHHHHHHHHHc------CC-CcchHHHHHHHHHhHhcC--------------------------chHh
Q 038237           89 LTARANLGALELGEWIKTYIDKN------KV-KNDIFAGNALIDMYCKCT--------------------------VKFT  135 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~ll~~~~~~~--------------------------~~~~  135 (181)
                      ...+...|++++|...+++....      .. +.....+..+...|...|                          ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999988764      11 234556666666666655                          3556


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +..+...+.+.|++++|.+.+++..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            788888888999999999999988753

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.38  E-value=4.9e-06  Score=58.39  Aligned_cols=153  Identities=9%  Similarity=0.029  Sum_probs=107.0

Q ss_pred             ccHHHHhhhcCC--CC----hhHHHHHHHHHhccCCHHHHHHHhcccCC--C----cHHHHHHHHHHHHh--------cC
Q 038237            2 GFTLEIFGTMKN--KD----VISYTAIVSGYINREQVDIARQCFDQMPE--R----DYVLWTTMIDGYLR--------VN   61 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~--------~~   61 (181)
                      ++|++.|++...  |+    ...+..+..++.+.|++++|...|+...+  |    ...++..+-..+.+        .|
T Consensus        32 ~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~  111 (261)
T 3qky_A           32 DRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQT  111 (261)
T ss_dssp             HHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCH
T ss_pred             HHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccch
Confidence            567888887764  54    45688888999999999999999999864  3    24456677778888        99


Q ss_pred             cHHHHHHHHHHHHHcCCCccH-HHH-----------------HHHHHHHHccCCcchHHHHHHHHHHcCCCc--chHHHH
Q 038237           62 RFREALTLFQEIQTSNIMGDE-FTI-----------------VSILTARANLGALELGEWIKTYIDKNKVKN--DIFAGN  121 (181)
Q Consensus        62 ~~~~a~~~~~~m~~~~~~p~~-~~~-----------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~  121 (181)
                      ++++|...|++..+..  |+. ...                 ..+-..+.+.|++++|...++...+.....  ....+.
T Consensus       112 ~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~  189 (261)
T 3qky_A          112 DTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALV  189 (261)
T ss_dssp             HHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHH
T ss_pred             hHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHH
Confidence            9999999999988753  332 222                 455777889999999999999998864332  223344


Q ss_pred             HHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          122 ALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       122 ~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+..+|...|+....      ..+.|++++|...|++..+.
T Consensus       190 ~l~~~~~~~g~~~~~------~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          190 GAMRAYIAYAEQSVR------ARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHHHTSCG------GGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccchh------hcccchHHHHHHHHHHHHHH
Confidence            444444331100000      00238889999999999875

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.38  E-value=2.5e-06  Score=61.72  Aligned_cols=141  Identities=13%  Similarity=0.114  Sum_probs=98.2

Q ss_pred             ccHHHHhhhcCC--C---ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-----cHHHHHHHHHHH--HhcC--cHHH
Q 038237            2 GFTLEIFGTMKN--K---DVISYTAIVSGYINREQVDIARQCFDQMPE--R-----DYVLWTTMIDGY--LRVN--RFRE   65 (181)
Q Consensus         2 ~~a~~~~~~~~~--~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-----~~~~~~~li~~~--~~~~--~~~~   65 (181)
                      ++|++++.+...  |   +...+..++..+.+.|+.+.|.+.++.|.+  |     +..+...|..++  ...|  +..+
T Consensus       117 eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~  196 (310)
T 3mv2_B          117 DKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETATS  196 (310)
T ss_dssp             HHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTH
T ss_pred             HHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccHHH
Confidence            678888887733  2   455688899999999999999999999975  4     245555666563  3334  8999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC---------CCcchHHHHHHHHHhHhcCchHhH
Q 038237           66 ALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK---------VKNDIFAGNALIDMYCKCTVKFTW  136 (181)
Q Consensus        66 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~ll~~~~~~~~~~~~  136 (181)
                      |+.+|+++...  .|+..+-..++.++.+.|++++|+..++.+.+.-         -+-+..+.-.++....        
T Consensus       197 A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~--------  266 (310)
T 3mv2_B          197 NFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLAL--------  266 (310)
T ss_dssp             HHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHH--------
Confidence            99999998765  3553344455558999999999999999776531         0224444323322222        


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          137 TTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                              ..|+  +|.++++++++.
T Consensus       267 --------~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          267 --------MQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             --------HTTC--TTHHHHHHHHHT
T ss_pred             --------HhCh--HHHHHHHHHHHh
Confidence                    2454  788888888874

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.38  E-value=1.1e-05  Score=49.71  Aligned_cols=112  Identities=8%  Similarity=-0.053  Sum_probs=90.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...+..+...+...|++++|.+.|+....   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            455788888999999999999999998763   477888999999999999999999999988753 2356788888899


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC  128 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  128 (181)
                      +.+.|++++|...++...+.... +...+..+...+.
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~  125 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAEL  125 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHH
Confidence            99999999999999999887433 3444444444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.36  E-value=7.4e-06  Score=49.14  Aligned_cols=99  Identities=9%  Similarity=0.048  Sum_probs=84.6

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc--cHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG--DEFTIVSIL   89 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~l~   89 (181)
                      +...+..+...+.+.|++++|...|+...+   .+...|..+...+...|++++|.+.|++..+.. +.  +...+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            455678888899999999999999998763   467788899999999999999999999998753 22  478888999


Q ss_pred             HHHHcc-CCcchHHHHHHHHHHcCCC
Q 038237           90 TARANL-GALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        90 ~~~~~~-~~~~~a~~~~~~~~~~~~~  114 (181)
                      ..+.+. |++++|...++........
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcccC
Confidence            999999 9999999999999887543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.36  E-value=1.3e-05  Score=50.12  Aligned_cols=96  Identities=6%  Similarity=-0.006  Sum_probs=83.8

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ..+...-..+.+.|++++|.+.|++..+   .+...|..+-..+.+.|++++|++.|++..+..- .+...|..+-.++.
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~   92 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHHHH
Confidence            3577888899999999999999998763   4788999999999999999999999999887542 35678889999999


Q ss_pred             ccCCcchHHHHHHHHHHcCC
Q 038237           94 NLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ..|++++|...|+...+..+
T Consensus        93 ~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT
T ss_pred             HCCCHHHHHHHHHHHHHHCc
Confidence            99999999999999988743

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.35  E-value=3.8e-05  Score=50.63  Aligned_cols=142  Identities=13%  Similarity=0.026  Sum_probs=95.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH-HH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA-RA   93 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~   93 (181)
                      .+......+.+.|++++|...|++..+   .+...+..+-..+.+.|++++|...|++....  .|+...+...... +.
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHH
Confidence            355667788899999999999999885   47788999999999999999999999997654  2444333222111 12


Q ss_pred             ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-ChhhHH
Q 038237           94 NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP-DEVAYV  172 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~  172 (181)
                      +.+....+...++...+....                 +...+..+-..+.+.|++++|.+.|++..+..-.+ +...+.
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~-----------------~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~  148 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPD-----------------NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKK  148 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTT-----------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHH
T ss_pred             hhcccchHHHHHHHHHHhCCC-----------------CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHH
Confidence            223334466666666654322                 23344445555666999999999999998764322 244555


Q ss_pred             HHHhhh
Q 038237          173 GVLSAR  178 (181)
Q Consensus       173 ~li~~~  178 (181)
                      .+...+
T Consensus       149 ~l~~~~  154 (176)
T 2r5s_A          149 TFMDIL  154 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.34  E-value=4e-06  Score=54.42  Aligned_cols=99  Identities=10%  Similarity=0.019  Sum_probs=84.9

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...+..+-..+.+.|++++|.+.|+....   .+...|..+-..+...|++++|++.|++..+..- -+...|..+-.+
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~~  113 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHHH
Confidence            444677888899999999999999999874   4788899999999999999999999999987542 246788889999


Q ss_pred             HHccCCcchHHHHHHHHHHcCCC
Q 038237           92 RANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      +.+.|++++|...|+...+....
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999987533

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.33  E-value=2e-05  Score=51.06  Aligned_cols=127  Identities=12%  Similarity=-0.019  Sum_probs=92.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      +...+.+.+...+.+.++.++    ...+...+..+-..+.+.|++++|.+.|++.....- -+...|..+-.++.+.|+
T Consensus        11 ~~~~l~~~~~~~~~l~~al~l----~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~   85 (151)
T 3gyz_A           11 ISTAVIDAINSGATLKDINAI----PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQ   85 (151)
T ss_dssp             HHHHHHHHHHTSCCTGGGCCS----CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHCCCCHHHHhCC----CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHcc
Confidence            345555555544433332221    113566788888899999999999999999988642 367888899999999999


Q ss_pred             cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237           98 LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus        98 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                      +++|...|++....... +...|                ..+-.+|.+.|++++|.+.|++..+..  ||.
T Consensus        86 ~~~Ai~~~~~al~l~P~-~~~~~----------------~~lg~~~~~lg~~~eA~~~~~~al~l~--~~~  137 (151)
T 3gyz_A           86 FQQAADLYAVAFALGKN-DYTPV----------------FHTGQCQLRLKAPLKAKECFELVIQHS--NDE  137 (151)
T ss_dssp             HHHHHHHHHHHHHHSSS-CCHHH----------------HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH
T ss_pred             HHHHHHHHHHHHhhCCC-CcHHH----------------HHHHHHHHHcCCHHHHHHHHHHHHHhC--CCH
Confidence            99999999999987544 33333                444455555999999999999998853  554

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=98.32  E-value=3e-05  Score=66.09  Aligned_cols=144  Identities=10%  Similarity=0.016  Sum_probs=92.2

Q ss_pred             ccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccC------------------------------CCcHHHHH
Q 038237            2 GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMP------------------------------ERDYVLWT   51 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~------------------------------~~~~~~~~   51 (181)
                      ++|.+-|.+.  .|...|.-++.++.+.|++++|.+.+...+                              .++...|.
T Consensus      1122 kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~ 1199 (1630)
T 1xi4_A         1122 KEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQ 1199 (1630)
T ss_pred             HHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHH
Confidence            3555556543  344456667777777777777777775432                              22334444


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC
Q 038237           52 TMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT  131 (181)
Q Consensus        52 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (181)
                      .+-..|-..|++++|..+|...         ..|..+...+.+.|++++|.+.+++-      .+..+|.-+-.+|...+
T Consensus      1200 ~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~ 1264 (1630)
T 1xi4_A         1200 QVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhh
Confidence            5555555556666666666653         36667777777777777777766655      24456665555554333


Q ss_pred             --------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 --------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 --------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                    +...+..++..|-+.|.+++|..+++.-...
T Consensus      1265 Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L 1309 (1630)
T 1xi4_A         1265 EFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL 1309 (1630)
T ss_pred             HHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence                          4556778888999999999999999877644

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.30  E-value=3.8e-06  Score=62.57  Aligned_cols=144  Identities=13%  Similarity=0.012  Sum_probs=79.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----C-CCccHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS----N-IMGDEF   83 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~p~~~   83 (181)
                      .|..+...+...|++++|.+.+++..+         ....++..+-..|...|++++|.+.|++..+.    + ......
T Consensus        88 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  167 (411)
T 4a1s_A           88 IYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGR  167 (411)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHH
Confidence            466666777777777777777666542         13345666666667777777777776665432    1 111234


Q ss_pred             HHHHHHHHHHccCC-----------------cchHHHHHHHHHHc----CCC-cchHHHHHHHHHhHhcC----------
Q 038237           84 TIVSILTARANLGA-----------------LELGEWIKTYIDKN----KVK-NDIFAGNALIDMYCKCT----------  131 (181)
Q Consensus        84 ~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~----------  131 (181)
                      ++..+...+...|+                 +++|...+++..+.    +.. .....+..+-..|...|          
T Consensus       168 ~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  247 (411)
T 4a1s_A          168 ALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQ  247 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            55556666666666                 66666665554331    111 12223444444444444          


Q ss_pred             --------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 --------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 --------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                                    ....|..+...+...|++++|.+.+++...
T Consensus       248 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          248 ERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence                          122555566666666666666666666543

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.28  E-value=1.7e-05  Score=51.08  Aligned_cols=93  Identities=9%  Similarity=-0.014  Sum_probs=49.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+..+-..+.+.|++++|...|+....   .+...|..+-..+...|++++|.+.|++.....- -+...+..+-.++..
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHH
Confidence            344445555555666666665555432   2445555555555555666666666655554321 133445555555555


Q ss_pred             cCCcchHHHHHHHHHHc
Q 038237           95 LGALELGEWIKTYIDKN  111 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~  111 (181)
                      .|++++|...|+...+.
T Consensus       102 ~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          102 XGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            56666665555555543

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.27  E-value=2.7e-05  Score=46.99  Aligned_cols=97  Identities=13%  Similarity=0.041  Sum_probs=82.6

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ...+..+...+.+.|++++|.+.|+....   .+...+..+...+...|++++|...+++..+..- .+...+..+...+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            45677888899999999999999998763   4778888899999999999999999999887532 3567888889999


Q ss_pred             HccCCcchHHHHHHHHHHcCC
Q 038237           93 ANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ...|++++|...++...+...
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHhhHHHHHHHHHHHHHcCC
Confidence            999999999999999887643

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.27  E-value=6.1e-06  Score=59.12  Aligned_cols=160  Identities=10%  Similarity=0.012  Sum_probs=91.2

Q ss_pred             ccHHHHhhhcCC--CC-----hhHHHHHHHHHhccCCHHHHHHHhcccCC---------CcHHHHHHHHHHHHhcCcHHH
Q 038237            2 GFTLEIFGTMKN--KD-----VISYTAIVSGYINREQVDIARQCFDQMPE---------RDYVLWTTMIDGYLRVNRFRE   65 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~~~~~~   65 (181)
                      ++|+++|++..+  |+     ...+..+...+...|++++|.+.+++...         .....+..+...+...|++++
T Consensus        22 ~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  101 (338)
T 3ro2_A           22 RAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDE  101 (338)
T ss_dssp             HHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHH
Confidence            355566655432  32     24566777777788888888877776542         124456666777777777777


Q ss_pred             HHHHHHHHHHcCC-Ccc----HHHHHHHHHHHHccCC--------------------cchHHHHHHHHHHc----CCCc-
Q 038237           66 ALTLFQEIQTSNI-MGD----EFTIVSILTARANLGA--------------------LELGEWIKTYIDKN----KVKN-  115 (181)
Q Consensus        66 a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~~~~-  115 (181)
                      |.+.+++..+..- .++    ..++..+...+...|+                    +++|...+++....    +..+ 
T Consensus       102 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~  181 (338)
T 3ro2_A          102 AIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAA  181 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHH
Confidence            7777776543210 011    2356666666666677                    66666666654432    1111 


Q ss_pred             chHHHHHHHHHhHhcC------------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          116 DIFAGNALIDMYCKCT------------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       116 ~~~~~~~ll~~~~~~~------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ....+..+...+...|                        ....+..+...+...|++++|.+.+++...
T Consensus       182 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          182 QGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1223444444444433                        122566666666666777777666666553

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.26  E-value=0.00014  Score=51.98  Aligned_cols=139  Identities=9%  Similarity=-0.044  Sum_probs=88.2

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC-----Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-cc----HHHHHH
Q 038237           22 IVSGYINREQVDIARQCFDQMPE-----RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM-GD----EFTIVS   87 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~   87 (181)
                      .+..+.+.|++++|.+++++...     ++    ...+..+...+...+++++|+..|++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            36677888999999888887654     12    112334566666777889999999888773322 22    236788


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHc-----CCCc-chHHHHHHHHHhHhcC------------------------chHhHH
Q 038237           88 ILTARANLGALELGEWIKTYIDKN-----KVKN-DIFAGNALIDMYCKCT------------------------VKFTWT  137 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~ll~~~~~~~------------------------~~~~~~  137 (181)
                      +-..+...|++++|...+++..+.     +..+ ...++..+-..|.+.|                        -...|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888899999999888887742     1111 1224555555555544                        134555


Q ss_pred             HHHHHHHHcCC-hhHHHHHHHHHH
Q 038237          138 TMIVGLAISGN-GDKALDMFSQML  160 (181)
Q Consensus       138 ~li~~~~~~~~-~~~a~~~~~~m~  160 (181)
                      .+-..+.+.|+ .++|.+.+++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHH
Confidence            56666666663 466666666554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.26  E-value=3.1e-05  Score=60.58  Aligned_cols=130  Identities=9%  Similarity=0.001  Sum_probs=87.5

Q ss_pred             cCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHH
Q 038237           29 REQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      .|++++|.+.|++..+   .+...|..+-..+.+.|++++|.+.|++..+..- -+...+..+-..+.+.|++++|...+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999998875   3678899999999999999999999999887532 25678889999999999999999999


Q ss_pred             HHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          106 TYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       106 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      ++..+.... +..                .|..+-..+.+.|++++|.+.|++..+.. +-+...+..+...
T Consensus        81 ~~al~~~p~-~~~----------------~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  134 (568)
T 2vsy_A           81 QQASDAAPE-HPG----------------IALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNW  134 (568)
T ss_dssp             HHHHHHCTT-CHH----------------HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHhcCCC-CHH----------------HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            999886432 233                34445555666999999999999998752 1234455544443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.26  E-value=3.3e-05  Score=48.32  Aligned_cols=115  Identities=6%  Similarity=-0.097  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           47 YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        47 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      ..++..+-..+.+.|++++|++.|++..+.. +-+...|..+-.++.+.|++++|...++..++.... +...+..+.. 
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~-   84 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRE-TRADYKLIAK-   84 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCCHHHHHH-
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcc-cchhhHHHHH-
Confidence            3456777888899999999999999987753 224677888889999999999999999888764211 1111222222 


Q ss_pred             hHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 038237          127 YCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       127 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                              +|..+-..+...|++++|.+.|++....  .||..+...|
T Consensus        85 --------~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           85 --------AMSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             --------HHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             --------HHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence                    3445666677799999999999998764  5676665544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.24  E-value=6.8e-05  Score=47.29  Aligned_cols=97  Identities=14%  Similarity=0.018  Sum_probs=82.9

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSI   88 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   88 (181)
                      +...+..+...+.+.|++++|.+.|++..+  |+    ...|..+...+...|++++|.+.+++..+.. +.+...+..+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  105 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRR  105 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHH
Confidence            556788888999999999999999998865  44    6778888899999999999999999987753 2256778888


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcC
Q 038237           89 LTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ...+...|++++|...+++.....
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC
Confidence            899999999999999999998764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.24  E-value=9.4e-06  Score=60.38  Aligned_cols=147  Identities=10%  Similarity=-0.030  Sum_probs=95.8

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCCC---------cHHHHHHHHHHHHhcCc-----------------HHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPER---------DYVLWTTMIDGYLRVNR-----------------FREALTL   69 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------~~~~~~~li~~~~~~~~-----------------~~~a~~~   69 (181)
                      ...+..+...+...|++++|.+.+++...-         ...++..+-..|...|+                 +++|.+.
T Consensus       126 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~  205 (411)
T 4a1s_A          126 AKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEF  205 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHH
Confidence            345777777788888888888887776531         33466677777777788                 7888877


Q ss_pred             HHHHHHc----CCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-----cchHHHHHHHHHhHhcC--------
Q 038237           70 FQEIQTS----NIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVK-----NDIFAGNALIDMYCKCT--------  131 (181)
Q Consensus        70 ~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~ll~~~~~~~--------  131 (181)
                      +++..+.    +-.| ....+..+...+...|++++|...+++..+....     .....+..+...|...|        
T Consensus       206 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            7765431    1111 2246667777777888888888877776653111     11224555555565555        


Q ss_pred             ----------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 ----------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 ----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                      ....+..+...+.+.|++++|.+.+++....
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                            2456777777788888888888888877643

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.23  E-value=5.2e-05  Score=51.70  Aligned_cols=108  Identities=7%  Similarity=-0.003  Sum_probs=87.0

Q ss_pred             ccHHHHhhhcCC-CChhHHHHHHHHHhccCCHHHHHHHhcccCC-CcHHHHHHHHHHHHhcC----cHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN-KDVISYTAIVSGYINREQVDIARQCFDQMPE-RDYVLWTTMIDGYLRVN----RFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~   75 (181)
                      .+|++.|.+.-+ -++..+..+-..+.+.+++++|.+.|+...+ .++..+..|-..|.. +    ++++|++.|++..+
T Consensus         3 ~eA~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~   81 (212)
T 3rjv_A            3 TEPGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVE   81 (212)
T ss_dssp             -CTTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH
Confidence            467777877654 5777888888999999999999999998875 467777777777777 6    89999999999987


Q ss_pred             cCCCccHHHHHHHHHHHHc----cCCcchHHHHHHHHHHcCC
Q 038237           76 SNIMGDEFTIVSILTARAN----LGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  113 (181)
                      .|   +...+..+-..+..    .+++++|...++...+.|.
T Consensus        82 ~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  120 (212)
T 3rjv_A           82 AG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSE  120 (212)
T ss_dssp             TT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTT
T ss_pred             CC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCC
Confidence            65   55666677777766    7899999999999887765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.21  E-value=0.00013  Score=44.72  Aligned_cols=113  Identities=12%  Similarity=0.034  Sum_probs=85.0

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      +...+..+...+...|++++|.+.|++..... +.+...+..+...+...|++++|...++........ +..       
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~-------   81 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSK-------   81 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH-------
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHH-------
Confidence            55677888889999999999999999988753 236778888899999999999999999998876432 233       


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                               .|..+...+.+.|++++|.+.|++..+.. +.+...+..+...
T Consensus        82 ---------~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~  123 (131)
T 2vyi_A           82 ---------AYGRMGLALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIA  123 (131)
T ss_dssp             ---------HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHH
Confidence                     33444555666999999999999998762 2244455444443

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.21  E-value=8.8e-05  Score=45.83  Aligned_cols=62  Identities=11%  Similarity=-0.052  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+-.++.+.|++++|...++...+.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~   67 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK   67 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34444455555566666666665555432 123455555555556666666666666555554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.20  E-value=6.4e-05  Score=44.87  Aligned_cols=101  Identities=11%  Similarity=-0.096  Sum_probs=78.7

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-cchHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK-NDIFAGNALI  124 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll  124 (181)
                      +...+..+...+.+.|++++|...|++..+..- .+...+..+...+...|++++|...+++..+.... .+...+    
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~----   79 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVW----   79 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHH----
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHH----
Confidence            455677788889999999999999999887542 35677888899999999999999999999876322 023333    


Q ss_pred             HHhHhcCchHhHHHHHHHHHHc-CChhHHHHHHHHHHHcC
Q 038237          125 DMYCKCTVKFTWTTMIVGLAIS-GNGDKALDMFSQMLRAS  163 (181)
Q Consensus       125 ~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~  163 (181)
                                  ..+...+.+. |++++|.+.+++.....
T Consensus        80 ------------~~l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           80 ------------AAKADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             ------------HHHHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             ------------HHHHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence                        3444455559 99999999999998763

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.20  E-value=0.00019  Score=43.05  Aligned_cols=99  Identities=12%  Similarity=-0.021  Sum_probs=78.5

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      ....+..+...+...|++++|.+.|++..... +.+...+..+...+.+.|++++|...++...+.... +..       
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~-------   73 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGK-------   73 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHH-------
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHH-------
Confidence            34567788889999999999999999988753 236778888889999999999999999998876432 233       


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                               .|..+...+.+.|++++|.+.+++..+.
T Consensus        74 ---------~~~~~a~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           74 ---------GYSRKAAALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             ---------HHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ---------HHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence                     3444555566699999999999998864

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.19  E-value=3.5e-05  Score=52.94  Aligned_cols=145  Identities=10%  Similarity=-0.010  Sum_probs=78.0

Q ss_pred             ccHHHHhhhcCC--CC----hhHHHHHHHHHhccCCHHHHHHHhcccCC--CcH----HHHHHHHHHHH-----------
Q 038237            2 GFTLEIFGTMKN--KD----VISYTAIVSGYINREQVDIARQCFDQMPE--RDY----VLWTTMIDGYL-----------   58 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~-----------   58 (181)
                      ++|++.|++...  |+    ...+..+..++.+.|++++|...|+...+  |+.    .++-.+-..+.           
T Consensus        21 ~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~  100 (225)
T 2yhc_A           21 RQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFF  100 (225)
T ss_dssp             HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC-------
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhh
Confidence            345555555432  32    13455556666666666666666666542  211    12222222222           


Q ss_pred             -------hcCcHHHHHHHHHHHHHcCCCccHH-HH-----------------HHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           59 -------RVNRFREALTLFQEIQTSNIMGDEF-TI-----------------VSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        59 -------~~~~~~~a~~~~~~m~~~~~~p~~~-~~-----------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                             ..|++++|...|++..+..  |+.. .+                 ..+...+.+.|++++|...++.+.+...
T Consensus       101 ~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p  178 (225)
T 2yhc_A          101 GVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYP  178 (225)
T ss_dssp             -------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             ccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCc
Confidence                   2356666666666665532  2221 11                 1223345556666666666666665422


Q ss_pred             CcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          114 KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .  ...            ....+..+..++.+.|+.++|.+.++.+...
T Consensus       179 ~--~~~------------~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          179 D--TQA------------TRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             T--SHH------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             C--CCc------------cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            2  100            1124455666777799999999999998876

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.19  E-value=2.4e-05  Score=57.90  Aligned_cols=131  Identities=11%  Similarity=0.052  Sum_probs=91.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-----C-----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc-c
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-----R-----DYVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG-D   81 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~   81 (181)
                      .++..+-..+...|+++.|...+++...     +     ...+++.+-..|...|++++|.+.|++..+.    +-.+ .
T Consensus       142 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~  221 (378)
T 3q15_A          142 EFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFI  221 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            4577778888888888888777776642     1     2446777888888889999999888876542    1111 2


Q ss_pred             HHHHHHHHHHHHccCCcchHHHHHHHHHHcC---CCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHH
Q 038237           82 EFTIVSILTARANLGALELGEWIKTYIDKNK---VKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  158 (181)
                      ..++..+-..+...|++++|...+++.....   ..|.               ...++..+-..+.+.|++++|.+.+++
T Consensus       222 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~---------------~~~~~~~la~~~~~~g~~~~A~~~~~~  286 (378)
T 3q15_A          222 AISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL---------------LPKVLFGLSWTLCKAGQTQKAFQFIEE  286 (378)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG---------------HHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh---------------HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3467777788888899999988888877621   0111               122344555666679999999999999


Q ss_pred             HHHc
Q 038237          159 MLRA  162 (181)
Q Consensus       159 m~~~  162 (181)
                      ..+.
T Consensus       287 al~~  290 (378)
T 3q15_A          287 GLDH  290 (378)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8875

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.18  E-value=1.2e-05  Score=59.45  Aligned_cols=146  Identities=11%  Similarity=-0.009  Sum_probs=87.8

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC-----Cc----HHHHHHHHHHHHhcCc--------------------HHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE-----RD----YVLWTTMIDGYLRVNR--------------------FREA   66 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~~~--------------------~~~a   66 (181)
                      ..++..+...+...|++++|...+++...     ++    ..++..+-..+...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            33566667777777787777777776653     11    3356666677777777                    7777


Q ss_pred             HHHHHHHHHc----CCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC-Cc----chHHHHHHHHHhHhcC-----
Q 038237           67 LTLFQEIQTS----NIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKV-KN----DIFAGNALIDMYCKCT-----  131 (181)
Q Consensus        67 ~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~ll~~~~~~~-----  131 (181)
                      .+.+++....    +-.| ...++..+...+...|++++|...+++..+... .+    ....+..+...|...|     
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            7777665431    1111 124566666777777777777777776654311 11    1224555555555544     


