Citrus Sinensis ID: 020131

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330
Protein Sequence
MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASAAGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYYAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAPVAGTTSESFKVHDLNVEAEASAEDEDDIDWEEG
Secondary Structure (PSIPRED)
cHHHHHHHHHHccccccEEcccccccccHHHHHHHcccccccEEccccccccccccHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEEEcccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccHHHccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHccccccEEEEcccccccEcHHHHHHHccccccccEccccccEEEccccHccHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccEEEEEEEccccccccccccccccccccccHHHHHccccccHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccEEcccccccccccEEEEccccccccccccccccEEccc
Coil and Loop (DISEMBL)
MRKKLKDELECKNtvqeyicpncqRRYNALDALRlvsleddsfhcencngelvAESDklaaqeggdgddNARRRRREKLKDLLQKLEVHLKPLMEQInrvkdldvpefgTLQAWEARASAAgraangdsssndpnkssqgyggtpmpflgdTKVEVAFsgaegkqvdvksetdstpqkvlppwmikqgmnltkeqrgevkqeskmdgssatgglsddkkstveddkASLQDEYIRAYYAALLKKQQELDEAAKnqqessntpisdglsgassnrqvgmkskreevegdddvdweeapvagttsesfkvhdlnveaeasaededdidweeg
Flexible Loop (DISEMBL)
mrkklkdeleckntvqeyicpncqRRYNALDALRLVSLEDDSFHCENCNGELvaesdklaaqeggdgddnarRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASAAGraangdsssndpNKSSQGYGGTPMPFLGDTKVEVAFSGAEgkqvdvksetdstpqkvlppwmikqgmnltkeqrgevkqeskmdgssatgglsddkkstveddKASLQDEYIRAYYAALLKKQQELDEAAKnqqessntpisdglsgassnrqvgmkskreevegdddvdWEEApvagttsesfkvhdlnveaeasaededdidweeg
Low Complexity Region (SEG)
MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQeggdgddnarrrrreklkdllqkleVHLKPLMEQINRVKDLDVPEFGTLQAWEarasaagraangdsssnDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYYAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKReevegdddvdweeAPVAGTTSESFKVHDLNVeaeasaededdidweeG
Disordered region (IsUnstruct)
**********CKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV*****************************LQKLEVHLKPLMEQINRVKDLDVPEFGTLQAW*********************************************************************************************************************EYIRAYYAALL****************************************************************************************
Disordered Region (DISOPRED)
*****************YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD************************LLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAW**********************************************************************************************************************YIRAYY*****************************************************************************************E**
Disordered Region (DISEMBL)
MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKL***********ARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEAR**********************GYGGTPMPFLGDTKVEVAFSGAE**************QKVLPPWMIKQGMNLT**********************************ASLQDEYIRAYYAALLKKQQEL****************DGLSG********************DVDWEEAPVAGTTSESFKVHDLNVEA***************
Disordered Region (DISPRO)
*RKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQE*G*GDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASAAGRAA*****************GTPMPFLGDTKVEVAFSGAE**************QKVLPPWMIKQGMN**********************************DKASLQDEYIRAYYAALLKKQQELDEA***************************************VDWEEAPVAGTTSESFKVHDLNVEAE*******D******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRxxxxxxxxxxxxxxxxxxxxxINRVKDLDVPEFGTLQAWEARASAAGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYxxxxxxxxxxxxxxxxxxxxxSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAPVAGTTSESFKVHDLNVEAEASAEDEDDIDWEEG
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	330	2.2.26 [Sep-21-2011]
Q557M8	456	General transcription fac	yes	no	0.627	0.453	0.25	3e-06
P36100	482	Transcription initiation	yes	no	0.693	0.475	0.220	2e-05
Q9P3W1	434	Transcription initiation	yes	no	0.6	0.456	0.248	0.0001

>sp|Q557M8|T2EA_DICDI General transcription factor IIE subunit 1 OS=Dictyostelium discoideum GN=gtf2e1-1 PE=3 SV=1

 Score = 53.1 bits (126), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 63/252 (25%), Positives = 105/252 (41%), Gaps = 45/252 (17%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
            RKK++     K  VQ Y C  C + Y ALD  +L++++  +  CE C+GEL  E +  +
Sbjct: 110 FRKKMESVKVQKIDVQTYKCQTCHKVYTALDIPKLLNMDTGALACEICDGELEEELNNES 169

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
             +       A+ +      DL  +    L+ ++EQ+ + +  ++P F       AR  A
Sbjct: 170 LTQ------TAKHQ-----SDLFSQ----LRKIIEQLKKTEGHNIPLF-------ARDLA 207

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPF-----------LGDTKVEVAFS-------GAE 162
              A  G S + + N SS G G  P  F           +  T   + F        G E
Sbjct: 208 DLSADQGPSYTINTN-SSLGMGPKPSAFPVAQGAATSHHIDPTNENIEFHVDILDTDGIE 266

Query: 163 GKQVDVKSETDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTV 222
             +  VK E   T    LPPW++         +   VK  S ++ +  T   ++++ + V
Sbjct: 267 INKAVVKKENKKTGLASLPPWLLPSN----SFKNRNVKSNSILNNNQQTQTSTNEQPTAV 322

Query: 223 EDDKASLQDEYI 234
           ++     QD YI
Sbjct: 323 KEQIKIDQDFYI 334

Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase.
Dictyostelium discoideum (taxid: 44689)

>sp|P36100|T2EA_YEAST Transcription initiation factor IIE subunit alpha OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TFA1 PE=1 SV=1

 Score = 50.1 bits (118), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 63/286 (22%), Positives = 125/286 (43%), Gaps = 57/286 (19%)

Query: 3   KKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQ 62
           ++LKD+L+  +    Y+CP C  +Y  L+A++L++ +   F C  C+  LV         
Sbjct: 107 QRLKDDLDKNSEPNGYMCPICLTKYTQLEAVQLLNFDRTEFLCSLCDEPLV--------- 157

Query: 63  EGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASAAG 122
                +D++ ++ +EK +D L +L   ++P+++ + ++ D  + E  T +   AR     
Sbjct: 158 -----EDDSGKKNKEK-QDKLNRLMDQIQPIIDSLKKIDDSRIEE-NTFEIALARLIPPQ 210

Query: 123 RAANGDSSSNDPNKSSQGY---GGTPMPFLGDTKV---EVAFSGAEGK---QVDVKSETD 173
             ++   + N P K S  +      P+P L  T +       +GA  +    +++ + +D
Sbjct: 211 NQSHAAYTYN-PKKGSTMFRPGDSAPLPNLMGTALGNDSSRRAGANSQATLHINITTASD 269

Query: 174 STPQKVL--------------PPWMIKQGMNLTKEQRGEVKQESKMD---GSSATGGLSD 216
              Q+ L              P W  KQ   + K   G +  E + D    +SA   ++ 
Sbjct: 270 EVAQRELQERQAEEKRKQNAVPEWH-KQS-TIGKTALGRLDNEEEFDPVVTASAMDSINP 327

Query: 217 D------------KKSTVEDDKASLQDEYIRAYYAALLKKQQELDE 250
           D            +  T ++ +    ++ +  YYAAL KKQ +L++
Sbjct: 328 DNEPAQETSYQNNRTLTEQEMEERENEKTLNDYYAALAKKQAKLNK 373

Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q9P3W1|T2EA_SCHPO Transcription initiation factor IIE subunit alpha OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tfa1 PE=1 SV=3

 Score = 47.8 bits (112), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 59/237 (24%), Positives = 94/237 (39%), Gaps = 39/237 (16%)

Query: 18  YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRRE 77
           Y+CP C +++++LD L LV+ E  +F C  C  EL             D +++A     +
Sbjct: 122 YVCPFCNKKFSSLDVLSLVTNE-GTFACNVCGTEL------------KDDEESAEMMSSQ 168

Query: 78  KLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASAAGRAANGDSSSNDPNKS 137
           K    L KL   +  +++ + RV ++ VP+    Q+    A          S  N    +
Sbjct: 169 K---RLGKLMGQVNGIIDALKRVDEIVVPQ-NNFQSALEHAVPVSLDTQNLSQQNLSKSN 224

Query: 138 SQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDS-----TPQKVLPPWMIKQGMNLT 192
           S     T  P      + V FS    K+ D K E +        Q +LP W      + T
Sbjct: 225 SDVRLSTSSP-----SITVDFSA--DKETDEKRERNCDKQVKAAQNILPEW------HAT 271

Query: 193 KEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDE--YIRAYYAALLKKQQE 247
               G + +    D   A      +  + V+D K  +  E   + AYYA L  KQ+E
Sbjct: 272 STISGSITRAGAKDA--ALHSFRTETVNEVQDTKTDITSEKSALDAYYATLRAKQKE 326

Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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	330
224117346	472	predicted protein [Populus trichocarpa]	0.957	0.669	0.755	1e-127
359484994	475	PREDICTED: general transcription factor	0.963	0.669	0.747	1e-120
449440903	475	PREDICTED: general transcription factor	0.954	0.663	0.716	1e-117
356516908	469	PREDICTED: general transcription factor	0.936	0.658	0.661	1e-109
356567702	469	PREDICTED: uncharacterized protein LOC10	0.930	0.654	0.668	1e-108
224108211	429	predicted protein [Populus trichocarpa]	0.875	0.673	0.644	1e-107
356563109	469	PREDICTED: general transcription factor	0.918	0.646	0.673	1e-102
356511599	471	PREDICTED: uncharacterized protein LOC10	0.921	0.645	0.669	2e-99
115475996	462	Os08g0343300 [Oryza sativa Japonica Grou	0.930	0.664	0.570	4e-93
297843136	480	transcription initiation factor IIE alph	0.921	0.633	0.618	5e-91

>gi|224117346|ref|XP_002331723.1| predicted protein [Populus trichocarpa] gi|222874815|gb|EEF11946.1| predicted protein [Populus trichocarpa]

 Score =  459 bits (1182), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 241/319 (75%), Positives = 275/319 (86%), Gaps = 3/319 (0%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           MRKKLKDELE KNTVQEY CPNC RRYNALDALRL+SL D+ FHCENC+GELVAESDKLA
Sbjct: 143 MRKKLKDELEDKNTVQEYTCPNCGRRYNALDALRLMSLVDEYFHCENCDGELVAESDKLA 202

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           AQEGGDGDDNARRRRREKLKD+LQK+EV LKPLM Q++RVKDL VPEFG+LQ W+  ASA
Sbjct: 203 AQEGGDGDDNARRRRREKLKDMLQKMEVQLKPLMAQLSRVKDLPVPEFGSLQEWQIHASA 262

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
           AGRAANGDSS NDP++SSQGYGGTPMPFLG+TKVEV+FSG EGK+ D+KSET ST  KVL
Sbjct: 263 AGRAANGDSSYNDPSRSSQGYGGTPMPFLGETKVEVSFSGVEGKE-DLKSETASTGLKVL 321

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYYAA 240
           PPWMIKQGMNLTKEQRGEVKQ SKMD SSA     DDKK ++E+D   ++DEY++AYYAA
Sbjct: 322 PPWMIKQGMNLTKEQRGEVKQGSKMDDSSAAAEPPDDKKISIENDD-KIKDEYVKAYYAA 380

Query: 241 LLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKR-EEVEGDDDVDWEEAPVA 299
           LL+KQ+E +E+A+ QQE   T IS+G S +SS+RQVGMKSKR E+ E DDDV+WEEAP+ 
Sbjct: 381 LLQKQREAEESAEKQQELLQTSISNGFSKSSSDRQVGMKSKREEDDEPDDDVEWEEAPIG 440

Query: 300 GTTSESFKVHDLNVEAEAS 318
           G TSE FKV+DLN EA AS
Sbjct: 441 GNTSEGFKVNDLNAEAPAS 459

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484994|ref|XP_003633196.1| PREDICTED: general transcription factor IIE subunit 1-like [Vitis vinifera] gi|297735317|emb|CBI17757.3| unnamed protein product [Vitis vinifera]

 Score =  436 bits (1122), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 240/321 (74%), Positives = 280/321 (87%), Gaps = 3/321 (0%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+KKLKDELE KNTVQEYICPNC +RYNALDALRL+S+ED+ FHCE+CNGELVAESDKLA
Sbjct: 143 MKKKLKDELEDKNTVQEYICPNCGKRYNALDALRLISMEDEYFHCESCNGELVAESDKLA 202

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           +QE GDGDDNARRRRREKLKD+LQK+EV LKPLM+Q++RVKDL VPEFG+LQAWEARA+A
Sbjct: 203 SQEIGDGDDNARRRRREKLKDMLQKMEVQLKPLMDQLSRVKDLPVPEFGSLQAWEARANA 262

Query: 121 AGRAANGDSSSNDPNKSSQ--GYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQK 178
           AGRAANGDS++ND +KSSQ  G+GGTPMPF+G+TKVEVAFSG   K+ D KSE  +   K
Sbjct: 263 AGRAANGDSNANDSSKSSQGLGFGGTPMPFVGETKVEVAFSGVGVKEEDSKSEIANASLK 322

Query: 179 VLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTV-EDDKASLQDEYIRAY 237
           VLPPWMIK+GMNLTKEQRGE+KQESKM  SSA  G SDDKKST  +D++ +LQDEY++AY
Sbjct: 323 VLPPWMIKEGMNLTKEQRGEIKQESKMGSSSAPLGSSDDKKSTTNKDEEKNLQDEYVKAY 382

Query: 238 YAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAP 297
           YAA+LK+QQE +EAAK Q E SN  IS+ + G SSNRQVGMKSKR+E EGDDD +WEEAP
Sbjct: 383 YAAILKRQQEQEEAAKKQLELSNAHISNSVLGTSSNRQVGMKSKRDEDEGDDDFEWEEAP 442

Query: 298 VAGTTSESFKVHDLNVEAEAS 318
            AG  SESFKV+DLNV+A+AS
Sbjct: 443 TAGNKSESFKVNDLNVQADAS 463

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440903|ref|XP_004138223.1| PREDICTED: general transcription factor IIE subunit 1-like [Cucumis sativus]

 Score =  428 bits (1101), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 228/318 (71%), Positives = 267/318 (83%), Gaps = 3/318 (0%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+KKLKDELE KNTVQEYICPNC RRY ALDALRL+S ED+ FHCENCNGELVAESDKLA
Sbjct: 144 MKKKLKDELEDKNTVQEYICPNCSRRYTALDALRLISFEDEYFHCENCNGELVAESDKLA 203

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           A +G DGDDN R+RR EKLKD+LQK+E  LKPL+EQ++RVKDL VPEFGTL AWEARASA
Sbjct: 204 AVQGVDGDDNVRKRRHEKLKDMLQKMEAQLKPLVEQLSRVKDLPVPEFGTLLAWEARASA 263

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
           A R  NGD + NDP+KSSQGYGGTPMPF+G+TKVEVAFSGAEG  VD KSE+++T  KVL
Sbjct: 264 AARGINGDLNGNDPSKSSQGYGGTPMPFVGETKVEVAFSGAEGTGVDAKSESENTSLKVL 323

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTV-EDDKASLQDEYIRAYYA 239
           PPWMIK+GMNLTKEQRGEVK ESK D  SA+   SDDKKS   +DDK ++QDEY++AYYA
Sbjct: 324 PPWMIKKGMNLTKEQRGEVKDESKTDAGSASAQFSDDKKSLANDDDKTNIQDEYVKAYYA 383

Query: 240 ALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAPVA 299
           A+LKKQQEL+EAAK QQE S+T +++ ++  +S+RQVGMK+KREE E DD    EEAP+ 
Sbjct: 384 AILKKQQELEEAAKGQQELSSTEVTESVANTNSSRQVGMKAKREEDEDDDIEW-EEAPIG 442