Q ss_pred             -------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 -------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 -------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                                         ...++..+...+.+.|++++|.+.+++..+
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence                               144566666677777777777777776654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.18  E-value=0.00012  Score=45.75  Aligned_cols=95  Identities=8%  Similarity=-0.029  Sum_probs=48.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...|..+...+.+.|++++|...|+....   .+...|..+...+...|++++|...|++..+..- -+...+..+-..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~   86 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQC   86 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHHHH
Confidence            344455555555555555555555554432   2344555555555555555555555555544321 133444555555


Q ss_pred             HHccCCcchHHHHHHHHHH
Q 038237           92 RANLGALELGEWIKTYIDK  110 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~  110 (181)
                      +...|++++|...++....
T Consensus        87 ~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555555443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.18  E-value=1.3e-05  Score=52.82  Aligned_cols=111  Identities=5%  Similarity=0.040  Sum_probs=90.4

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHH-HHhcCcH--HHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDG-YLRVNRF--REALTLFQE   72 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~-~~~~~~~--~~a~~~~~~   72 (181)
                      ++|++.|++...  | +...|..+...+...|++++|...|+...+   .+...+..+... +...|++  ++|...|++
T Consensus        27 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~  106 (177)
T 2e2e_A           27 EAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRAMIDK  106 (177)
T ss_dssp             CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHH
Confidence            456666665432  3 567889999999999999999999998874   467778888888 7788998  999999999


Q ss_pred             HHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           73 IQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        73 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ..+..- -+...+..+...+...|++++|...++...+...
T Consensus       107 al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A          107 ALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            987642 2467788888999999999999999999988743

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.18  E-value=7.9e-05  Score=47.29  Aligned_cols=92  Identities=13%  Similarity=0.001  Sum_probs=49.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHcc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANL   95 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~   95 (181)
                      +..+-..+.+.|++++|.+.|+....   .+...|..+-..+.+.|++++|...|++.....- -+...+..+-.++...
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHc
Confidence            44444555556666666666655432   2445555555555666666666666665554321 1334445555555566


Q ss_pred             CCcchHHHHHHHHHHc
Q 038237           96 GALELGEWIKTYIDKN  111 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~  111 (181)
                      |++++|...++...+.
T Consensus       100 g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A          100 GDLDGAESGFYSARAL  115 (142)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            6666666666555543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.18  E-value=7e-05  Score=46.23  Aligned_cols=100  Identities=13%  Similarity=0.043  Sum_probs=80.6

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      .+...|..+...+.+.|++++|.+.|++..+.. +.+...+..+...+...|++++|...+++..+.... +..      
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~------   85 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIK------   85 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHH------
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chH------
Confidence            366788889999999999999999999988753 236788888999999999999999999999876432 233      


Q ss_pred             HHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          125 DMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       125 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                .|..+...+.+.|++++|.+.|++..+.
T Consensus        86 ----------~~~~la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           86 ----------GYTRKAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             ----------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence                      3444555566699999999999998875

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.18  E-value=1e-05  Score=61.37  Aligned_cols=41  Identities=7%  Similarity=0.017  Sum_probs=16.7

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCChhhHH
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRAS-IKPDEVAYV  172 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~  172 (181)
                      +..+|+.+-..|...|++++|.+.|++..+.+ ..|++.+|.
T Consensus       429 ~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          429 DSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            67788889899999999999999999998763 567766653

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.17  E-value=3.3e-05  Score=48.35  Aligned_cols=86  Identities=8%  Similarity=-0.163  Sum_probs=70.7

Q ss_pred             CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           44 ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        44 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      ..+...|..+-..+...|++++|...|.+.....- .+...+..+...+...|++++|...++...+.... +...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHH
Confidence            34677888888999999999999999999877542 35678888899999999999999999999887543 56678888


Q ss_pred             HHHhHhcC
Q 038237          124 IDMYCKCT  131 (181)
Q Consensus       124 l~~~~~~~  131 (181)
                      -..|...|
T Consensus        84 ~~~~~~~~   91 (137)
T 3q49_B           84 GQCQLEME   91 (137)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHh
Confidence            88888777

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.17  E-value=1.2e-05  Score=57.55  Aligned_cols=145  Identities=11%  Similarity=0.044  Sum_probs=93.6

Q ss_pred             HHHHHHHHHhccCC--------------------HHHHHHHhcccCC-----C----cHHHHHHHHHHHHhcCcHHHHHH
Q 038237           18 SYTAIVSGYINREQ--------------------VDIARQCFDQMPE-----R----DYVLWTTMIDGYLRVNRFREALT   68 (181)
Q Consensus        18 ~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~   68 (181)
                      ++..+...+...|+                    +++|.+.+++...     +    ....+..+...+...|++++|.+
T Consensus       125 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  204 (338)
T 3ro2_A          125 ALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVI  204 (338)
T ss_dssp             HHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            57777777888888                    7888777776542     1    23467777778888888888888


Q ss_pred             HHHHHHHc----CCC-ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC----Cc-chHHHHHHHHHhHhcC-------
Q 038237           69 LFQEIQTS----NIM-GDEFTIVSILTARANLGALELGEWIKTYIDKNKV----KN-DIFAGNALIDMYCKCT-------  131 (181)
Q Consensus        69 ~~~~m~~~----~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~-~~~~~~~ll~~~~~~~-------  131 (181)
                      .+++..+.    +-. ....++..+...+...|++++|...++.......    .+ ...++..+...|...|       
T Consensus       205 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  284 (338)
T 3ro2_A          205 AHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAID  284 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            88876542    111 1123677777778888888888888877664311    11 1334444444554444       


Q ss_pred             -----------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 -----------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 -----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                       ...++..+...+.+.|++++|.+.+++..+.
T Consensus       285 ~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          285 YHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                             1335666677777777888887777777653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.17  E-value=0.00031  Score=53.14  Aligned_cols=145  Identities=11%  Similarity=-0.016  Sum_probs=103.2

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC-----------CcHHHHHHHHHHHHhc--CcHHHHHHHHHHHHHcCCCcc
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE-----------RDYVLWTTMIDGYLRV--NRFREALTLFQEIQTSNIMGD   81 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----------~~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~p~   81 (181)
                      ...+|+.+-..|...|++++|...+++..+           ....++..+-.++.+.  +++++|.+.|++..+..  |+
T Consensus        93 ~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~  170 (472)
T 4g1t_A           93 SLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PK  170 (472)
T ss_dssp             THHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TT
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CC
Confidence            345799999999999999999988876642           1345666665556554  57999999999987753  44


Q ss_pred             -HHHHHHHHHH---HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC----------------------chHh
Q 038237           82 -EFTIVSILTA---RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT----------------------VKFT  135 (181)
Q Consensus        82 -~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------------------~~~~  135 (181)
                       ...+..+..+   +...++.++|...+++..+.... +...+..+...+...+                      +...
T Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~  249 (472)
T 4g1t_A          171 NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDV  249 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHH
T ss_pred             CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHH
Confidence             3333333333   45567888899988888776433 3444444443333222                      6777


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ++.+...|.+.|++++|.+.+++..+.
T Consensus       250 ~~~lg~~~~~~~~~~~A~~~~~~al~~  276 (472)
T 4g1t_A          250 LRSAAKFYRRKDEPDKAIELLKKALEY  276 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHh
Confidence            889999999999999999999999875

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.17  E-value=5e-05  Score=48.82  Aligned_cols=85  Identities=9%  Similarity=0.033  Sum_probs=68.9

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      +...+..+-..+.+.|++++|...|++.....- .+...|..+-.++.+.|++++|...++........ +...+..+-.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            556677788889999999999999999877532 36778888889999999999999999999887543 5667777777


Q ss_pred             HhHhcCc
Q 038237          126 MYCKCTV  132 (181)
Q Consensus       126 ~~~~~~~  132 (181)
                      .|...|+
T Consensus        98 ~~~~~g~  104 (148)
T 2vgx_A           98 CLLQXGE  104 (148)
T ss_dssp             HHHHTTC
T ss_pred             HHHHcCC
Confidence            8877773

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.17  E-value=5.5e-05  Score=49.16  Aligned_cols=97  Identities=7%  Similarity=-0.052  Sum_probs=84.7

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...|..+-..+.+.|++++|.+.|++..+   .+...|..+-..|.+.|++++|+..|++..+..- -+...|..+-.+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   88 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            455688888999999999999999998874   4788899999999999999999999999987642 257888899999


Q ss_pred             HHccCCcchHHHHHHHHHHcC
Q 038237           92 RANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      +.+.|++++|...|++..+..
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC
Confidence            999999999999999998764

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.17  E-value=4.3e-05  Score=47.27  Aligned_cols=95  Identities=9%  Similarity=0.003  Sum_probs=82.1

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      ..|...-..+.+.|++++|.+.|++..+   .+...|..+-..+.+.|++++|++.|++..+..- -+...|..+-.++.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~   83 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence            4577778889999999999999998764   4788999999999999999999999999887542 25678888999999


Q ss_pred             ccCCcchHHHHHHHHHHcC
Q 038237           94 NLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..|++++|...++...+..
T Consensus        84 ~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           84 AVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhC
Confidence            9999999999999988754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.17  E-value=3.2e-05  Score=57.27  Aligned_cols=129  Identities=12%  Similarity=0.021  Sum_probs=87.7

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-----C-----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc-c
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-----R-----DYVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG-D   81 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~   81 (181)
                      .+|..+-..+...|++++|.+.+++..+     +     ...+++.+-..|...|++++|.+.|++..+.    +-.+ .
T Consensus       144 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          144 EFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            4577778888888888888877777652     1     2346777778888888888888888876542    1111 1


Q ss_pred             HHHHHHHHHHHHccCCcchHHHHHHHHHHc----CC-CcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           82 EFTIVSILTARANLGALELGEWIKTYIDKN----KV-KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      ..++..+-..+...|++++|...+++..+.    +. +....                ++..+-..+.+.|++++|.+.+
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~----------------~~~~l~~~~~~~g~~~~A~~~~  287 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQ----------------AYFLITQIHYKLGKIDKAHEYH  287 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHH----------------HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHH----------------HHHHHHHHHHHCCCHHHHHHHH
Confidence            246777788888888888888888877762    22 21222                3444555556688888888888


Q ss_pred             HHHHH
Q 038237          157 SQMLR  161 (181)
Q Consensus       157 ~~m~~  161 (181)
                      ++..+
T Consensus       288 ~~al~  292 (383)
T 3ulq_A          288 SKGMA  292 (383)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.16  E-value=1.8e-05  Score=58.46  Aligned_cols=161  Identities=10%  Similarity=0.006  Sum_probs=114.2

Q ss_pred             ccHHHHhhhcCC--CC-----hhHHHHHHHHHhccCCHHHHHHHhcccCC---------CcHHHHHHHHHHHHhcCcHHH
Q 038237            2 GFTLEIFGTMKN--KD-----VISYTAIVSGYINREQVDIARQCFDQMPE---------RDYVLWTTMIDGYLRVNRFRE   65 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~~~~~~   65 (181)
                      ++|+..|++...  |+     ...|..+...+...|++++|...+++...         ....++..+...+...|++++
T Consensus        26 ~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  105 (406)
T 3sf4_A           26 RAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDE  105 (406)
T ss_dssp             HHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHH
Confidence            456666665543  33     24677888899999999999998887642         134567788888999999999


Q ss_pred             HHHHHHHHHHcCC-Ccc----HHHHHHHHHHHHccCC--------------------cchHHHHHHHHHHc----CCCc-
Q 038237           66 ALTLFQEIQTSNI-MGD----EFTIVSILTARANLGA--------------------LELGEWIKTYIDKN----KVKN-  115 (181)
Q Consensus        66 a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~~~~-  115 (181)
                      |...+++..+..- .++    ..++..+...+...|+                    +++|...++.....    +..| 
T Consensus       106 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~  185 (406)
T 3sf4_A          106 AIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAA  185 (406)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHH
Confidence            9999988764210 012    3477788888888899                    88888888776542    2111 


Q ss_pred             chHHHHHHHHHhHhcC------------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          116 DIFAGNALIDMYCKCT------------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       116 ~~~~~~~ll~~~~~~~------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ....+..+-..|...|                        ....|..+...+...|++++|.+.+++....
T Consensus       186 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  256 (406)
T 3sf4_A          186 QGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  256 (406)
T ss_dssp             HHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            2335556666666555                        2337888888899999999999999988653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.16  E-value=8.9e-05  Score=53.00  Aligned_cols=112  Identities=13%  Similarity=0.074  Sum_probs=80.5

Q ss_pred             HHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           33 DIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        33 ~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      +...+.++.....+...+-.+-..+.+.|++++|.+.|++..+..- -+...+..+...+.+.|++++|...++......
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~  181 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD  181 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh
Confidence            4444555555545666777888889999999999999999987532 256788889999999999999999999887653


Q ss_pred             CCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          113 VKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       113 ~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                        |+......               .....+.+.++.++|.+.+++....
T Consensus       182 --p~~~~~~~---------------~~~~~l~~~~~~~~a~~~l~~al~~  214 (287)
T 3qou_A          182 --QDTRYQGL---------------VAQIELLXQAADTPEIQQLQQQVAE  214 (287)
T ss_dssp             --CSHHHHHH---------------HHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             --cchHHHHH---------------HHHHHHHhhcccCccHHHHHHHHhc
Confidence              33322111               1112244477888888888888765

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.15  E-value=7.8e-05  Score=45.77  Aligned_cols=114  Identities=7%  Similarity=-0.001  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC--cchHHHHHHH
Q 038237           47 YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK--NDIFAGNALI  124 (181)
Q Consensus        47 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll  124 (181)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++........  ++.   ..  
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~---~~--   77 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDY---RQ--   77 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCH---HH--
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhH---HH--
Confidence            3457777888889999999999999987754 336677888888899999999999999988765321  110   00  


Q ss_pred             HHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          125 DMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       125 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                             ....|..+...+.+.|++++|.+.|++..+.  .|+......+-
T Consensus        78 -------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~  119 (131)
T 1elr_A           78 -------IAKAYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQ  119 (131)
T ss_dssp             -------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHH
Confidence                   0224455666677799999999999999885  35655554443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.15  E-value=5.9e-06  Score=55.62  Aligned_cols=109  Identities=7%  Similarity=0.027  Sum_probs=83.5

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC---CcH----------------HHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE---RDY----------------VLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~----------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      ...+..+-..+.+.|++++|.+.|++...   .+.                ..|..+-..+.+.|++++|+..+++..+.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34567777888899999999999988763   222                67888888999999999999999998875


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      . +.+...+..+-.++...|++++|...++...+.... +...+..+-..
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  165 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELC  165 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHH
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHH
Confidence            3 235678888889999999999999999998876432 33344444333

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.15  E-value=0.00016  Score=46.85  Aligned_cols=99  Identities=9%  Similarity=0.044  Sum_probs=80.6

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      +...|..+-..+.+.|++++|++.|++..+..- -+...|..+-..+.+.|++++|...++...+.... +..       
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~-------   80 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSK-------   80 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH-------
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHH-------
Confidence            566788888899999999999999999887542 26788889999999999999999999999887533 233       


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                               .|..+-..+.+.|++++|.+.|++..+.
T Consensus        81 ---------~~~~lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           81 ---------AWSRLGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             ---------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence                     4445555566699999999999999875

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.11  E-value=0.00019  Score=51.26  Aligned_cols=139  Identities=11%  Similarity=0.015  Sum_probs=97.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC--CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHHc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE--RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD--EFTIVSILTARAN   94 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~   94 (181)
                      +-.....+...|++++|.++|+.+..  |+....-.+-..+.+.+++++|+..|+...... .|.  ...+..+-.++.+
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHH
Confidence            34566788899999999999999974  544355556668899999999999998554431 121  2356778888999


Q ss_pred             cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 038237           95 LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                      .|++++|...|++.......|....              ..+...-.++.+.|+.++|..+|+++...  .|+...+..|
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~--------------da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACAR--------------AIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHH--------------HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccH--------------HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            9999999999999875433253211              01122333455699999999999999885  4554444333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.11  E-value=0.00055  Score=52.45  Aligned_cols=155  Identities=10%  Similarity=-0.021  Sum_probs=83.6

Q ss_pred             cHHHHhhhcCC-CChhHHHHHHHHHhc----cCCHHHHHHHhcccCC-CcHHHHHHHHHHHHh----cCcHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN-KDVISYTAIVSGYIN----REQVDIARQCFDQMPE-RDYVLWTTMIDGYLR----VNRFREALTLFQE   72 (181)
Q Consensus         3 ~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~   72 (181)
                      +|.++|++..+ .+...+..+-..+..    .++.++|.+.|+...+ .+...+..+-..|..    .++.++|++.|++
T Consensus       205 ~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~  284 (490)
T 2xm6_A          205 ISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRK  284 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Confidence            34444443322 233344444444443    5566666666665543 344455555555555    5666777777766


Q ss_pred             HHHcCCCccHHHHHHHHHHHHcc-----CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh------------------
Q 038237           73 IQTSNIMGDEFTIVSILTARANL-----GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK------------------  129 (181)
Q Consensus        73 m~~~~~~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~------------------  129 (181)
                      ..+.|   +...+..+-..+...     ++.++|...++...+.|..   ..+..|-..|..                  
T Consensus       285 a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~~~---~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~  358 (490)
T 2xm6_A          285 SAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQGDA---TAQANLGAIYFRLGSEEEHKKAVEWFRKAA  358 (490)
T ss_dssp             HHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHSCCHHHHHHHHHHHHHHH
T ss_pred             HHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCcccHHHHHHHHHHHH
Confidence            65543   333444445555544     6667777777666655422   222223222222                  


Q ss_pred             -cCchHhHHHHHHHHHH----cCChhHHHHHHHHHHHcC
Q 038237          130 -CTVKFTWTTMIVGLAI----SGNGDKALDMFSQMLRAS  163 (181)
Q Consensus       130 -~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  163 (181)
                       .++...+..+-..|..    .+++++|.++|++..+.|
T Consensus       359 ~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          359 AKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             HTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC
Confidence             1256666666666666    677777777777777654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.11  E-value=5.6e-05  Score=54.10  Aligned_cols=134  Identities=9%  Similarity=0.016  Sum_probs=96.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC-------C--cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc-cHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE-------R--DYVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG-DEF   83 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~   83 (181)
                      .|......|...|++++|.+.|++...       +  ...+|+.+-..|.+.|++++|+..|++..+.    |-.+ -..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            466677778888999888888876643       1  2457888999999999999999999887642    2111 135


Q ss_pred             HHHHHHHHHHcc-CCcchHHHHHHHHHHcCCCc-chHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           84 TIVSILTARANL-GALELGEWIKTYIDKNKVKN-DIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        84 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +++.+-..+... |++++|...+++..+..... +...            ...+|+.+...+.+.|++++|.+.|++..+
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~------------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  186 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVAL------------SNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHH------------HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            778888888885 99999999998877642110 1000            022455666777779999999999999998


Q ss_pred             cC
Q 038237          162 AS  163 (181)
Q Consensus       162 ~~  163 (181)
                      ..
T Consensus       187 ~~  188 (292)
T 1qqe_A          187 SS  188 (292)
T ss_dssp             TT
T ss_pred             HH
Confidence            64

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.10  E-value=3.1e-05  Score=49.24  Aligned_cols=93  Identities=10%  Similarity=0.002  Sum_probs=69.6

Q ss_pred             HhcccCCC---cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           38 CFDQMPER---DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        38 ~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      .|++....   +...+..+-..+.+.|++++|...|++.....- .+...|..+-.++.+.|++++|...++........
T Consensus         6 ~l~~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~   84 (142)
T 2xcb_A            6 TLAMLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN   84 (142)
T ss_dssp             ---CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hHHHHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence            44555542   445566677788899999999999999887532 36677888888999999999999999999887543


Q ss_pred             cchHHHHHHHHHhHhcCc
Q 038237          115 NDIFAGNALIDMYCKCTV  132 (181)
Q Consensus       115 ~~~~~~~~ll~~~~~~~~  132 (181)
                       +...+..+-..|...|+
T Consensus        85 -~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           85 -EPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             -CTHHHHHHHHHHHHTTC
T ss_pred             -CcHHHHHHHHHHHHcCC
Confidence             55667777777877773

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.09  E-value=6.7e-05  Score=47.73  Aligned_cols=134  Identities=11%  Similarity=0.022  Sum_probs=98.5

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-----Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc-cH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-----RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG-DE   82 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~   82 (181)
                      .++..+-..+...|++++|.+.+++..+     ++    ..++..+-..+...|++++|.+.+++..+.    +-.+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            3577788889999999999999988764     11    246888888999999999999999987642    1111 14


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNKVK-NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ..+..+-..+...|++++|...+++..+.... .+...            ....+..+-..+...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~------------~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIG------------EGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHh------------HHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            56777888889999999999999887754111 11110            122455666777789999999999998765


Q ss_pred             c
Q 038237          162 A  162 (181)
Q Consensus       162 ~  162 (181)
                      .
T Consensus       158 ~  158 (164)
T 3ro3_A          158 I  158 (164)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.07  E-value=0.0001  Score=52.65  Aligned_cols=121  Identities=12%  Similarity=-0.044  Sum_probs=92.6

Q ss_pred             ccHHHHhhhcCC--CChhHHHHHHHHHhccCCHHHHHHHhcccCCC-c----HHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVISYTAIVSGYINREQVDIARQCFDQMPER-D----YVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      ++|.++|+....  |+......+-..+.+.+++++|+..|+...+. +    ...+..+-.++.+.|++++|++.|++..
T Consensus       119 ~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~  198 (282)
T 4f3v_A          119 ADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALFTEAERRLTEAN  198 (282)
T ss_dssp             HHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            678999998864  64445566667889999999999999977652 2    3467778889999999999999999987


Q ss_pred             HcCCCcc--HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           75 TSNIMGD--EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        75 ~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      .....|.  .......-.++.+.|+.++|..+|+++......  ...+..|.
T Consensus       199 ~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~--~~~~~aL~  248 (282)
T 4f3v_A          199 DSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE--PKVAAALK  248 (282)
T ss_dssp             TSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC--HHHHHHHH
T ss_pred             cCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc--HHHHHHHh
Confidence            5444254  345566777888999999999999999987544  44444443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.06  E-value=2.8e-05  Score=56.10  Aligned_cols=132  Identities=5%  Similarity=-0.122  Sum_probs=86.7

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-------C--cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc-cH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-------R--DYVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG-DE   82 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~   82 (181)
                      .+|+.+...|.+.|++++|.+.|++...       +  -..++..+-..|.. |++++|++.|++..+.    +-.+ ..
T Consensus        77 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~  155 (307)
T 2ifu_A           77 KAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAA  155 (307)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHH
Confidence            3577777788888888777777765532       1  23466777777777 8888888888876542    1111 13


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      .++..+-..+.+.|++++|...+++.......... .+ .         ....+..+...+...|++++|...|++..
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~-~---------~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMEN-YP-T---------CYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HH-H---------HHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCC-hh-H---------HHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            56777778888888888888888877753111000 00 0         01234455566666899999999999988

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.06  E-value=6.1e-05  Score=46.26  Aligned_cols=104  Identities=9%  Similarity=0.001  Sum_probs=84.5

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--Ccc----HHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI--MGD----EFTIVS   87 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~~   87 (181)
                      ..|..+...+.+.|++++|...|+....   .+...+..+...+...|++++|...+++.....-  .++    ...+..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            4677888899999999999999998763   4777888999999999999999999999876431  122    677888


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHH
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVKNDIFAGNA  122 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  122 (181)
                      +...+.+.|++++|...++...+...  +......
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~  117 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHR--TPDVLKK  117 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC--CHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCC--CHHHHHH
Confidence            88999999999999999999988643  4444333

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.06  E-value=6.3e-05  Score=50.48  Aligned_cols=127  Identities=12%  Similarity=-0.008  Sum_probs=84.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-Ccc-------------
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI-MGD-------------   81 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~-------------   81 (181)
                      .+..+......|+++++.+.|+.-..   .....+..+-..+.+.|++++|.+.|++..+..- .|+             
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~   86 (198)
T 2fbn_A            7 HHHHSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNI   86 (198)
T ss_dssp             ---------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHH
T ss_pred             ccchhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHH
Confidence            34455666777888888888874433   2555677888889999999999999999886421 121             


Q ss_pred             -HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           82 -EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        82 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                       ...+..+..++.+.|++++|...++...+.... +..                .|..+-.++...|++++|.+.|++..
T Consensus        87 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~----------------~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           87 EISCNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVK----------------ALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHH----------------HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-cHH----------------HHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             267888889999999999999999999886322 222                34445555666999999999999987


Q ss_pred             Hc
Q 038237          161 RA  162 (181)
Q Consensus       161 ~~  162 (181)
                      +.
T Consensus       150 ~~  151 (198)
T 2fbn_A          150 SL  151 (198)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.05  E-value=1.3e-05  Score=49.24  Aligned_cols=86  Identities=9%  Similarity=0.013  Sum_probs=43.8

Q ss_pred             cCcHHHHHHHHHHHHHcC--CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHH
Q 038237           60 VNRFREALTLFQEIQTSN--IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWT  137 (181)
Q Consensus        60 ~~~~~~a~~~~~~m~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~  137 (181)
                      .|++++|+..|++..+.+  -+-+...+..+-..+.+.|++++|...+++..+.... +..                .+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~----------------~~~   65 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQA----------------LRV   65 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH----------------HHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chH----------------HHH
Confidence            355666666666665543  1223345555666666666666666666666655322 122                222


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          138 TMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       138 ~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .+..++.+.|++++|.+.|++....
T Consensus        66 ~l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           66 FYAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333344466666666666666544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.02  E-value=0.00055  Score=42.97  Aligned_cols=99  Identities=10%  Similarity=-0.004  Sum_probs=79.9

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc----HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHH
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD----EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAG  120 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  120 (181)
                      .+...+..+...+.+.|++++|.+.|++..+.  .|+    ...+..+...+...|++++|...++...+.... +... 
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~-  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKA-  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHH-
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHH-
Confidence            46778888999999999999999999998875  355    677888888999999999999999998876332 2333 


Q ss_pred             HHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          121 NALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       121 ~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                     |..+...+.+.|++++|.+.|++....
T Consensus       102 ---------------~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          102 ---------------LYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             ---------------HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                           334445556699999999999999875

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.01  E-value=0.00013  Score=48.53  Aligned_cols=93  Identities=11%  Similarity=-0.057  Sum_probs=48.3

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC-----C-c----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCC-ccH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE-----R-D----YVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIM-GDE   82 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~-----~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~   82 (181)
                      ++..+-..+...|++++|.+.+++...     + +    ...+..+-..+...|++++|.+.+++....    +-. .-.
T Consensus        68 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  147 (203)
T 3gw4_A           68 ALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIA  147 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHH
Confidence            455555566666666666666555432     1 1    223555555666666666666666665421    111 011


Q ss_pred             HHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           83 FTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      .++..+-..+...|++++|...+++..+
T Consensus       148 ~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          148 CAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2244555555666666666666555543

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.99  E-value=0.00014  Score=49.58  Aligned_cols=150  Identities=12%  Similarity=-0.072  Sum_probs=107.9

Q ss_pred             ccHHHHhhhcCC-CChhHHHHHHHHHhccC----CHHHHHHHhcccCCC-cHHHHHHHHHHHHh----cCcHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN-KDVISYTAIVSGYINRE----QVDIARQCFDQMPER-DYVLWTTMIDGYLR----VNRFREALTLFQ   71 (181)
Q Consensus         2 ~~a~~~~~~~~~-~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~   71 (181)
                      ++|+++|++..+ -++..+..+-..|.+ +    +.++|.+.|+...++ ++.++..|-..|..    .+++++|++.|+
T Consensus        35 ~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  113 (212)
T 3rjv_A           35 QKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAGSKSGEIVLARVLVNRQAGATDVAHAITLLQ  113 (212)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCccCHHHHHHHHH
Confidence            467778877654 356677777777877 6    899999999988754 77778888888877    789999999999


Q ss_pred             HHHHcCCC-ccHHHHHHHHHHHHc----cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHH--
Q 038237           72 EIQTSNIM-GDEFTIVSILTARAN----LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLA--  144 (181)
Q Consensus        72 ~m~~~~~~-p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~--  144 (181)
                      +..+.|.. .+...+..+-..+..    .+++++|...|+...+.+  .+...+..|-..|....            .  
T Consensus       114 ~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~------------gg~  179 (212)
T 3rjv_A          114 DAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGE------------KGF  179 (212)
T ss_dssp             HHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCB------------TTT
T ss_pred             HHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCC------------CCC
Confidence            99887642 125667777777777    778999999999988762  12223333333332210            0  


Q ss_pred             HcCChhHHHHHHHHHHHcCCCC
Q 038237          145 ISGNGDKALDMFSQMLRASIKP  166 (181)
Q Consensus       145 ~~~~~~~a~~~~~~m~~~~~~p  166 (181)
                      ...+.++|.++|++..+.|...
T Consensus       180 ~~~d~~~A~~~~~~A~~~g~~~  201 (212)
T 3rjv_A          180 IEPNKQKALHWLNVSCLEGFDT  201 (212)
T ss_dssp             BCCCHHHHHHHHHHHHHHTCHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHH
Confidence            0238999999999999887543

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.99  E-value=5e-05  Score=47.48  Aligned_cols=102  Identities=11%  Similarity=0.066  Sum_probs=80.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC--CCcc----HHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN--IMGD----EFTIVSI   88 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~l   88 (181)
                      .+..+-..+.+.|++++|.+.|++..+   .+...|..+-..|.+.|++++|++.|++..+..  ..++    ..+|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            567788899999999999999998764   478889999999999999999999999886532  1111    2356677


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcCCCcchHHHH
Q 038237           89 LTARANLGALELGEWIKTYIDKNKVKNDIFAGN  121 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  121 (181)
                      -.++...|++++|...|++.....  |+..+..
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~~~--~~~~~~~  120 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLSEF--RDPELVK  120 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS--CCHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC--cCHHHHH
Confidence            778889999999999999887753  4444433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.98  E-value=0.00067  Score=51.96  Aligned_cols=16  Identities=19%  Similarity=0.227  Sum_probs=7.3

Q ss_pred             cCChhHHHHHHHHHHH
Q 038237          146 SGNGDKALDMFSQMLR  161 (181)
Q Consensus       146 ~~~~~~a~~~~~~m~~  161 (181)
                      .++.++|.++|++..+
T Consensus       272 ~~d~~~A~~~~~~a~~  287 (490)
T 2xm6_A          272 AKEPLKALEWYRKSAE  287 (490)
T ss_dssp             SCCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            4444444444444443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.93  E-value=0.00046  Score=47.27  Aligned_cols=144  Identities=8%  Similarity=-0.078  Sum_probs=96.6

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC--Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH----HH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE--RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEF----TI   85 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~   85 (181)
                      ...+..+...+.+.|++++|...|+++..  |+    ...+..+...+.+.|++++|+..|++..+..  |+..    .+
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHHH
Confidence            34556667788899999999999999874  32    3577888899999999999999999988743  3321    23


Q ss_pred             HHHHHHHH------------------ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-chHhHHHHHHHHHHc
Q 038237           86 VSILTARA------------------NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-VKFTWTTMIVGLAIS  146 (181)
Q Consensus        86 ~~l~~~~~------------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~~~~li~~~~~~  146 (181)
                      ..+-.++.                  ..|+.++|...|+.+.+.... +...+..+...-...+ .....-.+...|.+.
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~  160 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRLVFLKDRLAKYEYSVAEYYTER  160 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            33333333                  357889999999999876332 2222222211100000 111223455667889


Q ss_pred             CChhHHHHHHHHHHHc
Q 038237          147 GNGDKALDMFSQMLRA  162 (181)
Q Consensus       147 ~~~~~a~~~~~~m~~~  162 (181)
                      |++++|...|+++.+.
T Consensus       161 ~~~~~A~~~~~~~l~~  176 (225)
T 2yhc_A          161 GAWVAVVNRVEGMLRD  176 (225)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHH
Confidence            9999999999999875

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.92  E-value=2.2e-05  Score=60.02  Aligned_cols=111  Identities=8%  Similarity=-0.002  Sum_probs=87.1

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCC--C-c---------------HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPE--R-D---------------YVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      ...|..+-..+.+.|++++|...|++..+  | +               ...|..+-.+|.+.|++++|+..|++..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            34677888999999999999999998864  3 3               5789999999999999999999999998854


Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYC  128 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  128 (181)
                      - -+...|..+-.++...|++++|...|++..+.... +...+..+-..+.
T Consensus       348 p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~  396 (457)
T 1kt0_A          348 S-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQK  396 (457)
T ss_dssp             T-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHH
T ss_pred             C-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            2 36788888999999999999999999999876432 3334444444433

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=97.90  E-value=0.0006  Score=43.68  Aligned_cols=99  Identities=11%  Similarity=0.028  Sum_probs=78.7

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      ....+..+-..+...|++++|...|++..+..- .+...+..+...+...|++++|...++...+.... +..       
T Consensus        12 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~-------   82 (166)
T 1a17_A           12 RAEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIK-------   82 (166)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH-------
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHH-------
Confidence            345677788889999999999999999887532 36778888899999999999999999998876432 222       


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                               .|..+...+.+.|++++|.+.|++..+.
T Consensus        83 ---------~~~~~a~~~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           83 ---------GYYRRAASNMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             ---------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence                     3444555566699999999999999875

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.89  E-value=0.0011  Score=47.93  Aligned_cols=159  Identities=5%  Similarity=-0.082  Sum_probs=114.2

Q ss_pred             ccHHHHhhhcCC--CC-hhHHHHHHHHH----hcc---CCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHH--HH
Q 038237            2 GFTLEIFGTMKN--KD-VISYTAIVSGY----INR---EQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFR--EA   66 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~-~~~~~~li~~~----~~~---~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~--~a   66 (181)
                      +++++.++....  |. ..+|+---..+    .+.   ++++++.++++.+.+   .+..+|+.--..+.+.|+++  ++
T Consensus        86 ~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~E  165 (306)
T 3dra_A           86 YDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKE  165 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHH
T ss_pred             HHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHH
Confidence            355666665543  43 33455433333    444   788999999988874   58888888877788888888  99


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHccCC------cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------
Q 038237           67 LTLFQEIQTSNIMGDEFTIVSILTARANLGA------LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------  131 (181)
Q Consensus        67 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------  131 (181)
                      ++.++++.+.... |...|+--.....+.++      ++++.+.++..+...+. |...|+.+-..+.+.|         
T Consensus       166 L~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~  243 (306)
T 3dra_A          166 LSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEF  243 (306)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHH
Confidence            9999999987665 77888766666666665      67777777777776544 6666665554444333         


Q ss_pred             -------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 -------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 -------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                   +...+..+...+.+.|+.++|.++++.+.++
T Consensus       244 ~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~  287 (306)
T 3dra_A          244 SLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSK  287 (306)
T ss_dssp             HHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence                         4577888999999999999999999999864

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.89  E-value=0.00023  Score=43.95  Aligned_cols=92  Identities=17%  Similarity=0.044  Sum_probs=48.0

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC
Q 038237           52 TMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT  131 (181)
Q Consensus        52 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (181)
                      .+-..+.+.|++++|...|++..+..- -+...|..+-.++.+.|++++|...+++..+.... +...+.          
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~----------   89 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHA----------   89 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH----------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHH----------
Confidence            344455556666666666666555321 14455555555666666666666666665554322 222222          


Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                            .+-..+.+.|++++|.+.|++..+
T Consensus        90 ------~la~~~~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           90 ------ALAVSHTNEHNANAALASLRAWLL  113 (121)
T ss_dssp             ------HHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ------HHHHHHHHcCCHHHHHHHHHHHHH
Confidence                  223333336666666666666554

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.88  E-value=4.1e-05  Score=58.88  Aligned_cols=119  Identities=13%  Similarity=0.026  Sum_probs=87.2

Q ss_pred             HHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcc
Q 038237           23 VSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALE   99 (181)
Q Consensus        23 i~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~   99 (181)
                      -..+.+.|++++|.+.|++..+   .+...|..+-..|.+.|++++|.+.+++..+..- -+...+..+-.++.+.|+++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence            3456688999999999998764   4688999999999999999999999999988642 35678888999999999999


Q ss_pred             hHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHH
Q 038237          100 LGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFS  157 (181)
Q Consensus       100 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  157 (181)
                      +|...+++..+.... +...+..+-.+              ..+.+.|++++|.+.++
T Consensus        92 eA~~~~~~al~~~p~-~~~~~~~l~~~--------------~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPH-DKDAKMKYQEC--------------NKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTT-CTTHHHHHHHH--------------HHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHH--------------HHHHHHHHHHHHhcccc
Confidence            999999999886432 22222222211              12444788888888887

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.87  E-value=7.5e-05  Score=46.24  Aligned_cols=93  Identities=6%  Similarity=-0.075  Sum_probs=79.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+..+...+.+.|++++|...|+...+   .+...|..+-..+...|++++|+..|++..+..- -+...+..+...+.+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTN   97 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            456667788899999999999999874   4788899999999999999999999999887542 256788888999999


Q ss_pred             cCCcchHHHHHHHHHHc
Q 038237           95 LGALELGEWIKTYIDKN  111 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~~  111 (181)
                      .|++++|...++...+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999988765

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.86  E-value=0.00091  Score=53.68  Aligned_cols=172  Identities=7%  Similarity=0.022  Sum_probs=98.5

Q ss_pred             ccHH-HHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC-------------C------------cHHHHHH
Q 038237            2 GFTL-EIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE-------------R------------DYVLWTT   52 (181)
Q Consensus         2 ~~a~-~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-------------~------------~~~~~~~   52 (181)
                      ++|. ++|++...  | +...|-..+...-+.|+++.|.++|+.+..             |            ....|-.
T Consensus       360 ~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~  439 (679)
T 4e6h_A          360 STVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCV  439 (679)
T ss_dssp             TTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHH
Confidence            3454 66665443  4 333456666677777777777777777653             2            1224666


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHc-C-CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc
Q 038237           53 MIDGYLRVNRFREALTLFQEIQTS-N-IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC  130 (181)
Q Consensus        53 li~~~~~~~~~~~a~~~~~~m~~~-~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (181)
                      .+....+.|..+.|.++|.+..+. + ..+......+.+.-.. .++.+.|..+|+...+. ++-+...|...+......
T Consensus       440 y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~  517 (679)
T 4e6h_A          440 YMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYV  517 (679)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhC
Confidence            666666667777788888777664 2 1222222222222211 24477777777777765 233444555555544333


Q ss_pred             C---------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 038237          131 T---------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSA  177 (181)
Q Consensus       131 ~---------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  177 (181)
                      |                     ....|...+.--.+.|+.+.+..+.+++.+.  .|+......+++-
T Consensus       518 ~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~r  583 (679)
T 4e6h_A          518 NEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNK  583 (679)
T ss_dssp             TCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHH
Confidence            2                     2345666666667777777777777777765  3444444444443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=97.86  E-value=0.00017  Score=57.79  Aligned_cols=129  Identities=9%  Similarity=-0.023  Sum_probs=99.4

Q ss_pred             hccCCHHHHHHHhcccC-----------CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHcc
Q 038237           27 INREQVDIARQCFDQMP-----------ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANL   95 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~   95 (181)
                      ...|++++|.+.+++..           ..+...+..+-..+.+.|++++|.+.|++..+..- -+...|..+-.++.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHc
Confidence            78899999999999876           24677888999999999999999999999887532 2567888888999999


Q ss_pred             CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-ChhhHHHH
Q 038237           96 GALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP-DEVAYVGV  174 (181)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~l  174 (181)
                      |++++|...|++..+.... +..                .|..+-..+.+.|++++ .+.|++..+.  .| +...|..+
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~----------------~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~l  540 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELA----------------PKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGL  540 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSH----------------HHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChH----------------HHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHH
Confidence            9999999999999887543 233                33444445556999999 9999998874  23 33444444


Q ss_pred             Hh
Q 038237          175 LS  176 (181)
Q Consensus       175 i~  176 (181)
                      -.
T Consensus       541 g~  542 (681)
T 2pzi_A          541 AR  542 (681)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.85  E-value=7.8e-05  Score=45.65  Aligned_cols=99  Identities=13%  Similarity=0.009  Sum_probs=64.4

Q ss_pred             ccCCHHHHHHHhcccCCC------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchH
Q 038237           28 NREQVDIARQCFDQMPER------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELG  101 (181)
Q Consensus        28 ~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  101 (181)
                      ..|++++|...|++..+.      +...|..+-..|.+.|++++|.+.|++..+..-. +...+..+..++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            346677777777776543      3456777777888888888888888888775422 466777788888888888888


Q ss_pred             HHHHHHHHHcC-CCcchHHHHHHHHHh
Q 038237          102 EWIKTYIDKNK-VKNDIFAGNALIDMY  127 (181)
Q Consensus       102 ~~~~~~~~~~~-~~~~~~~~~~ll~~~  127 (181)
                      ...++...... -.|+...|...+..|
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~  107 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFY  107 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            88888877652 233333343333333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.85  E-value=0.002  Score=45.81  Aligned_cols=140  Identities=9%  Similarity=-0.064  Sum_probs=69.9

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCC--C-c------HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC---Ccc--HHHHH
Q 038237           21 AIVSGYINREQVDIARQCFDQMPE--R-D------YVLWTTMIDGYLRVNRFREALTLFQEIQTSNI---MGD--EFTIV   86 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~--~-~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~   86 (181)
                      ..+..+...|++++|.+.+++..+  + .      ...+..+...+...|++++|+..|++..+...   .+.  ..+++
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            344555566666666666553321  1 1      11122333444555666666666666543211   111  23555


Q ss_pred             HHHHHHHccCCcchHHHHHHHHHHc----CCCc--chHHHHHHHHHhHhcC------------------------chHhH
Q 038237           87 SILTARANLGALELGEWIKTYIDKN----KVKN--DIFAGNALIDMYCKCT------------------------VKFTW  136 (181)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~ll~~~~~~~------------------------~~~~~  136 (181)
                      .+-..+...|++++|...+++..+.    +-.+  ...++..+-..|...|                        -..+|
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~  239 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            6666666666666666666655521    1111  1123444444444333                        13455


Q ss_pred             HHHHHHHHHcCChhHH-HHHHHHHH
Q 038237          137 TTMIVGLAISGNGDKA-LDMFSQML  160 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a-~~~~~~m~  160 (181)
                      ..+-..|.+.|+.++| ...+++..
T Consensus       240 ~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5666666677777777 66566543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.85  E-value=0.0007  Score=45.82  Aligned_cols=92  Identities=12%  Similarity=0.082  Sum_probs=68.1

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHH----------------HHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           52 TMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVS----------------ILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        52 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      .....+.+.|++++|...|++..+..  |+ ...|..                +-..+.+.|++++|...++...+....
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~   86 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPN   86 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
Confidence            34456778999999999999988753  43 345555                788899999999999999999887543


Q ss_pred             cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          115 NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       115 ~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                       +...+..                +-..+...|++++|.+.|++..+.
T Consensus        87 -~~~~~~~----------------lg~~~~~~g~~~~A~~~~~~al~~  117 (208)
T 3urz_A           87 -NVDCLEA----------------CAEMQVCRGQEKDALRMYEKILQL  117 (208)
T ss_dssp             -CHHHHHH----------------HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -CHHHHHH----------------HHHHHHHcCCHHHHHHHHHHHHHc
Confidence             3344444                444455588888888888888764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.84  E-value=0.0013  Score=40.28  Aligned_cols=54  Identities=11%  Similarity=0.047  Sum_probs=25.0

Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccH----HHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           56 GYLRVNRFREALTLFQEIQTSNIMGDE----FTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        56 ~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .+.+.|++++|.+.|++..+..  |+.    ..+..+-..+.+.|++++|...++...+.
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~   68 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR   68 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            3444455555555555544421  111    23344444445555555555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.83  E-value=0.0002  Score=44.08  Aligned_cols=92  Identities=11%  Similarity=0.050  Sum_probs=75.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC--Cc-H---HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc----HHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE--RD-Y---VLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD----EFTIVSI   88 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~--~~-~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l   88 (181)
                      +..+...+.+.|++++|.+.|+...+  |+ .   ..+..+-..+.+.|++++|...|++..+..  |+    ...+..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHH
Confidence            34456677889999999999998764  43 3   477788889999999999999999988753  33    5667788


Q ss_pred             HHHHHccCCcchHHHHHHHHHHcC
Q 038237           89 LTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..++.+.|++++|...++...+..
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            889999999999999999998874

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.79  E-value=0.00017  Score=55.67  Aligned_cols=123  Identities=8%  Similarity=-0.083  Sum_probs=92.1

Q ss_pred             HHhccCCHHHHHHHhcccCC-------C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-----cC-CCccH-HHHH
Q 038237           25 GYINREQVDIARQCFDQMPE-------R----DYVLWTTMIDGYLRVNRFREALTLFQEIQT-----SN-IMGDE-FTIV   86 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~~-~~~~   86 (181)
                      .+-..|++++|..++++...       +    ...+++.|...|...|++++|..++++..+     .| -.|++ .+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            35678999999988877642       2    445799999999999999999999998754     22 23444 6789


Q ss_pred             HHHHHHHccCCcchHHHHHHHHHH-----cCCC-cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           87 SILTARANLGALELGEWIKTYIDK-----NKVK-NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~-~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      .|-..|...|++++|..++++...     .|.. |++..               +.+.+-.++...+.+++|+.+|++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~---------------~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKD---------------LEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999987764     2322 22221               22445556666889999999999998


Q ss_pred             Hc
Q 038237          161 RA  162 (181)
Q Consensus       161 ~~  162 (181)
                      +.
T Consensus       463 ~~  464 (490)
T 3n71_A          463 EA  464 (490)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=97.78  E-value=0.001  Score=48.60  Aligned_cols=100  Identities=9%  Similarity=-0.006  Sum_probs=80.4

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--------------HHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD--------------EFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      +...|..+-..+.+.|++++|+..|++..+..-...              ...|..+-.++.+.|++++|...++...+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            566788889999999999999999999887542211              478899999999999999999999999886


Q ss_pred             CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          112 KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       112 ~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ... +..                .|..+-.+|.+.|++++|.+.|++..+.
T Consensus       226 ~p~-~~~----------------a~~~lg~~~~~~g~~~~A~~~~~~al~l  259 (336)
T 1p5q_A          226 DSN-NEK----------------GLSRRGEAHLAVNDFELARADFQKVLQL  259 (336)
T ss_dssp             CTT-CHH----------------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCC-cHH----------------HHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            432 233                4445555666699999999999999875

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.75  E-value=0.00086  Score=43.26  Aligned_cols=97  Identities=12%  Similarity=0.054  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHc--------C---------CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTS--------N---------IMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .+...-..+.+.|++++|+..|.+....        .         -+-+...|..+..++.+.|++++|...++.....
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3444445555556666666655554432        0         0112245666666666677777777766666655


Q ss_pred             CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          112 KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       112 ~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ... +..                .|..+-.+|...|++++|.+.|++....
T Consensus        93 ~p~-~~~----------------a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           93 EET-NEK----------------ALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             STT-CHH----------------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCc-chH----------------HHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            322 122                2333344444467777777777666653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=97.73  E-value=0.001  Score=47.33  Aligned_cols=96  Identities=8%  Similarity=-0.031  Sum_probs=73.6

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...+..+...+.+.|++++|...|++...  | +...|..+-..|.+.|++++|.+.+++..+.. +-+...+..+-.+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            345667777888888888888888887753  3 67778888888888888888888888877643 2245677778888


Q ss_pred             HHccCCcchHHHHHHHHHHc
Q 038237           92 RANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~  111 (181)
                      +.+.|++++|...++...+.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888877664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.72  E-value=0.0022  Score=47.04  Aligned_cols=143  Identities=7%  Similarity=-0.063  Sum_probs=92.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC----------C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC----ccHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE----------R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM----GDEF   83 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----p~~~   83 (181)
                      +..+-..+...|++++|.+.+++...          + ....+..+-..+...|++++|...+++.....-.    ....
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            55666778888998888888877642          1 2234566777788889999999988887653211    1235


Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHHcCCCc-chHHHH-----HHHHHhHhcC----------------------chHh
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDKNKVKN-DIFAGN-----ALIDMYCKCT----------------------VKFT  135 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~-----~ll~~~~~~~----------------------~~~~  135 (181)
                      ++..+...+...|++++|...+++.......+ ....+.     .....+...|                      ....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            56677778888899999988888876542111 111111     1222233433                      0223


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +..+...+...|++++|.+.+++...
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55667778888888888888888754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.71  E-value=0.0009  Score=49.10  Aligned_cols=144  Identities=10%  Similarity=-0.095  Sum_probs=97.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC--C------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHH-
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE--R------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD--EFTIV-   86 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~--~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~-   86 (181)
                      .+..+-..+...|++++|...+++...  +      ...++..+...+...|++++|...+++.....-.++  ..... 
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~  216 (373)
T 1hz4_A          137 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISN  216 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHH
Confidence            466677888999999999999987642  1      234677788888999999999999998865321111  11111 


Q ss_pred             ---HHHHHHHccCCcchHHHHHHHHHHcCCCc---chHHHHHHHHHhHhcC-----------------------c-hHhH
Q 038237           87 ---SILTARANLGALELGEWIKTYIDKNKVKN---DIFAGNALIDMYCKCT-----------------------V-KFTW  136 (181)
Q Consensus        87 ---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~~~-----------------------~-~~~~  136 (181)
                         .....+...|++++|...++........+   ....+..+...+...|                       + ...+
T Consensus       217 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  296 (373)
T 1hz4_A          217 ANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNL  296 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHH
Confidence               23344678999999999998877543221   1223445555555555                       1 1255


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          137 TTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       137 ~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ..+-..+...|+.++|.+.+++...
T Consensus       297 ~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          297 LLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6667778899999999999988754

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=97.69  E-value=0.00023  Score=51.28  Aligned_cols=133  Identities=10%  Similarity=-0.010  Sum_probs=95.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCC---------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc-cHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPER---------DYVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG-DEF   83 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~   83 (181)
                      .|......|...|++++|.+.|.+...-         -..+|+.+...|.+.|++++|+..|++..+.    |-.. -..
T Consensus        38 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  117 (307)
T 2ifu_A           38 EYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAM  117 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4777778888899999998888876531         2447888888999999999999999886542    2111 135


Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ++..+-..+.+ |++++|...+++........+...  .         ...+++.+-..|.+.|++++|.+.|++....
T Consensus       118 ~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~--~---------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  184 (307)
T 2ifu_A          118 ALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLR--Q---------AAELIGKASRLLVRQQKFDEAAASLQKEKSM  184 (307)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHH--H---------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChh--H---------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            67778888888 999999999988775311100000  0         1235566777778899999999999998763

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=97.65  E-value=0.00049  Score=48.96  Aligned_cols=75  Identities=15%  Similarity=0.102  Sum_probs=63.5

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++...  | +...|..+-.++.+.|++++|.+.++...+   .+...+..+-.++...|++++|...|++..+
T Consensus        21 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           21 PEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467777776543  5 667789999999999999999999999875   3677899999999999999999999999876


Q ss_pred             c
Q 038237           76 S   76 (181)
Q Consensus        76 ~   76 (181)
                      .
T Consensus       101 l  101 (281)
T 2c2l_A          101 L  101 (281)
T ss_dssp             H
T ss_pred             h
Confidence            3

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.60  E-value=0.00072  Score=50.25  Aligned_cols=105  Identities=8%  Similarity=0.016  Sum_probs=84.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC-------------------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE-------------------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI   78 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~-------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   78 (181)
                      .+..+-..+.+.|++++|.+.|++..+                   .+...|..+-..|.+.|++++|++.+++..+..-
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            467778889999999999999988764                   2456788899999999999999999999987542


Q ss_pred             CccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           79 MGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        79 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                       -+...+..+-.++.+.|++++|...+++..+.... +...+..+-
T Consensus       305 -~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~  348 (370)
T 1ihg_A          305 -SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELL  348 (370)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             -hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence             25678888899999999999999999999876432 333333333

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.59  E-value=0.0012  Score=42.61  Aligned_cols=95  Identities=16%  Similarity=0.133  Sum_probs=80.0

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCCC---------------------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPER---------------------DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ..+...-..+.+.|++++|...|+....-                     +...|..+-.+|.+.|++++|+..+++..+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            45677788899999999999999887531                     335788889999999999999999999987


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      .. +-+...|..+-.++...|++++|...++......
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            64 2356788899999999999999999999998874

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.52  E-value=0.00025  Score=51.97  Aligned_cols=129  Identities=13%  Similarity=0.091  Sum_probs=78.0

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC--CcHH------------------HHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE--RDYV------------------LWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      ..+..+-..+.+.|++++|...|+....  |+..                  .|..+-..|.+.|++++|+..+++..+.
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  259 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTE  259 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3467777888899999999999998663  4332                  7888889999999999999999998875


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      . +-+...|..+-.++...|++++|...|+...+.... +...+..|....               ....+..+++..+|
T Consensus       260 ~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~---------------~~~~~~~~~a~~~~  322 (338)
T 2if4_A          260 E-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALA---------------EQEKALYQKQKEMY  322 (338)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------------------
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH---------------HHHHHHHHHHHHHH
Confidence            3 236788889999999999999999999988765322 222333322221               12256777888888


Q ss_pred             HHHHHc
Q 038237          157 SQMLRA  162 (181)
Q Consensus       157 ~~m~~~  162 (181)
                      ++|...
T Consensus       323 ~~~l~~  328 (338)
T 2if4_A          323 KGIFKG  328 (338)
T ss_dssp             ------
T ss_pred             HHhhCC
Confidence            888754

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=97.51  E-value=0.012  Score=41.78  Aligned_cols=143  Identities=8%  Similarity=0.000  Sum_probs=95.2

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHH---HHHHHHHHHHhcCcHHHHHHHHHHHHHcC-CCccHH----HH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPERDYV---LWTTMIDGYLRVNRFREALTLFQEIQTSN-IMGDEF----TI   85 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~----~~   85 (181)
                      |+..+...+...+.-.-     ..++..-...+..   .+...+..+...|++++|.+++++..+.. ..|+..    .+
T Consensus        44 ~~~~~l~~i~~~l~~~~-----~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~  118 (293)
T 3u3w_A           44 PSMDILQGIAAKLQIPI-----IHFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQ  118 (293)
T ss_dssp             CCHHHHHHHHHHHTCCT-----HHHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhCcCH-----HHHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHH
Confidence            77766666666665332     1233333333333   33345778899999999999999988743 234422    33


Q ss_pred             HHHHHHHHccCCcchHHHHHHHHHHcCCC-cc----hHHHHHHHHHhHhcC-------------------------chHh
Q 038237           86 VSILTARANLGALELGEWIKTYIDKNKVK-ND----IFAGNALIDMYCKCT-------------------------VKFT  135 (181)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~~-------------------------~~~~  135 (181)
                      ..+...+...+++++|...+++..+.... ++    ...++.+-..|...|                         ...+
T Consensus       119 ~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  198 (293)
T 3u3w_A          119 YYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKV  198 (293)
T ss_dssp             HHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHH
Confidence            34666667778999999999999874222 22    235777777776665                         2346