Query: 300 GTTSESFKVHDLNVEAEA 317
           G  +E++KV DLNVEA A
Sbjct: 443 GNANENYKV-DLNVEASA 459

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516908|ref|XP_003527134.1| PREDICTED: general transcription factor IIE subunit 1-like [Glycine max]

 Score =  399 bits (1026), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 211/319 (66%), Positives = 248/319 (77%), Gaps = 10/319 (3%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+K LKDEL+ KNT++EYIC  C +RYNALDALRLVS EDD FHCE+CNG+L  E+DK  
Sbjct: 143 MKKLLKDELDNKNTIEEYICTKCGKRYNALDALRLVSFEDDDFHCESCNGKLEVENDKFV 202

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           AQEGGDGD+NARRRR EKLKD+LQK+E  LKPLM+Q++RVKDL VPEFG+L AWEARASA
Sbjct: 203 AQEGGDGDENARRRRHEKLKDMLQKMEAQLKPLMDQLSRVKDLPVPEFGSLLAWEARASA 262

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
            GRAANGD S  D   S  GY G PMP+ GDTKV V F+G E  + DVKSET S   KVL
Sbjct: 263 MGRAANGDMSG-DSKMSQLGYNGAPMPYSGDTKVVVDFNGTEDIK-DVKSETGSASLKVL 320

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGG--LSDDKKSTVE-DDKASLQDEYIRAY 237
           PPWMIK GM LTKEQRGE K+E KMDG+S +      DDKKSTV+ DDK ++QDEYI+AY
Sbjct: 321 PPWMIKSGMVLTKEQRGEAKEEIKMDGTSTSSSAQYLDDKKSTVDHDDKKNIQDEYIKAY 380

Query: 238 YAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAP 297
           YAALLK+Q EL+ A+K  QE  NT  ++  S ++SNRQVGMKSK E  E DD  +WEEAP
Sbjct: 381 YAALLKQQHELEAASK--QELPNTLTANDPSSSASNRQVGMKSKLE--EDDDGTEWEEAP 436

Query: 298 VAGTTSESFKVHDLNVEAE 316
           VAG  +E++KV DLNVEA+
Sbjct: 437 VAGIGNENYKV-DLNVEAD 454

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567702|ref|XP_003552056.1| PREDICTED: uncharacterized protein LOC100799341 [Glycine max]

 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 212/317 (66%), Positives = 248/317 (78%), Gaps = 10/317 (3%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+K LKDEL+ KNT++EYIC  C +RYNALDALRLVS EDD FHCE+CNG+L  ESDK  
Sbjct: 143 MKKLLKDELDNKNTIEEYICRKCGKRYNALDALRLVSFEDDDFHCESCNGKLEVESDKFV 202

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           AQEGGDGD+NARR R EKLKD+LQK+E  LKPLM+Q++RVKDL VPEFG+L AWEARASA
Sbjct: 203 AQEGGDGDENARRWRHEKLKDMLQKMEAQLKPLMDQLSRVKDLPVPEFGSLLAWEARASA 262

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
            GRAANGD S  D   S  GY G  MP+ GDTKV V F+G E  + DVKSET ST  KVL
Sbjct: 263 MGRAANGDISG-DSKMSQLGYNGAAMPYSGDTKVVVDFNGTEDTK-DVKSETGSTSLKVL 320

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGS--SATGGLSDDKKSTVE-DDKASLQDEYIRAY 237
           PPWMIK GM LTKEQRGEVK+E KMDG+  S +    DDKKSTV+ DDK ++QDEYI+AY
Sbjct: 321 PPWMIKSGMVLTKEQRGEVKEEMKMDGTSISTSAQYLDDKKSTVDHDDKRNIQDEYIKAY 380

Query: 238 YAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAP 297
           YAALLK+Q EL+ A+K  QE SNT  ++  S ++SNRQVGMKSK E  E DD  +WEEAP
Sbjct: 381 YAALLKQQHELEAASK--QELSNTLTANDPSSSASNRQVGMKSKLE--EDDDGTEWEEAP 436

Query: 298 VAGTTSESFKVHDLNVE 314
           VAGT +E++KV DLNV+
Sbjct: 437 VAGTGNENYKV-DLNVQ 452

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108211|ref|XP_002314760.1| predicted protein [Populus trichocarpa] gi|222863800|gb|EEF00931.1| predicted protein [Populus trichocarpa]

 Score =  395 bits (1015), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 207/321 (64%), Positives = 246/321 (76%), Gaps = 32/321 (9%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           MRK +KDELE  N VQ+YICP                     FHCENC+G LVAESDKLA
Sbjct: 129 MRKMIKDELENNNAVQQYICPIY-------------------FHCENCDGVLVAESDKLA 169

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           AQEGGDGDDNAR+RRREKLKD+LQ +EV LKPLM+Q++RVKDL +PE G+LQAW+   +A
Sbjct: 170 AQEGGDGDDNARKRRREKLKDMLQNMEVQLKPLMDQLSRVKDLPIPEIGSLQAWQLHENA 229

Query: 121 AGRAANGDSSSNDPNKSSQ--GYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQK 178
           AGRA NGD +S+D  K SQ  GYGGTPMPFLG+TKVEVAF+G E K+ ++KSET ST  K
Sbjct: 230 AGRATNGDPNSDDHFKYSQGPGYGGTPMPFLGETKVEVAFAGDESKE-NIKSETASTSLK 288

Query: 179 VLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYY 238
           VLPPWMIKQGMNLTKEQRGEVKQESKMD SS     SD+KKS  E        EY++AYY
Sbjct: 289 VLPPWMIKQGMNLTKEQRGEVKQESKMDSSSTAVEFSDEKKSAKE--------EYVKAYY 340

Query: 239 AALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAPV 298
           AALL++Q++ +E+AK QQE S T +S+GLS +SSNRQVGMKSKREE EGDDDV+WEEAP+
Sbjct: 341 AALLEQQRQAEESAKQQQELSQTSMSNGLSESSSNRQVGMKSKREEGEGDDDVEWEEAPI 400

Query: 299 AGTTSESFKVHDLNVEAEASA 319
            G  +ES++++DLN EA AS 
Sbjct: 401 EG--NESYRLNDLNDEAPASG 419

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356563109|ref|XP_003549808.1| PREDICTED: general transcription factor IIE subunit 1-like [Glycine max]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 212/315 (67%), Positives = 247/315 (78%), Gaps = 12/315 (3%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+ KLKDELE KNT+QEYIC NC +RYNALDALRLVS ED+ FHCE+CNG L  ESDK+A
Sbjct: 143 MKHKLKDELENKNTLQEYICSNCGKRYNALDALRLVSFEDEDFHCESCNGRLEVESDKIA 202

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
            QEGGDGDDNARRRRREKLKD+LQK+EV LKPLM+Q++RVKDL VPEFG+LQAWEARASA
Sbjct: 203 VQEGGDGDDNARRRRREKLKDMLQKMEVQLKPLMDQLSRVKDLPVPEFGSLQAWEARASA 262

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
           A RAANGD ++ D   S  GY G  +P+ GDTKV V F+  EGK   VKSETDST  KVL
Sbjct: 263 AVRAANGDINAGDSKISQLGYNG--VPYSGDTKVVVDFN-TEGKGEGVKSETDSTSLKVL 319

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGL--SDDKKSTV-EDDKASLQDEYIRAY 237
           PPWMI  GMNLTKEQRGEVKQE+KMD +S +  +  +DDKK T+  D+  ++QDEYI+AY
Sbjct: 320 PPWMITSGMNLTKEQRGEVKQETKMDETSTSTAVQYTDDKKLTIGHDNNQNIQDEYIKAY 379

Query: 238 YAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAP 297
           YAALL KQ EL+EAAK Q    NT  +D  S ++SNRQVGMKSKRE  E DD  +WEEAP
Sbjct: 380 YAALL-KQHELEEAAKKQ--LPNTLAADDPSSSTSNRQVGMKSKRE--EDDDCTEWEEAP 434

Query: 298 VAGTTSESFKVHDLN 312
           +AG  +  +KV DLN
Sbjct: 435 IAGNGNGGYKV-DLN 448

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511599|ref|XP_003524511.1| PREDICTED: uncharacterized protein LOC100810405 [Glycine max]

 Score =  368 bits (945), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 211/315 (66%), Positives = 247/315 (78%), Gaps = 11/315 (3%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+ KLKDELE KNT+QEYICPNC +RYNALDALRLVS ED+ FHCE+CNG L  ESDK+A
Sbjct: 143 MKHKLKDELENKNTLQEYICPNCGKRYNALDALRLVSFEDEDFHCESCNGRLEVESDKIA 202

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           AQE GDGDDNARRRRREKLKD+LQK+EV LKPLM+Q++RVKDL VPEFG+LQAWEARASA
Sbjct: 203 AQERGDGDDNARRRRREKLKDMLQKMEVQLKPLMDQLSRVKDLPVPEFGSLQAWEARASA 262

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
           A RAANGD ++ D   S  GY G  +P+ GDTKV V F+  EGK   VKSETDST  KVL
Sbjct: 263 AVRAANGDINAGDSKISQPGYNG--VPYSGDTKVVVDFN-TEGKGEGVKSETDSTSLKVL 319

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGG--LSDDKKSTV-EDDKASLQDEYIRAY 237
           PPWMI  GMNLTKEQRGEVKQE+KMDG+S +     +DDKKST+  D+  ++QDEYI+AY
Sbjct: 320 PPWMITSGMNLTKEQRGEVKQETKMDGTSTSTAAQYTDDKKSTIGHDNNQNIQDEYIKAY 379

Query: 238 YAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAP 297
           YAALLK+Q EL+EAAK Q   SNT  +   S ++S RQVGMKSKREE + D +   EEAP
Sbjct: 380 YAALLKQQHELEEAAKKQL--SNTLAAANPSSSTSIRQVGMKSKREEDDDDTEW--EEAP 435

Query: 298 VAGTTSESFKVHDLN 312
           +AG  +  + V DLN
Sbjct: 436 IAGNGNGGYTV-DLN 449

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115475996|ref|NP_001061594.1| Os08g0343300 [Oryza sativa Japonica Group] gi|38637014|dbj|BAD03272.1| unknown protein [Oryza sativa Japonica Group] gi|113623563|dbj|BAF23508.1| Os08g0343300 [Oryza sativa Japonica Group] gi|125561187|gb|EAZ06635.1| hypothetical protein OsI_28884 [Oryza sativa Indica Group] gi|125603072|gb|EAZ42397.1| hypothetical protein OsJ_26976 [Oryza sativa Japonica Group] gi|215695399|dbj|BAG90590.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  347 bits (890), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 182/319 (57%), Positives = 230/319 (72%), Gaps = 12/319 (3%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+KKLKDEL+ +NT+Q YICPNC++RY+A DAL+L+S  D+ FHCENCNGELVAESDKLA
Sbjct: 145 MKKKLKDELDSRNTIQHYICPNCKKRYSAFDALQLISYTDEYFHCENCNGELVAESDKLA 204

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           ++E GDGDDNAR+RRREKLKD+ Q+++  LKPL  Q+NRVKDL  PEFG+LQ+WE RA+ 
Sbjct: 205 SEEMGDGDDNARKRRREKLKDMQQRIDEQLKPLQAQLNRVKDLPAPEFGSLQSWE-RAN- 262

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
            G     D S+ D +++ QG  GTPMP+LG+TKVEVA SG   K    +S T+    KVL
Sbjct: 263 IGAFGTADPSAADSSRNPQGQYGTPMPYLGETKVEVALSGTGVKDEGAESGTNGNGLKVL 322

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYYAA 240
           PPWMIKQGMNLTKEQRGE    S +D  S    + D+KK   ++D+ S+QDEYI+AYY A
Sbjct: 323 PPWMIKQGMNLTKEQRGETSNSSNLDEKSE---VKDEKKQDSKEDEKSIQDEYIKAYYEA 379

Query: 241 LLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAPVAG 300
           L K+Q E +   K QQE          S + S RQVGMKSKRE  + D+ V+WEE   AG
Sbjct: 380 LRKRQDEEEAKRKIQQEGDTFA-----SASHSERQVGMKSKRE--DDDEGVEWEEEQPAG 432

Query: 301 TTSESFKVHDLNVEAEASA 319
            T+E++K+ DLNVEA+ S 
Sbjct: 433 NTAETYKLADLNVEAQESG 451

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297843136|ref|XP_002889449.1| transcription initiation factor IIE alpha subunit family protein [Arabidopsis lyrata subsp. lyrata] gi|297335291|gb|EFH65708.1| transcription initiation factor IIE alpha subunit family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  340 bits (872), Expect = 5e-91,   Method: Compositional matrix adjust.
 Identities = 198/320 (61%), Positives = 242/320 (75%), Gaps = 16/320 (5%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           M+K+LKDELE KNTVQEY CPNCQR+YNALDALRL+S+EDDSFHCENCNGELV E +KL 
Sbjct: 149 MKKRLKDELEDKNTVQEYGCPNCQRKYNALDALRLISMEDDSFHCENCNGELVVECNKLT 208

Query: 61  AQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQINRVKDLDVPEFGTLQAWEARASA 120
           ++E  DGDDNARRRRREKLK++LQKLEV +KPLM+Q+NRVKDL +PEFG+  AWEARA+ 
Sbjct: 209 SEEVVDGDDNARRRRREKLKNMLQKLEVQMKPLMDQLNRVKDLPIPEFGSFLAWEARAAM 268

Query: 121 AGRAANGDSSSNDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
           A   ANGD + NDP +S  GYG TPMPFLG+TKVEV     +G + DVKS+   +  KVL
Sbjct: 269 A-ARANGDLNPNDPLRSQSGYGSTPMPFLGETKVEVNL--GDGNE-DVKSKGGDSSLKVL 324

Query: 181 PPWMIKQGMNLTKEQRGEVKQESKMDGSS-ATGGLSDDKKSTVED-DKASLQDEYIRAYY 238
           PPWMIK+GMNLT+EQRGE++QE+K+DG S     LS+DKKS   + D+  L+DEY++AYY
Sbjct: 325 PPWMIKEGMNLTEEQRGEMRQEAKVDGGSRGAAKLSEDKKSASGNGDEKDLKDEYLKAYY 384

Query: 239 AALLKKQQELDEAAKNQQESSNTPISD-GLSGASSNRQVGMKSKR----EEVEGDDDVDW 293
             LL KQQEL  A +NQQES+    SD  L   SS RQV MK+KR    E+ + +D    
Sbjct: 385 LELL-KQQEL-AARRNQQESAGESASDIQLGTTSSGRQVSMKAKREEEDEDEDEEDVEWE 442

Query: 294 EEAPVAGTTSESFKVHDLNV 313
           E+APVA     ++KV DLNV
Sbjct: 443 EKAPVAANG--NYKV-DLNV 459

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	330
TAIR|locus:2014515	479	AT1G03280 [Arabidopsis thalian	0.921	0.634	0.517	5.9e-73
TAIR|locus:2128590	475	AT4G20340 [Arabidopsis thalian	0.909	0.631	0.5	4e-67
TAIR|locus:2121524	416	AT4G20810 [Arabidopsis thalian	0.769	0.610	0.435	3.7e-48
DICTYBASE|DDB_G0273583	456	gtf2e1-2 "transcription factor	0.772	0.559	0.205	7e-05
DICTYBASE|DDB_G0273525	456	gtf2e1-1 "transcription factor	0.772	0.559	0.205	7e-05
SGD|S000001511	482	TFA1 "TFIIE small subunit" [Sa	0.163	0.112	0.345	7.2e-05

TAIR|locus:2014515 AT1G03280 [Arabidopsis thaliana (taxid:3702)]

 Score = 737 (264.5 bits), Expect = 5.9e-73, P = 5.9e-73
 Identities = 165/319 (51%), Positives = 204/319 (63%)

Query:     1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
             M+K+LKDELE KNTVQEY CPNCQR+YNALDALRL+S+ DDSFHCENCNGELV E +KL 
Sbjct:   149 MKKRLKDELEDKNTVQEYGCPNCQRKYNALDALRLISMVDDSFHCENCNGELVVECNKLT 208

Query:    61 AQXXXXXXXXXXXXXXXXXXXXXXXXXVHLKPLMEQINRVKDLDVPEFGTLQAWEXXXXX 120
             ++                         V +KPLM+Q+NRVKDL +PEFG+  AWE     
Sbjct:   209 SEEVVDGDDNARRRRRENLKNMLQKLEVQMKPLMDQLNRVKDLPIPEFGSFLAWEARAAM 268

Query:   121 XXXXXXXXXXXXDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
                         DP +S  GYG TPMPFLG+TKVEV     +G + DVKS+   +  KVL
Sbjct:   269 AARENGDLNPN-DPLRSQGGYGSTPMPFLGETKVEVNLG--DGNE-DVKSKGGDSSLKVL 324

Query:   181 PPWMIKQGMNLTKEQRGEVKQESKMDGSS-ATGGLSDDKKSTVED-DKASLQDEYIRAYY 238
             PPWMIK+GMNLT+EQRGE++QE+K+DG + A   LSDDKKS + + D+  L+DEY++AYY
Sbjct:   325 PPWMIKEGMNLTEEQRGEMRQEAKVDGGAGAAAKLSDDKKSAIGNGDEKDLKDEYLKAYY 384

Query:   239 AALLKKQQELDEAAKNQQESSNTPISDGLSGAS-SNRQVGMKSKRXXXXXXXXXXXX--- 294
             A L+K QQEL  A +NQQES+  P S   SG   S RQV MK+KR               
Sbjct:   385 AELMK-QQEL-AARRNQQESAGEPTSGIQSGTVYSGRQVSMKAKREEDEDEDEEEVEWEE 442

Query:   295 XAPVAGTTSESFKVHDLNV 313
              APV  T + ++KV DLNV
Sbjct:   443 KAPV--TANGNYKV-DLNV 458

GO:0005634 "nucleus" evidence=ISM

GO:0005673 "transcription factor TFIIE complex" evidence=ISS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

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

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA

GO:0006487 "protein N-linked glycosylation" evidence=RCA

GO:0007346 "regulation of mitotic cell cycle" evidence=RCA

GO:0010048 "vernalization response" evidence=RCA

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2128590 AT4G20340 [Arabidopsis thaliana (taxid:3702)]

 Score = 682 (245.1 bits), Expect = 4.0e-67, P = 4.0e-67
 Identities = 159/318 (50%), Positives = 198/318 (62%)

Query:     1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
             ++KK KDELE +NTVQEY CPNC+R+YNALDALRL+S+EDDSFHCENCNGELV E +KL 
Sbjct:   149 LKKKFKDELEDRNTVQEYGCPNCKRKYNALDALRLISMEDDSFHCENCNGELVMECNKLI 208

Query:    61 AQXXXXXXXXXXXXXXXXXXXXXXXXXVHLKPLMEQINRVKDLDVPEFGTLQAWEXXXXX 120
             ++                           LKPLME INRVKDL  P F    AWE     
Sbjct:   209 SEEVVDRGDNARRRQREKVKVWLQDLEGELKPLMELINRVKDLPFPAFEPFPAWEARAAK 268

Query:   121 XXXXXXXXXXXXDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVL 180
                         DP++S  GYG TPMPFLG+TKVEV     EG + DV S    +  K+L
Sbjct:   269 AARENGDFNPD-DPSRSLGGYGSTPMPFLGETKVEVNLG--EGNE-DVTSTGGDSSLKML 324

Query:   181 PPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVE--DDKASLQDEYIRAYY 238
             PPWMIKQGM LT+EQRGE++QE+ +DG +A   LSDDKKS +E  DD   L+DEY++AYY
Sbjct:   325 PPWMIKQGMKLTEEQRGEMRQEANVDGEAAK--LSDDKKSVMENGDDNKDLKDEYLKAYY 382

Query:   239 AALLKKQQELDEAAK-NQQESSNTPISDGLSGAS--SNRQVGMKSKRXXXXXXXXXXXXX 295
             AA+++ QQ+L  AAK N+QES+    +  +  A+  S+RQVGMKSKR             
Sbjct:   383 AAIME-QQKL--AAKLNEQESAGESTTTDIESATTYSDRQVGMKSKREEEEEDVEWEEG- 438

Query:   296 APVAGTTSESFKVHDLNV 313
             A VA   + ++KV DLNV
Sbjct:   439 ASVAA--NGNYKV-DLNV 453

GO:0005634 "nucleus" evidence=ISM

GO:0005673 "transcription factor TFIIE complex" evidence=ISS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

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

TAIR|locus:2121524 AT4G20810 [Arabidopsis thaliana (taxid:3702)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 124/285 (43%), Positives = 163/285 (57%)

Query:     1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
             M+K+ KD LE K+ VQEY CPNC+R+                FHCENCNGELV E +KL 
Sbjct:   121 MKKEFKDVLEDKDNVQEYGCPNCKRKI--------------FFHCENCNGELVMECNKLT 166

Query:    61 AQXXXXXXXXXXXXXXXXXXXXXXXXXVHLKPLMEQINRVKDLDVPEFGTLQAWEXXXXX 120
             ++                         V LKPLM+ INR+KDL VP F +  AWE     
Sbjct:   167 SEEVVVDGSDNPRSRRDHLKDLLQNMEVRLKPLMDHINRIKDLPVPSFESFPAWETRVAK 226

Query:   121 XXXXXXXXXXXXDPNKSSQGYGGTPMPFLGDTKVEVAFSGAEGKQVDVKSET--DSTPQK 178
                         D  +   GYG TPMPFLG+T++EV   G E +  DVKS+   DS+ +K
Sbjct:   227 AARENGDLNPD-DTLRPQGGYGSTPMPFLGETEIEVNL-GEENE--DVKSDEVGDSSRRK 282

Query:   179 VLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQDEYIRAYY 238
             + P W+IK+GMNL+ EQRGE++ E+K D     GG S +      DD  +L+DEY++AYY
Sbjct:   283 LTPSWLIKKGMNLSDEQRGEIRHEAKADD----GGSSMENG----DDDRNLKDEYLKAYY 334

Query:   239 AALLKKQQELDEAAKNQQESSNTPISD-GLSGASSNRQVGMKSKR 282
             AA+L+ +QEL E   NQQES+    +D  L+ +SS+RQVGMKSKR
Sbjct:   335 AAILE-EQELAEKL-NQQESAGKVTTDIELATSSSDRQVGMKSKR 377

GO:0005634 "nucleus" evidence=ISM

GO:0005673 "transcription factor TFIIE complex" evidence=ISS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

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

DICTYBASE|DDB_G0273583 gtf2e1-2 "transcription factor IIE" [Dictyostelium discoideum (taxid:44689)]

 Score = 122 (48.0 bits), Expect = 7.0e-05, P = 7.0e-05
 Identities = 59/287 (20%), Positives = 100/287 (34%)

Query:     2 RKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAA 61
             RKK++     K  VQ Y C  C + Y ALD  +L++++  +  CE C+GEL  E +  + 
Sbjct:   111 RKKMESVKVQKIDVQTYKCQTCHKVYTALDIPKLLNMDTGALACEICDGELEEELNNESL 170

Query:    62 QXXXXXXXXXXXXXXXXXXXXXXXXXVHLKPLMEQINRVKDLDVPEFGT-LQAWEXXXXX 120
                                         L+ ++EQ+ + +  ++P F   L         
Sbjct:   171 TQTAKHQSDLFS---------------QLRKIIEQLKKTEGHNIPLFARDLADLSADQGP 215

Query:   121 XXXXXXXXXXXXDPNKSS--QGYGGTPMPFLGDTKVEVAF-------SGAEGKQVDVKSE 171
                          P  S+     G      +  T   + F        G E  +  VK E
Sbjct:   216 SYTINTNSSLGMGPKPSAFPVAQGAATSHHIDPTNENIEFHVDILDTDGIEINKAVVKKE 275

Query:   172 TDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQD 231
                T    LPPW++    N  K +   VK  S ++ +  T   ++++ + V++     QD
Sbjct:   276 NKKTGLASLPPWLLPS--NSFKNRN--VKSNSILNNNQQTQTSTNEQPTAVKEQIKIDQD 331

Query:   232 ---EYIRAYYAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQ 275
                 YI+ +Y          D         S     +G  G +   Q
Sbjct:   332 FYINYIKTHYQEWESAPDSGDADGNGSNSGSGGSTIEGNDGGNGEHQ 378

GO:0005615 "extracellular space" evidence=IDA

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

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

DICTYBASE|DDB_G0273525 gtf2e1-1 "transcription factor IIE" [Dictyostelium discoideum (taxid:44689)]

 Score = 122 (48.0 bits), Expect = 7.0e-05, P = 7.0e-05
 Identities = 59/287 (20%), Positives = 100/287 (34%)

Query:     2 RKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAA 61
             RKK++     K  VQ Y C  C + Y ALD  +L++++  +  CE C+GEL  E +  + 
Sbjct:   111 RKKMESVKVQKIDVQTYKCQTCHKVYTALDIPKLLNMDTGALACEICDGELEEELNNESL 170

Query:    62 QXXXXXXXXXXXXXXXXXXXXXXXXXVHLKPLMEQINRVKDLDVPEFGT-LQAWEXXXXX 120
                                         L+ ++EQ+ + +  ++P F   L         
Sbjct:   171 TQTAKHQSDLFS---------------QLRKIIEQLKKTEGHNIPLFARDLADLSADQGP 215

Query:   121 XXXXXXXXXXXXDPNKSS--QGYGGTPMPFLGDTKVEVAF-------SGAEGKQVDVKSE 171
                          P  S+     G      +  T   + F        G E  +  VK E
Sbjct:   216 SYTINTNSSLGMGPKPSAFPVAQGAATSHHIDPTNENIEFHVDILDTDGIEINKAVVKKE 275

Query:   172 TDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKASLQD 231
                T    LPPW++    N  K +   VK  S ++ +  T   ++++ + V++     QD
Sbjct:   276 NKKTGLASLPPWLLPS--NSFKNRN--VKSNSILNNNQQTQTSTNEQPTAVKEQIKIDQD 331

Query:   232 ---EYIRAYYAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQ 275
                 YI+ +Y          D         S     +G  G +   Q
Sbjct:   332 FYINYIKTHYQEWESAPDSGDADGNGSNSGSGGSTIEGNDGGNGEHQ 378

GO:0005615 "extracellular space" evidence=IDA

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

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

SGD|S000001511 TFA1 "TFIIE small subunit" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 97 (39.2 bits), Expect = 7.2e-05, Sum P(2) = 7.2e-05
 Identities = 19/55 (34%), Positives = 33/55 (60%)

Query:     3 KKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD 57
             ++LKD+L+  +    Y+CP C  +Y  L+A++L++ +   F C  C+  LV E D
Sbjct:   107 QRLKDDLDKNSEPNGYMCPICLTKYTQLEAVQLLNFDRTEFLCSLCDEPLV-EDD 160

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IMP;IDA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0001113 "transcriptional open complex formation at RNA polymerase II promoter" evidence=IGI;IDA

GO:0000993 "RNA polymerase II core binding" evidence=IDA;IPI

GO:0001097 "TFIIH-class transcription factor binding" evidence=IDA

GO:0003697 "single-stranded DNA binding" evidence=IDA

GO:0005673 "transcription factor TFIIE complex" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	330
smart00531	147	smart00531, TFIIE, Transcription initiation factor	1e-15
TIGR04104	94	TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein	3e-04

>gnl|CDD|128804 smart00531, TFIIE, Transcription initiation factor IIE

 Score = 72.4 bits (178), Expect = 1e-15
 Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 1   MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA 60
           MRK+L+D+LE +     Y CPNCQ +Y  L+A +L+   D +F C  C  EL  + +   
Sbjct: 83  MRKRLEDKLEDETNNAYYKCPNCQSKYTFLEANQLLD-MDGTFTCPRCGEELEEDDNSEP 141

Query: 61  AQE 63
            +E
Sbjct: 142 IEE 144

Length = 147

>gnl|CDD|234471 TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein

 Score = 38.9 bits (91), Expect = 3e-04
 Identities = 8/33 (24%), Positives = 15/33 (45%)

Query: 19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGE 51
          IC NC  +++  + L+ +        C NC  +
Sbjct: 2  ICKNCNEKFSYKELLKSLFSLYRPIKCPNCGTK 34

This small, uncommon, poorly conserved protein is found primarily in the Firmicutes. It features are pair of CxxC motifs separated by about 20 amino acids, followed by a highly hydrophobic region of about 45 amino acids. It has no conserved gene neighborhood, and its function is unknown. Length = 94