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          136 WTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      |+.+...|.+.|++++|.+.+++..+
T Consensus       199 ~~nlg~~y~~~~~y~~A~~~~~~al~  224 (293)
T 3u3w_A          199 RYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            78888888889999999988887764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.43  E-value=0.006  Score=39.67  Aligned_cols=107  Identities=15%  Similarity=0.161  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-------------HHHHHHHHHHHHccCCcchHHHHHHHHHHc----
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-------------EFTIVSILTARANLGALELGEWIKTYIDKN----  111 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  111 (181)
                      .+...-..+.+.|++++|++.|++..+..  |+             ...|..+-.++.+.|++++|...++..+..    
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEIS--HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH--TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            34455566777888888888888876632  32             237888888889999999999988888764    


Q ss_pred             -CCCcchHHHHHHHHHhHhcCchHhH----HHHHHHHHHcCChhHHHHHHHHHHH-----cCCCCChhhHH
Q 038237          112 -KVKNDIFAGNALIDMYCKCTVKFTW----TTMIVGLAISGNGDKALDMFSQMLR-----ASIKPDEVAYV  172 (181)
Q Consensus       112 -~~~~~~~~~~~ll~~~~~~~~~~~~----~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~t~~  172 (181)
                       ...|+               +...|    ...-.++...|++++|+..|++..+     .|+.+......
T Consensus        91 ~e~~pd---------------~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~  146 (159)
T 2hr2_A           91 GELNQD---------------EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMM  146 (159)
T ss_dssp             CCTTST---------------HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHH
T ss_pred             ccCCCc---------------hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence             11232               22334    5666777789999999999999864     35555544433

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.43  E-value=0.02  Score=43.56  Aligned_cols=154  Identities=14%  Similarity=-0.014  Sum_probs=90.9

Q ss_pred             HHHHhhhcCCCChhHHHHHHHHHhccC---CHHHHHHHhcccCC---CcHHHHHHHHHHHHhc----CcHHHHHHHHHHH
Q 038237            4 TLEIFGTMKNKDVISYTAIVSGYINRE---QVDIARQCFDQMPE---RDYVLWTTMIDGYLRV----NRFREALTLFQEI   73 (181)
Q Consensus         4 a~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~----~~~~~a~~~~~~m   73 (181)
                      +..++......++..+..+-..|.+.|   +.++|.+.|+...+   ++...+..|-..|...    +++++|++.|++.
T Consensus       164 a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~a  243 (452)
T 3e4b_A          164 VERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKI  243 (452)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHH
Confidence            444555555555557777777777777   77788887776653   3444435555555443    5778888888877


Q ss_pred             HHcCCCccHHHHHHHHHH-H--HccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh-------------------cC
Q 038237           74 QTSNIMGDEFTIVSILTA-R--ANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK-------------------CT  131 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------------------~~  131 (181)
                      . .|   +...+..+-.. +  ...+++++|...|++..+.|   +...+..|-..|..                   .|
T Consensus       244 a-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~g  316 (452)
T 3e4b_A          244 A-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYYEGKWVPADAKAAEAHFEKAVGR  316 (452)
T ss_dssp             G-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHTTTTT
T ss_pred             c-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHhCC
Confidence            6 33   33333333333 2  34777888888887777665   22333333333322                   22


Q ss_pred             chHhHHHHHHHHHH----cCChhHHHHHHHHHHHcCC
Q 038237          132 VKFTWTTMIVGLAI----SGNGDKALDMFSQMLRASI  164 (181)
Q Consensus       132 ~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~  164 (181)
                      +...+..+-..|..    ..+.++|.++|++..+.|.
T Consensus       317 ~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          317 EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            45555555555554    2377888888888776654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.41  E-value=0.00057  Score=41.40  Aligned_cols=72  Identities=14%  Similarity=0.070  Sum_probs=34.4

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      .|++.|++...  | +...+..+...+.+.|++++|...|+...+   .+...|..+-..+...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44444444322  2 333444555555555555555555554432   234444455555555555555555555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.39  E-value=0.0041  Score=35.37  Aligned_cols=65  Identities=11%  Similarity=0.094  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           47 YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        47 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ...+..+-..+.+.|++++|...|++..+.. +.+...+..+-..+.+.|++++|...+++..+..
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455556666667777777777777766542 1244556666667777777777777777766653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.39  E-value=0.00083  Score=40.00  Aligned_cols=87  Identities=10%  Similarity=0.156  Sum_probs=58.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-------HHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-------EFT   84 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-------~~~   84 (181)
                      +...|..+-..+.+.|++++|.+.|++..+   .+...|..+-..+.+.|++++|.+.|++..+..  |+       ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHHH
Confidence            345567777778888888888888877653   366777777778888888888888888877642  33       334


Q ss_pred             HHHHHHHHHccCCcchHHH
Q 038237           85 IVSILTARANLGALELGEW  103 (181)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~  103 (181)
                      +..+-.++...|+.+.+..
T Consensus        81 ~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHhHhhhHh
Confidence            4444455555555554433

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.35  E-value=0.0002  Score=55.07  Aligned_cols=104  Identities=13%  Similarity=0.080  Sum_probs=77.9

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++..+  | +...|..+-.++.+.|++++|.+.+++..+   .+..+|..+-..|.+.|++++|.+.|++..+
T Consensus        23 ~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~  102 (477)
T 1wao_1           23 ENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVK  102 (477)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            567777776543  4 567899999999999999999999998864   4678899999999999999999999999887


Q ss_pred             cCCCccHHHHHHHHHH--HHccCCcchHHHHHH
Q 038237           76 SNIMGDEFTIVSILTA--RANLGALELGEWIKT  106 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~  106 (181)
                      ..-. +...+..+-.+  +.+.|++++|...++
T Consensus       103 ~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1          103 VKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             hCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            5311 22344444444  778899999999887

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.35  E-value=0.0046  Score=45.88  Aligned_cols=99  Identities=6%  Similarity=-0.031  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHc--------------CCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           47 YVLWTTMIDGYLRVNRFREALTLFQEIQTS--------------NIMG-DEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        47 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ...+..+-..+.+.|++++|++.|++..+.              ...| +...|..+-.++.+.|++++|...+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            345777888899999999999999988761              0222 4577888889999999999999999999876


Q ss_pred             CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          112 KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       112 ~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ... +                ...|..+-.+|.+.|++++|.+.|++..+.
T Consensus       303 ~p~-~----------------~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          303 DPS-N----------------TKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             CTT-C----------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             Cch-h----------------HHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            422 2                234445555666699999999999999875

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.32  E-value=0.0062  Score=46.47  Aligned_cols=98  Identities=7%  Similarity=-0.063  Sum_probs=77.7

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc----------------HHHHHHHHHHHHccCCcchHHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD----------------EFTIVSILTARANLGALELGEWIKTYID  109 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  109 (181)
                      ....|..+-..+.+.|++++|+..|++..+..  |+                ...|..+-.++.+.|++++|...++...
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  344 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKAL  344 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            45578888889999999999999999987642  32                5788899999999999999999999998


Q ss_pred             HcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          110 KNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       110 ~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +.... +..                .|..+-.+|.+.|++++|...|++..+.
T Consensus       345 ~~~p~-~~~----------------a~~~~g~a~~~~g~~~~A~~~~~~al~l  380 (457)
T 1kt0_A          345 GLDSA-NEK----------------GLYRRGEAQLLMNEFESAKGDFEKVLEV  380 (457)
T ss_dssp             HHSTT-CHH----------------HHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hcCCc-cHH----------------HHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            86433 232                3444555666699999999999988764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.32  E-value=0.0012  Score=43.04  Aligned_cols=93  Identities=14%  Similarity=-0.031  Sum_probs=76.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC--Cc--------H-----HHHHHHHHHHHhcCcHHHHHHHHHHHHHc-----C
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE--RD--------Y-----VLWTTMIDGYLRVNRFREALTLFQEIQTS-----N   77 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~--~~--------~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~   77 (181)
                      .+...-..+.+.|++++|.+.|+...+  |+        .     ..|..+-.++.+.|++++|+..+++..+.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            355666778899999999999998864  33        2     28999999999999999999999998874     1


Q ss_pred             CCccH-HHH----HHHHHHHHccCCcchHHHHHHHHHH
Q 038237           78 IMGDE-FTI----VSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        78 ~~p~~-~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      +.|+. ..|    ...-.++...|++++|...|+...+
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            25654 566    7778899999999999999998875

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.30  E-value=0.00095  Score=47.57  Aligned_cols=143  Identities=7%  Similarity=-0.071  Sum_probs=95.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-----Cc----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHc-CCCcc-----
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-----RD----YVLWTTMIDGYLRVNRFREALTLFQEIQTS-NIMGD-----   81 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~-----   81 (181)
                      ..+..+...+...|++++|.+.+++...     .+    ..+|+.+-..|...|++++|...|++..+. ...|+     
T Consensus       116 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~  195 (293)
T 2qfc_A          116 QWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFD  195 (293)
T ss_dssp             HHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccch
Confidence            3455577788889999999888776542     11    447888888888999999999999887631 11122     


Q ss_pred             HHHHHHHHHHHHccCCcchHHHHHHHHHHcC----CCc-chHHHHHHHHHhHhcCc-----hHhHHHHHHHHHHcCChhH
Q 038237           82 EFTIVSILTARANLGALELGEWIKTYIDKNK----VKN-DIFAGNALIDMYCKCTV-----KFTWTTMIVGLAISGNGDK  151 (181)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~ll~~~~~~~~-----~~~~~~li~~~~~~~~~~~  151 (181)
                      ..++..+...+.+.|++++|...+++..+..    ... -..+|..+-..|.+.|+     ...|.-.+..+-..++...
T Consensus       196 ~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~~~~~~  275 (293)
T 2qfc_A          196 VKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILEMHAY  275 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCcHhh
Confidence            2578888888889999999998888776431    111 25567777777777762     2225555666666666655


Q ss_pred             HHHHHHHH
Q 038237          152 ALDMFSQM  159 (181)
Q Consensus       152 a~~~~~~m  159 (181)
                      +..+...+
T Consensus       276 ~~~~~~~~  283 (293)
T 2qfc_A          276 KEALVNKI  283 (293)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.27  E-value=0.028  Score=41.37  Aligned_cols=158  Identities=9%  Similarity=-0.033  Sum_probs=99.3

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhcc-C-CHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHH--------HH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINR-E-QVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFR--------EA   66 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~-~-~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~--------~a   66 (181)
                      +++++++.+..  | +..+|+---..+.+. + +++++.++++.+.+   .|..+|+.--....+.|+++        ++
T Consensus       107 eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eE  186 (349)
T 3q7a_A          107 DELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSE  186 (349)
T ss_dssp             HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHH
Confidence            44555554432  3 333455544444444 4 66777777777765   36667766555555555555        88


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHccCC-------cchHHHHHHHHHHcCCCcchHHHHHHHHHh---Hhc------
Q 038237           67 LTLFQEIQTSNIMGDEFTIVSILTARANLGA-------LELGEWIKTYIDKNKVKNDIFAGNALIDMY---CKC------  130 (181)
Q Consensus        67 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~---~~~------  130 (181)
                      ++.++++.+.... |...|+-....+.+.++       ++++.+..++.+...+. |...|+.+-..+   .+.      
T Consensus       187 Le~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~  264 (349)
T 3q7a_A          187 LDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILP  264 (349)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccc
Confidence            8888888876554 77777777777766665       35566666555554433 555554432222   221      


Q ss_pred             -----------------------------------CchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          131 -----------------------------------TVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       131 -----------------------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                                         .+...+..+.+.|...|+.++|.++++.+.++
T Consensus       265 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          265 AILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                                               15667788888999999999999999998755

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.23  E-value=0.0036  Score=50.28  Aligned_cols=149  Identities=11%  Similarity=0.013  Sum_probs=110.8

Q ss_pred             ChhHHHHHHHHHhccCCHHHHH-HHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCC---------Ccc
Q 038237           15 DVISYTAIVSGYINREQVDIAR-QCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNI---------MGD   81 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---------~p~   81 (181)
                      +...|-....-+.+.|+.++|. ++++....  | +...|-..+...-+.|++++|.++|+++.....         .|+
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~  421 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPT  421 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCc
Confidence            5566777777788889998996 99888764  3 555677788888889999999999999876410         132


Q ss_pred             ------------HHHHHHHHHHHHccCCcchHHHHHHHHHHc-C-CCcchHHHHHHHHHhHhcC----------------
Q 038237           82 ------------EFTIVSILTARANLGALELGEWIKTYIDKN-K-VKNDIFAGNALIDMYCKCT----------------  131 (181)
Q Consensus        82 ------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~ll~~~~~~~----------------  131 (181)
                                  ...|...++...+.|..+.|..+|...++. + ..+...+..+.+.......                
T Consensus       422 ~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p  501 (679)
T 4e6h_A          422 NESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA  501 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT
T ss_pred             chhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC
Confidence                        246777888888889999999999999876 2 2344455445554332211                


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRAS  163 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  163 (181)
                       +...|...+......|+.+.|..+|++.....
T Consensus       502 ~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          502 TDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence             66677888888888999999999999988763

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.21  E-value=0.0043  Score=46.29  Aligned_cols=131  Identities=8%  Similarity=-0.057  Sum_probs=93.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC-----Cc---HHHHHHHHH-HHHhcCcHHHHHHHHHHHHH----cCCCcc-HHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE-----RD---YVLWTTMID-GYLRVNRFREALTLFQEIQT----SNIMGD-EFT   84 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~-----~~---~~~~~~li~-~~~~~~~~~~a~~~~~~m~~----~~~~p~-~~~   84 (181)
                      +..+...|.+.|++++|.+.+.....     ++   .......+. .+...|+.+++.+++.+...    .+..+. ..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            67788999999999999999988763     11   112233333 33445889999999888653    333333 467


Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHHc--CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237           85 IVSILTARANLGALELGEWIKTYIDKN--KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      +..+...+...|++++|..+++.....  +......             ....|..++..|...|++++|..++++....
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPS-------------LVDVHLLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTH-------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchh-------------HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            788899999999999999999988754  2221111             2235666777788899999999999987643

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.18  E-value=0.0028  Score=37.47  Aligned_cols=63  Identities=13%  Similarity=-0.037  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           47 YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        47 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      ...+..+-..+.+.|++++|++.|++..+..- -+...|..+-.++.+.|++++|...+++..+
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444555555555555555555555544321 1234445555555555555555555554443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.16  E-value=0.03  Score=40.49  Aligned_cols=175  Identities=7%  Similarity=-0.086  Sum_probs=115.5

Q ss_pred             ccHHHHhhhcCC--CChh-HHHHHHHHHhccC--CHHHHHHHhcccCC---CcHHHHHHHHHHH----Hhc---CcHHHH
Q 038237            2 GFTLEIFGTMKN--KDVI-SYTAIVSGYINRE--QVDIARQCFDQMPE---RDYVLWTTMIDGY----LRV---NRFREA   66 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~--~~~~a~~~~~~m~~---~~~~~~~~li~~~----~~~---~~~~~a   66 (181)
                      ++|++.++.+..  |+.. .|+.--..+...|  +++++++.++.+..   .+..+|+.--..+    .+.   ++++++
T Consensus        50 ~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~E  129 (306)
T 3dra_A           50 ERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYRE  129 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHH
T ss_pred             HHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHH
Confidence            356777776653  6555 3777777777777  99999999998874   3666666543333    344   789999


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHccCCcc--hHHHHHHHHHHcCCCcchHHHHHHHHH---hHh------------
Q 038237           67 LTLFQEIQTSNIMGDEFTIVSILTARANLGALE--LGEWIKTYIDKNKVKNDIFAGNALIDM---YCK------------  129 (181)
Q Consensus        67 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~ll~~---~~~------------  129 (181)
                      +++++++.+..-+ |...|+----.+.+.|+++  ++.+.++.+.+..+. |-..|+.--..   ..+            
T Consensus       130 L~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~  207 (306)
T 3dra_A          130 FDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELN  207 (306)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHH
Confidence            9999999986543 7788887777778888888  888999988876554 44444322111   111            


Q ss_pred             ---------cCchHhHHHHHHHHHHcCChhH-HHHHHHHHHHcC--CCCChhhHHHHHhhh
Q 038237          130 ---------CTVKFTWTTMIVGLAISGNGDK-ALDMFSQMLRAS--IKPDEVAYVGVLSAR  178 (181)
Q Consensus       130 ---------~~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~~--~~p~~~t~~~li~~~  178 (181)
                               -.|...|+-+-..+.+.|+... +.++.++..+.+  -..+...+..+.+.+
T Consensus       208 ~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~  268 (306)
T 3dra_A          208 YVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIY  268 (306)
T ss_dssp             HHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHH
Confidence                     0177788888888888888655 445666665432  123455555555544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.14  E-value=0.0036  Score=35.62  Aligned_cols=78  Identities=13%  Similarity=0.256  Sum_probs=60.3

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...+..+-..+.+.|++++|...|++..+   .+...+..+-..+.+.|++++|.+.|++..+..- -+...+..+-..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~   86 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            345678888899999999999999998763   4677888999999999999999999999887531 234455444444


Q ss_pred             HH
Q 038237           92 RA   93 (181)
Q Consensus        92 ~~   93 (181)
                      +.
T Consensus        87 ~~   88 (91)
T 1na3_A           87 KQ   88 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.11  E-value=0.0075  Score=37.85  Aligned_cols=103  Identities=14%  Similarity=0.053  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-cc----HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC-cchHHHH
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSNIM-GD----EFTIVSILTARANLGALELGEWIKTYIDKNKVK-NDIFAGN  121 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  121 (181)
                      .++..+-..+...|++++|.+.+++..+..-. ++    ...+..+-..+...|++++|...++........ ++...  
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~--   87 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAV--   87 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH--
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHH--
Confidence            35777888889999999999999987653111 11    246778888899999999999999987754111 11111  


Q ss_pred             HHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          122 ALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       122 ~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                ....+..+-..+...|++++|.+.+++..+.
T Consensus        88 ----------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  118 (164)
T 3ro3_A           88 ----------EAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  118 (164)
T ss_dssp             ----------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence                      1224455666777799999999999988754

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.07  E-value=0.0019  Score=38.23  Aligned_cols=61  Identities=15%  Similarity=0.191  Sum_probs=54.0

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      +...+..+-..+.+.|++++|.+.|+...+   .+...|..+-..|.+.|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            556788899999999999999999998874   3677899999999999999999999998765

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.07  E-value=0.054  Score=41.15  Aligned_cols=137  Identities=9%  Similarity=0.002  Sum_probs=86.7

Q ss_pred             HHHHHHHHHhccC----CHHHHHHHhcccCCCcHHHHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 038237           18 SYTAIVSGYINRE----QVDIARQCFDQMPERDYVLWTTMIDGYLRVN---RFREALTLFQEIQTSNIMGDEFTIVSILT   90 (181)
Q Consensus        18 ~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~l~~   90 (181)
                      .+..+-..|...+    ..+++..+++.....++..+..|-..|.+.|   +.++|++.|++..+.|-. +...+..+-.
T Consensus       143 a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~  221 (452)
T 3e4b_A          143 AGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVAR  221 (452)
T ss_dssp             HHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHH
Confidence            3444444444444    4555666677666667778888888999999   999999999999887743 4454445555


Q ss_pred             HHHcc----CCcchHHHHHHHHHHcCCCcchHHHHHHHHHhH-------------------hcCchHhHHHHHHHHHHcC
Q 038237           91 ARANL----GALELGEWIKTYIDKNKVKNDIFAGNALIDMYC-------------------KCTVKFTWTTMIVGLAISG  147 (181)
Q Consensus        91 ~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-------------------~~~~~~~~~~li~~~~~~~  147 (181)
                      .+...    +++++|...|+... .|   +...+..|-..|.                   ..|+...+..+-..|. .|
T Consensus       222 ~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~-~G  296 (452)
T 3e4b_A          222 VLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY-EG  296 (452)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HC
T ss_pred             HHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-cC
Confidence            55544    68889999998887 33   3333333333311                   1125555555555555 33


Q ss_pred             -----ChhHHHHHHHHHH
Q 038237          148 -----NGDKALDMFSQML  160 (181)
Q Consensus       148 -----~~~~a~~~~~~m~  160 (181)
                           ++++|.++|++..
T Consensus       297 ~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          297 KWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             SSSCCCHHHHHHHHHTTT
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence                 6666666666665

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.06  E-value=0.0033  Score=37.91  Aligned_cols=76  Identities=11%  Similarity=-0.026  Sum_probs=61.1

Q ss_pred             HHHHhcccC---CCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           35 ARQCFDQMP---ERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        35 a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      |.+.|++..   ..+...+..+-..+...|++++|...|++..+..- .+...|..+-..+.+.|++++|...++.....
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344444443   24778899999999999999999999999887542 35678888999999999999999999988764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.00  E-value=0.0057  Score=46.47  Aligned_cols=88  Identities=10%  Similarity=-0.040  Sum_probs=65.5

Q ss_pred             hcCcHHHHHHHHHHHHHc--C-CC---ccH-HHHHHHHHHHHccCCcchHHHHHHHHHHc-----CC-CcchHHHHHHHH
Q 038237           59 RVNRFREALTLFQEIQTS--N-IM---GDE-FTIVSILTARANLGALELGEWIKTYIDKN-----KV-KNDIFAGNALID  125 (181)
Q Consensus        59 ~~~~~~~a~~~~~~m~~~--~-~~---p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~~~~~ll~  125 (181)
                      +.|++++|..++++..+.  . +-   |++ .+++.+..+|...|++++|..++++....     |. .|++        
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~--------  381 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNV--------  381 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHH--------
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHH--------
Confidence            357899999999987652  2 22   333 77999999999999999999999987642     22 2333        


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                             ..++|.|-..|...|++++|+.++++..+
T Consensus       382 -------a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          382 -------ASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             -------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence                   22556666677779999999999998864

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.00  E-value=0.0098  Score=45.11  Aligned_cols=95  Identities=16%  Similarity=0.030  Sum_probs=70.1

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcC---CCcc----HHHHHHHHHHHHccCCcchHHHHHHHHHHc-----CC-CcchH
Q 038237           52 TMIDGYLRVNRFREALTLFQEIQTSN---IMGD----EFTIVSILTARANLGALELGEWIKTYIDKN-----KV-KNDIF  118 (181)
Q Consensus        52 ~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~  118 (181)
                      ..+..+.+.|++++|..++++..+..   ..|+    ..+++.+..+|...|++++|..++++....     |. .|++ 
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~-  370 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVR-  370 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHH-
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHH-
Confidence            34556777899999999999987532   2222    367899999999999999999999977642     21 2322 


Q ss_pred             HHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          119 AGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       119 ~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                                    ..+++.|-..|...|++++|+.++++..+
T Consensus       371 --------------a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          371 --------------GVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             --------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence                          22456666677779999999999998764

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.93  E-value=0.016  Score=34.14  Aligned_cols=67  Identities=10%  Similarity=0.068  Sum_probs=56.8

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      +...|..+-..+.+.|++++|.+.|++..+.. +.+...+..+-.++.+.|++++|...++.......
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            45677888889999999999999999988753 23677888899999999999999999999987643

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.93  E-value=0.0095  Score=43.51  Aligned_cols=98  Identities=15%  Similarity=0.075  Sum_probs=75.0

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH------------------HHHHHHHHHHccCCcchHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEF------------------TIVSILTARANLGALELGEWIKTY  107 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------------------~~~~l~~~~~~~~~~~~a~~~~~~  107 (181)
                      ....+..+-..+.+.|++++|...|++....  .|+..                  .|..+-.++.+.|++++|...++.
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445777778888899999999999997764  24433                  788888999999999999999999


Q ss_pred             HHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          108 IDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       108 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      ..+.... +..                .|..+-.+|...|++++|.+.|++..+.
T Consensus       256 al~~~p~-~~~----------------a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          256 VLTEEEK-NPK----------------ALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             HHHHCTT-CHH----------------HHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             HHHhCCC-CHH----------------HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8876432 233                4444555666699999999999998653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.92  E-value=0.003  Score=48.78  Aligned_cols=94  Identities=4%  Similarity=-0.119  Sum_probs=74.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC----------C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-----cCC-Cc
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE----------R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT-----SNI-MG   80 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~-~p   80 (181)
                      +++.+...|...|++++|..++++...          | ...+++.|-..|...|++++|..++++..+     .|- .|
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            689999999999999999999888752          2 445799999999999999999999998653     231 23


Q ss_pred             cH-HHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           81 DE-FTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        81 ~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ++ .+.+.+-.++...+.++.|+.++..+++.
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 44556667777888899999999998764

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.91  E-value=0.0053  Score=46.55  Aligned_cols=89  Identities=6%  Similarity=-0.050  Sum_probs=71.1

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC-------C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-----cC-CCccH-H
Q 038237           22 IVSGYINREQVDIARQCFDQMPE-------R----DYVLWTTMIDGYLRVNRFREALTLFQEIQT-----SN-IMGDE-F   83 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~~-~   83 (181)
                      .+..+.+.|++++|..++++...       +    ...+++.|...|...|++++|..++++...     .| -.|++ .
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            35567788999999998876642       2    445799999999999999999999998764     22 23444 6


Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      +++.|-..+...|++++|..++++..+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            788999999999999999999887764

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

Probab=96.86  E-value=0.018  Score=45.34  Aligned_cols=169  Identities=10%  Similarity=-0.026  Sum_probs=105.7

Q ss_pred             ccHHHHhhhcCC--CChh-HHHHHHHHHhccCC----------HHHHHHHhcccCC---CcHHHHHHHHHHHHhcC--cH
Q 038237            2 GFTLEIFGTMKN--KDVI-SYTAIVSGYINREQ----------VDIARQCFDQMPE---RDYVLWTTMIDGYLRVN--RF   63 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~~----------~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~--~~   63 (181)
                      ++|++.++++..  |+.. .|+.--.++.+.|+          ++++.+.++.+.+   .+..+|+.--..+.+.+  ++
T Consensus        46 eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~  125 (567)
T 1dce_A           46 ESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW  125 (567)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccH
Confidence            456666766653  5444 46554444555555          8888888888874   47778888888888888  77


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC-CcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHH
Q 038237           64 REALTLFQEIQTSNIMGDEFTIVSILTARANLG-ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVG  142 (181)
Q Consensus        64 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~  142 (181)
                      +++++.++++.+...+ |...|+---....+.| ..+++.+.+.++++..+. +...|+..-..+.+..+...-..  .+
T Consensus       126 ~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~--~~  201 (567)
T 1dce_A          126 ARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP--QG  201 (567)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS--CC
T ss_pred             HHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccc--cc
Confidence            9999999999987654 7888888777777888 777788877777766544 44555544433322100000000  00


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          143 LAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       143 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      -...+.++++++.+++..... +-|...|+.+-
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~  233 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHR  233 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHhhC-CCCccHHHHHH
Confidence            000145688888888877642 22555555443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.85  E-value=0.0034  Score=47.66  Aligned_cols=83  Identities=11%  Similarity=-0.066  Sum_probs=66.5

Q ss_pred             ccCCHHHHHHHhcccCC-------C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-----cC-CCccH-HHHHHHH
Q 038237           28 NREQVDIARQCFDQMPE-------R----DYVLWTTMIDGYLRVNRFREALTLFQEIQT-----SN-IMGDE-FTIVSIL   89 (181)
Q Consensus        28 ~~~~~~~a~~~~~~m~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~~-~~~~~l~   89 (181)
                      +.|++++|..++++..+       +    ...+++.|...|...|++++|..++++..+     .| -.|++ .+++.|-
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            45778888888876642       2    345799999999999999999999999764     23 23554 6799999