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	330
KOG2593	436	consensus Transcription initiation factor IIE, alp	100.0
PRK06266	178	transcription initiation factor E subunit alpha; V	99.54
TIGR00373	158	conserved hypothetical protein TIGR00373. This fam	99.49
smart00531	147	TFIIE Transcription initiation factor IIE.	99.45
COG1675	176	TFA1 Transcription initiation factor IIE, alpha su	99.22
PF08271	43	TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013	97.59
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	97.46
PF05191	36	ADK_lid: Adenylate kinase, active site lid; InterP	97.08
PRK14526	211	adenylate kinase; Provisional	96.82
PLN02674	244	adenylate kinase	96.74
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	96.57
COG1996	49	RPC10 DNA-directed RNA polymerase, subunit RPC10 (	96.12
PF13717	36	zinc_ribbon_4: zinc-ribbon domain	96.06
PRK00279	215	adk adenylate kinase; Reviewed	95.85
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	95.84
smart00659	44	RPOLCX RNA polymerase subunit CX. present in RNA p	95.82
smart00834	41	CxxC_CXXC_SSSS Putative regulatory protein. CxxC_C	95.68
PF08274	30	PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR01	95.53
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.43
PRK00420	112	hypothetical protein; Validated	95.36
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	95.22
PTZ00088	229	adenylate kinase 1; Provisional	95.13
TIGR02300	129	FYDLN_acid conserved hypothetical protein TIGR0230	95.1
PHA02768	55	hypothetical protein; Provisional	95.02
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	94.91
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	94.73
PRK10220	111	hypothetical protein; Provisional	94.66
TIGR00686	109	phnA alkylphosphonate utilization operon protein P	94.6
PRK14530	215	adenylate kinase; Provisional	94.57
PLN02459	261	probable adenylate kinase	94.54
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	94.0
TIGR01206	54	lysW lysine biosynthesis protein LysW. This very s	93.82
PF14353	128	CpXC: CpXC protein	93.73
PF00301	47	Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubred	93.69
PF09723	42	Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR0134	93.58
cd00730	50	rubredoxin Rubredoxin; nonheme iron binding domain	93.53
TIGR02605	52	CxxC_CxxC_SSSS putative regulatory protein, FmdB f	93.28
PF03604	32	DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa	93.12
PRK14529	223	adenylate kinase; Provisional	93.11
PF13248	26	zf-ribbon_3: zinc-ribbon domain	93.1
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	92.37
cd00729	34	rubredoxin_SM Rubredoxin, Small Modular nonheme ir	92.23
COG1379	403	PHP family phosphoesterase with a Zn ribbon [Gener	91.85
TIGR00100	115	hypA hydrogenase nickel insertion protein HypA. In	91.79
COG2824	112	PhnA Uncharacterized Zn-ribbon-containing protein	91.49
COG2331	82	Uncharacterized protein conserved in bacteria [Fun	91.23
cd01410	206	SIRT7 SIRT7: Eukaryotic and prokaryotic group (cla	90.69
COG2888	61	Predicted Zn-ribbon RNA-binding protein with a fun	90.56
PRK06450	338	threonine synthase; Validated	90.27
COG1997	89	RPL43A Ribosomal protein L37AE/L43A [Translation,	89.91
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	89.69
PF13824	55	zf-Mss51: Zinc-finger of mitochondrial splicing su	89.68
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	89.49
PRK06260	397	threonine synthase; Validated	89.41
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	89.21
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	89.15
PF01155	113	HypA: Hydrogenase expression/synthesis hypA family	88.67
PRK00423	310	tfb transcription initiation factor IIB; Reviewed	88.67
PRK07591	421	threonine synthase; Validated	88.66
PRK14714	1337	DNA polymerase II large subunit; Provisional	88.65
TIGR03844	398	cysteate_syn cysteate synthase. Members of this fa	88.24
PRK14138	244	NAD-dependent deacetylase; Provisional	88.16
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	88.12
PRK00564	117	hypA hydrogenase nickel incorporation protein; Pro	87.86
PF00096	23	zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR0070	87.34
PRK03681	114	hypA hydrogenase nickel incorporation protein; Val	87.15
PF07282	69	OrfB_Zn_ribbon: Putative transposase DNA-binding d	86.92
PF13894	24	zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP	86.78
PRK00464	154	nrdR transcriptional regulator NrdR; Validated	86.61
PF02146	178	SIR2: Sir2 family; InterPro: IPR003000 These seque	86.55
PHA00732	79	hypothetical protein	86.44
PF13465	26	zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A	86.39
PHA00626	59	hypothetical protein	86.0
PF11781	36	RRN7: RNA polymerase I-specific transcription init	85.6
PRK00432	50	30S ribosomal protein S27ae; Validated	85.59
PRK00762	124	hypA hydrogenase nickel incorporation protein; Pro	85.44
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	85.19
PF06044	254	DRP: Dam-replacing family; InterPro: IPR010324 Dam	85.08
PF01780	90	Ribosomal_L37ae: Ribosomal L37ae protein family; I	84.99
PF04423	54	Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IP	84.91
PF11023	114	DUF2614: Protein of unknown function (DUF2614); In	84.86
TIGR00280	91	L37a ribosomal protein L37a. This model finds euka	84.78
COG1645	131	Uncharacterized Zn-finger containing protein [Gene	84.77
TIGR00375	374	conserved hypothetical protein TIGR00375. The memb	84.41
PF08996	188	zf-DNA_Pol: DNA Polymerase alpha zinc finger; Inte	84.3
cd01413	222	SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group	84.28
PF09862	113	DUF2089: Protein of unknown function (DUF2089); In	83.99
PRK08197	394	threonine synthase; Validated	83.9
PRK00481	242	NAD-dependent deacetylase; Provisional	83.72
PRK05452	479	anaerobic nitric oxide reductase flavorubredoxin;	83.49
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	83.4
KOG2807	378	consensus RNA polymerase II transcription initiati	83.38
COG0675	364	Transposase and inactivated derivatives [DNA repli	83.22
PF07754	24	DUF1610: Domain of unknown function (DUF1610); Int	83.17
PF12760	46	Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int	83.13
cd01408	235	SIRT1 SIRT1: Eukaryotic group (class1) which inclu	82.61
PRK03976	90	rpl37ae 50S ribosomal protein L37Ae; Reviewed	82.33
PF10122	51	Mu-like_Com: Mu-like prophage protein Com; InterPr	81.94
cd01407	218	SIR2-fam SIR2 family of proteins includes silent i	81.92
PTZ00255	90	60S ribosomal protein L37a; Provisional	81.89
PF13453	41	zf-TFIIB: Transcription factor zinc-finger	81.52
cd01409	260	SIRT4 SIRT4: Eukaryotic and prokaryotic group (cla	81.24
COG4530	129	Uncharacterized protein conserved in bacteria [Fun	81.14
PLN02569	484	threonine synthase	80.96
TIGR00515	285	accD acetyl-CoA carboxylase, carboxyl transferase,	80.59
CHL00174	296	accD acetyl-CoA carboxylase beta subunit; Reviewed	80.36
PHA00626	59	hypothetical protein	80.14
COG1571	421	Predicted DNA-binding protein containing a Zn-ribb	80.1
PRK05638	442	threonine synthase; Validated	80.04

>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]

Probab=100.00  E-value=1.6e-52  Score=411.77  Aligned_cols=302  Identities=36%  Similarity=0.612  Sum_probs=248.7

Q ss_pred             ChhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHH
Q 020131            1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLK   80 (330)
Q Consensus         1 Mrk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k   80 (330)
                      ||||||+++++.+++++|+||+|+++||.|||++||++.++.|+|.+||++|+++++++++.               ..+
T Consensus       112 m~krled~~~d~t~~~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelveDe~~~~~~---------------e~~  176 (436)
T KOG2593|consen  112 MRKRLEDRLRDDTNVAGYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELVEDENKLPSK---------------ESR  176 (436)
T ss_pred             HHHHHHHHhhhccccccccCCccccchhhhHHHHhhcccCceEEEecCCCchhcccccCchH---------------HHH
Confidence            89999999999999999999999999999999999999999999999999999999987732               224


Q ss_pred             HHHHHHHHhHHHHHHHHHhhcCcC-------------CCCCCcHHHHHHHHHhhcccCCCCCCCCCCCCCCCCCCCCCCC
Q 020131           81 DLLQKLEVHLKPLMEQINRVKDLD-------------VPEFGTLQAWEARASAAGRAANGDSSSNDPNKSSQGYGGTPMP  147 (330)
Q Consensus        81 ~~l~r~n~QlkpI~~~Lk~id~i~-------------iP~f~~~~aw~~~a~~~~r~~~g~~~~~~~s~~~~a~~g~pm~  147 (330)
                      .+++|||.|+.||+++|+++++|.             +|.|+++.+|..+.+.+++. +|+.++.+.+++.|+|+++||+
T Consensus       177 ~~l~~~~~Q~~pi~d~Lk~~e~i~~l~~~~n~~~~~~~p~~~~~~~~~~~~a~~a~~-~G~~~~~d~~rs~G~~~s~~~~  255 (436)
T KOG2593|consen  177 TALNRLMEQLEPIIDLLKELEGIKPLAPPQNEPKDTPIPALESFLALQADTAKAASE-NGGLNPDDASRSQGGYGSTPMV  255 (436)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccccccccCCccCcCccccccccccccchhhhhh-ccCCCCCchhhcCCCCCCCcce
Confidence            778999999999999999999965             88999999999885555554 4777777888889999999999


Q ss_pred             CCCCceEEEEeeCCCcccccccccccCCCCCCCCchhhhccccccccccccccccccCCCCCCCCCCCCcccCCchhhhh
Q 020131          148 FLGDTKVEVAFSGAEGKQVDVKSETDSTPQKVLPPWMIKQGMNLTKEQRGEVKQESKMDGSSATGGLSDDKKSTVEDDKA  227 (330)
Q Consensus       148 ~lg~~~v~V~ls~~~~~~e~ek~a~~~~~qnaLP~Wm~~Stv~l~~e~~G~vk~e~~~~~~~~~~~~k~~~k~~~~~~~~  227 (330)
                      +.+.+.++|++ +..  +++  +....+.||.||+||++|||.++..+.|++..++..+.+-..+...++.+     ...
T Consensus       256 ~~~~t~~~v~~-~d~--neD--~~~e~k~~~~~P~W~~~sti~~~~~~~ge~~~da~~t~~~~~~~~~dd~~-----s~~  325 (436)
T KOG2593|consen  256 EEFETDNEVNL-GDD--NED--AVEEKKSQKILPEWLAKSTIGGTEAQDGEMALDAVVTESGEGSRNPDDNK-----SEM  325 (436)
T ss_pred             eeeecccceec-ccc--ccc--hhhhhhhhhcCChHHHhcccccchhhccchhhhhhhhcccccccCCCcch-----hHH
Confidence            99988888887 443  222  34567789999999999999999988998888776655311112222222     122


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCCCccccccccccccccccCCCCCcccccccc---ccCCcc
Q 020131          228 SLQDEYIRAYYAALLKKQQELDEAAKNQQESSNTPISDGLSGASSNRQVGMKSKREEVEGDDDVDWEEAPV---AGTTSE  304 (330)
Q Consensus       228 ~~~ee~l~aYyAal~k~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~g~k~k~~~~~~~~~~ew~~~~~---~~~~~~  304 (330)
                      +.-+.|+++|||.|+.+++..++.+.+++++....+++.+.+..+.|+|+||+||+|++ |++|+||+.++   .|+..-
T Consensus       326 ~~~d~~~~~~~a~~ke~~e~~~~~n~~es~~e~~~~di~~~~~~~~~~~~~~~k~eeEe-D~~~e~e~~~sv~v~g~~~p  404 (436)
T KOG2593|consen  326 SAHDAYYKAYYAALKEEEELSEEENQDESEEEEPTSDIESATDESARQVYMKSKREEEE-DEDVEWEETASVAVNGRPLP  404 (436)
T ss_pred             HHHHHHHHHHHHHHhhhhhhhhhccccccccCcccccccccccHHHHHhhhccchhhhc-cchhhcccCcchhhcCCCCC
Confidence            45689999999999999999999999999998888899999999999999999999875 68999999888   444444


Q ss_pred             cccccccc--ccccccCC-----CCCcccccCC
Q 020131          305 SFKVHDLN--VEAEASAE-----DEDDIDWEEG  330 (330)
Q Consensus       305 ~~~~~d~~--~~~~~~~~-----~~d~~~w~~~  330 (330)
                      -|+| |+|  |++....+     +.|++||+++
T Consensus       405 ~~~v-d~~~~~~~m~~~eke~~~~~~~~d~ed~  436 (436)
T KOG2593|consen  405 LSQV-DLNMVVTAMTPSEKENYIEGDQDDDEDD  436 (436)
T ss_pred             cccc-ccchhhhhcCchhccccccccccccccC
Confidence            5787 888  66655443     5688999975

>PRK06266 transcription initiation factor E subunit alpha; Validated

Probab=99.54  E-value=9.1e-15  Score=131.63  Aligned_cols=51  Identities=31%  Similarity=0.630  Sum_probs=47.7

Q ss_pred             ChhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccch
Q 020131            1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD   57 (330)
Q Consensus         1 Mrk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~   57 (330)
                      |+++|+.+++++.++++|+||+|+++|||+||+++      +|+||.||++|++.++
T Consensus       101 ~~~klk~~l~~e~~~~~Y~Cp~C~~rytf~eA~~~------~F~Cp~Cg~~L~~~dn  151 (178)
T PRK06266        101 ELKKLKEQLEEEENNMFFFCPNCHIRFTFDEAMEY------GFRCPQCGEMLEEYDN  151 (178)
T ss_pred             HHHHHHHHhhhccCCCEEECCCCCcEEeHHHHhhc------CCcCCCCCCCCeeccc
Confidence            46899999999999999999999999999999986      8999999999998765

>TIGR00373 conserved hypothetical protein TIGR00373

Probab=99.49  E-value=3.1e-14  Score=125.82  Aligned_cols=51  Identities=31%  Similarity=0.587  Sum_probs=47.9

Q ss_pred             ChhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccch
Q 020131            1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD   57 (330)
Q Consensus         1 Mrk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~   57 (330)
                      |.++|+.+++++.++++|+||+|+++|||+||+++      +|+||.||++|++.++
T Consensus        93 ~~~~lk~~l~~e~~~~~Y~Cp~c~~r~tf~eA~~~------~F~Cp~Cg~~L~~~dn  143 (158)
T TIGR00373        93 TAKKLREKLEFETNNMFFICPNMCVRFTFNEAMEL------NFTCPRCGAMLDYLDN  143 (158)
T ss_pred             HHHHHHHHHhhccCCCeEECCCCCcEeeHHHHHHc------CCcCCCCCCEeeeccC
Confidence            46789999999999999999999999999999997      8999999999998876

This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.

>smart00531 TFIIE Transcription initiation factor IIE

Probab=99.45  E-value=6.5e-14  Score=122.06  Aligned_cols=58  Identities=40%  Similarity=0.800  Sum_probs=54.0

Q ss_pred             ChhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhh
Q 020131            1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKL   59 (330)
Q Consensus         1 Mrk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~   59 (330)
                      |+++|+.+++++.++.+|+||+|+.+|+++||+.+.|+ ++.|.||+||++|++.++..
T Consensus        83 ~~~~L~~~l~~e~~~~~Y~Cp~C~~~y~~~ea~~~~d~-~~~f~Cp~Cg~~l~~~dn~~  140 (147)
T smart00531       83 MRKRLEDKLEDETNNAYYKCPNCQSKYTFLEANQLLDM-DGTFTCPRCGEELEEDDNSE  140 (147)
T ss_pred             HHHHHHHHHhcccCCcEEECcCCCCEeeHHHHHHhcCC-CCcEECCCCCCEEEEcCchh
Confidence            68999999999999999999999999999999999997 67899999999999987753

>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]

Probab=99.22  E-value=1.9e-11  Score=110.00  Aligned_cols=75  Identities=32%  Similarity=0.646  Sum_probs=60.3

Q ss_pred             ChhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHH
Q 020131            1 MRKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLK   80 (330)
Q Consensus         1 Mrk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k   80 (330)
                      |.++|+..++..+++.+|+||+|+.+|||.+|+.+      +|.||.||+.|++.++.                      
T Consensus        97 ~le~Lk~~le~~~~~~~y~C~~~~~r~sfdeA~~~------~F~Cp~Cg~~L~~~d~s----------------------  148 (176)
T COG1675          97 ILEKLKRKLEKETENNYYVCPNCHVKYSFDEAMEL------GFTCPKCGEDLEEYDSS----------------------  148 (176)
T ss_pred             HHHHHHHHHHhhccCCceeCCCCCCcccHHHHHHh------CCCCCCCCchhhhccch----------------------
Confidence            46889999999999999999999999999999999      89999999999887652                      


Q ss_pred             HHHHHHHHhHHHHHHHHHhhcCc
Q 020131           81 DLLQKLEVHLKPLMEQINRVKDL  103 (330)
Q Consensus        81 ~~l~r~n~QlkpI~~~Lk~id~i  103 (330)
                      ..+..+...++.|...|.+....
T Consensus       149 ~~i~~l~~~i~~l~~~l~~~~~~  171 (176)
T COG1675         149 EEIEELESELDELEEELERNDKL  171 (176)
T ss_pred             HHHHHHHHHHHHHHHHHhccccc
Confidence            23455555555566666555443

>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.59  E-value=2.7e-05  Score=54.56  Aligned_cols=33  Identities=27%  Similarity=0.540  Sum_probs=26.5

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      |+||+|+.++.      ++|+.++.|.|+.||..|.+..
T Consensus         1 m~Cp~Cg~~~~------~~D~~~g~~vC~~CG~Vl~e~~   33 (43)
T PF08271_consen    1 MKCPNCGSKEI------VFDPERGELVCPNCGLVLEENI   33 (43)
T ss_dssp             ESBTTTSSSEE------EEETTTTEEEETTT-BBEE-TT
T ss_pred             CCCcCCcCCce------EEcCCCCeEECCCCCCEeeccc
Confidence            79999999884      6678889999999999996543

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=97.46  E-value=3.4e-05  Score=54.79  Aligned_cols=34  Identities=21%  Similarity=0.532  Sum_probs=27.0

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      ..|+||+||..|++.+       ....++||+||+++....
T Consensus         2 ~~y~C~~CG~~~~~~~-------~~~~~~Cp~CG~~~~~~~   35 (46)
T PRK00398          2 AEYKCARCGREVELDE-------YGTGVRCPYCGYRILFKE   35 (46)
T ss_pred             CEEECCCCCCEEEECC-------CCCceECCCCCCeEEEcc
Confidence            4699999999998733       223699999999998644

>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2

Probab=97.08  E-value=0.00025  Score=48.42  Aligned_cols=34  Identities=38%  Similarity=0.754  Sum_probs=27.8

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      ++||.||+.|..     .++|....-+|+.||++|+...
T Consensus         2 r~C~~Cg~~Yh~-----~~~pP~~~~~Cd~cg~~L~qR~   35 (36)
T PF05191_consen    2 RICPKCGRIYHI-----EFNPPKVEGVCDNCGGELVQRK   35 (36)
T ss_dssp             EEETTTTEEEET-----TTB--SSTTBCTTTTEBEBEEG
T ss_pred             cCcCCCCCcccc-----ccCCCCCCCccCCCCCeeEeCC
Confidence            689999999986     6787777889999999998754

7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....