Q ss_pred             HHHHccCCcchHHHHHHHHHH
Q 038237           90 TARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~  110 (181)
                      ..|...|++++|..++++...
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999987764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.65  E-value=0.011  Score=37.22  Aligned_cols=112  Identities=9%  Similarity=-0.107  Sum_probs=76.3

Q ss_pred             cCCHHHHHHHhcccCCC-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc----cCCcchHHH
Q 038237           29 REQVDIARQCFDQMPER-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN----LGALELGEW  103 (181)
Q Consensus        29 ~~~~~~a~~~~~~m~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~  103 (181)
                      .++.++|.+.|+...+. +....  |-..|...+.+++|++.|++..+.|   +...+..+-..|..    .+++++|..
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEMFGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCHhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            34667777777776542 33333  5555556667888999998888774   55566666666666    678888888


Q ss_pred             HHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHH----cCChhHHHHHHHHHHHcCC
Q 038237          104 IKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAI----SGNGDKALDMFSQMLRASI  164 (181)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~  164 (181)
                      .|+...+.|.                   ...+..|-..|..    .++.++|.++|++..+.|.
T Consensus        83 ~~~~Aa~~g~-------------------~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           83 YYSKACGLND-------------------QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHTTC-------------------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCC-------------------HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            8888776543                   2233344444444    7899999999999988865

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.63  E-value=0.018  Score=36.21  Aligned_cols=108  Identities=7%  Similarity=-0.079  Sum_probs=84.3

Q ss_pred             ccHHHHhhhcCC-CChhHHHHHHHHHhccCCHHHHHHHhcccCC-CcHHHHHHHHHHHHh----cCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN-KDVISYTAIVSGYINREQVDIARQCFDQMPE-RDYVLWTTMIDGYLR----VNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~   75 (181)
                      ++|+++|++.-+ -++...  +-..|.+.+.+++|.+.|+...+ .++..+..|-..|..    .+++++|++.|++-.+
T Consensus        12 ~~A~~~~~~aa~~g~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~   89 (138)
T 1klx_A           12 KKAIQYYVKACELNEMFGC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACG   89 (138)
T ss_dssp             HHHHHHHHHHHHTTCTTHH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHhhh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHc
Confidence            467778877654 233334  66777777889999999998765 577888888888888    7899999999999988


Q ss_pred             cCCCccHHHHHHHHHHHHc----cCCcchHHHHHHHHHHcCCC
Q 038237           76 SNIMGDEFTIVSILTARAN----LGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~  114 (181)
                      .|   +...+..+-..+..    .++.++|...++.-.+.|..
T Consensus        90 ~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           90 LN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            75   55666667777776    78999999999999887654

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=96.60  E-value=0.1  Score=38.09  Aligned_cols=166  Identities=8%  Similarity=0.035  Sum_probs=104.6

Q ss_pred             ccHHHHhhhcCC--CChhH-HHH---HHHHHhccC-------CHHHHHHHhcccCC---CcHHHHHHHHHHHHhcC--cH
Q 038237            2 GFTLEIFGTMKN--KDVIS-YTA---IVSGYINRE-------QVDIARQCFDQMPE---RDYVLWTTMIDGYLRVN--RF   63 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~~-~~~---li~~~~~~~-------~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~--~~   63 (181)
                      ++|+++++.+..  |+..+ |+.   ++..+.+..       .++++..+++.+..   .+..+|+.--..+.+.+  ++
T Consensus        47 ~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~  126 (331)
T 3dss_A           47 ESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW  126 (331)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccH
Confidence            357777777654  54443 443   333333321       15677777777653   47778887766666767  48


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC-cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc------------
Q 038237           64 REALTLFQEIQTSNIMGDEFTIVSILTARANLGA-LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC------------  130 (181)
Q Consensus        64 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~------------  130 (181)
                      ++++.+++.+.+...+ |...|+----.+...|. ++++.+.+..+++..+. |...|+..-..+...            
T Consensus       127 ~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~  204 (331)
T 3dss_A          127 ARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRL  204 (331)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CC
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcccccccccc
Confidence            8999999999886544 77788777777777777 47888888888876544 555555433332221            


Q ss_pred             --C------------------chHhHHHHHHHHHHc-----------CChhHHHHHHHHHHHcCCCCChhhHH
Q 038237          131 --T------------------VKFTWTTMIVGLAIS-----------GNGDKALDMFSQMLRASIKPDEVAYV  172 (181)
Q Consensus       131 --~------------------~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~~~~p~~~t~~  172 (181)
                        +                  |...|+-+-..+.+.           +.++++++.++++.+.  .||. .|+
T Consensus       205 ~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~  274 (331)
T 3dss_A          205 PENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWC  274 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHH
T ss_pred             chHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chH
Confidence              1                  677777555555444           4567888888888764  4554 444

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=96.42  E-value=0.098  Score=38.51  Aligned_cols=152  Identities=8%  Similarity=-0.023  Sum_probs=74.5

Q ss_pred             cHHHHhhhcCC--CChh-HHHHHHHHHhccC-CHHHHHHHhcccCC---CcHHHHHHHHHHHHhc-C-cHHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--KDVI-SYTAIVSGYINRE-QVDIARQCFDQMPE---RDYVLWTTMIDGYLRV-N-RFREALTLFQEI   73 (181)
Q Consensus         3 ~a~~~~~~~~~--~~~~-~~~~li~~~~~~~-~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~-~-~~~~a~~~~~~m   73 (181)
                      +|+++++++..  |+.. +|+.--..+...| .++++++.++.+..   .+..+|+.--..+.+. + ++++++++++++
T Consensus        72 ~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~  151 (349)
T 3q7a_A           72 RALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGS  151 (349)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            34444444432  3322 2444444444444 35666666655543   2444555444444333 4 555666666666


Q ss_pred             HHcCCCccHHHHHHHHHHHHccCCcc--------hHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHH
Q 038237           74 QTSNIMGDEFTIVSILTARANLGALE--------LGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAI  145 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~  145 (181)
                      .+..-+ |...|+--.-...+.|.++        ++.+..+++.+..+.                 |...|+-.-..+.+
T Consensus       152 L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-----------------N~SAW~~R~~lL~~  213 (349)
T 3q7a_A          152 LLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-----------------NNSAWGWRWYLRVS  213 (349)
T ss_dssp             TSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-----------------CHHHHHHHHHHHTT
T ss_pred             HHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-----------------CHHHHHHHHHHHHh
Confidence            554322 4455544333333333333        444444444444322                 44455555555555


Q ss_pred             cCC-------hhHHHHHHHHHHHcCCCCChhhHHH
Q 038237          146 SGN-------GDKALDMFSQMLRASIKPDEVAYVG  173 (181)
Q Consensus       146 ~~~-------~~~a~~~~~~m~~~~~~p~~~t~~~  173 (181)
                      .++       ++++++.+++.... -+-|...|+-
T Consensus       214 l~~~~~~~~~~~eELe~~~~aI~~-~P~n~SaW~Y  247 (349)
T 3q7a_A          214 RPGAETSSRSLQDELIYILKSIHL-IPHNVSAWNY  247 (349)
T ss_dssp             STTCCCCHHHHHHHHHHHHHHHHH-CTTCHHHHHH
T ss_pred             ccccccchHHHHHHHHHHHHHHHh-CCCCHHHHHH
Confidence            554       57788888777664 2234555544

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=96.30  E-value=0.016  Score=37.56  Aligned_cols=113  Identities=16%  Similarity=-0.012  Sum_probs=67.1

Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc----------chHHHHHHHHHHcCCCcchHHHHHHHHHh
Q 038237           58 LRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL----------ELGEWIKTYIDKNKVKNDIFAGNALIDMY  127 (181)
Q Consensus        58 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  127 (181)
                      .+.+.+++|.+.++...+..- -+...|..+-.++...+++          ++|...|++.++.... +...|..+-.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            344567777777777766432 2455555555566655554          4788888887776544 344455555554


Q ss_pred             HhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          128 CKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       128 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                      ...|..+.=     .-...|++++|.+.|++..+  +.|+...|...+..+.
T Consensus        91 ~~lg~l~P~-----~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~~  135 (158)
T 1zu2_A           91 TSFAFLTPD-----ETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTA  135 (158)
T ss_dssp             HHHHHHCCC-----HHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHhcccCcc-----hhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            431100000     00002689999999999988  5788888877666543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.96  E-value=0.072  Score=39.58  Aligned_cols=92  Identities=11%  Similarity=-0.031  Sum_probs=69.4

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCC--------C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc--CC--Cc-cHHHH
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPE--------R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTS--NI--MG-DEFTI   85 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~--------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~--~p-~~~~~   85 (181)
                      +.+-..+...|+.++|.+++++...        + -..++..+...+...|++++|..++.+....  +.  .| ...++
T Consensus        99 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~  178 (434)
T 4b4t_Q           99 TLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVH  178 (434)
T ss_dssp             HHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHH
Confidence            3334445567888999888877642        1 2446788899999999999999999987642  21  12 23678


Q ss_pred             HHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           86 VSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ..+...|...|++++|..+++.....
T Consensus       179 ~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          179 LLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            89999999999999999999887753

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.93  E-value=0.14  Score=41.37  Aligned_cols=125  Identities=14%  Similarity=-0.013  Sum_probs=72.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL   98 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~   98 (181)
                      ...++..+.+.|..+.|.++.++-.        .-.......|++++|+++.+.+      .+...|..+-..+.+.+++
T Consensus       632 ~~~~~~~l~~~~~~~~a~~~~~~~~--------~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~  697 (814)
T 3mkq_A          632 LTKIARFLEGQEYYEEALNISPDQD--------QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNF  697 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCCHH--------HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhCCChHHheecCCCcc--------hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCH
Confidence            3777777888888888887765321        1123345677888887775433      3566777788888888888


Q ss_pred             chHHHHHHHHHHcCC-------CcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHH
Q 038237           99 ELGEWIKTYIDKNKV-------KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQML  160 (181)
Q Consensus        99 ~~a~~~~~~~~~~~~-------~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  160 (181)
                      +.|+..|..+.+..-       .-+......+.......   .-++....+|.+.|++++|.+++.++.
T Consensus       698 ~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~---~~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          698 KLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETT---GKFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHc---CchHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            888887777643210       00111111222222111   123445555666777777777776663

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.84  E-value=0.044  Score=44.28  Aligned_cols=117  Identities=15%  Similarity=0.062  Sum_probs=84.4

Q ss_pred             HHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHH
Q 038237           23 VSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGE  102 (181)
Q Consensus        23 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  102 (181)
                      .....+.|++++|.++.+.+.  +...|..+-..+.+.++++.|.+.|.++...         ..+...+...|+.+...
T Consensus       659 f~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d~---------~~l~~l~~~~~~~~~~~  727 (814)
T 3mkq_A          659 FELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHDL---------ESLFLLHSSFNNKEGLV  727 (814)
T ss_dssp             HHHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTCH---------HHHHHHHHHTTCHHHHH
T ss_pred             eehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccCh---------hhhHHHHHHcCCHHHHH
Confidence            344567899999999987764  5689999999999999999999999987652         34555556677777776


Q ss_pred             HHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          103 WIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      .+-+.....|-.      +.....|.+.|   -+...++.|.+.+++++|..+-+..
T Consensus       728 ~~~~~a~~~~~~------~~A~~~~~~~g---~~~~a~~~~~~~~~~~~A~~lA~~~  775 (814)
T 3mkq_A          728 TLAKDAETTGKF------NLAFNAYWIAG---DIQGAKDLLIKSQRFSEAAFLGSTY  775 (814)
T ss_dssp             HHHHHHHHTTCH------HHHHHHHHHHT---CHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHcCch------HHHHHHHHHcC---CHHHHHHHHHHcCChHHHHHHHHHh
Confidence            666666655432      22222232222   3456888899999999999987763

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=95.77  E-value=0.055  Score=32.13  Aligned_cols=64  Identities=11%  Similarity=-0.018  Sum_probs=51.2

Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           62 RFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        62 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      +.=++.+-++.+....+.|++.+..+.+++|.|.+++..|..+++.++.+- .+...+|..++.-
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqE   88 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE   88 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHH
Confidence            455677778888888899999999999999999999999999999998763 2224467666653

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=95.73  E-value=0.39  Score=35.65  Aligned_cols=141  Identities=8%  Similarity=-0.062  Sum_probs=88.0

Q ss_pred             CChhHHHHHHHHHhc-----cCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhc---C-----cHHHHHHHHHHHHH-c
Q 038237           14 KDVISYTAIVSGYIN-----REQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRV---N-----RFREALTLFQEIQT-S   76 (181)
Q Consensus        14 ~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~---~-----~~~~a~~~~~~m~~-~   76 (181)
                      .|...|...+.+...     .....+|..+|++..+  | ....|..+--+|.-.   +     ......+.+..... .
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~  271 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLP  271 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCG
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcc
Confidence            466778888766543     2345889999998875  4 234454433333211   1     11111112221111 1


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      .-+.+..+|..+...+...|++++|...+++....+  |+...|..+-..                +.-.|++++|.+.|
T Consensus       272 ~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~----------------~~~~G~~~eA~e~~  333 (372)
T 3ly7_A          272 ELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKV----------------YEMKGMNREAADAY  333 (372)
T ss_dssp             GGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH----------------HHHTTCHHHHHHHH
T ss_pred             cCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHH----------------HHHCCCHHHHHHHH
Confidence            235567788887777777899999999999999886  554444333333                33499999999999


Q ss_pred             HHHHHcCCCCChhhHHHH
Q 038237          157 SQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       157 ~~m~~~~~~p~~~t~~~l  174 (181)
                      ++....  .|...||...
T Consensus       334 ~~AlrL--~P~~~t~~~~  349 (372)
T 3ly7_A          334 LTAFNL--RPGANTLYWI  349 (372)
T ss_dssp             HHHHHH--SCSHHHHHHH
T ss_pred             HHHHhc--CCCcChHHHH
Confidence            988774  6777776543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=95.48  E-value=0.031  Score=36.26  Aligned_cols=97  Identities=15%  Similarity=0.030  Sum_probs=59.7

Q ss_pred             hccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCc----------HHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           27 INREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNR----------FREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      .|.+++++|.+.++...+   .+...|..+-.++...++          +++|+..|++..+..-. +...|..+-.+|.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~   91 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            344556667666666653   366666666666666654          35777777777664321 3456666777776


Q ss_pred             cc-----------CCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           94 NL-----------GALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        94 ~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      ..           |++++|...|++..+.  .|+...|...+..
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            55           3678888888777765  4444555444443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.42  E-value=0.17  Score=28.98  Aligned_cols=57  Identities=11%  Similarity=-0.021  Sum_probs=35.9

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHH-HHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           55 DGYLRVNRFREALTLFQEIQTSNIMGDEF-TIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..+.+.|++++|.+.|++..+..- -+.. .+..+-..+.+.|++++|...++...+..
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345566777777777777665421 1334 56666666677777777777777766653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.03  E-value=0.15  Score=29.27  Aligned_cols=56  Identities=18%  Similarity=0.285  Sum_probs=47.3

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC---CcHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237           22 IVSGYINREQVDIARQCFDQMPE---RDYV-LWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~---~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      ....+.+.|++++|.+.|++..+   .+.. .|..+-..+...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            34567789999999999998864   3667 88888999999999999999999988754

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=94.83  E-value=0.79  Score=33.46  Aligned_cols=119  Identities=10%  Similarity=-0.103  Sum_probs=78.4

Q ss_pred             cHHHHhhhcCC--C-ChhHHHHHHHHHhccC--CHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCc-HHHHHHHHHHH
Q 038237            3 FTLEIFGTMKN--K-DVISYTAIVSGYINRE--QVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNR-FREALTLFQEI   73 (181)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~-~~~a~~~~~~m   73 (181)
                      +++.+++.+..  | +..+|+---..+.+.+  .++++.++++.+.+   .|..+|+.--....+.|. ++++++.++++
T Consensus        92 ~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~  171 (331)
T 3dss_A           92 AELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSL  171 (331)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHH
Confidence            45555555442  3 5556766666666666  47888888888874   578888877777777787 68999999998


Q ss_pred             HHcCCCccHHHHHHHHHHHHcc--------------CCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           74 QTSNIMGDEFTIVSILTARANL--------------GALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      .+.... |...|+-....+.+.              +.++++.+.+.......+. |...|+-+
T Consensus       172 I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~  233 (331)
T 3dss_A          172 ITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYH  233 (331)
T ss_dssp             HHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHH
T ss_pred             HHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            887654 667776555555443              2345566666666655433 66666543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=94.82  E-value=0.63  Score=35.85  Aligned_cols=120  Identities=11%  Similarity=0.144  Sum_probs=65.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCC--cHHHHH--HHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPER--DYVLWT--TMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVSILTAR   92 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~   92 (181)
                      .|...+...-+.+.++.|.++|+....|  +...|-  +.+.... .++.+.|.++|+...+.-  |+ ...+...++-.
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~--~~~~~~~~~yid~e  364 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH--PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC--CCCHHHHHHHHHHH
Confidence            4555555555566677777777666322  222222  1111111 224667777777665532  22 22334445544


Q ss_pred             HccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           93 ANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .+.|+.+.|..+|+...     ..                ...|...+.--...|+.+.+..++++..+
T Consensus       365 ~~~~~~~~aR~l~er~~-----k~----------------~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          365 LRIGDEENARALFKRLE-----KT----------------SRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHTCHHHHHHHHHHSC-----CB----------------HHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH-----HH----------------HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            55666666666666651     12                33455555555557898888888888874

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.65  E-value=0.29  Score=31.41  Aligned_cols=66  Identities=9%  Similarity=-0.011  Sum_probs=41.3

Q ss_pred             CcHHHHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           45 RDYVLWTTMIDGYLRVN---RFREALTLFQEIQTSNIMG--DEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      ++..+.-.+-.++++++   +.++++.+|++..+.. .|  +...+-.+--++.+.|++++|...++.+.+.
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            45555555666666666   5557777777766653 23  2344445555667777777777777777765

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.35  E-value=0.42  Score=28.13  Aligned_cols=65  Identities=5%  Similarity=-0.106  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHcC------CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQTSN------IMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..+-.|-..+.+.|++..|...|+...+.-      -.+....+..+..++.+.|+++.|...++...+..
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            344556666777777777777777765421      12345667777778888888888888888777653

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=94.32  E-value=0.39  Score=30.20  Aligned_cols=64  Identities=11%  Similarity=-0.018  Sum_probs=51.2

Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           62 RFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        62 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      |.=+..+-++.+....+.|++.+..+.+++|.+.+|+..|..+|+.++.+- .+...+|..++.-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHH
Confidence            444667777777888899999999999999999999999999999998762 2234567666653

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=93.99  E-value=0.38  Score=35.69  Aligned_cols=69  Identities=6%  Similarity=-0.164  Sum_probs=59.0

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKN  115 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  115 (181)
                      .+..+|..+...+...|++++|.+.+++....+  |+...|..+-..+.-.|++++|.+.+++.......+
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            577788888877888899999999999999876  788888788888889999999999999888775443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.85  E-value=0.51  Score=27.33  Aligned_cols=48  Identities=8%  Similarity=-0.103  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHc
Q 038237           63 FREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        63 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .++|..+|++..+..-. +......+-..+.+.|++++|...|+.+.+.
T Consensus        25 ~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444555444443211 2233334444444455555555555554443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.75  E-value=0.63  Score=29.53  Aligned_cols=122  Identities=11%  Similarity=0.044  Sum_probs=66.9

Q ss_pred             HhccCCHHHHHHHhcccCCC-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc-CC----------------CccHHHHHH
Q 038237           26 YINREQVDIARQCFDQMPER-DYVLWTTMIDGYLRVNRFREALTLFQEIQTS-NI----------------MGDEFTIVS   87 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~----------------~p~~~~~~~   87 (181)
                      +.-.|.+++..++..+..++ +..-||=+|.-....-+-+-..+.++..-+. .+                -.+......
T Consensus        17 ~ildG~v~qGveii~k~~~ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n~~se~vd~   96 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVNK   96 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCCCCccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhcchHHHHHH
Confidence            33457777777777776642 3333444444334433444444444443221 00                113344556


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      .++.....|.-+.-..+...+.. +.+|++...-.+-.+|.+                -|+..++.+++.+..++|+
T Consensus        97 ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~K----------------lg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           97 ALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRR----------------VGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHH----------------TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHH----------------hcchhhHHHHHHHHHHhhh
Confidence            66777777777777777777533 234455554555555555                7777777777777777766

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.67  E-value=0.51  Score=29.94  Aligned_cols=69  Identities=14%  Similarity=-0.039  Sum_probs=58.3

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKN  115 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  115 (181)
                      +....+..++.....|+-+..-+++.++.. +.+|+....-.+..||.+.|+..++.+++.+.-+.|++-
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~kE  158 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEKE  158 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhHH
Confidence            566778888999999999999999988644 456788888899999999999999999999999988763

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.66  E-value=0.95  Score=29.83  Aligned_cols=48  Identities=17%  Similarity=0.218  Sum_probs=30.9

Q ss_pred             HHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237           25 GYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus        25 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      ...+.|+++.|.++-+++  .+...|..|-+...+.|+++-|.+.|....
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            344567777777766555  455667777777777777777766666544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.55  E-value=0.0022  Score=49.29  Aligned_cols=137  Identities=12%  Similarity=0.060  Sum_probs=86.6

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHc
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARAN   94 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~   94 (181)
                      .+.+|+.+-.+..+.+++.+|.+-|-  +..|+..|..+|.+..+.|.+++-.+.+....+..-.|.  .=+.|+.+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~--IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESY--VETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTT--TTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccc--cHHHHHHHHHh
Confidence            44568888888888888888777653  445666788888888889998888887776655433333  33478888888


Q ss_pred             cCCcchHHH------------HHHHHHHcCC-CcchHHHH-------------------HHHHHhHhcCchHhHHHHHHH
Q 038237           95 LGALELGEW------------IKTYIDKNKV-KNDIFAGN-------------------ALIDMYCKCTVKFTWTTMIVG  142 (181)
Q Consensus        95 ~~~~~~a~~------------~~~~~~~~~~-~~~~~~~~-------------------~ll~~~~~~~~~~~~~~li~~  142 (181)
                      .+++.+.++            +-+++-+.|. +.....|+                   .-+++--+.+++.||--+-.+
T Consensus       129 ~~rL~elEefl~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~A  208 (624)
T 3lvg_A          129 TNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFA  208 (624)
T ss_dssp             SCSSSTTTSTTSCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHH
T ss_pred             hCcHHHHHHHHcCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHH
Confidence            887665433            3333333322 21111111                   111111222388888888888


Q ss_pred             HHHcCChhHHHHH
Q 038237          143 LAISGNGDKALDM  155 (181)
Q Consensus       143 ~~~~~~~~~a~~~  155 (181)
                      |...+++.-|.-.
T Consensus       209 Cvd~~EfrLAqic  221 (624)
T 3lvg_A          209 CVDGKEFRLAQMC  221 (624)
T ss_dssp             HHHSCTTTTTTHH
T ss_pred             HhCchHHHHHHHh
Confidence            8888887766443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.50  E-value=0.56  Score=30.09  Aligned_cols=63  Identities=6%  Similarity=0.079  Sum_probs=48.0

Q ss_pred             CChhHHHHHHHHHhccC---CHHHHHHHhcccCCCc-----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           14 KDVISYTAIVSGYINRE---QVDIARQCFDQMPERD-----YVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      ++..+.-.+-.++++.+   +++++..++++..+.+     ...+-.|--+|.+.|++++|.+.++...+.
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            56777777777888877   6678988888876533     334445666789999999999999999884

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

Probab=93.47  E-value=2.2  Score=33.49  Aligned_cols=126  Identities=9%  Similarity=-0.011  Sum_probs=87.8

Q ss_pred             CCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCc----------HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC
Q 038237           30 EQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNR----------FREALTLFQEIQTSNIMGDEFTIVSILTARANLG   96 (181)
Q Consensus        30 ~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~   96 (181)
                      ..-++|.+.++++..   .+..+|+.-=..+.+.|+          ++++++.++++.+..-+ +...|+.---.+.+.+
T Consensus        43 ~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           43 ELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            344678888888874   356667765455555555          89999999999886544 7788888778888888


Q ss_pred             --CcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcC-ChhHHHHHHHHHHHcCCCCChhhHHH
Q 038237           97 --ALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISG-NGDKALDMFSQMLRASIKPDEVAYVG  173 (181)
Q Consensus        97 --~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~t~~~  173 (181)
                        +++++...++++.+.... +                ..+|+.--..+.+.| ..+++++.++++.+... -|...|+.
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N----------------~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~  183 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-N----------------FHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHY  183 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-C----------------HHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHH
T ss_pred             cccHHHHHHHHHHHHhhccc-c----------------ccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHH
Confidence              669999999999887544 3                334444444445567 78889999888876532 34455544


Q ss_pred             H
Q 038237          174 V  174 (181)
Q Consensus       174 l  174 (181)
                      .
T Consensus       184 r  184 (567)
T 1dce_A          184 R  184 (567)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=92.88  E-value=0.87  Score=33.92  Aligned_cols=73  Identities=7%  Similarity=-0.101  Sum_probs=59.1

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH-----cCCCcchHHHHHH
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDK-----NKVKNDIFAGNAL  123 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  123 (181)
                      ...++..+...|+.+++...+....... +.+...|..+|.++.+.|+..+|...|+.+.+     .|++|...+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            4456777888999999999998887643 34778999999999999999999999988764     4999988764443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=92.45  E-value=0.88  Score=33.90  Aligned_cols=111  Identities=14%  Similarity=0.091  Sum_probs=67.9

Q ss_pred             cHHHHHHHHHHHH---hcCcHHHHHHHHHHHHH--cC-CCccHH------------------HHHHHHHHHHccCCcchH
Q 038237           46 DYVLWTTMIDGYL---RVNRFREALTLFQEIQT--SN-IMGDEF------------------TIVSILTARANLGALELG  101 (181)
Q Consensus        46 ~~~~~~~li~~~~---~~~~~~~a~~~~~~m~~--~~-~~p~~~------------------~~~~l~~~~~~~~~~~~a  101 (181)
                      |...|..++....   ..|+.+.+.+.+.+...  .| .-++..                  ....++.++...|+.+++
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a  190 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV  190 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            5666777766443   35788888888877654  22 222221                  122334445556666666


Q ss_pred             HHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH-----cCCCCChhhHHH
Q 038237          102 EWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR-----ASIKPDEVAYVG  173 (181)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~t~~~  173 (181)
                      ...++.+..... .+..                .|-.+|.++.+.|+..+|++.|++...     .|+.|+..+-..
T Consensus       191 ~~~l~~~~~~~P-~~E~----------------~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          191 IAELEALTFEHP-YREP----------------LWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHST-TCHH----------------HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHhCC-CCHH----------------HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            666666554422 1333                445555556669999999999999753     399999887543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.84  E-value=1.1  Score=26.14  Aligned_cols=78  Identities=12%  Similarity=0.007  Sum_probs=52.1

Q ss_pred             ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237           80 GDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus        80 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                      .+..-+-.+-..+.+.++++.|...++...+.-..++..          .......+..+..++.+.|++++|...+++.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~----------~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~a   72 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEIS----------TIDKVSVLDYLSYAVYQQGDLDKALLLTKKL   72 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCC----------SSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCC----------cccHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            345556677888899999999999999877641110000          0012334455666667799999999999999


Q ss_pred             HHcCCCCChh
Q 038237          160 LRASIKPDEV  169 (181)
Q Consensus       160 ~~~~~~p~~~  169 (181)
                      .+  +.|+..
T Consensus        73 l~--l~P~~~   80 (104)
T 2v5f_A           73 LE--LDPEHQ   80 (104)
T ss_dssp             HH--HCTTCH
T ss_pred             Hh--cCCCCH
Confidence            86  356543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=91.78  E-value=1.1  Score=32.19  Aligned_cols=93  Identities=11%  Similarity=-0.035  Sum_probs=69.1

Q ss_pred             HHHHHHHhcccCC--C---cHHHHHHHHHHHHhc-----CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHcc-CCcch
Q 038237           32 VDIARQCFDQMPE--R---DYVLWTTMIDGYLRV-----NRFREALTLFQEIQTSNIMGDEFTIVSILTARANL-GALEL  100 (181)
Q Consensus        32 ~~~a~~~~~~m~~--~---~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-~~~~~  100 (181)
                      ...|...+++..+  |   +-..|..|...|.+.     |+.++|.+.|++-.+-+-.-+..++...-+.+++. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            3455555555443  4   356899999999995     99999999999998854211366677778888884 99999


Q ss_pred             HHHHHHHHHHcCCC--cchHHHHHHH
Q 038237          101 GEWIKTYIDKNKVK--NDIFAGNALI  124 (181)
Q Consensus       101 a~~~~~~~~~~~~~--~~~~~~~~ll  124 (181)
                      +...+++.......  |+....|.+-
T Consensus       259 a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            99999999998766  7766655544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.16  E-value=2.2  Score=28.09  Aligned_cols=93  Identities=12%  Similarity=0.106  Sum_probs=64.3

Q ss_pred             ccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc
Q 038237            2 GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD   81 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~   81 (181)
                      +.|.++.+.+  .+...|..+-+...+.|+++-|.+.|.....     +..+.--|.-.|+.++..++-+.-...|    
T Consensus        22 ~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----~~~L~~Ly~~tg~~e~L~kla~iA~~~g----   90 (177)
T 3mkq_B           22 DAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS-----FDKLSFLYLVTGDVNKLSKMQNIAQTRE----   90 (177)
T ss_dssp             HHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----HHHHHHHHHHHTCHHHHHHHHHHHHHTT----
T ss_pred             HHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----HHHHHHHHHHhCCHHHHHHHHHHHHHCc----
Confidence            3455555544  3566899999999999999999999998876     4555555666677666554444433333    


Q ss_pred             HHHHHHHHHHHHccCCcchHHHHHHH
Q 038237           82 EFTIVSILTARANLGALELGEWIKTY  107 (181)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~a~~~~~~  107 (181)
                        -++.....+...|+++++.+++.+
T Consensus        91 --~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           91 --DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             --CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             --cHHHHHHHHHHcCCHHHHHHHHHH
Confidence              235566667778888888888743

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=89.71  E-value=1.8  Score=24.88  Aligned_cols=66  Identities=11%  Similarity=-0.057  Sum_probs=45.5

Q ss_pred             ccHHHHHHHHHHHHccCC---cchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHH
Q 038237           80 GDEFTIVSILTARANLGA---LELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMF  156 (181)
Q Consensus        80 p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  156 (181)
                      .|...+..+-.++...++   .++|..++++..+.... ++.                ....+-..+.+.|++++|.+.|
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~r----------------A~~~lg~~~~~~g~y~~Ai~~w   66 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEA----------------ALSLIANDHFISFRFQEAIDTW   66 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHH----------------HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHH----------------HHHHHHHHHHHcCCHHHHHHHH
Confidence            455666666666654444   68899999998886433 222                2233334455699999999999


Q ss_pred             HHHHHc
Q 038237          157 SQMLRA  162 (181)
Q Consensus       157 ~~m~~~  162 (181)
                      +++.+.
T Consensus        67 ~~~l~~   72 (93)
T 3bee_A           67 VLLLDS   72 (93)
T ss_dssp             HHHHTC
T ss_pred             HHHHhh
Confidence            999986

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=89.56  E-value=2.5  Score=26.16  Aligned_cols=18  Identities=22%  Similarity=0.167  Sum_probs=8.9

Q ss_pred             HHcCChhHHHHHHHHHHH
Q 038237          144 AISGNGDKALDMFSQMLR  161 (181)
Q Consensus       144 ~~~~~~~~a~~~~~~m~~  161 (181)
                      .+.|++++|.+.++.+.+
T Consensus        85 yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           85 YRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHH
Confidence            335555555555555544

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.49  E-value=4.2  Score=33.26  Aligned_cols=124  Identities=15%  Similarity=0.078  Sum_probs=69.2

Q ss_pred             HHHHHHHHhccCC-HHHHHHHhcccCCCcH--HH--HHHHHHHHHhcC-cHHHHHHHHHHHHHc------CCCcc-----
Q 038237           19 YTAIVSGYINREQ-VDIARQCFDQMPERDY--VL--WTTMIDGYLRVN-RFREALTLFQEIQTS------NIMGD-----   81 (181)
Q Consensus        19 ~~~li~~~~~~~~-~~~a~~~~~~m~~~~~--~~--~~~li~~~~~~~-~~~~a~~~~~~m~~~------~~~p~-----   81 (181)
                      -..++..+...++ ++.|..+|+++...++  ..  ..++|....+.+ +--+|.+++.+..+.      ...+.     
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3455666666666 5778888887764222  22  223333333333 233555555554321      11111     


Q ss_pred             ------HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHH
Q 038237           82 ------EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDM  155 (181)
Q Consensus        82 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  155 (181)
                            ......-.+-|...|+++.|..+-++.....  |+               +-.+|-.|..+|...|+++.|+=.
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a--Ps---------------eF~tW~~La~vYi~l~d~e~ALLt  393 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA--LD---------------SFESWYNLARCHIKKEEYEKALFA  393 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SS---------------CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC--ch---------------hhHHHHHHHHHHHHhccHHHHHHH
Confidence                  1122333444556788888887777766552  22               233555566666669999999999


Q ss_pred             HHHH
Q 038237          156 FSQM  159 (181)
Q Consensus       156 ~~~m  159 (181)
                      ++.+
T Consensus       394 LNSc  397 (754)
T 4gns_B          394 INSM  397 (754)
T ss_dssp             HHHS
T ss_pred             HhcC
Confidence            9888

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=89.42  E-value=2.5  Score=26.12  Aligned_cols=65  Identities=11%  Similarity=0.264  Sum_probs=44.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCCccHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVN--RFREALTLFQEIQTSNIMGDEF   83 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~   83 (181)
                      ...++.-|...|+.++|.+.++++..|   .......+..++-+.+  ..+.+..++..+...|+-+...
T Consensus        10 i~~ll~EY~~~~D~~Ea~~cl~eL~~p~f~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~q   79 (129)
T 2nsz_A           10 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQ   79 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHH
Confidence            466788888889999999999988766   2334455555665543  2467788888888777554443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=88.86  E-value=3.3  Score=26.65  Aligned_cols=105  Identities=10%  Similarity=0.066  Sum_probs=55.5

Q ss_pred             CcHHHHHHHHHHHHhcCcH------HHHHHHHHHHHHcCCCccHHH----HHHH-H--HHHHccCCcchHHHHHHHHHHc
Q 038237           45 RDYVLWTTMIDGYLRVNRF------REALTLFQEIQTSNIMGDEFT----IVSI-L--TARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~~----~~~l-~--~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .|..+|=..+.-.-+.|+.      ++..++|++... .++|+...    |--+ +  ..+...+|.+.|.++|+.+++.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3555666666665555666      666666665444 34454311    1000 0  0012236777777777777654


Q ss_pred             CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 038237          112 KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPD  167 (181)
Q Consensus       112 ~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  167 (181)
                      +-.- ..+                |-..-+--.+.|++++|.+++.+-...+-+|.
T Consensus        90 hKkF-AKi----------------wi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           90 CKKF-AFV----------------HISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             CTTB-HHH----------------HHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             hHHH-HHH----------------HHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            2111 222                22333334457888888888887777655543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.59  E-value=4.6  Score=30.48  Aligned_cols=102  Identities=11%  Similarity=0.020  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--ccHHHHHHHHHHHHccCCcchHHHHHHHHHHc-CCCcchHHHHHHHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIM--GDEFTIVSILTARANLGALELGEWIKTYIDKN-KVKNDIFAGNALID  125 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~  125 (181)
                      +...+..-|.+.|++++|.+.|.++...-..  --...+-.+++.+...+++..+.....+.... .-.++....+.+- 
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk-  211 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK-  211 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH-
Confidence            4556778888999999999999999864332  23466778889999999999999998887654 1222322222211 


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                               .|..++  +...+++..|...|-+....
T Consensus       212 ---------~~~gl~--~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 ---------TYYGIH--CLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             ---------HHHHHG--GGGTSCHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHH--HHHhChHHHHHHHHHHHhcc
Confidence                     122222  22367888888888776544

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=88.04  E-value=5.8  Score=28.48  Aligned_cols=129  Identities=10%  Similarity=0.018  Sum_probs=83.6

Q ss_pred             CCHHHHHHHhcccCCCcHH--HHHHHHHHH-Hhc--C------cHHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHHc-
Q 038237           30 EQVDIARQCFDQMPERDYV--LWTTMIDGY-LRV--N------RFREALTLFQEIQTSNIMGD---EFTIVSILTARAN-   94 (181)
Q Consensus        30 ~~~~~a~~~~~~m~~~~~~--~~~~li~~~-~~~--~------~~~~a~~~~~~m~~~~~~p~---~~~~~~l~~~~~~-   94 (181)
                      ++..+-.+.+.+....++.  .|..++.+- ...  |      ....|...+++..+  +.|+   -..|..+-..|.+ 
T Consensus       135 ~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~v  212 (301)
T 3u64_A          135 GDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAA  212 (301)
T ss_dssp             SCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHS
T ss_pred             cchhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhC
Confidence            3334445555555544443  566666643 332  3      24555556666555  3566   4578888888888 


Q ss_pred             ----cCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCC--CCh
Q 038237           95 ----LGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIK--PDE  168 (181)
Q Consensus        95 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~  168 (181)
                          .|+.++|.+.|++-...+..-+..++...-..+++.               .|+.+.+.+.+++.......  |+.
T Consensus       213 Pp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~---------------~gd~~~a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          213 PESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIP---------------LNNRAGFDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             CTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTT---------------TTCHHHHHHHHHHHHHCCGGGCSSC
T ss_pred             CCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHh---------------cCCHHHHHHHHHHHHcCCCCCCCCh
Confidence                499999999999999875532344444444444441               48999999999999998766  777


Q ss_pred             hhHHHHH
Q 038237          169 VAYVGVL  175 (181)
Q Consensus       169 ~t~~~li  175 (181)
                      ...+.+-
T Consensus       278 ~lan~~~  284 (301)
T 3u64_A          278 KLLVILS  284 (301)
T ss_dssp             HHHHHHH
T ss_pred             hHHHHHH
Confidence            6666554

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=87.88  E-value=3.8  Score=26.19  Aligned_cols=66  Identities=11%  Similarity=0.257  Sum_probs=46.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCC---cHHHHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCCccHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPER---DYVLWTTMIDGYLRVN--RFREALTLFQEIQTSNIMGDEFT   84 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~   84 (181)
                      ...++.-|...|+.++|.+.++++..|   ...+...+..++-+.+  ..+.+..++..+...|+-+....
T Consensus        12 i~~lL~EY~~~~D~~EA~~cl~EL~~p~f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~is~~q~   82 (152)
T 2ion_A           12 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM   82 (152)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHH
Confidence            567888888899999999999999876   2334555555666543  25678888888888776544433

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

Probab=86.48  E-value=5.1  Score=26.19  Aligned_cols=146  Identities=11%  Similarity=0.040  Sum_probs=81.5

Q ss_pred             HhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH
Q 038237            7 IFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIV   86 (181)
Q Consensus         7 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   86 (181)
                      +++.+..+|..+-...+.++++.+..+....+.+.+..++...-...+.++.+.+..+ +...+.++..   .++..+-.
T Consensus        19 ~i~~L~~~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~-~~~~L~~~l~---d~~~~vr~   94 (201)
T 3ltj_A           19 YIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDER-AVEPLIKALK---DEDGWVRQ   94 (201)
T ss_dssp             HHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHH
T ss_pred             HHHHhcCCCHHHHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHH-HHHHHHHHHc---CCCHHHHH
Confidence            4455556777777777888888777666666666666677776666667777666543 3333333333   25666667


Q ss_pred             HHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------chHhHHHHHHHHHHcCChhH
Q 038237           87 SILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------VKFTWTTMIVGLAISGNGDK  151 (181)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------~~~~~~~li~~~~~~~~~~~  151 (181)
                      ..+.++.+.++.+....+.+ +..   .++..+-...+.++++.+               +...-...+.++.+.|. .+
T Consensus        95 ~a~~aL~~~~~~~~~~~L~~-~l~---d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~A~~aL~~~~~-~~  169 (201)
T 3ltj_A           95 SAAVALGQIGDERAVEPLIK-ALK---DEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ER  169 (201)
T ss_dssp             HHHHHHHHHCCGGGHHHHHH-HTT---CSSHHHHHHHHHHHHHHTCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HH
T ss_pred             HHHHHHHHhCcHHHHHHHHH-HHc---CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hh
Confidence            77777777776544333333 222   234444444444444333               33344444555555544 33


Q ss_pred             HHHHHHHHHH
Q 038237          152 ALDMFSQMLR  161 (181)
Q Consensus       152 a~~~~~~m~~  161 (181)
                      +...+.++.+
T Consensus       170 ~~~~L~~~l~  179 (201)
T 3ltj_A          170 VRAAMEKLAE  179 (201)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            4444444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=84.57  E-value=12  Score=28.75  Aligned_cols=90  Identities=12%  Similarity=0.061  Sum_probs=51.2

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH--HHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHh
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIV--SILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMY  127 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  127 (181)
                      |-..+....+.+..+.|..+|++. ... .++...|.  +.+.... .++.+.|..+|+...+.-.. ++..|...++  
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~~~-~~~~~~~yid--  362 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKHPD-STLLKEEFFL--  362 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHCTT-CHHHHHHHHH--
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCCC-CHHHHHHHHH--
Confidence            444444444566788888999888 221 12333332  2222222 33688899999888775321 2223333333  


Q ss_pred             HhcCchHhHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          128 CKCTVKFTWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       128 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                                    -..+.|+.+.|..+|++.
T Consensus       363 --------------~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          363 --------------FLLRIGDEENARALFKRL  380 (493)
T ss_dssp             --------------HHHHHTCHHHHHHHHHHS
T ss_pred             --------------HHHHcCCHHHHHHHHHHH
Confidence                          333478888888888876

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=84.50  E-value=5  Score=24.75  Aligned_cols=68  Identities=7%  Similarity=-0.055  Sum_probs=48.2

Q ss_pred             CcHHHHHHHHHHHHhcCcHHH---HHHHHHHHHHcCCC-ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           45 RDYVLWTTMIDGYLRVNRFRE---ALTLFQEIQTSNIM-GDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ++..+--.+..++.+++...+   ++.++++..+.+-+ -.....-.+.-++.+.|+++.|...++.+.+..
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~e  104 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE  104 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            556666666667777775554   88888887776421 134555567778889999999999999888763

>3l6a_A Eukaryotic translation initiation factor 4 gamma; C-terminal region, MA2 domain, W2 domain, EIF4G2, EIF family translation; HET: MES PG4; 2.00A {Homo sapiens}

Probab=84.39  E-value=10  Score=27.97  Aligned_cols=91  Identities=14%  Similarity=0.126  Sum_probs=56.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCCCc----HHHHHHHHHHHHhcCc-HHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPERD----YVLWTTMIDGYLRVNR-FREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      .-.++|.-|...|++++|.+.++++..|+    ...+..+..++-+... -+.+-.++..+...++-+.......+...+
T Consensus        14 ~~~~ii~EY~~~~D~~Ea~~~l~eL~~p~~~~~~~v~~~i~~aLer~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~ll   93 (364)
T 3l6a_A           14 LTETVVTEYLNSGNANEAVNGVREMRAPKHFLPEMLSKVIILSLDRSDEDKEKASSLISLLKQEGIATSDNFMQAFLNVL   93 (364)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCCGGGHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhCCchhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            35688999999999999999999999875    2344444444444322 366777888888877654444433333333


Q ss_pred             HccC----CcchHHHHHHHH
Q 038237           93 ANLG----ALELGEWIKTYI  108 (181)
Q Consensus        93 ~~~~----~~~~a~~~~~~~  108 (181)
                      ....    |.+.|...+..+
T Consensus        94 e~l~Dl~iDiP~a~~~la~f  113 (364)
T 3l6a_A           94 DQCPKLEVDIPLVKSYLAQF  113 (364)
T ss_dssp             HTHHHHHHHCTTHHHHHHHH
T ss_pred             hhChHhccccccHHHHHHHH
Confidence            3333    334444444443

>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat repeat, translation; 2.24A {Homo sapiens} SCOP: a.118.1.14 a.118.1.14

Probab=84.18  E-value=10  Score=27.64  Aligned_cols=140  Identities=9%  Similarity=-0.002  Sum_probs=82.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCCc---HHHHHHHHHHHHhcC-cHHHHHHHHHHHHHcCCCccHHH---HHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPERD---YVLWTTMIDGYLRVN-RFREALTLFQEIQTSNIMGDEFT---IVSILTA   91 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~---~~~l~~~   91 (181)
                      ...++.-|...|+.++|.+.++++..|.   ......+..+.-+.. .-+.+..++..+.+.|+-+....   +..++..
T Consensus        14 ~~~ll~Ey~~~~d~~Ea~~ci~el~~p~~~~~~v~~~i~~~le~~~~~re~~~~Ll~~L~~~~~is~~~~~~Gf~~~~~~   93 (339)
T 1ug3_A           14 SKAIIEEYLHLNDMKEAVQCVQELASPSLLFIFVRHGVESTLERSAIAREHMGQLLHQLLCAGHLSTAQYYQGLYEILEL   93 (339)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHTTCCGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhh
Confidence            4678889999999999999999998773   223333333443322 34677788888888775433333   3333333


Q ss_pred             HHcc-CCcchHHHHHHHHHHc----CCCcchHHHHHHHHHhHhcC-chHhHHHHHHHHHHcCChhHHHHHHHH
Q 038237           92 RANL-GALELGEWIKTYIDKN----KVKNDIFAGNALIDMYCKCT-VKFTWTTMIVGLAISGNGDKALDMFSQ  158 (181)
Q Consensus        92 ~~~~-~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~  158 (181)
                      +-.. =|.+.|...+..+...    |..|-...++.+...+...| .......++..+.+....+.+.++|++
T Consensus        94 l~Dl~lDiP~a~~~La~~v~~~i~~g~l~~~~l~~~~~~~l~~~g~~~~fl~~vl~~l~~~~g~~~l~~~~~~  166 (339)
T 1ug3_A           94 AEDMEIDIPHVWLYLAELVTPILQEGGVPMGELFREITKPLRPLGKAASLLLEILGLLCKSMGPKKVGTLWRE  166 (339)
T ss_dssp             HHHHTTTCTTHHHHHHHHHGGGGSTTSCCHHHHHHHHTTTHHHHTCHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             ChHhhcCccchHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            3322 2677888888887654    44332233333333333323 223344555566666667777777664

>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=83.94  E-value=8.6  Score=26.61  Aligned_cols=80  Identities=6%  Similarity=-0.120  Sum_probs=37.5

Q ss_pred             CCChhHHHHHHHHHhccCC-----HHHHHHH-hcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH
Q 038237           13 NKDVISYTAIVSGYINREQ-----VDIARQC-FDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIV   86 (181)
Q Consensus        13 ~~~~~~~~~li~~~~~~~~-----~~~a~~~-~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   86 (181)
                      +++..+-...+.++++.+.     .+.+... ...+..++...-...+.+..+.|+.+ +...+.++...   ++..+-.
T Consensus       102 d~~~~vr~~a~~aL~~l~~~~~~~~~~~~~~L~~~l~d~~~~vR~~a~~aL~~~~~~~-~~~~L~~~l~d---~~~~vr~  177 (280)
T 1oyz_A          102 DKSACVRATAIESTAQRCKKNPIYSPKIVEQSQITAFDKSTNVRRATAFAISVINDKA-TIPLLINLLKD---PNGDVRN  177 (280)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHTTCSCHHHHHHHHHHHHTC---C-CHHHHHHHHTC---SSHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHhhCCCHHHHHHHHHHHHhcCCHH-HHHHHHHHHcC---CCHHHHH
Confidence            4566666666666666541     2223222 23334456665555666666655532 33333333332   4544444


Q ss_pred             HHHHHHHccC
Q 038237           87 SILTARANLG   96 (181)
Q Consensus        87 ~l~~~~~~~~   96 (181)
                      ..+.++.+.+
T Consensus       178 ~a~~aL~~~~  187 (280)
T 1oyz_A          178 WAAFAININK  187 (280)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHhhc
Confidence            5555555544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=82.00  E-value=6  Score=23.46  Aligned_cols=52  Identities=12%  Similarity=0.036  Sum_probs=29.7

Q ss_pred             HHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 038237           24 SGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   77 (181)
                      ..+...|++++|..+.+....||.+.|-+|-.  .+.|.-+++..-+.++...|
T Consensus        47 sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg   98 (115)
T 2uwj_G           47 SSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGSS   98 (115)
T ss_dssp             HHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS
T ss_pred             HHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC
Confidence            34455666666666666666666666655533  34555555555555555544

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=81.23  E-value=6.5  Score=23.35  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=12.1

Q ss_pred             hccCCHHHHHHHhcccCCCcHHHHHHH
Q 038237           27 INREQVDIARQCFDQMPERDYVLWTTM   53 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~~~~~~~~~l   53 (181)
                      ...|++++|..+.+....||.+.|-+|
T Consensus        51 mNrG~Yq~Al~l~~~~c~pdlepw~AL   77 (116)
T 2p58_C           51 MNRGDYASALQQGNKLAYPDLEPWLAL   77 (116)
T ss_dssp             HHTTCHHHHHHHHTTSCCGGGHHHHHH
T ss_pred             HcchhHHHHHHhcCCCCCchHHHHHHH
Confidence            344444444444444444444444443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=80.62  E-value=9.1  Score=24.63  Aligned_cols=104  Identities=8%  Similarity=0.007  Sum_probs=69.8

Q ss_pred             CChhHHHHHHHHHhccCCH------HHHHHHhcccCC---C----cHHHHHHHHHHH---HhcCcHHHHHHHHHHHHHcC
Q 038237           14 KDVISYTAIVSGYINREQV------DIARQCFDQMPE---R----DYVLWTTMIDGY---LRVNRFREALTLFQEIQTSN   77 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~---~----~~~~~~~li~~~---~~~~~~~~a~~~~~~m~~~~   77 (181)
                      .|..+|=..+...-+.|++      +...++|+....   |    ....|--|---|   -..+++++|.++|..+...+
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            4777888888888888998      777777776642   2    111122111111   22378999999999997653


Q ss_pred             CCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchH
Q 038237           78 IMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIF  118 (181)
Q Consensus        78 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  118 (181)
                      -+. ...|.....-=.+.|++..|..++..-+..+..|...
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~  130 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEM  130 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHH
Confidence            333 4444444444467899999999999999988776543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	181
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.0
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.76
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.73
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.63
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.63
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.56
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.53
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.49
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.39
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.37
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.23
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.2
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.19
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.18
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.12
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.09
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.0
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.94
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.92
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.87
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.87
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.8
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.77
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.72
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.7
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.66
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.59
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.58
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.48
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.47
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.46
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.36
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.34
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.26
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.25
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.25
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.07
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.05
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.79
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.6
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.56
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.39
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.15
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.04
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.73
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.62
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.55
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.49
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	95.12
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	94.24
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	93.98
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.41
d1peqa1	162	R1 subunit of ribonucleotide reductase, N-terminal	88.92
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	85.88
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	85.2
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	85.02
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	84.7
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	83.98

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=2.7e-08  Score=71.16  Aligned_cols=172  Identities=12%  Similarity=0.052  Sum_probs=119.0

Q ss_pred             cHHHHhhhcC--CC-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237            3 FTLEIFGTMK--NK-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus         3 ~a~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      +|.+.+++..  .| +...|..+...+...|++++|...++....   .+...+..+...+.+.|++++|.+.|++..+.
T Consensus       187 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  266 (388)
T d1w3ba_         187 LAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL  266 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3444444432  23 344677777778888888888887776653   45666777777788888888888888877664


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTT  138 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~  138 (181)
                      .- -+...+..+...+...|++++|...++....... .+...+..+...+...|                  +..+|..
T Consensus       267 ~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  344 (388)
T d1w3ba_         267 QP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSN  344 (388)
T ss_dssp             CS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCC-ccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            31 2456677777788888888888888877766532 35556666666666555                  5667888


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHhhh
Q 038237          139 MIVGLAISGNGDKALDMFSQMLRASIKPD-EVAYVGVLSAR  178 (181)
Q Consensus       139 li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~  178 (181)
                      +-..|.+.|++++|.+.|++..+  +.|+ ...|..|-..+
T Consensus       345 la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~  383 (388)
T d1w3ba_         345 LASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTL  383 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            88888899999999999998876  4564 45566665544

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=5.9e-08  Score=68.51  Aligned_cols=159  Identities=11%  Similarity=-0.001  Sum_probs=114.2

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|++.|++..+  | +...|..+..++.+.|++++|...|++..+   .+...|..+...|...|++++|.+.+++...
T Consensus        36 ~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  115 (323)
T d1fcha_          36 PNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLR  115 (323)
T ss_dssp             HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccccccccchhhHHH
Confidence            567788877643  5 456788888999999999999999988763   3677888888889999999999888877653


Q ss_pred             cCC--------------------------------------------------CccHHHHHHHHHHHHccCCcchHHHHH
Q 038237           76 SNI--------------------------------------------------MGDEFTIVSILTARANLGALELGEWIK  105 (181)
Q Consensus        76 ~~~--------------------------------------------------~p~~~~~~~l~~~~~~~~~~~~a~~~~  105 (181)
                      ..-                                                  .++...+..+...+...|++++|...+
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~  195 (323)
T d1fcha_         116 YTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCF  195 (323)
T ss_dssp             TSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccc
Confidence            210                                                  122344555566667777888888888


Q ss_pred             HHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          106 TYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       106 ~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +........ +...|..+-..|...|                  +..+|..+...|.+.|++++|.+.|++..+
T Consensus       196 ~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         196 TAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777765433 4556666666666655                  566677777777788888888888877654

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.76  E-value=6.4e-07  Score=63.79  Aligned_cols=160  Identities=9%  Similarity=0.016  Sum_probs=127.7

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 038237           15 DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTA   91 (181)
Q Consensus        15 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~   91 (181)
                      +...+..+...+...|+.++|...++...+   .+..+|..+...+...|++++|...+++....+. .+...+..+...
T Consensus       168 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~  246 (388)
T d1w3ba_         168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACV  246 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHH
Confidence            345677788889999999999999987653   4677899999999999999999999999887653 356777788899


Q ss_pred             HHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCChhHHH
Q 038237           92 RANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGNGDKAL  153 (181)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~  153 (181)
                      +.+.|++++|...+++..+.... +...+..+...+...+                  +...+..+...+.+.|++++|.
T Consensus       247 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  325 (388)
T d1w3ba_         247 YYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAV  325 (388)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHH
Confidence            99999999999999998876433 5566777777776665                  6678888899999999999999