>PRK14526 adenylate kinase; Provisional

Probab=96.82  E-value=0.0018  Score=59.68  Aligned_cols=63  Identities=29%  Similarity=0.556  Sum_probs=51.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      ..+||.||..|..     .+.|....-.|+.|++.|+...++.                .+.++.+|..+..++.||+++
T Consensus       122 R~~~~~~g~~y~~-----~~~pp~~~~~~~~~~~~l~~R~DD~----------------~e~i~~Rl~~y~~~t~pv~~~  180 (211)
T PRK14526        122 RRICKSCNNIFNI-----YTLPTKEKGICDVCKGDLYQRKDDK----------------EESLKTRLQEYKLQTKPLIEF  180 (211)
T ss_pred             CCcccccCCcccc-----ccCCCCccCcCCCCCCeeeccCCCC----------------HHHHHHHHHHHHHhhhHHHHH
Confidence            4689999999997     4666666679999999998766642                246678999999999999999


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      ++..
T Consensus       181 y~~~  184 (211)
T PRK14526        181 YSKC  184 (211)
T ss_pred             HHhc
Confidence            9864

>PLN02674 adenylate kinase

Probab=96.74  E-value=0.0022  Score=60.74  Aligned_cols=62  Identities=18%  Similarity=0.276  Sum_probs=50.8

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      .++||.||+.|..     .++|....-+|..||.+|+...++.+                +.++.+|..|+.+..||+++
T Consensus       158 R~~~~~~g~~yn~-----~~~pp~~~~~~~~~g~~L~~R~DD~~----------------e~i~~RL~~Y~~~t~pv~~~  216 (244)
T PLN02674        158 RWIHPSSGRTYHT-----KFAPPKVPGVDDVTGEPLIQRKDDTA----------------AVLKSRLEAFHKQTEPVIDY  216 (244)
T ss_pred             cccccccCCcccc-----ccCCCcccCcccccCCccccCCCCCH----------------HHHHHHHHHHHHHhHHHHHH
Confidence            4789999999997     46665555679999999987766422                46678999999999999999


Q ss_pred             HHh
Q 020131           97 INR   99 (330)
Q Consensus        97 Lk~   99 (330)
                      +++
T Consensus       217 Y~~  219 (244)
T PLN02674        217 YAK  219 (244)
T ss_pred             HHh
Confidence            987

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=96.57  E-value=0.0015  Score=44.29  Aligned_cols=35  Identities=20%  Similarity=0.545  Sum_probs=26.5

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      .+.||+|+..|..-+..-.  .....+.|++||+.+.
T Consensus         2 ~~~CP~C~~~~~v~~~~~~--~~~~~v~C~~C~~~~~   36 (38)
T TIGR02098         2 RIQCPNCKTSFRVVDSQLG--ANGGKVRCGKCGHVWY   36 (38)
T ss_pred             EEECCCCCCEEEeCHHHcC--CCCCEEECCCCCCEEE
Confidence            4789999999997654432  3334799999999884

This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.

>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]

Probab=96.12  E-value=0.0022  Score=46.78  Aligned_cols=33  Identities=21%  Similarity=0.625  Sum_probs=25.2

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...|+|-+||+.|+.+.+       +....|++||+.+..
T Consensus         4 ~~~Y~C~~Cg~~~~~~~~-------~~~irCp~Cg~rIl~   36 (49)
T COG1996           4 MMEYKCARCGREVELDQE-------TRGIRCPYCGSRILV   36 (49)
T ss_pred             eEEEEhhhcCCeeehhhc-------cCceeCCCCCcEEEE
Confidence            358999999999943322       246999999998754

>PF13717 zinc_ribbon_4: zinc-ribbon domain

Probab=96.06  E-value=0.0047  Score=42.03  Aligned_cols=34  Identities=26%  Similarity=0.665  Sum_probs=27.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ...||+|+++|...|..  |-+....++|+.||+.+
T Consensus         2 ~i~Cp~C~~~y~i~d~~--ip~~g~~v~C~~C~~~f   35 (36)
T PF13717_consen    2 IITCPNCQAKYEIDDEK--IPPKGRKVRCSKCGHVF   35 (36)
T ss_pred             EEECCCCCCEEeCCHHH--CCCCCcEEECCCCCCEe
Confidence            46899999999987665  44556689999999864

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.85  E-value=0.015  Score=52.80  Aligned_cols=63  Identities=24%  Similarity=0.516  Sum_probs=50.6

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      ..+||.||..|..     .++|....=.|..||..|+...++.                .+.++.+|..|..++.||+++
T Consensus       127 R~~~~~~g~~~~~-----~~~~p~~~~~~~~~~~~l~~r~dd~----------------~~~i~~Rl~~y~~~~~~i~~~  185 (215)
T PRK00279        127 RRICPACGRTYHV-----KFNPPKVEGKCDVCGEELIQRADDN----------------EETVRKRLEVYHKQTAPLIDY  185 (215)
T ss_pred             CcccCccCCcccc-----cCCCCCCcCcCcCCCCcccCCCCCC----------------HHHHHHHHHHHHHhhHHHHHH
Confidence            4689999999987     4666656678999999997765432                245678899999999999999


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      ++..
T Consensus       186 y~~~  189 (215)
T PRK00279        186 YKKK  189 (215)
T ss_pred             HHhC
Confidence            9875

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=95.84  E-value=0.0046  Score=52.00  Aligned_cols=31  Identities=29%  Similarity=0.802  Sum_probs=23.9

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      -.+||.||+||=.        .....-+||+||+.+...
T Consensus         9 KR~Cp~CG~kFYD--------Lnk~PivCP~CG~~~~~~   39 (108)
T PF09538_consen    9 KRTCPSCGAKFYD--------LNKDPIVCPKCGTEFPPE   39 (108)
T ss_pred             cccCCCCcchhcc--------CCCCCccCCCCCCccCcc
Confidence            4689999999954        333457899999998653

The function of members of this family is unknown.

>smart00659 RPOLCX RNA polymerase subunit CX

Probab=95.82  E-value=0.0057  Score=43.54  Aligned_cols=30  Identities=27%  Similarity=0.675  Sum_probs=24.8

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .|+|..||..|+..        ..+..+|++||+.+..
T Consensus         2 ~Y~C~~Cg~~~~~~--------~~~~irC~~CG~rIly   31 (44)
T smart00659        2 IYICGECGRENEIK--------SKDVVRCRECGYRILY   31 (44)
T ss_pred             EEECCCCCCEeecC--------CCCceECCCCCceEEE
Confidence            69999999999853        2357999999998865

present in RNA polymerase I, II and III

>smart00834 CxxC_CXXC_SSSS Putative regulatory protein

Probab=95.68  E-value=0.0031  Score=42.93  Aligned_cols=32  Identities=28%  Similarity=0.797  Sum_probs=24.5

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .|.|+.||..|+.+....-    ...-.||.||.++
T Consensus         5 ~y~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg~~~   36 (41)
T smart00834        5 EYRCEDCGHTFEVLQKISD----DPLATCPECGGDV   36 (41)
T ss_pred             EEEcCCCCCEEEEEEecCC----CCCCCCCCCCCcc
Confidence            5999999999997544322    2367899999965

CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues

Probab=95.53  E-value=0.0039  Score=41.05  Aligned_cols=26  Identities=27%  Similarity=0.727  Sum_probs=15.1

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .||.|+..|+.        .+...|+|+.|+.++
T Consensus         4 ~Cp~C~se~~y--------~D~~~~vCp~C~~ew   29 (30)
T PF08274_consen    4 KCPLCGSEYTY--------EDGELLVCPECGHEW   29 (30)
T ss_dssp             --TTT-----E--------E-SSSEEETTTTEEE
T ss_pred             CCCCCCCccee--------ccCCEEeCCcccccC
Confidence            69999999997        334579999999876

The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.

>TIGR01351 adk adenylate kinases

Probab=95.43  E-value=0.026  Score=51.11  Aligned_cols=63  Identities=21%  Similarity=0.332  Sum_probs=48.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      .++||.||..|..     .++|....-.|..|+..|+...++.                .+.++.+|..|+.++.||+++
T Consensus       124 R~~~~~~g~~y~~-----~~~~p~~~~~~~~~~~~l~~R~dD~----------------~e~i~~Rl~~y~~~~~~v~~~  182 (210)
T TIGR01351       124 RRICPSCGRVYHL-----KFNPPKVPGCDDCTGELLIQREDDT----------------EEVVKKRLEVYKEQTEPLIDY  182 (210)
T ss_pred             CCccCCcCCcccc-----ccCCCccCCcCcccCCccccCCCCC----------------HHHHHHHHHHHHHhhHHHHHH
Confidence            4789999999975     3444444567999999997655432                135678899999999999999


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      ++.-
T Consensus       183 y~~~  186 (210)
T TIGR01351       183 YKKR  186 (210)
T ss_pred             HHhC
Confidence            9874

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK00420 hypothetical protein; Validated

Probab=95.36  E-value=0.043  Score=46.49  Aligned_cols=66  Identities=20%  Similarity=0.340  Sum_probs=40.9

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHH-HHHHHHHHHHHHHHHhHHHHH
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARR-RRREKLKDLLQKLEVHLKPLM   94 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r-~~~e~~k~~l~r~n~QlkpI~   94 (330)
                      ....||.||.-+.        -...|...||.||..+.-.....           +++ .....++.....++..|.-|+
T Consensus        22 l~~~CP~Cg~pLf--------~lk~g~~~Cp~Cg~~~~v~~~ee-----------~~~~~~~~~~~~~~~il~~ki~~L~   82 (112)
T PRK00420         22 LSKHCPVCGLPLF--------ELKDGEVVCPVHGKVYIVKSDEE-----------EKKVESKETLKEVEEVLIEKINYLA   82 (112)
T ss_pred             ccCCCCCCCCcce--------ecCCCceECCCCCCeeeeccHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4578999996543        22457899999999886543321           111 112233455566677777777


Q ss_pred             HHHHhh
Q 020131           95 EQINRV  100 (330)
Q Consensus        95 ~~Lk~i  100 (330)
                      ..|..-
T Consensus        83 ~kL~~e   88 (112)
T PRK00420         83 KKLKED   88 (112)
T ss_pred             HhCccc
Confidence            666655

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=95.22  E-value=0.0081  Score=39.93  Aligned_cols=27  Identities=26%  Similarity=0.814  Sum_probs=21.7

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .|+|+.||..|....         ..+.||.||..=
T Consensus         1 ~~~C~~CGy~y~~~~---------~~~~CP~Cg~~~   27 (33)
T cd00350           1 KYVCPVCGYIYDGEE---------APWVCPVCGAPK   27 (33)
T ss_pred             CEECCCCCCEECCCc---------CCCcCcCCCCcH
Confidence            389999999987533         369999999854

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.13  E-value=0.023  Score=53.20  Aligned_cols=68  Identities=24%  Similarity=0.407  Sum_probs=47.1

Q ss_pred             eeecCCCCccccHHHHH-hhcC-C-CCCCeeccCCCc--cccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHH
Q 020131           17 EYICPNCQRRYNALDAL-RLVS-L-EDDSFHCENCNG--ELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLK   91 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~-~Lld-~-~~~~F~C~~Cg~--eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~Qlk   91 (330)
                      ..+||.||..|...-+. +-++ | ....-.|..||.  .|+...++.                -+.++.+|..++.+..
T Consensus       130 Rr~~~~~g~~y~~~~~~~~~~~~pp~~~~~~c~~~~~~~~l~~R~DD~----------------~e~i~~Rl~~Y~~~t~  193 (229)
T PTZ00088        130 RRICNTCNRNFNIAHIRSDPYDMPPILPPADCEGCKGNPKLQKRSDDT----------------EEIVAHRLNTYESTNS  193 (229)
T ss_pred             CcCCCccCCcceecccccccccCCCCCCCCcccccCCcccccCCCCCC----------------HHHHHHHHHHHHHHhH
Confidence            37899999999864221 1111 1 111237999996  677655532                2456788999999999


Q ss_pred             HHHHHHHhh
Q 020131           92 PLMEQINRV  100 (330)
Q Consensus        92 pI~~~Lk~i  100 (330)
                      ||+++++..
T Consensus       194 pl~~~y~~~  202 (229)
T PTZ00088        194 PIIQFFKNE  202 (229)
T ss_pred             HHHHHHHHc
Confidence            999999876

>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300

Probab=95.10  E-value=0.012  Score=50.89  Aligned_cols=30  Identities=17%  Similarity=0.341  Sum_probs=23.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      -++||.||+||=.|        ....-+||+||+.+..
T Consensus         9 Kr~Cp~cg~kFYDL--------nk~p~vcP~cg~~~~~   38 (129)
T TIGR02300         9 KRICPNTGSKFYDL--------NRRPAVSPYTGEQFPP   38 (129)
T ss_pred             cccCCCcCcccccc--------CCCCccCCCcCCccCc
Confidence            47899999999552        2346899999999754

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.