Q ss_pred             HHHHHHHHcCCCCC-hhhHHHHHhhh
Q 038237          154 DMFSQMLRASIKPD-EVAYVGVLSAR  178 (181)
Q Consensus       154 ~~~~~m~~~~~~p~-~~t~~~li~~~  178 (181)
                      +.|++..+.  .|+ ...+..+-..+
T Consensus       326 ~~~~~al~~--~p~~~~~~~~la~~~  349 (388)
T d1w3ba_         326 RLYRKALEV--FPEFAAAHSNLASVL  349 (388)
T ss_dssp             HHHHHHTTS--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            999998763  454 44455444443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.73  E-value=1.4e-06  Score=59.28  Aligned_cols=148  Identities=14%  Similarity=-0.046  Sum_probs=109.4

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      .+|..+-..|.+.|++++|.+.|++..+   .++.+|..+-..+.+.|++++|++.|++..+..- -+...+..+...+.
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHH
Confidence            3577777888999999999999988864   4778899999999999999999999999887532 13466777888888


Q ss_pred             ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------------------------------
Q 038237           94 NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------------------------------  131 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------------------------------  131 (181)
                      ..|++++|...++...+.... +......+...+.+.+                                          
T Consensus       117 ~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLK  195 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999888776432 2222111111111111                                          


Q ss_pred             ------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCh
Q 038237          132 ------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDE  168 (181)
Q Consensus       132 ------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  168 (181)
                                  ...+|..+-..+...|++++|.+.|++....  .|+.
T Consensus       196 ~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~  242 (259)
T d1xnfa_         196 ADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN  242 (259)
T ss_dssp             HHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT
T ss_pred             HHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCC
Confidence                        3456777888899999999999999998864  4543

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=9.7e-07  Score=58.05  Aligned_cols=151  Identities=9%  Similarity=-0.081  Sum_probs=109.3

Q ss_pred             HHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHH
Q 038237           23 VSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGE  102 (181)
Q Consensus        23 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  102 (181)
                      -..+...|+++.|.+.|.++..+++.+|..+-..|.+.|++++|.+.|++..+..- -+...|..+-.++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccHHHHH
Confidence            34567899999999999999999999999999999999999999999999887542 25678888899999999999999


Q ss_pred             HHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          103 WIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      ..|++...........-|..+-..+ ......++..+-.++.+.|++++|.+.|+........|+.......+
T Consensus        91 ~~~~kAl~~~~~n~~~~~~~~~~~~-~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al  162 (192)
T d1hh8a_          91 KDLKEALIQLRGNQLIDYKILGLQF-KLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAM  162 (192)
T ss_dssp             HHHHHHHHTTTTCSEEECGGGTBCC-EEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHH
T ss_pred             HHHHHHHHhCccCchHHHHHhhhhc-ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHH
Confidence            9998877542111100010000000 00023345566667888999999999999888765555554444433

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.63  E-value=2.8e-06  Score=59.70  Aligned_cols=159  Identities=11%  Similarity=0.053  Sum_probs=106.1

Q ss_pred             ccHHHHhhhcCC---C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-c-HHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---K-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-D-YVLWTTMIDGYLRVNRFREALTLFQEI   73 (181)
Q Consensus         2 ~~a~~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~-~~~~~~li~~~~~~~~~~~a~~~~~~m   73 (181)
                      ++|..+|++..+   | +...|........+.|+++.|..+|+.+..  | + ...|...+....+.|+.++|.++|++.
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            456677776432   3 445677788888888999999999988754  2 3 346888888888888999999999888


Q ss_pred             HHcCCCccHHHHHHHHH-HHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC---------------------
Q 038237           74 QTSNIMGDEFTIVSILT-ARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT---------------------  131 (181)
Q Consensus        74 ~~~~~~p~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---------------------  131 (181)
                      .+.+.. +...|..... -+...|+.+.|..+|+...+.. +.+...|...+..+.+.|                     
T Consensus       161 l~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            765432 2223322222 2334577888888888888762 334566777776666654                     


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                       ....|...+.--.+.|+.+.+.++++++.+.
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1234666666666677777777777776553

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.56  E-value=2.1e-06  Score=60.68  Aligned_cols=174  Identities=8%  Similarity=-0.011  Sum_probs=121.3

Q ss_pred             ccHHHHhhhcCC--CChh-HHHHHHHHHhccC-CHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--KDVI-SYTAIVSGYINRE-QVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQ   74 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~-~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   74 (181)
                      ++|++++++..+  |+.. .|+..-.++.+.| ++++|.+.++...+   .+..+|..+-..+.+.|++++|++.++++.
T Consensus        60 ~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal  139 (315)
T d2h6fa1          60 ERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADIL  139 (315)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhh
Confidence            578888887764  6444 5777777777766 58999999888753   478889999889999999999999999998


Q ss_pred             HcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------------------
Q 038237           75 TSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------------------  131 (181)
Q Consensus        75 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------------  131 (181)
                      +..- -+...|..+...+.+.|++++|...++..++..+. +...|+.+-..+.+.+                       
T Consensus       140 ~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P  217 (315)
T d2h6fa1         140 NQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVP  217 (315)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHST
T ss_pred             hhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCC
Confidence            7533 26788888999999999999999999999887544 4445554333322211                       


Q ss_pred             -chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-ChhhHHHHHhhh
Q 038237          132 -VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKP-DEVAYVGVLSAR  178 (181)
Q Consensus       132 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~  178 (181)
                       +...|+.+...+. ....+++.+.++...+....+ +...+..+...|
T Consensus       218 ~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         218 HNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             TCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence             5666766655544 444677778887776643222 333444444433

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=8.1e-06  Score=57.17  Aligned_cols=90  Identities=7%  Similarity=-0.043  Sum_probs=75.2

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           21 AIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      -.-..+.+.|++++|...|+...+  | +..+|..+...+...|++++|...|.+..+..- -+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-cccccccccccccccccc
Confidence            345567899999999999999864  3 677899999999999999999999999877532 245778888889999999


Q ss_pred             cchHHHHHHHHHHc
Q 038237           98 LELGEWIKTYIDKN  111 (181)
Q Consensus        98 ~~~a~~~~~~~~~~  111 (181)
                      +++|...++.....
T Consensus       103 ~~~A~~~~~~~~~~  116 (323)
T d1fcha_         103 QRQACEILRDWLRY  116 (323)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             ccccccchhhHHHh
Confidence            99999988887654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=2.2e-06  Score=56.33  Aligned_cols=114  Identities=12%  Similarity=-0.000  Sum_probs=94.7

Q ss_pred             ccHHHHhhhcCCCChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC-
Q 038237            2 GFTLEIFGTMKNKDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN-   77 (181)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-   77 (181)
                      +.|++.|.+..+|+..+|..+-.++.+.|++++|.+.|++..+   .++..|..+-..+.+.|++++|++-|++..... 
T Consensus        22 ~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~  101 (192)
T d1hh8a_          22 KGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLR  101 (192)
T ss_dssp             HHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCc
Confidence            5789999999889999999999999999999999999999874   478889999999999999999999999876421 


Q ss_pred             -----------C--Ccc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCc
Q 038237           78 -----------I--MGD-EFTIVSILTARANLGALELGEWIKTYIDKNKVKN  115 (181)
Q Consensus        78 -----------~--~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  115 (181)
                                 .  .++ ..++..+-.++.+.|++++|.+.+....+....+
T Consensus       102 ~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_         102 GNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             TCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             cCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence                       1  111 2445566778889999999999998887765554

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.39  E-value=1.4e-05  Score=56.08  Aligned_cols=145  Identities=12%  Similarity=0.233  Sum_probs=105.7

Q ss_pred             CHHHHHHHhcccCC----CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHH
Q 038237           31 QVDIARQCFDQMPE----RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKT  106 (181)
Q Consensus        31 ~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  106 (181)
                      ..++|..+|+...+    .+...|...+....+.|+++.|..+|+++.+.........|...+....+.|+++.|..+|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45778888887543    36667888888889999999999999998875433334578899999999999999999999


Q ss_pred             HHHHcCCC-cchHHHHHHHHHhHhcC-----------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc-CCCCC
Q 038237          107 YIDKNKVK-NDIFAGNALIDMYCKCT-----------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA-SIKPD  167 (181)
Q Consensus       107 ~~~~~~~~-~~~~~~~~ll~~~~~~~-----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~  167 (181)
                      ...+.+.. +......+.+..+....                 +...|...+..+.+.|++++|..+|++.... +..|+
T Consensus       159 ~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         159 KAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            99876543 22232223332222111                 6788999999999999999999999998876 35554


Q ss_pred             h--hhHHHHH
Q 038237          168 E--VAYVGVL  175 (181)
Q Consensus       168 ~--~t~~~li  175 (181)
                      .  ..|...+
T Consensus       239 ~~~~iw~~~~  248 (308)
T d2onda1         239 KSGEIWARFL  248 (308)
T ss_dssp             GCHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            2  3454433

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=4.3e-05  Score=53.79  Aligned_cols=155  Identities=10%  Similarity=0.010  Sum_probs=117.1

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVN-RFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      ..|+.+-..+.+.+..++|.++++.+.+  | +..+|+..-..+...| ++++|++.++...+..-. +..+|..+-..+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHH
Confidence            3566777788899999999999999974  4 6778888888888876 599999999998876433 678899999999


Q ss_pred             HccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC------------------chHhHHHHHHHHHHcCC------
Q 038237           93 ANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT------------------VKFTWTTMIVGLAISGN------  148 (181)
Q Consensus        93 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------------------~~~~~~~li~~~~~~~~------  148 (181)
                      .+.|++++|...++...+.... +...|..+...+...+                  +...|+.+-..+.+.+.      
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhh
Confidence            9999999999999999987544 5677777777776655                  66677776666666555      


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHH
Q 038237          149 GDKALDMFSQMLRASIKPDEVAYVGV  174 (181)
Q Consensus       149 ~~~a~~~~~~m~~~~~~p~~~t~~~l  174 (181)
                      +++|++.+.+..+.. +-|...|+.+
T Consensus       202 ~~~ai~~~~~al~~~-P~~~~~~~~l  226 (315)
T d2h6fa1         202 LEREVQYTLEMIKLV-PHNESAWNYL  226 (315)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             hHHhHHHHHHHHHhC-CCchHHHHHH
Confidence            457777777766542 2244445443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=3.7e-05  Score=45.97  Aligned_cols=97  Identities=12%  Similarity=0.028  Sum_probs=60.1

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchH
Q 038237           55 DGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKF  134 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  134 (181)
                      ..+.+.|++++|+..|++..+.. +-+...|..+-.++.+.|++++|...+....+.... +...               
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~---------------   73 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKG---------------   73 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHH---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhH---------------
Confidence            45566677777777777776543 224566777777777777777777777777765433 2232               


Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhH
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY  171 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  171 (181)
                       |..+..++...|++++|+..|++..+  ..|+...+
T Consensus        74 -~~~~g~~~~~~~~~~~A~~~~~~a~~--~~p~~~~~  107 (117)
T d1elwa_          74 -YSRKAAALEFLNRFEEAKRTYEEGLK--HEANNPQL  107 (117)
T ss_dssp             -HHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHH
T ss_pred             -HHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHH
Confidence             33333444447777777777777775  34444433

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.20  E-value=7.6e-06  Score=53.38  Aligned_cols=96  Identities=9%  Similarity=-0.018  Sum_probs=81.8

Q ss_pred             CChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHH
Q 038237           14 KDVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG-DEFTIVSIL   89 (181)
Q Consensus        14 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~   89 (181)
                      |+...+.-.-+.+.+.|++++|...|++...   .++..|..+-.+|.+.|++++|+..|++..+.  .| +...|..+-
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHH
Confidence            5666677778899999999999999988763   47888999999999999999999999998764  45 467888899


Q ss_pred             HHHHccCCcchHHHHHHHHHHc
Q 038237           90 TARANLGALELGEWIKTYIDKN  111 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~  111 (181)
                      .++.+.|++++|...|+...+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999987653

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=1.6e-05  Score=47.65  Aligned_cols=90  Identities=13%  Similarity=0.040  Sum_probs=79.2

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL   98 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~   98 (181)
                      --+.+.+.|++++|...|++..+   .+...|..+-.+|.+.|++++|+..+++..+.+- .+...|..+..++...|++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHccCH
Confidence            35667889999999999999864   4788899999999999999999999999988653 4778899999999999999


Q ss_pred             chHHHHHHHHHHcC
Q 038237           99 ELGEWIKTYIDKNK  112 (181)
Q Consensus        99 ~~a~~~~~~~~~~~  112 (181)
                      ++|...++...+..
T Consensus        88 ~~A~~~~~~a~~~~  101 (117)
T d1elwa_          88 EEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999999764

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.18  E-value=3.4e-05  Score=50.10  Aligned_cols=99  Identities=7%  Similarity=-0.145  Sum_probs=77.9

Q ss_pred             CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           45 RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      |+...+...-..+.+.|++++|+..|++..+.. +-+...|..+-.++.+.|+++.|...++..++.... +..      
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~------   73 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVK------   73 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHH------
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHH------
Confidence            455556666778999999999999999987754 346788999999999999999999999999865322 223      


Q ss_pred             HHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          125 DMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       125 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                                +|..+-.+|.+.|++++|+..|++..+
T Consensus        74 ----------a~~~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          74 ----------AHFFLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             ----------HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                      344455566669999999999998764

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=4.6e-05  Score=47.99  Aligned_cols=91  Identities=14%  Similarity=0.071  Sum_probs=67.0

Q ss_pred             HHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCC
Q 038237           21 AIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGA   97 (181)
Q Consensus        21 ~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~   97 (181)
                      .--+.+.+.|++++|...|++..+   .+...|..+-..|.+.|++++|.+.|++..+.. +-+...|..+..++...|+
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            344567788888888888887763   466777777778888888888888888877653 2244677777788888888


Q ss_pred             cchHHHHHHHHHHcC
Q 038237           98 LELGEWIKTYIDKNK  112 (181)
Q Consensus        98 ~~~a~~~~~~~~~~~  112 (181)
                      +++|...+++..+..
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            888888887777653

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.09  E-value=3e-05  Score=48.88  Aligned_cols=75  Identities=13%  Similarity=0.162  Sum_probs=50.2

Q ss_pred             ccHHHHhhhcCC--C-ChhHHHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMKN--K-DVISYTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+..|++..+  | +...|..+-.++.+.|++++|.+.|+...+   .+..+|..+..++...|++++|...|++..+
T Consensus        27 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~  106 (159)
T d1a17a_          27 ENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555555442  3 445677777777777777777777776653   3556777777777777777777777777766


Q ss_pred             c
Q 038237           76 S   76 (181)
Q Consensus        76 ~   76 (181)
                      .
T Consensus       107 ~  107 (159)
T d1a17a_         107 V  107 (159)
T ss_dssp             H
T ss_pred             c
Confidence            4

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=5.9e-05  Score=45.52  Aligned_cols=89  Identities=9%  Similarity=0.028  Sum_probs=38.0

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCCccH-HHHHHHHHHHHc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNR---FREALTLFQEIQTSNIMGDE-FTIVSILTARAN   94 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~   94 (181)
                      +++.+...+++++|.+.|+....   .++.++..+-.++.+.++   +++|+++|++....+-.|+. .++..+-.+|.+
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~   84 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   84 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHH
Confidence            34444444445555555444432   233444444444443322   22344444444433222221 233344444444


Q ss_pred             cCCcchHHHHHHHHHH
Q 038237           95 LGALELGEWIKTYIDK  110 (181)
Q Consensus        95 ~~~~~~a~~~~~~~~~  110 (181)
                      .|++++|...|+...+
T Consensus        85 ~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          85 LKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHH
Confidence            4555555555544444

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.94  E-value=5.5e-05  Score=44.83  Aligned_cols=87  Identities=17%  Similarity=0.064  Sum_probs=47.5

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchH
Q 038237           55 DGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKF  134 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  134 (181)
                      ..+.+.|++++|...|++..+..-. +...|..+-.++.+.|++++|...++...+.... +...|              
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~--------------   87 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVH--------------   87 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH--------------
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccch--------------
Confidence            3455566666666666666554311 3555666666666666666666666666554322 22222              


Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHH
Q 038237          135 TWTTMIVGLAISGNGDKALDMFSQM  159 (181)
Q Consensus       135 ~~~~li~~~~~~~~~~~a~~~~~~m  159 (181)
                        ..+...|...|++++|.+.+++.
T Consensus        88 --~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          88 --AALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHCCCHHHHHHHHHHH
Confidence              23333333466666666666654

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=1.5e-05  Score=48.22  Aligned_cols=80  Identities=8%  Similarity=-0.007  Sum_probs=55.8

Q ss_pred             ccHHHHhhhcCC---CChhHHHHHHHHHhccCC---HHHHHHHhcccCC--CcH---HHHHHHHHHHHhcCcHHHHHHHH
Q 038237            2 GFTLEIFGTMKN---KDVISYTAIVSGYINREQ---VDIARQCFDQMPE--RDY---VLWTTMIDGYLRVNRFREALTLF   70 (181)
Q Consensus         2 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~--~~~---~~~~~li~~~~~~~~~~~a~~~~   70 (181)
                      ++|++.|++...   .++.++..+-.++.+.++   +++|.+++++...  |+.   .+|..+-.+|.+.|++++|.+.|
T Consensus        16 ~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~A~~~~   95 (122)
T d1nzna_          16 LKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYV   95 (122)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            567777776553   455677777777776554   4568888888765  222   35667777888888888888888


Q ss_pred             HHHHHcCCCccHH
Q 038237           71 QEIQTSNIMGDEF   83 (181)
Q Consensus        71 ~~m~~~~~~p~~~   83 (181)
                      ++..+.  .|+-.
T Consensus        96 ~~aL~~--~P~~~  106 (122)
T d1nzna_          96 RGLLQT--EPQNN  106 (122)
T ss_dssp             HHHHHH--CTTCH
T ss_pred             HHHHHh--CcCCH
Confidence            888874  35543

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.87  E-value=3.3e-05  Score=45.83  Aligned_cols=89  Identities=7%  Similarity=-0.069  Sum_probs=76.4

Q ss_pred             HHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC
Q 038237           20 TAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLG   96 (181)
Q Consensus        20 ~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~   96 (181)
                      -.+-..+.+.|++++|.+.|++...  | ++.+|..+-..+.+.|++++|...|++..+.. +-+...+..+...+...|
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            3456678889999999999999874  4 78899999999999999999999999988754 235788889999999999


Q ss_pred             CcchHHHHHHHHH
Q 038237           97 ALELGEWIKTYID  109 (181)
Q Consensus        97 ~~~~a~~~~~~~~  109 (181)
                      ++++|.+.+++..
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998763

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.87  E-value=0.00016  Score=46.65  Aligned_cols=97  Identities=7%  Similarity=-0.064  Sum_probs=79.5

Q ss_pred             HHHHHhccCCHHHHHHHhcccCC--C-----------------------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 038237           22 IVSGYINREQVDIARQCFDQMPE--R-----------------------DYVLWTTMIDGYLRVNRFREALTLFQEIQTS   76 (181)
Q Consensus        22 li~~~~~~~~~~~a~~~~~~m~~--~-----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   76 (181)
                      .-......|++++|.+.|.....  +                       ....+..+...+.+.|++++|+..+++..+.
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~   96 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE   96 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh
Confidence            34567788999999888877653  1                       2246788899999999999999999999885


Q ss_pred             CCCccHHHHHHHHHHHHccCCcchHHHHHHHHHH-----cCCCcchHH
Q 038237           77 NIMGDEFTIVSILTARANLGALELGEWIKTYIDK-----NKVKNDIFA  119 (181)
Q Consensus        77 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  119 (181)
                      .- -+...|..++.++.+.|+.++|...|+++.+     .|+.|...+
T Consensus        97 ~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          97 HP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             ST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            43 3778899999999999999999999998854     589988765

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.80  E-value=0.00055  Score=43.98  Aligned_cols=101  Identities=13%  Similarity=0.056  Sum_probs=75.0

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHc--C-CCcc------------------HHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           55 DGYLRVNRFREALTLFQEIQTS--N-IMGD------------------EFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~m~~~--~-~~p~------------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ......|++++|.+.|.+-...  | ..++                  ...+..+...+.+.|++++|...++.......
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P   98 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEHP   98 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC
Confidence            4677889999999999997652  2 1111                  13467778888899999999999999988754


Q ss_pred             CcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH-----cCCCCChhhHH
Q 038237          114 KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR-----ASIKPDEVAYV  172 (181)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~t~~  172 (181)
                      . +...|                ..++.+|.+.|+..+|++.|++...     .|+.|+..|-.
T Consensus        99 ~-~e~~~----------------~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          99 Y-REPLW----------------TQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             T-CHHHH----------------HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             c-cHHHH----------------HHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            3 44444                4455555559999999999999843     59999987643

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.77  E-value=0.00046  Score=48.41  Aligned_cols=38  Identities=21%  Similarity=0.266  Sum_probs=30.1

Q ss_pred             chHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhH
Q 038237          132 VKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAY  171 (181)
Q Consensus       132 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  171 (181)
                      +...|..+...+.+.|+.++|.+.|++..+  +.|+...|
T Consensus       275 ~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y  312 (334)
T d1dcea1         275 CLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAY  312 (334)
T ss_dssp             HHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHH
Confidence            567778888888999999999999999877  46654433

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=97.72  E-value=0.00057  Score=45.79  Aligned_cols=99  Identities=10%  Similarity=-0.120  Sum_probs=76.4

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      ...+|..+-..|.+.|++++|.+.|++..+..- -+..+|..+-.++.+.|++++|...|++..+.... +...+..   
T Consensus        36 ~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~---  110 (259)
T d1xnfa_          36 RAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLN---  110 (259)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHH---
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHH---
Confidence            445677778899999999999999999987532 25688889999999999999999999999987543 2333333   


Q ss_pred             HhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          126 MYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       126 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                   +...+...|++++|.+.|++..+.
T Consensus       111 -------------lg~~~~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         111 -------------RGIALYYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             -------------HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -------------HHHHHHHHhhHHHHHHHHHHHHhh
Confidence                         444455588888888888887764

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=0.0004  Score=41.89  Aligned_cols=102  Identities=7%  Similarity=-0.001  Sum_probs=76.3

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHh
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCK  129 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (181)
                      +..+-..+.+.|++++|++.|.+..+.+- .+...+..+-.++.+.|++++|...++..++.... +...|..+..    
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~-~~~~~~~~a~----   80 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRE-NREDYRQIAK----   80 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH-STTCHHHHHH----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcc-cHHHHHHHHH----
Confidence            44556678899999999999999887642 35788888999999999999999999998764211 1122222222    


Q ss_pred             cCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          130 CTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       130 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                           +|..+-..+...+++++|.+.|++-...
T Consensus        81 -----~~~~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          81 -----AYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             -----HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence                 4455667777799999999999988764

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.66  E-value=0.00044  Score=47.70  Aligned_cols=136  Identities=7%  Similarity=-0.048  Sum_probs=91.2

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC-----C----cHHHHHHHHHHHHh-cCcHHHHHHHHHHHHH----cCCCcc-
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE-----R----DYVLWTTMIDGYLR-VNRFREALTLFQEIQT----SNIMGD-   81 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~----~~~~p~-   81 (181)
                      .+|..+..+|.+.|++++|.+.++....     .    ...++..+...|-. .|++++|++.|.+..+    .+-.+. 
T Consensus        78 ~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~  157 (290)
T d1qqea_          78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhh
Confidence            4688888999999999999888887653     1    23456666666644 5999999999988653    222222 


Q ss_pred             HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           82 EFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ..++..+...+...|++++|...+++............++. -         ..|...+..+...|+++.|...+++..+
T Consensus       158 ~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~-~---------~~~~~~~~~~l~~~d~~~A~~~~~~~~~  227 (290)
T d1qqea_         158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL-K---------DYFLKKGLCQLAATDAVAAARTLQEGQS  227 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH-H---------HHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             hhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH-H---------HHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            35577788899999999999999999887533222111110 0         1122233345557888888888888765


Q ss_pred             c
Q 038237          162 A  162 (181)
Q Consensus       162 ~  162 (181)
                      .
T Consensus       228 ~  228 (290)
T d1qqea_         228 E  228 (290)
T ss_dssp             C
T ss_pred             h
Confidence            4

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.59  E-value=0.00071  Score=46.60  Aligned_cols=133  Identities=8%  Similarity=0.020  Sum_probs=93.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC-----C----cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH----cC-CCccHH
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE-----R----DYVLWTTMIDGYLRVNRFREALTLFQEIQT----SN-IMGDEF   83 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~-~~p~~~   83 (181)
                      .|.-....|-..+++++|.+.|.+...     .    -..+|..+-..|.+.|++++|.+.+++..+    .| ......
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            477777888888999999999887753     1    235788889999999999999999987654    22 112234


Q ss_pred             HHHHHHHHHH-ccCCcchHHHHHHHHHHcCC-CcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           84 TIVSILTARA-NLGALELGEWIKTYIDKNKV-KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        84 ~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      ++..+...+. ..|++++|...++...+.-. ..+...            -..+|..+...+.+.|++++|.+.|++...
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~------------~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVAL------------SNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhh------------hhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            5556666664 46999999999987754210 011110            112456677778889999999999999877


Q ss_pred             c
Q 038237          162 A  162 (181)
Q Consensus       162 ~  162 (181)
                      .
T Consensus       187 ~  187 (290)
T d1qqea_         187 S  187 (290)
T ss_dssp             T
T ss_pred             h
Confidence            5

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.58  E-value=0.002  Score=40.71  Aligned_cols=61  Identities=8%  Similarity=-0.079  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +|+.+..++.+.|++++|...++..+..... ++.                .|..+-.+|...|++++|...|++..+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~----------------a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEK----------------GLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH----------------HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chh----------------hhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3445556666677777777777666665322 222                333344444447777777777777665

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.48  E-value=0.0035  Score=38.81  Aligned_cols=61  Identities=8%  Similarity=-0.092  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237           84 TIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      +|..+..++.+.|++++|...++........ ++                .+|..+..++...|++++|...|++..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~-~~----------------ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NV----------------KALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CH----------------HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccch-hh----------------hhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            4555666666777777777777666654322 22                2333444445557777777777777665

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=0.0044  Score=42.56  Aligned_cols=161  Identities=6%  Similarity=-0.048  Sum_probs=100.2

Q ss_pred             ccHHHHhhhcCC--CC------hhHHHHHHHHHhccCCHHHHHHHhcccCC-----C----cHHHHHHHHHHHHhcCcHH
Q 038237            2 GFTLEIFGTMKN--KD------VISYTAIVSGYINREQVDIARQCFDQMPE-----R----DYVLWTTMIDGYLRVNRFR   64 (181)
Q Consensus         2 ~~a~~~~~~~~~--~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~   64 (181)
                      ++|++++++...  |+      ...+..+-..+...|++++|.+.|++..+     +    ....+..+...+...|++.
T Consensus        29 ~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (366)
T d1hz4a_          29 DEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQ  108 (366)
T ss_dssp             HHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHH
Confidence            467777765421  32      23466677888899999999999988753     1    2334566677788889999


Q ss_pred             HHHHHHHHHHH----cCCC--cc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC----cchHHHHHHHHHhHhcC--
Q 038237           65 EALTLFQEIQT----SNIM--GD-EFTIVSILTARANLGALELGEWIKTYIDKNKVK----NDIFAGNALIDMYCKCT--  131 (181)
Q Consensus        65 ~a~~~~~~m~~----~~~~--p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~ll~~~~~~~--  131 (181)
                      .+...+.+...    .+..  +. ...+..+-..+...|+++.+...+.........    .....+..+...+...+  
T Consensus       109 ~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (366)
T d1hz4a_         109 TAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDL  188 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhH
Confidence            99888877643    1111  11 234555667778889999999888887764222    12222222222222222  