>PHA02768 hypothetical protein; Provisional

Probab=95.02  E-value=0.0082  Score=44.80  Aligned_cols=35  Identities=20%  Similarity=0.404  Sum_probs=27.4

Q ss_pred             CeeecCCCCccccHHHHHhh--cCCCCCCeeccCCCcc
Q 020131           16 QEYICPNCQRRYNALDALRL--VSLEDDSFHCENCNGE   51 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~L--ld~~~~~F~C~~Cg~e   51 (330)
                      -+|.||.||++|+..+++..  .... -.|.|..|+-.
T Consensus         4 ~~y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~   40 (55)
T PHA02768          4 LGYECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRI   40 (55)
T ss_pred             cccCcchhCCeeccHHHHHHHHHhcC-CcccCCcccce
Confidence            47999999999999998853  1222 37999999964

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=94.91  E-value=0.022  Score=38.86  Aligned_cols=34  Identities=26%  Similarity=0.650  Sum_probs=25.9

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-.||+|+++|..-+..  |......++|+.|++..
T Consensus         2 ~i~CP~C~~~f~v~~~~--l~~~~~~vrC~~C~~~f   35 (37)
T PF13719_consen    2 IITCPNCQTRFRVPDDK--LPAGGRKVRCPKCGHVF   35 (37)
T ss_pred             EEECCCCCceEEcCHHH--cccCCcEEECCCCCcEe
Confidence            35799999999976553  23445689999999875

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=94.73  E-value=0.0092  Score=51.75  Aligned_cols=40  Identities=15%  Similarity=0.357  Sum_probs=27.5

Q ss_pred             CCCCeeecCCCCccccHHHHHhhc----------CCC--CCCeeccCCCccc
Q 020131           13 NTVQEYICPNCQRRYNALDALRLV----------SLE--DDSFHCENCNGEL   52 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Ll----------d~~--~~~F~C~~Cg~eL   52 (330)
                      ..+..|.|+.||..|+..++..-|          .|.  ...|.||.||+.-
T Consensus        66 ~~p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~  117 (135)
T PRK03824         66 EEEAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD  117 (135)
T ss_pred             ecceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence            445789999999999987532221          221  2357899999763

>PRK10220 hypothetical protein; Provisional

Probab=94.66  E-value=0.016  Score=48.80  Aligned_cols=30  Identities=27%  Similarity=0.713  Sum_probs=24.5

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      .||.|+..||+.|        ...|.||.|++++...+
T Consensus         5 ~CP~C~seytY~d--------~~~~vCpeC~hEW~~~~   34 (111)
T PRK10220          5 HCPKCNSEYTYED--------NGMYICPECAHEWNDAE   34 (111)
T ss_pred             cCCCCCCcceEcC--------CCeEECCcccCcCCccc
Confidence            5999999999743        24699999999997654

>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA

Probab=94.60  E-value=0.013  Score=49.19  Aligned_cols=29  Identities=28%  Similarity=0.652  Sum_probs=23.7

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      -||.|+..||+.|        ...|.||.|++++...
T Consensus         4 ~CP~C~seytY~d--------g~~~iCpeC~~EW~~~   32 (109)
T TIGR00686         4 PCPKCNSEYTYHD--------GTQLICPSCLYEWNEN   32 (109)
T ss_pred             cCCcCCCcceEec--------CCeeECcccccccccc
Confidence            4999999999742        3469999999999653

The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).

>PRK14530 adenylate kinase; Provisional

Probab=94.57  E-value=0.063  Score=48.76  Aligned_cols=62  Identities=24%  Similarity=0.629  Sum_probs=48.0

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQI   97 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~L   97 (330)
                      ..||.|+..|..     .+.|....=.|..||..|+...++.                .+.++.+|..+..+..||++++
T Consensus       127 ~~~~~~g~~~~~-----~~~~p~~~~~~~~~~~rl~~R~dD~----------------~e~i~~Rl~~y~~~~~~v~~~y  185 (215)
T PRK14530        127 RVCPDCGANYHV-----EFNQPEEEGVCDECGGELIQRDDDT----------------EETVRERLDVFEENTEPVIEHY  185 (215)
T ss_pred             CcCcccCCcccc-----CCCCCcccccCcccCCcccCCCCCC----------------HHHHHHHHHHHHHHHHHHHHHH
Confidence            689999999975     3444444457999999997765532                2467889999999999999999


Q ss_pred             Hhh
Q 020131           98 NRV  100 (330)
Q Consensus        98 k~i  100 (330)
                      +.-
T Consensus       186 ~~~  188 (215)
T PRK14530        186 RDQ  188 (215)
T ss_pred             HhC
Confidence            873

>PLN02459 probable adenylate kinase

Probab=94.54  E-value=0.056  Score=51.91  Aligned_cols=66  Identities=20%  Similarity=0.369  Sum_probs=48.2

Q ss_pred             eeecCCCCccccHHHHH--------hhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHH
Q 020131           17 EYICPNCQRRYNALDAL--------RLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEV   88 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~--------~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~   88 (330)
                      .++||.||..|...-+.        ..++|..  --|+.|+..|+...++.+                +.++.+|..|+.
T Consensus       153 R~~~~~~g~~Yn~~~~~~~~~~~~~~~~~~p~--~~~~~~~~~L~~R~DD~~----------------e~i~kRL~~Y~~  214 (261)
T PLN02459        153 RRICSECGKNFNVADIDLKGEDGRPGIVMPPL--LPPPECASKLITRADDTE----------------EVVKARLRVYKE  214 (261)
T ss_pred             cccccccCccccccccccccccccccccCCCC--CCCcccccccccCCCCCH----------------HHHHHHHHHHHH
Confidence            47899999999864322        1234321  236789999987666422                456788999999


Q ss_pred             hHHHHHHHHHhh
Q 020131           89 HLKPLMEQINRV  100 (330)
Q Consensus        89 QlkpI~~~Lk~i  100 (330)
                      ++.||+++++..
T Consensus       215 ~t~pv~~~Y~~~  226 (261)
T PLN02459        215 ESQPVEDFYRKR  226 (261)
T ss_pred             HhHHHHHHHHhc
Confidence            999999999875

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=94.00  E-value=0.022  Score=35.19  Aligned_cols=23  Identities=43%  Similarity=1.057  Sum_probs=17.2

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      +||+||+....          ...| |++||++|
T Consensus         1 ~Cp~CG~~~~~----------~~~f-C~~CG~~l   23 (23)
T PF13240_consen    1 YCPNCGAEIED----------DAKF-CPNCGTPL   23 (23)
T ss_pred             CCcccCCCCCC----------cCcc-hhhhCCcC
Confidence            59999998754          1234 99999876

>TIGR01206 lysW lysine biosynthesis protein LysW

Probab=93.82  E-value=0.019  Score=42.65  Aligned_cols=34  Identities=21%  Similarity=0.583  Sum_probs=25.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .|.||.|+..++.-+...     .....|+.||..|+-.
T Consensus         2 ~~~CP~CG~~iev~~~~~-----GeiV~Cp~CGaeleVv   35 (54)
T TIGR01206         2 QFECPDCGAEIELENPEL-----GELVICDECGAELEVV   35 (54)
T ss_pred             ccCCCCCCCEEecCCCcc-----CCEEeCCCCCCEEEEE
Confidence            479999999987633221     2468999999999653

This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.

>PF14353 CpXC: CpXC protein

Probab=93.73  E-value=0.018  Score=48.70  Aligned_cols=35  Identities=20%  Similarity=0.547  Sum_probs=23.0

Q ss_pred             eecCCCCccccHHHHHhhc-------------CCCCCCeeccCCCcccc
Q 020131           18 YICPNCQRRYNALDALRLV-------------SLEDDSFHCENCNGELV   53 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Ll-------------d~~~~~F~C~~Cg~eL~   53 (330)
                      ..||.|+..|.+ +++.++             +-.-..|.||.||....
T Consensus         2 itCP~C~~~~~~-~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~   49 (128)
T PF14353_consen    2 ITCPHCGHEFEF-EVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFR   49 (128)
T ss_pred             cCCCCCCCeeEE-EEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence            369999998865 223333             33334689999997654

>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []

Probab=93.69  E-value=0.019  Score=41.46  Aligned_cols=34  Identities=24%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             eecCCCCccccHHHHHh--------hcCCCCCCeeccCCCcc
Q 020131           18 YICPNCQRRYNALDALR--------LVSLEDDSFHCENCNGE   51 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~--------Lld~~~~~F~C~~Cg~e   51 (330)
                      |+|+.|+..|....-..        .|+-....|+||.|+..
T Consensus         2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~   43 (47)
T PF00301_consen    2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP   43 (47)
T ss_dssp             EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred             cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence            89999999998654321        12222457999999976

The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....

>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria

Probab=93.58  E-value=0.033  Score=38.94  Aligned_cols=32  Identities=34%  Similarity=0.889  Sum_probs=24.0

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCc-cc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNG-EL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~-eL   52 (330)
                      .|+|+.||..|..+--   ++- ...-.||.||+ .+
T Consensus         5 ey~C~~Cg~~fe~~~~---~~~-~~~~~CP~Cg~~~~   37 (42)
T PF09723_consen    5 EYRCEECGHEFEVLQS---ISE-DDPVPCPECGSTEV   37 (42)
T ss_pred             EEEeCCCCCEEEEEEE---cCC-CCCCcCCCCCCCce
Confidence            5999999999986432   222 34789999999 55

The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center

Probab=93.53  E-value=0.033  Score=40.69  Aligned_cols=36  Identities=19%  Similarity=0.396  Sum_probs=23.3

Q ss_pred             eeecCCCCccccHHHHH--hh------cCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDAL--RL------VSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~--~L------ld~~~~~F~C~~Cg~eL   52 (330)
                      .|+|..||..|....=.  .-      |.-....|+||.||..-
T Consensus         1 ~y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K   44 (50)
T cd00730           1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGK   44 (50)
T ss_pred             CcCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcH
Confidence            38999999999853211  00      11112379999999764

Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.

>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family

Probab=93.28  E-value=0.026  Score=40.57  Aligned_cols=32  Identities=38%  Similarity=0.830  Sum_probs=23.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCc-cc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNG-EL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~-eL   52 (330)
                      .|+|+.|+.+|..+-   .++- ...-.||.||. .+
T Consensus         5 ey~C~~Cg~~fe~~~---~~~~-~~~~~CP~Cg~~~~   37 (52)
T TIGR02605         5 EYRCTACGHRFEVLQ---KMSD-DPLATCPECGGEKL   37 (52)
T ss_pred             EEEeCCCCCEeEEEE---ecCC-CCCCCCCCCCCCce
Confidence            599999999999752   2221 23567999998 44

This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.

>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Probab=93.12  E-value=0.026  Score=37.65  Aligned_cols=29  Identities=24%  Similarity=0.705  Sum_probs=20.5

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      |+|..||+.++.       .+ ....+|++||..+..
T Consensus         1 Y~C~~Cg~~~~~-------~~-~~~irC~~CG~RIly   29 (32)
T PF03604_consen    1 YICGECGAEVEL-------KP-GDPIRCPECGHRILY   29 (32)
T ss_dssp             EBESSSSSSE-B-------ST-SSTSSBSSSS-SEEB
T ss_pred             CCCCcCCCeeEc-------CC-CCcEECCcCCCeEEE
Confidence            899999999981       22 235899999987643

Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....

>PRK14529 adenylate kinase; Provisional

Probab=93.11  E-value=0.11  Score=48.59  Aligned_cols=64  Identities=17%  Similarity=0.224  Sum_probs=44.6

Q ss_pred             eeecCCCCccccHHHHHhhcCC-CCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHh---HHH
Q 020131           17 EYICPNCQRRYNALDALRLVSL-EDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVH---LKP   92 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~-~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~Q---lkp   92 (330)
                      ..+||.|+..|.-.-    +.| ....-.|+.||++|+...|+..               -+.++.+|..|+++   +.|
T Consensus       126 R~~c~~~~~~~~~~~----~~~p~~~~~~cd~~~~~l~~R~DD~~---------------ee~i~~Rl~~y~~~~~~~~~  186 (223)
T PRK14529        126 RRLCKNDNNHPNNIF----IDAIKPDGDVCRVCGGELSTRADDQD---------------EEAINKRHDIYYDTETGTLA  186 (223)
T ss_pred             CccccccCCcccccc----cCCCcccCCcCcCcCCccccCCCCCc---------------HHHHHHHHHHHHHcccccch
Confidence            367999988776522    222 2223489999999988776421               13567889999998   568


Q ss_pred             HHHHHHh
Q 020131           93 LMEQINR   99 (330)
Q Consensus        93 I~~~Lk~   99 (330)
                      |++++++
T Consensus       187 ~~~~y~~  193 (223)
T PRK14529        187 AAYFFKD  193 (223)
T ss_pred             HHHHHhh
Confidence            8899985

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=93.10  E-value=0.039  Score=34.77  Aligned_cols=25  Identities=40%  Similarity=0.988  Sum_probs=18.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ..+||+||+.-..           +.-.|++||.+|
T Consensus         2 ~~~Cp~Cg~~~~~-----------~~~fC~~CG~~L   26 (26)
T PF13248_consen    2 EMFCPNCGAEIDP-----------DAKFCPNCGAKL   26 (26)
T ss_pred             cCCCcccCCcCCc-----------ccccChhhCCCC
Confidence            3579999995422           345799999886

>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins

Probab=92.37  E-value=0.086  Score=38.41  Aligned_cols=35  Identities=17%  Similarity=0.583  Sum_probs=23.9

Q ss_pred             eeecCCCCccccHHHHHhhcC----CCCCCeeccCCCcc
Q 020131           17 EYICPNCQRRYNALDALRLVS----LEDDSFHCENCNGE   51 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld----~~~~~F~C~~Cg~e   51 (330)
                      .|.||.|++.|+.-.-...+.    .....+.||.|...
T Consensus         2 ~f~CP~C~~~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~   40 (54)
T PF05605_consen    2 SFTCPYCGKGFSESSLVEHCEDEHRSESKNVVCPICSSR   40 (54)
T ss_pred             CcCCCCCCCccCHHHHHHHHHhHCcCCCCCccCCCchhh
Confidence            699999999666544333322    13457999999864

Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.

>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase

Probab=92.23  E-value=0.048  Score=36.63  Aligned_cols=28  Identities=18%  Similarity=0.472  Sum_probs=21.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      .|+|+.||..|...+      +   ...||.||.+-.
T Consensus         2 ~~~C~~CG~i~~g~~------~---p~~CP~Cg~~~~   29 (34)
T cd00729           2 VWVCPVCGYIHEGEE------A---PEKCPICGAPKE   29 (34)
T ss_pred             eEECCCCCCEeECCc------C---CCcCcCCCCchH
Confidence            699999998886532      1   358999998653

In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]

Probab=91.85  E-value=0.047  Score=54.10  Aligned_cols=29  Identities=31%  Similarity=0.848  Sum_probs=26.4

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      -|.+|.++|+..+|..+      .++||.||+.+.
T Consensus       248 AC~rC~t~y~le~A~~~------~wrCpkCGg~ik  276 (403)
T COG1379         248 ACSRCYTRYSLEEAKSL------RWRCPKCGGKIK  276 (403)
T ss_pred             HHHHhhhccCcchhhhh------cccCcccccchh
Confidence            39999999999999998      899999999664

>TIGR00100 hypA hydrogenase nickel insertion protein HypA

Probab=91.79  E-value=0.071  Score=44.99  Aligned_cols=32  Identities=22%  Similarity=0.616  Sum_probs=24.4

Q ss_pred             cCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           12 KNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        12 ~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      +.-+....|+.|+..|...+         ..|.||.||+.-
T Consensus        65 ~~~p~~~~C~~Cg~~~~~~~---------~~~~CP~Cgs~~   96 (115)
T TIGR00100        65 EDEPVECECEDCSEEVSPEI---------DLYRCPKCHGIM   96 (115)
T ss_pred             EeeCcEEEcccCCCEEecCC---------cCccCcCCcCCC
Confidence            34456789999999887632         258999999865

In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.

>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]

Probab=91.49  E-value=0.047  Score=45.93  Aligned_cols=30  Identities=27%  Similarity=0.637  Sum_probs=24.7

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      .||.|+..|++.|..        .|.||.|..++.+..
T Consensus         5 ~cp~c~sEytYed~~--------~~~cpec~~ew~~~~   34 (112)
T COG2824           5 PCPKCNSEYTYEDGG--------QLICPECAHEWNENE   34 (112)
T ss_pred             CCCccCCceEEecCc--------eEeCchhcccccccc
Confidence            599999999986543        499999999997543

>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.23  E-value=0.081  Score=42.08  Aligned_cols=33  Identities=27%  Similarity=0.698  Sum_probs=26.8

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      .|.|..|+.+|+.+.++.- ||   .-.|+.||+.|.
T Consensus        12 ~Y~c~~cg~~~dvvq~~~d-dp---lt~ce~c~a~~k   44 (82)
T COG2331          12 SYECTECGNRFDVVQAMTD-DP---LTTCEECGARLK   44 (82)
T ss_pred             EEeecccchHHHHHHhccc-Cc---cccChhhChHHH
Confidence            6999999999988777764 33   458999999873

>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation

Probab=90.69  E-value=0.2  Score=46.05  Aligned_cols=40  Identities=20%  Similarity=0.410  Sum_probs=28.1

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ....|+.|+..|...+....+.......+|+.||+.|..+
T Consensus        94 ~~~~C~~C~~~~~~~~~~~~~~~~~~~p~C~~Cgg~lrP~  133 (206)
T cd01410          94 FIEVCKSCGPEYVRDDVVETRGDKETGRRCHACGGILKDT  133 (206)
T ss_pred             CcccCCCCCCccchHHHHHHhhcCCCCCcCCCCcCccCCc
Confidence            3567999999998776654332222357899999988543

Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.

>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]

Probab=90.56  E-value=0.24  Score=37.62  Aligned_cols=8  Identities=50%  Similarity=1.543  Sum_probs=3.9

Q ss_pred             eeecCCCC
Q 020131           17 EYICPNCQ   24 (330)
Q Consensus        17 ~Y~CP~C~   24 (330)
                      .|.||+||
T Consensus        27 ~F~CPnCG   34 (61)
T COG2888          27 KFPCPNCG   34 (61)
T ss_pred             EeeCCCCC
Confidence            34455555

>PRK06450 threonine synthase; Validated

Probab=90.27  E-value=0.16  Score=50.11  Aligned_cols=30  Identities=17%  Similarity=0.542  Sum_probs=23.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      .|+|++||++|..       .   ..+.|+.||++|...-
T Consensus         3 ~~~C~~Cg~~~~~-------~---~~~~C~~cg~~l~~~~   32 (338)
T PRK06450          3 KEVCMKCGKERES-------I---YEIRCKKCGGPFEILI   32 (338)
T ss_pred             eeEECCcCCcCCC-------c---ccccCCcCCCEeEEee
Confidence            4899999999942       1   1479999999986543

>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]

Probab=89.91  E-value=0.18  Score=41.04  Aligned_cols=30  Identities=23%  Similarity=0.774  Sum_probs=22.6

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      +-|.||.|++. +.   -++   .++.+.|..||..+
T Consensus        34 ~~~~Cp~C~~~-~V---kR~---a~GIW~C~kCg~~f   63 (89)
T COG1997          34 AKHVCPFCGRT-TV---KRI---ATGIWKCRKCGAKF   63 (89)
T ss_pred             cCCcCCCCCCc-ce---eee---ccCeEEcCCCCCee
Confidence            46999999998 21   122   34789999999877

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=89.69  E-value=0.2  Score=31.84  Aligned_cols=23  Identities=22%  Similarity=0.735  Sum_probs=18.5

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .||.|++....           ..-.|+.||..+
T Consensus         2 ~CP~C~~~V~~-----------~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPE-----------SAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchh-----------hcCcCCCCCCCC
Confidence            59999998844           367899999876

Several members are annotated as putative helicases.

>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51

Probab=89.68  E-value=0.68  Score=34.64  Aligned_cols=26  Identities=23%  Similarity=0.717  Sum_probs=20.8

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .||.|+...          +..-.|.||.||-+.--
T Consensus         1 ~Cpv~~~~~----------~~~v~~~Cp~cGipthc   26 (55)
T PF13824_consen    1 LCPVCKKDL----------PAHVNFECPDCGIPTHC   26 (55)
T ss_pred             CCCCCcccc----------ccccCCcCCCCCCcCcc
Confidence            499999986          44558999999988844

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=89.49  E-value=0.57  Score=40.95  Aligned_cols=54  Identities=24%  Similarity=0.338  Sum_probs=42.8

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQI   97 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~L   97 (330)
                      ..||.|+..|..             ..|+.|+.+|....+...                +.++.++..|+.+..||++++
T Consensus       126 ~~~~~~~~~~~~-------------~~~~~~~~~l~~r~dd~~----------------~~i~~R~~~y~~~~~~i~~~~  176 (194)
T cd01428         126 RICPVSGRVYHL-------------GKDDVTGEPLSQRSDDNE----------------ETIKKRLEVYKEQTAPLIDYY  176 (194)
T ss_pred             CcCCCcCCcCCc-------------CCCcccCCccccCCCCCH----------------HHHHHHHHHHHHhHHHHHHHH
Confidence            469999999977             679999999986543211                355788999999999999999


Q ss_pred             Hhh
Q 020131           98 NRV  100 (330)
Q Consensus        98 k~i  100 (330)
                      ++.
T Consensus       177 ~~~  179 (194)
T cd01428         177 KKK  179 (194)
T ss_pred             HhC
Confidence            973

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK06260 threonine synthase; Validated

Probab=89.41  E-value=0.19  Score=50.37  Aligned_cols=30  Identities=23%  Similarity=0.656  Sum_probs=23.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .|+|++||++|..         ....+.||.||+.|...
T Consensus         3 ~~~C~~cg~~~~~---------~~~~~~Cp~cg~~l~~~   32 (397)
T PRK06260          3 WLKCIECGKEYDP---------DEIIYTCPECGGLLEVI   32 (397)
T ss_pred             EEEECCCCCCCCC---------CCccccCCCCCCeEEEE
Confidence            5899999999963         11247899999988554

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=89.21  E-value=0.19  Score=42.37  Aligned_cols=31  Identities=19%  Similarity=0.485  Sum_probs=23.1

Q ss_pred             CCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           13 NTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-+..+.|+.|+..|...+         ..|.||.||+.=
T Consensus        66 ~vp~~~~C~~Cg~~~~~~~---------~~~~CP~Cgs~~   96 (113)
T PRK12380         66 YKPAQAWCWDCSQVVEIHQ---------HDAQCPHCHGER   96 (113)
T ss_pred             eeCcEEEcccCCCEEecCC---------cCccCcCCCCCC
Confidence            3456789999998887632         257899999753

>TIGR00622 ssl1 transcription factor ssl1

Probab=89.15  E-value=0.18  Score=42.86  Aligned_cols=27  Identities=30%  Similarity=0.819  Sum_probs=23.5

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      +|.||+|+.+|-.     |      ...|+.||-.|+-
T Consensus         1 GY~CPrC~skvC~-----L------P~~CpiCgLtLVs   27 (112)
T TIGR00622         1 GYFCPQCRAKVCE-----L------PVECPICGLTLIL   27 (112)
T ss_pred             CccCCCCCCCccC-----C------CCcCCcCCCEEec
Confidence            5999999999965     4      5789999999975

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation

Probab=88.67  E-value=0.1  Score=43.75  Aligned_cols=32  Identities=19%  Similarity=0.514  Sum_probs=20.7

Q ss_pred             CCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           13 NTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      .-+..+.|+.|+..|+..+         ..|.||.||+.-.
T Consensus        66 ~~p~~~~C~~Cg~~~~~~~---------~~~~CP~Cgs~~~   97 (113)
T PF01155_consen   66 EVPARARCRDCGHEFEPDE---------FDFSCPRCGSPDV   97 (113)
T ss_dssp             EE--EEEETTTS-EEECHH---------CCHH-SSSSSS-E
T ss_pred             ecCCcEECCCCCCEEecCC---------CCCCCcCCcCCCc
Confidence            3456789999999998522         2488999999753

The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.

>PRK00423 tfb transcription initiation factor IIB; Reviewed

Probab=88.67  E-value=0.22  Score=48.62  Aligned_cols=33  Identities=18%  Similarity=0.594  Sum_probs=25.7

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .++||.||.. .     -.+|+..|...|..||..|.+.
T Consensus        11 ~~~Cp~Cg~~-~-----iv~d~~~Ge~vC~~CG~Vl~e~   43 (310)
T PRK00423         11 KLVCPECGSD-K-----LIYDYERGEIVCADCGLVIEEN   43 (310)
T ss_pred             CCcCcCCCCC-C-----eeEECCCCeEeecccCCccccc
Confidence            4789999962 2     2456788999999999988653

>PRK07591 threonine synthase; Validated

Probab=88.66  E-value=0.22  Score=50.45  Aligned_cols=30  Identities=27%  Similarity=0.578  Sum_probs=23.6

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      .|+|++||++|..       +  . .+.|+.||+.|...-
T Consensus        18 ~l~C~~Cg~~~~~-------~--~-~~~C~~cg~~l~~~y   47 (421)
T PRK07591         18 ALKCRECGAEYPL-------G--P-IHVCEECFGPLEVAY   47 (421)
T ss_pred             EEEeCCCCCcCCC-------C--C-CccCCCCCCeEEEEe
Confidence            6999999999963       1  1 389999999986543

>PRK14714 DNA polymerase II large subunit; Provisional

Probab=88.65  E-value=0.21  Score=56.79  Aligned_cols=11  Identities=27%  Similarity=0.486  Sum_probs=7.1

Q ss_pred             HHHHHhhcCcC
Q 020131           94 MEQINRVKDLD  104 (330)
Q Consensus        94 ~~~Lk~id~i~  104 (330)
                      ++.||-|+++.
T Consensus       747 ~~~~KgVkgl~  757 (1337)
T PRK14714        747 FDLLKGVKGLT  757 (1337)
T ss_pred             ccccccceecc
Confidence            46677776664

>TIGR03844 cysteate_syn cysteate synthase

Probab=88.24  E-value=0.21  Score=50.44  Aligned_cols=29  Identities=28%  Similarity=0.455  Sum_probs=22.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .|+|++||++|. ..   .      .+.|+.|++.|...
T Consensus         2 ~l~C~~Cg~~~~-~~---~------~~~C~~c~g~l~~~   30 (398)
T TIGR03844         2 TLRCPGCGEVLP-DH---Y------TLSCPLDCGLLRAE   30 (398)
T ss_pred             EEEeCCCCCccC-Cc---c------ccCCCCCCCceEEe
Confidence            489999999995 11   1      47899999888654

Members of this family are cysteate synthase, an enzyme of alternate pathway to sulfopyruvate, a precursor of coenzyme M.

>PRK14138 NAD-dependent deacetylase; Provisional

Probab=88.16  E-value=0.44  Score=44.98  Aligned_cols=39  Identities=28%  Similarity=0.744  Sum_probs=28.8

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+.|..|++.|+..+..+.+... ..-+|+.||++|...
T Consensus       118 ~~~~C~~C~~~~~~~~~~~~~~~~-~~p~Cp~Cgg~lrP~  156 (244)
T PRK14138        118 EEYYCVRCGKRYTVEDVIEKLEKS-DVPRCDDCSGLIRPN  156 (244)
T ss_pred             CeeEECCCCCcccHHHHHHHHhcC-CCCCCCCCCCeECCC
Confidence            356799999999988777643321 246899999988653

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=88.12  E-value=0.38  Score=36.47  Aligned_cols=31  Identities=19%  Similarity=0.478  Sum_probs=16.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ..+|..|+......+-       --.|.||+||..++.
T Consensus         7 ~~~CtSCg~~i~~~~~-------~~~F~CPnCG~~~I~   37 (59)
T PRK14890          7 PPKCTSCGIEIAPREK-------AVKFLCPNCGEVIIY   37 (59)
T ss_pred             CccccCCCCcccCCCc-------cCEeeCCCCCCeeEe
Confidence            3466677665443221       124777777766443

>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional

Probab=87.86  E-value=0.19  Score=42.57  Aligned_cols=34  Identities=24%  Similarity=0.485  Sum_probs=23.5

Q ss_pred             cCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           12 KNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        12 ~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      +.-+..+.|+.|+..|+..+-        ..++||.||+.-.
T Consensus        66 e~vp~~~~C~~Cg~~~~~~~~--------~~~~CP~Cgs~~~   99 (117)
T PRK00564         66 VDEKVELECKDCSHVFKPNAL--------DYGVCEKCHSKNV   99 (117)
T ss_pred             EecCCEEEhhhCCCccccCCc--------cCCcCcCCCCCce
Confidence            345668999999988865211        1245999998753

>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=87.34  E-value=0.27  Score=29.15  Aligned_cols=16  Identities=31%  Similarity=0.920  Sum_probs=12.8

Q ss_pred             eecCCCCccccHHHHH
Q 020131           18 YICPNCQRRYNALDAL   33 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~   33 (330)
                      |.||.|++.|+....+
T Consensus         1 y~C~~C~~~f~~~~~l   16 (23)
T PF00096_consen    1 YKCPICGKSFSSKSNL   16 (23)
T ss_dssp             EEETTTTEEESSHHHH
T ss_pred             CCCCCCCCccCCHHHH
Confidence            7899999999865544

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....

>PRK03681 hypA hydrogenase nickel incorporation protein; Validated

Probab=87.15  E-value=0.38  Score=40.51  Aligned_cols=33  Identities=24%  Similarity=0.631  Sum_probs=22.7

Q ss_pred             cCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           12 KNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        12 ~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      +.-+..+.|+.|+..|...+        ...|.||.||+.-
T Consensus        65 ~~~p~~~~C~~Cg~~~~~~~--------~~~~~CP~Cgs~~   97 (114)
T PRK03681         65 EEQEAECWCETCQQYVTLLT--------QRVRRCPQCHGDM   97 (114)
T ss_pred             EeeCcEEEcccCCCeeecCC--------ccCCcCcCcCCCC
Confidence            34456789999998775410        1137899999764

>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins

Probab=86.92  E-value=0.35  Score=36.45  Aligned_cols=33  Identities=27%  Similarity=0.622  Sum_probs=24.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      +=.||.||..-..       ......|.|+.||..+-.+.
T Consensus        28 Sq~C~~CG~~~~~-------~~~~r~~~C~~Cg~~~~rD~   60 (69)
T PF07282_consen   28 SQTCPRCGHRNKK-------RRSGRVFTCPNCGFEMDRDV   60 (69)
T ss_pred             ccCccCccccccc-------ccccceEEcCCCCCEECcHH
Confidence            4469999998776       22334799999999975443

More information about these proteins can be found at Protein of the Month: Transposase [].

>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A

Probab=86.78  E-value=0.32  Score=28.31  Aligned_cols=17  Identities=29%  Similarity=0.903  Sum_probs=11.5

Q ss_pred             eecCCCCccccHHHHHh
Q 020131           18 YICPNCQRRYNALDALR   34 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~   34 (330)
                      |.|+.|+.+|.....+.
T Consensus         1 ~~C~~C~~~~~~~~~l~   17 (24)
T PF13894_consen    1 FQCPICGKSFRSKSELR   17 (24)
T ss_dssp             EE-SSTS-EESSHHHHH
T ss_pred             CCCcCCCCcCCcHHHHH
Confidence            78999999888766654

...