Q ss_pred             -----------------------chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 -----------------------VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 -----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                                             ....+..+...+...|++++|.+.+++....
T Consensus       189 ~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  242 (366)
T d1hz4a_         189 DNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKP  242 (366)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence                                   2334555666677778888888777776554

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.46  E-value=0.00034  Score=42.27  Aligned_cols=94  Identities=9%  Similarity=0.021  Sum_probs=74.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcC---CC--cc-HHHHHHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSN---IM--GD-EFTIVSIL   89 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~--p~-~~~~~~l~   89 (181)
                      +..+-+.+.+.|++++|.+.|++..+   .+...|..+-.+|.+.|++++|++.+++..+..   ..  ++ ..+|..+-
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            44566788999999999999998874   478899999999999999999999999976521   11  11 24566777


Q ss_pred             HHHHccCCcchHHHHHHHHHHcC
Q 038237           90 TARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      ..+...+++++|...++.-....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC
Confidence            78888899999999998877654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.36  E-value=0.0028  Score=39.24  Aligned_cols=94  Identities=7%  Similarity=0.050  Sum_probs=77.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC--------C-----------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE--------R-----------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM   79 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~--------~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   79 (181)
                      +..--+.+.+.|++++|...|.+...        +           ...+|..+...|.+.|++++|++.+++..+.. +
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p   98 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-K   98 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-c
Confidence            44555678889999999998887542        1           23467788889999999999999999988754 3


Q ss_pred             ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           80 GDEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        80 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      .+...|..+..++...|++++|...|+...+..+
T Consensus        99 ~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          99 NNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            4778999999999999999999999999988753

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.34  E-value=0.0024  Score=43.55  Aligned_cols=114  Identities=10%  Similarity=-0.004  Sum_probs=63.6

Q ss_pred             hccCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH-HHHHHHHHHHccCCcchHH
Q 038237           27 INREQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEF-TIVSILTARANLGALELGE  102 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~  102 (181)
                      .+.|++++|.+.+++..+   .|...+..+...++..|++++|.+.|+...+.  .|+.. .+..+...+..       .
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a-------~   77 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKA-------A   77 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHH-------H
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHh-------c
Confidence            356777777777777753   36677777777778888888887777777664  24432 22222222111       1


Q ss_pred             HHHHHHHHc----CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          103 WIKTYIDKN----KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       103 ~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                      .-..+....    ....+...             ...+......+.+.|+.++|.+++++..+.
T Consensus        78 ~~~~~a~~~~~~~~~~~~p~~-------------~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          78 QARKDFAQGAATAKVLGENEE-------------LTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHHHHHTTSCCCEECCCSCHH-------------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHhhhhhcccCchH-------------HHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111121111    11111111             112223344456699999999999998775

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.26  E-value=0.0032  Score=39.53  Aligned_cols=103  Identities=8%  Similarity=0.006  Sum_probs=80.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC-------------------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE-------------------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM   79 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~-------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   79 (181)
                      +......+.+.|++++|.+.|++..+                   .....|..+-..+.+.|++++|+..+++..+.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            44556677889999999998877642                   144467778888999999999999999998754 2


Q ss_pred             ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHH
Q 038237           80 GDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNAL  123 (181)
Q Consensus        80 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  123 (181)
                      -+...|..+-.++.+.|++++|...|+...+.... +......+
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l  151 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAEL  151 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            36688899999999999999999999999987433 33344333

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.25  E-value=0.0031  Score=39.78  Aligned_cols=94  Identities=10%  Similarity=0.008  Sum_probs=76.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC-----C-------------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE-----R-------------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMG   80 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~-----~-------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   80 (181)
                      +...-+.+.+.|++++|...|++...     +             -..+|+.+...|.+.|++++|++.++...+.. +-
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~   94 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SN   94 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-cc
Confidence            44455678899999999999976642     0             23467778888999999999999999988754 22


Q ss_pred             cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           81 DEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        81 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      +...+..+..++...|++++|...|+...+..+
T Consensus        95 ~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          95 NEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            778888999999999999999999999988653

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.25  E-value=0.0057  Score=38.31  Aligned_cols=101  Identities=7%  Similarity=0.029  Sum_probs=72.2

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHc--------------CCCc-cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           50 WTTMIDGYLRVNRFREALTLFQEIQTS--------------NIMG-DEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        50 ~~~li~~~~~~~~~~~a~~~~~~m~~~--------------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      +...-..+.+.|++++|++.|.+..+.              .+.| +...|..+-.++.+.|++++|...+...++....
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~  109 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  109 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh
Confidence            444566677889999999988776421              1112 3345677788889999999999999999876432


Q ss_pred             cchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChh
Q 038237          115 NDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEV  169 (181)
Q Consensus       115 ~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  169 (181)
                       +.                ..|..+-.++.+.|++++|.+.|++..+.  .|+-.
T Consensus       110 -~~----------------~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~  145 (169)
T d1ihga1         110 -NT----------------KALYRRAQGWQGLKEYDQALADLKKAQEI--APEDK  145 (169)
T ss_dssp             -CH----------------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             -hh----------------hHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCH
Confidence             22                34455566666799999999999999884  45433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.07  E-value=0.0079  Score=37.67  Aligned_cols=94  Identities=9%  Similarity=0.010  Sum_probs=75.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHhcccCC-------C-----------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 038237           18 SYTAIVSGYINREQVDIARQCFDQMPE-------R-----------DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIM   79 (181)
Q Consensus        18 ~~~~li~~~~~~~~~~~a~~~~~~m~~-------~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   79 (181)
                      .+.-.-..+.+.|++++|...|++...       .           ....|..+-.+|.+.|++++|+..+++..+.. +
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p   95 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S   95 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-c
Confidence            455566778889999999998877542       0           22346667778899999999999999988754 3


Q ss_pred             ccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           80 GDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        80 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      .+...|.....++...|++++|...|+...+..
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            467888889999999999999999999998764

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.05  E-value=0.013  Score=36.66  Aligned_cols=109  Identities=8%  Similarity=-0.031  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHH---cCCCc-----------cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCC
Q 038237           48 VLWTTMIDGYLRVNRFREALTLFQEIQT---SNIMG-----------DEFTIVSILTARANLGALELGEWIKTYIDKNKV  113 (181)
Q Consensus        48 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  113 (181)
                      ..+.-.-..+.+.|++.+|...|.+...   ....+           ....|+.+-.++.+.|++++|...++...+...
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p   95 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS   95 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc
Confidence            3455566778889999999999988653   11111           123355567778899999999999999887643


Q ss_pred             CcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 038237          114 KNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVL  175 (181)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  175 (181)
                      . +                ...|..+..++...|++++|.+.|++...  +.|+.......+
T Consensus        96 ~-~----------------~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l  138 (168)
T d1kt1a1          96 A-N----------------EKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQI  138 (168)
T ss_dssp             T-C----------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHH
T ss_pred             c-h----------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            2 2                23444555666679999999999999987  456555444333

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.79  E-value=0.042  Score=38.51  Aligned_cols=73  Identities=11%  Similarity=0.010  Sum_probs=41.6

Q ss_pred             cHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-------------------------chHh
Q 038237           81 DEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-------------------------VKFT  135 (181)
Q Consensus        81 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------------------------~~~~  135 (181)
                      +......++..|-..|.+++...+++..... -..+...++-++..|++.+                         ....
T Consensus        98 ~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~~kl~e~l~~~s~~y~~~k~~~~c~~~~l  176 (336)
T d1b89a_          98 HADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHL  176 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTC
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhChHHHHHHHHhccccCCHHHHHHHHHHcCC
Confidence            4444455666666666666666666655432 2335555666666666554                         2334


Q ss_pred             HHHHHHHHHHcCChhHHHH
Q 038237          136 WTTMIVGLAISGNGDKALD  154 (181)
Q Consensus       136 ~~~li~~~~~~~~~~~a~~  154 (181)
                      |.-++-.|.+.|++++|..
T Consensus       177 ~~elv~Ly~~~~~~~~A~~  195 (336)
T d1b89a_         177 WAELVFLYDKYEEYDNAII  195 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHhcCCHHHHHH
Confidence            5556666666666665543

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=96.60  E-value=0.051  Score=36.91  Aligned_cols=143  Identities=8%  Similarity=-0.085  Sum_probs=79.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCC--------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc--cHHH
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPE--------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS----NIMG--DEFT   84 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~--------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p--~~~~   84 (181)
                      +..+-..+...|+++.+...++....        .....+..+...+...++..++...+.+....    +..+  ....
T Consensus       136 ~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~  215 (366)
T d1hz4a_         136 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNA  215 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHH
Confidence            44555667777888877777766542        12334444455555666666666666554321    1111  1123


Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHHcCCCc---chHHHHHHHHHhHhcC------------------------chHhHH
Q 038237           85 IVSILTARANLGALELGEWIKTYIDKNKVKN---DIFAGNALIDMYCKCT------------------------VKFTWT  137 (181)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~~~------------------------~~~~~~  137 (181)
                      +..+...+...|+++.|...++.........   ....+..+...+...|                        ....+.
T Consensus       216 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  295 (366)
T d1hz4a_         216 NKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLL  295 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHH
Confidence            3444455556666666666666554432211   1222333333444333                        334566


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHH
Q 038237          138 TMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       138 ~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                      .+-..|.+.|++++|.+.+++..+
T Consensus       296 ~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         296 LLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            677778889999999999988654

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.56  E-value=0.032  Score=34.20  Aligned_cols=103  Identities=15%  Similarity=0.118  Sum_probs=69.2

Q ss_pred             HHHHHH--HHHHHhcCcHHHHHHHHHHHHHcC-CCc----------cHHHHHHHHHHHHccCCcchHHHHHHHHHHc---
Q 038237           48 VLWTTM--IDGYLRVNRFREALTLFQEIQTSN-IMG----------DEFTIVSILTARANLGALELGEWIKTYIDKN---  111 (181)
Q Consensus        48 ~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~~-~~p----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  111 (181)
                      .+|..+  ...+.+.|++++|++.|++-.+.. -.|          ....|+.+-.++.+.|++++|..-++.....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  445566788999999998876521 112          1357888889999999999998888877642   


Q ss_pred             --CCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 038237          112 --KVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLR  161 (181)
Q Consensus       112 --~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  161 (181)
                        ...++..  ...         ...|+.+-.+|...|++++|.+.|++..+
T Consensus        88 ~~~~~~~~~--~~~---------~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEG--KLW---------ISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHH--HHH---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccc--chh---------HHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              1111111  111         12455667778889999999999999754

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.39  E-value=0.024  Score=34.81  Aligned_cols=93  Identities=16%  Similarity=0.059  Sum_probs=70.1

Q ss_pred             HHHHH--HHHHhccCCHHHHHHHhcccCC-----C----------cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc----
Q 038237           18 SYTAI--VSGYINREQVDIARQCFDQMPE-----R----------DYVLWTTMIDGYLRVNRFREALTLFQEIQTS----   76 (181)
Q Consensus        18 ~~~~l--i~~~~~~~~~~~a~~~~~~m~~-----~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----   76 (181)
                      .|..+  .....+.|++++|.+.|++..+     |          ....|+.+-.+|.+.|++++|.+-+++..+.    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45555  4456677999999999988853     1          2457889999999999999999999887642    


Q ss_pred             -CCCcc-----HHHHHHHHHHHHccCCcchHHHHHHHHHH
Q 038237           77 -NIMGD-----EFTIVSILTARANLGALELGEWIKTYIDK  110 (181)
Q Consensus        77 -~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  110 (181)
                       ...++     ...+..+-.++...|++++|...|++..+
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             11222     22466677889999999999999998764

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.30  E-value=0.034  Score=41.03  Aligned_cols=112  Identities=7%  Similarity=-0.162  Sum_probs=67.3

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHhcccCCCc-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHH
Q 038237           16 VISYTAIVSGYINREQVDIARQCFDQMPERD-YVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGD-EFTIVSILTARA   93 (181)
Q Consensus        16 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~   93 (181)
                      ...+..+-..+.+.|+.++|...++....++ ..++..+-+.+...|++++|.+.|.+..+..  |+ ...|+.+-..+.
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLAILAS  197 (497)
T ss_dssp             -----------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHHHHHH
Confidence            3344555555556666666666555444332 2356677788888999999999999987753  44 478999999999


Q ss_pred             ccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhc
Q 038237           94 NLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKC  130 (181)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (181)
                      ..|+..+|...|.+-.... +|-...+..|...+.+.
T Consensus       198 ~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            9999999999888887664 35667788887777643

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.15  E-value=0.017  Score=35.26  Aligned_cols=95  Identities=15%  Similarity=-0.000  Sum_probs=53.5

Q ss_pred             hccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhc----------CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 038237           27 INREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRV----------NRFREALTLFQEIQTSNIMGDEFTIVSILTARA   93 (181)
Q Consensus        27 ~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~   93 (181)
                      -+.+.+++|.+.|+...+  | ++.++..+-.++...          +.+++|+..|++..+..- -+..+|..+-.++.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHHHHH
Confidence            344556777777777653  3 555555555555432          445778888887776431 24456666666665


Q ss_pred             ccCC-----------cchHHHHHHHHHHcCCCcchHHHHHHH
Q 038237           94 NLGA-----------LELGEWIKTYIDKNKVKNDIFAGNALI  124 (181)
Q Consensus        94 ~~~~-----------~~~a~~~~~~~~~~~~~~~~~~~~~ll  124 (181)
                      ..|+           ++.|...|+...+.  .|+-.+|..-+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L  126 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSL  126 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHH
Confidence            4432           45566666666654  44444444333

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.04  E-value=0.00071  Score=46.24  Aligned_cols=111  Identities=6%  Similarity=-0.124  Sum_probs=70.5

Q ss_pred             ccHHHHhhhcC--CC-ChhHHHHHHHHHhccCCHHHHHHHhcccCC--C-cHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 038237            2 GFTLEIFGTMK--NK-DVISYTAIVSGYINREQVDIARQCFDQMPE--R-DYVLWTTMIDGYLRVNRFREALTLFQEIQT   75 (181)
Q Consensus         2 ~~a~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   75 (181)
                      ++|+..|++..  +| |...+..+...++..|++++|.+.++...+  | +...+..+...+...+..+++..-...-..
T Consensus        13 ~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~   92 (264)
T d1zbpa1          13 QQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFAQGAATAKV   92 (264)
T ss_dssp             HHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHTTSCCCEEC
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHHHHhhhhhc
Confidence            56777777654  24 667899999999999999999999999875  4 344444444443333333332221111111


Q ss_pred             cCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           76 SNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        76 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      .+-+++...+......+.+.|+.++|...+++..+..
T Consensus        93 ~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          93 LGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             ccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            1112233444555667788999999999999988753

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.73  E-value=0.023  Score=34.63  Aligned_cols=114  Identities=16%  Similarity=0.012  Sum_probs=69.1

Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccC----------CcchHHHHHHHHHHcCCCcchHHHHHHHHH
Q 038237           57 YLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLG----------ALELGEWIKTYIDKNKVKNDIFAGNALIDM  126 (181)
Q Consensus        57 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  126 (181)
                      |-+.+.+++|.+.|+...+.. +-+...+..+-.++...+          .+++|...+++..+.... +...|..+-..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHH
Confidence            445677999999999988764 235566666666665443          346677777777766433 44555555555


Q ss_pred             hHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhhc
Q 038237          127 YCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSART  179 (181)
Q Consensus       127 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  179 (181)
                      |...|....     ......+.+++|.+.|++..+  +.|+..++..-+.-+.
T Consensus        85 y~~~g~~~~-----~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~~  130 (145)
T d1zu2a1          85 YTSFAFLTP-----DETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTA  130 (145)
T ss_dssp             HHHHHHHCC-----CHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHcccchh-----hHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHHH
Confidence            443221000     000012346778888888776  5788888877766554

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.039  Score=30.81  Aligned_cols=60  Identities=7%  Similarity=-0.089  Sum_probs=30.5

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHc-----CCCcc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           53 MIDGYLRVNRFREALTLFQEIQTS-----NIMGD-EFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        53 li~~~~~~~~~~~a~~~~~~m~~~-----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      +-..+.+.|++++|...|++..+.     ...++ ..+++.+-.++.+.|++++|...+++..+..
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            334445555555555555554321     01111 2445555666666666666666666655543

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.55  E-value=0.042  Score=31.00  Aligned_cols=63  Identities=11%  Similarity=-0.008  Sum_probs=50.8

Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHH
Q 038237           62 RFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALID  125 (181)
Q Consensus        62 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  125 (181)
                      +.=++.+-+..+....+.|++.+..+.+++|.|.+++..|..+++.++... .++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHH
Confidence            455677778888888899999999999999999999999999999998662 223456666554

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.08  Score=29.41  Aligned_cols=64  Identities=6%  Similarity=-0.019  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHhcccCC----------CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 038237           17 ISYTAIVSGYINREQVDIARQCFDQMPE----------RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDE   82 (181)
Q Consensus        17 ~~~~~li~~~~~~~~~~~a~~~~~~m~~----------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   82 (181)
                      ..+--+-..+.+.|++++|...|++..+          ....+++.|-.++.+.|++++|++.+++..+..  |+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~--P~~   79 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD--PEH   79 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC--cCC
Confidence            3455677888999999999999887752          135678999999999999999999999998853  553

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.12  E-value=0.31  Score=33.97  Aligned_cols=75  Identities=7%  Similarity=0.111  Sum_probs=44.4

Q ss_pred             CCChhHHHHHHHHHhccCCHHHHHHHhcccCCCcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 038237           13 NKDVISYTAIVSGYINREQVDIARQCFDQMPERDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTAR   92 (181)
Q Consensus        13 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~   92 (181)
                      .||..--..+.+.|-+.|.++.|..++..+..     |..++..+.+.+++..|.+.+.+.      -+..+|.-+..+|
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l   79 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFAC   79 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHH
Confidence            36766667788888999999999999987766     677778888889999888877643      2556777777777


Q ss_pred             HccCCc
Q 038237           93 ANLGAL   98 (181)
Q Consensus        93 ~~~~~~   98 (181)
                      .+....
T Consensus        80 ~~~~e~   85 (336)
T d1b89a_          80 VDGKEF   85 (336)
T ss_dssp             HHTTCH
T ss_pred             HhCcHH
Confidence            765543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.24  E-value=0.09  Score=38.66  Aligned_cols=128  Identities=8%  Similarity=-0.138  Sum_probs=63.1

Q ss_pred             CCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHH
Q 038237           30 EQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKT  106 (181)
Q Consensus        30 ~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  106 (181)
                      +.++.+.+.++...+   ++...+..+-..+.+.|+.++|...+.......  | ..++..+-..+...|++++|...++
T Consensus       100 ~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~  176 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYR  176 (497)
T ss_dssp             HHHHHHHHHHTC-------------------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHH
Confidence            344555555544432   345556666667777778877777666544321  1 2456677788888999999999999


Q ss_pred             HHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHHHHHhhh
Q 038237          107 YIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYVGVLSAR  178 (181)
Q Consensus       107 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  178 (181)
                      +..+.... +...|+.|-                ..+...|+..+|...|.+-.... +|-...+..|...+
T Consensus       177 ~A~~l~P~-~~~~~~~Lg----------------~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         177 HAAQLVPS-NGQPYNQLA----------------ILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHCTT-BSHHHHHHH----------------HHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHHHCCC-chHHHHHHH----------------HHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            88877433 334444444                44445888888888888777653 35555666665544

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.98  E-value=0.55  Score=31.95  Aligned_cols=158  Identities=9%  Similarity=0.025  Sum_probs=92.3

Q ss_pred             ccHHHHhhhcC--CCChhH-HHH---HHHHHhc-------cCCHHHHHHHhcccCC---CcHHHHHHHHHHHHhcC--cH
Q 038237            2 GFTLEIFGTMK--NKDVIS-YTA---IVSGYIN-------REQVDIARQCFDQMPE---RDYVLWTTMIDGYLRVN--RF   63 (181)
Q Consensus         2 ~~a~~~~~~~~--~~~~~~-~~~---li~~~~~-------~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~--~~   63 (181)
                      ++|++++++..  +|+..+ |+.   ++..+..       .|++++|...++...+   .+...|..+..++...+  ++
T Consensus        46 ~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~  125 (334)
T d1dcea1          46 ESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW  125 (334)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccH
Confidence            45666777654  355432 332   2333333       3346677777776653   35666766666666654  47


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHH-HHHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcC-----------
Q 038237           64 REALTLFQEIQTSNIMGDEFTIV-SILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCT-----------  131 (181)
Q Consensus        64 ~~a~~~~~~m~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------  131 (181)
                      +++...+.+..+..- ++...+. .....+...+..+.|...++...+.... +...|+.+-..+.+.|           
T Consensus       126 ~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~  203 (334)
T d1dcea1         126 ARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRL  203 (334)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSS
T ss_pred             HHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            788888888776532 2344443 3345566677788888888777766543 5666776666666665           


Q ss_pred             ----chHhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 038237          132 ----VKFTWTTMIVGLAISGNGDKALDMFSQMLRA  162 (181)
Q Consensus       132 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  162 (181)
                          ... .......+...+..+++...+......
T Consensus       204 ~~~~~~~-~~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         204 PENVLLK-ELELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             CHHHHHH-HHHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             hHHhHHH-HHHHHHHHHHhcchhHHHHHHHHHHHh
Confidence                111 122333445566677777777766554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=92.41  E-value=0.5  Score=28.05  Aligned_cols=68  Identities=13%  Similarity=-0.058  Sum_probs=51.4

Q ss_pred             cHHHHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCcchHHHHHHHHHHcCCC
Q 038237           46 DYVLWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGALELGEWIKTYIDKNKVK  114 (181)
Q Consensus        46 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  114 (181)
                      +...++..++...+.|+-+..-+++.++.+. -.|++...-.+-.+|.+.|+..++.+++.+.-+.|.+
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            4556677778888888888888888886663 3466777778888888888888888888888877765

>d1peqa1 a.98.1.1 (A:13-174) R1 subunit of ribonucleotide reductase, N-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: R1 subunit of ribonucleotide reductase, N-terminal domain
superfamily: R1 subunit of ribonucleotide reductase, N-terminal domain
family: R1 subunit of ribonucleotide reductase, N-terminal domain
domain: R1 subunit of ribonucleotide reductase, N-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=88.92  E-value=0.67  Score=28.55  Aligned_cols=39  Identities=18%  Similarity=0.271  Sum_probs=29.9

Q ss_pred             HhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCChhhHH
Q 038237          134 FTWTTMIVGLAISGNGDKALDMFSQMLRASIKPDEVAYV  172 (181)
Q Consensus       134 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  172 (181)
                      ...-..+..+...|+.+.|.++++.|....+.|...|+.
T Consensus       115 q~~~m~vAl~l~~~~~~~a~~~y~~~~~~~~~~aTPT~~  153 (162)
T d1peqa1         115 EDRVTMVALTLAQGDETLATQLTDEMLSGRFQPATPTFL  153 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTSEEECHHHHH
T ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCeeCCCcHhh
Confidence            333444455555889999999999999999988887764

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.88  E-value=2.1  Score=25.02  Aligned_cols=62  Identities=10%  Similarity=0.249  Sum_probs=40.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHhcccCCCc---HHHHHHHHHHHHhcCcH--HHHHHHHHHHHHcCCCc
Q 038237           19 YTAIVSGYINREQVDIARQCFDQMPERD---YVLWTTMIDGYLRVNRF--REALTLFQEIQTSNIMG   80 (181)
Q Consensus        19 ~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~~~~p   80 (181)
                      ...++.-|...|+.++|.+-++++..|.   ...+..+..+.-+.+.-  +.+..++..+...|+-+
T Consensus        10 ~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is   76 (129)
T d2nsza1          10 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTIT   76 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCC
Confidence            4667788888888888888888887652   23444444455454443  34566888887776543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=85.20  E-value=3.3  Score=26.66  Aligned_cols=34  Identities=12%  Similarity=-0.153  Sum_probs=21.4

Q ss_pred             CchHhHHHHHHHHHH----cCChhHHHHHHHHHHHcCC
Q 038237          131 TVKFTWTTMIVGLAI----SGNGDKALDMFSQMLRASI  164 (181)
Q Consensus       131 ~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~  164 (181)
                      |+......+-..|..    ..+.++|..+|++-.+.|-
T Consensus       176 g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~  213 (265)
T d1ouva_         176 KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN  213 (265)
T ss_dssp             TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cccccccchhhhcccCcccccchhhhhhhHhhhhcccC
Confidence            355555555444444    4577788888888777763

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.02  E-value=2.3  Score=24.80  Aligned_cols=70  Identities=13%  Similarity=0.075  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHccCCc--chHHHHHHHHHHcCCCcchHH
Q 038237           49 LWTTMIDGYLRVNRFREALTLFQEIQTSNIMGDEFTIVSILTARANLGAL--ELGEWIKTYIDKNKVKNDIFA  119 (181)
Q Consensus        49 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~  119 (181)
                      -...++.-|...|+.++|.+.++++...... ...++..+..+.-+.++-  +.+..++..+...|+-+....
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~i   80 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM   80 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            3578999999999999999999998643222 245555666666665544  335778999998876654444

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.70  E-value=2.4  Score=24.66  Aligned_cols=67  Identities=9%  Similarity=0.069  Sum_probs=45.7

Q ss_pred             CcHHHHHHHHHHHHhc---CcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHHccCCcchHHHHHHHHHHcC
Q 038237           45 RDYVLWTTMIDGYLRV---NRFREALTLFQEIQTSNIMGD-EFTIVSILTARANLGALELGEWIKTYIDKNK  112 (181)
Q Consensus        45 ~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (181)
                      +++.+--....++.++   .+..+++.+|++..+.+ +.+ ...+--+--++.+.|+++.|...++.+.+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            3444444444455554   35678899999887653 223 2455667778889999999999999988864

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=83.98  E-value=2.8  Score=24.78  Aligned_cols=122  Identities=12%  Similarity=0.050  Sum_probs=77.1

Q ss_pred             HhccCCHHHHHHHhcccCC-CcHHHHHHHHHHHHhcCcHHHHHHHHHHHHHc-CCC----------------ccHHHHHH
Q 038237           26 YINREQVDIARQCFDQMPE-RDYVLWTTMIDGYLRVNRFREALTLFQEIQTS-NIM----------------GDEFTIVS   87 (181)
Q Consensus        26 ~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~----------------p~~~~~~~   87 (181)
                      +.-.|.+++..++..+... .+..-||=+|.-....-+-+-.++.++..-+. .+.                .+......
T Consensus        12 ~ildG~ve~Gveii~k~~~ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~vdl   91 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVNK   91 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccCCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHHHHH
Confidence            3456778888888877764 34445555555555555555555555554321 111                23344667


Q ss_pred             HHHHHHccCCcchHHHHHHHHHHcCCCcchHHHHHHHHHhHhcCchHhHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 038237           88 ILTARANLGALELGEWIKTYIDKNKVKNDIFAGNALIDMYCKCTVKFTWTTMIVGLAISGNGDKALDMFSQMLRASI  164 (181)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  164 (181)
                      .++...+.|.-+.-..+.+.+.+. -+|++...-.+-.+|.+                -|...++-+++++..+.|+
T Consensus        92 ALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kk----------------ig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          92 ALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRR----------------VGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHH----------------TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHH----------------hcchhhHHHHHHHHHHHhH
Confidence            788888888888888888887764 34555555555666666                7777777777777777765