>PRK00464 nrdR transcriptional regulator NrdR; Validated

Probab=86.61  E-value=0.22  Score=44.41  Aligned_cols=38  Identities=16%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchh
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDK   58 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~   58 (330)
                      +|.||+||.+|+.++-..++-    ..+--+-|.....+..+
T Consensus        28 ~~~c~~c~~~f~~~e~~~~~~----i~VIKRDG~~v~Fd~~K   65 (154)
T PRK00464         28 RRECLACGKRFTTFERVELVP----LLVIKKDGRREPFDREK   65 (154)
T ss_pred             eeeccccCCcceEeEeccCcc----cEEEecCCcCCCcCHHH
Confidence            466666666666555444421    24445555555444443

>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases

Probab=86.55  E-value=0.41  Score=42.49  Aligned_cols=38  Identities=24%  Similarity=0.623  Sum_probs=28.6

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+|..|++.|...+....+... ..-.|+.||+.|..+
T Consensus       105 ~~~C~~C~~~~~~~~~~~~~~~~-~~~~C~~C~~~lrp~  142 (178)
T PF02146_consen  105 RLRCSKCGKEYDREDIVDSIDEE-EPPRCPKCGGLLRPD  142 (178)
T ss_dssp             EEEETTTSBEEEGHHHHHHHHTT-SSCBCTTTSCBEEEE
T ss_pred             eeeecCCCccccchhhccccccc-ccccccccCccCCCC
Confidence            57899999999987766544332 245999999988664

This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....

>PHA00732 hypothetical protein

Probab=86.44  E-value=0.47  Score=37.68  Aligned_cols=36  Identities=25%  Similarity=0.423  Sum_probs=26.8

Q ss_pred             eecCCCCccccHHHHHhhcCC-CCCCeeccCCCcccc
Q 020131           18 YICPNCQRRYNALDALRLVSL-EDDSFHCENCNGELV   53 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~-~~~~F~C~~Cg~eL~   53 (330)
                      |.|+.|++.|+....+..--. .-..+.|+.||....
T Consensus         2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~   38 (79)
T PHA00732          2 FKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR   38 (79)
T ss_pred             ccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC
Confidence            889999999998777664321 123579999998774

>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A

Probab=86.39  E-value=0.53  Score=29.41  Aligned_cols=19  Identities=21%  Similarity=0.726  Sum_probs=14.3

Q ss_pred             hhcCCCCeeecCCCCcccc
Q 020131           10 ECKNTVQEYICPNCQRRYN   28 (330)
Q Consensus        10 ~~~~~~~~Y~CP~C~~~YT   28 (330)
                      +.=+....|.||.|+++|+
T Consensus         7 ~~H~~~k~~~C~~C~k~F~   25 (26)
T PF13465_consen    7 RTHTGEKPYKCPYCGKSFS   25 (26)
T ss_dssp             HHHSSSSSEEESSSSEEES
T ss_pred             hhcCCCCCCCCCCCcCeeC
Confidence            3344556799999999985

...

>PHA00626 hypothetical protein

Probab=86.00  E-value=0.31  Score=36.67  Aligned_cols=33  Identities=21%  Similarity=0.483  Sum_probs=19.5

Q ss_pred             ecCCCCcc-ccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           19 ICPNCQRR-YNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        19 ~CP~C~~~-YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .||+||+. ..-.-.....   ...|+|+.||....-
T Consensus         2 ~CP~CGS~~Ivrcg~cr~~---snrYkCkdCGY~ft~   35 (59)
T PHA00626          2 SCPKCGSGNIAKEKTMRGW---SDDYVCCDCGYNDSK   35 (59)
T ss_pred             CCCCCCCceeeeeceeccc---CcceEcCCCCCeech
Confidence            58888884 3322222221   247899999877643

>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[]

Probab=85.60  E-value=0.36  Score=32.93  Aligned_cols=26  Identities=27%  Similarity=0.750  Sum_probs=20.4

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .|+.|+.++-        ...+|.|.|..||+..
T Consensus        10 ~C~~C~~~~~--------~~~dG~~yC~~cG~~~   35 (36)
T PF11781_consen   10 PCPVCGSRWF--------YSDDGFYYCDRCGHQS   35 (36)
T ss_pred             cCCCCCCeEe--------EccCCEEEhhhCceEc
Confidence            4999999843        3456889999999875

>PRK00432 30S ribosomal protein S27ae; Validated

Probab=85.59  E-value=0.4  Score=34.95  Aligned_cols=28  Identities=29%  Similarity=0.662  Sum_probs=19.5

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-.||+||..  +| +.     ..+.|.|..||...
T Consensus        20 ~~fCP~Cg~~--~m-~~-----~~~r~~C~~Cgyt~   47 (50)
T PRK00432         20 NKFCPRCGSG--FM-AE-----HLDRWHCGKCGYTE   47 (50)
T ss_pred             cCcCcCCCcc--hh-ec-----cCCcEECCCcCCEE
Confidence            4479999986  21 11     22589999999764

>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional

Probab=85.44  E-value=0.37  Score=41.17  Aligned_cols=36  Identities=14%  Similarity=0.239  Sum_probs=23.2

Q ss_pred             cCCCCeeecCCCCccccHHH--HHhhcCCCCCCeeccCCCccc
Q 020131           12 KNTVQEYICPNCQRRYNALD--ALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        12 ~~~~~~Y~CP~C~~~YT~lD--A~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      +.-+..+.| .|+..|+..+  ...+ -|   .|.||.||+.-
T Consensus        65 ~~vp~~~~C-~Cg~~~~~~~~~~~~~-~~---~~~CP~Cgs~~  102 (124)
T PRK00762         65 EMIPVEIEC-ECGYEGVVDEDEIDHY-AA---VIECPVCGNKR  102 (124)
T ss_pred             EecCeeEEe-eCcCcccccccchhcc-cc---CCcCcCCCCCC
Confidence            344567899 9999987643  1111 11   37899999644

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=85.19  E-value=0.25  Score=45.83  Aligned_cols=39  Identities=13%  Similarity=0.535  Sum_probs=25.7

Q ss_pred             CeeecCCCCccccHHHHHh----hcCCCC--------------CCeeccCCCccccc
Q 020131           16 QEYICPNCQRRYNALDALR----LVSLED--------------DSFHCENCNGELVA   54 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~----Lld~~~--------------~~F~C~~Cg~eL~~   54 (330)
                      +.+.||.|++.|+...+..    ++..++              ...+||+||.--..
T Consensus         4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~   60 (214)
T PF09986_consen    4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFE   60 (214)
T ss_pred             CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCcccc
Confidence            3689999999999876654    111110              12389999976643

>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements

Probab=85.08  E-value=0.28  Score=46.83  Aligned_cols=35  Identities=34%  Similarity=0.728  Sum_probs=14.0

Q ss_pred             eeecCCCCccc-cHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRY-NALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~Y-T~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .+.||+||..+ +......=+    ..|.|+.|+.+-+--
T Consensus        31 n~yCP~Cg~~~L~~f~NN~PV----aDF~C~~C~eeyELK   66 (254)
T PF06044_consen   31 NMYCPNCGSKPLSKFENNRPV----ADFYCPNCNEEYELK   66 (254)
T ss_dssp             H---TTT--SS-EE------------EEE-TTT--EEEEE
T ss_pred             CCcCCCCCChhHhhccCCCcc----ceeECCCCchHHhhh
Confidence            36799999994 344433322    379999999876543

The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.

>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=84.99  E-value=0.22  Score=40.78  Aligned_cols=30  Identities=20%  Similarity=0.715  Sum_probs=21.5

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ..|.||.|++.---       --..|.+.|..|+..+
T Consensus        34 ~ky~Cp~Cgk~~vk-------R~a~GIW~C~~C~~~~   63 (90)
T PF01780_consen   34 AKYTCPFCGKTSVK-------RVATGIWKCKKCGKKF   63 (90)
T ss_dssp             S-BEESSSSSSEEE-------EEETTEEEETTTTEEE
T ss_pred             CCCcCCCCCCceeE-------EeeeEEeecCCCCCEE
Confidence            46999999986411       1134789999999776

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 ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....

>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association

Probab=84.91  E-value=0.96  Score=32.90  Aligned_cols=33  Identities=24%  Similarity=0.550  Sum_probs=19.0

Q ss_pred             eccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 020131           44 HCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQIN   98 (330)
Q Consensus        44 ~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~Lk   98 (330)
                      .||.|+.+|..+.                     + +.++.++..+++-|-+.|+
T Consensus        22 ~CPlC~r~l~~e~---------------------~-~~li~~~~~~i~~~~~~lk   54 (54)
T PF04423_consen   22 CCPLCGRPLDEEH---------------------R-QELIKKYKSEIEELPEKLK   54 (54)
T ss_dssp             E-TTT--EE-HHH---------------------H-HHHHHHHHHHHHHHHH---
T ss_pred             cCCCCCCCCCHHH---------------------H-HHHHHHHHHHHHhhhhccC
Confidence            9999999995421                     1 4677888888887776653

The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.

>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins

Probab=84.86  E-value=0.54  Score=39.97  Aligned_cols=33  Identities=24%  Similarity=0.554  Sum_probs=23.9

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccch
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD   57 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~   57 (330)
                      ...+||+|++.--.+   ..      .-.|.+|+++|.-+.+
T Consensus        68 v~V~CP~C~K~TKmL---Gr------~D~CM~C~~pLTLd~~  100 (114)
T PF11023_consen   68 VQVECPNCGKQTKML---GR------VDACMHCKEPLTLDPS  100 (114)
T ss_pred             eeeECCCCCChHhhh---ch------hhccCcCCCcCccCch
Confidence            357899999975431   11      2379999999987665

; GO: 0005887 integral to plasma membrane

>TIGR00280 L37a ribosomal protein L37a

Probab=84.78  E-value=0.33  Score=39.82  Aligned_cols=30  Identities=20%  Similarity=0.727  Sum_probs=21.4

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-|.||.|++.-    +-   -...|.+.|..|+..+
T Consensus        34 a~y~CpfCgk~~----vk---R~a~GIW~C~~C~~~~   63 (91)
T TIGR00280        34 AKYVCPFCGKKT----VK---RGSTGIWTCRKCGAKF   63 (91)
T ss_pred             cCccCCCCCCCc----eE---EEeeEEEEcCCCCCEE
Confidence            469999998642    11   1234779999999876

This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.

>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]

Probab=84.77  E-value=0.45  Score=41.48  Aligned_cols=41  Identities=24%  Similarity=0.453  Sum_probs=30.0

Q ss_pred             hHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131            3 KKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus         3 k~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      |+|-..|...-.--.+.||.||.=        ||- -+|...||+||...
T Consensus        14 k~iA~lLl~GAkML~~hCp~Cg~P--------LF~-KdG~v~CPvC~~~~   54 (131)
T COG1645          14 KKIAELLLQGAKMLAKHCPKCGTP--------LFR-KDGEVFCPVCGYRE   54 (131)
T ss_pred             HHHHHHHHhhhHHHHhhCcccCCc--------cee-eCCeEECCCCCceE
Confidence            566666666555557899999963        555 56899999999544

>TIGR00375 conserved hypothetical protein TIGR00375

Probab=84.41  E-value=0.49  Score=47.73  Aligned_cols=28  Identities=25%  Similarity=0.557  Sum_probs=25.2

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      .|-.|+..|+..++..+      ..+|| ||.+|+
T Consensus       242 ~c~~C~~~~~~~~~~~~------~~~Cp-CG~~i~  269 (374)
T TIGR00375       242 ACEACGEPAVSEDAETA------CANCP-CGGRIK  269 (374)
T ss_pred             hhcccCCcCCchhhhhc------CCCCC-CCCcce
Confidence            59999999999999888      79999 998875

The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.

>PF08996 zf-DNA_Pol: DNA Polymerase alpha zinc finger; InterPro: IPR015088 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=84.30  E-value=0.5  Score=42.95  Aligned_cols=38  Identities=18%  Similarity=0.541  Sum_probs=20.3

Q ss_pred             CCeeecCCCCccccHHHHHhhcC--CCCCCeeccCCCccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVS--LEDDSFHCENCNGEL   52 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld--~~~~~F~C~~Cg~eL   52 (330)
                      +-.+.||.|+..|.+..+..--.  .....+.|+.|+..+
T Consensus        16 ~l~~~C~~C~~~~~f~g~~~~~~~~~~~~~~~C~~C~~~~   55 (188)
T PF08996_consen   16 PLKLTCPSCGTEFEFPGVFEEDGDDVSPSGLQCPNCSTPL   55 (188)
T ss_dssp             -EEEE-TTT--EEEE-SSS--SSEEEETTEEEETTT--B-
T ss_pred             ceEeECCCCCCCccccccccCCccccccCcCcCCCCCCcC
Confidence            44689999999999877765111  123479999999954

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNA Polymerase alpha zinc finger domain adopts an alpha-helix-like structure, followed by three turns, all of which involve proline. The resulting motif is a helix-turn-helix motif, in contrast to other zinc finger domains, which show anti-parallel sheet and helix conformation. Zinc binding occurs due to the presence of four cysteine residues positioned to bind the metal centre in a tetrahedral coordination geometry. The function of this domain is uncertain: it has been proposed that the zinc finger motif may be an essential part of the DNA binding domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0001882 nucleoside binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3FLO_D 1N5G_A 1K0P_A 1K18_A.

>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation

Probab=84.28  E-value=0.89  Score=42.18  Aligned_cols=38  Identities=21%  Similarity=0.515  Sum_probs=27.2

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+.|..|+..|...++.....  ....+|+.||+.|..+
T Consensus       112 ~~~~C~~C~~~~~~~~~~~~~~--~~~p~C~~Cgg~lrP~  149 (222)
T cd01413         112 QTAYCVNCGSKYDLEEVKYAKK--HEVPRCPKCGGIIRPD  149 (222)
T ss_pred             CcceECCCCCCcchhHHHHhcc--CCCCcCCCCCCccCCC
Confidence            3578999999999776632221  1246899999998653

Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.

>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins

Probab=83.99  E-value=0.4  Score=40.80  Aligned_cols=26  Identities=27%  Similarity=0.713  Sum_probs=21.0

Q ss_pred             cCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           20 CPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        20 CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      ||.||.....           ..++|+.|++.+.-.-
T Consensus         1 CPvCg~~l~v-----------t~l~C~~C~t~i~G~F   26 (113)
T PF09862_consen    1 CPVCGGELVV-----------TRLKCPSCGTEIEGEF   26 (113)
T ss_pred             CCCCCCceEE-----------EEEEcCCCCCEEEeee
Confidence            9999988764           4799999999996443

>PRK08197 threonine synthase; Validated

Probab=83.90  E-value=0.59  Score=46.82  Aligned_cols=30  Identities=23%  Similarity=0.572  Sum_probs=22.4

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..|+|++||++|...         ...+.| .||++|.-.
T Consensus         6 ~~~~C~~Cg~~~~~~---------~~~~~C-~cg~~l~~~   35 (394)
T PRK08197          6 SHLECSKCGETYDAD---------QVHNLC-KCGKPLLVR   35 (394)
T ss_pred             eEEEECCCCCCCCCC---------Ccceec-CCCCeeEEE
Confidence            369999999999631         124789 799998554

>PRK00481 NAD-dependent deacetylase; Provisional

Probab=83.72  E-value=0.77  Score=42.98  Aligned_cols=35  Identities=23%  Similarity=0.578  Sum_probs=25.6

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+.|..|+..|...+....     ....|+.||+.|...
T Consensus       121 ~~~~C~~C~~~~~~~~~~~~-----~~p~C~~Cgg~lrP~  155 (242)
T PRK00481        121 LRARCTKCGQTYDLDEYLKP-----EPPRCPKCGGILRPD  155 (242)
T ss_pred             CceeeCCCCCCcChhhhccC-----CCCCCCCCCCccCCC
Confidence            35789999999986654421     245699999998654

>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional

Probab=83.49  E-value=0.4  Score=49.57  Aligned_cols=42  Identities=21%  Similarity=0.309  Sum_probs=27.4

Q ss_pred             CCCeeecCCCCccccHHHHH--hhcCC------CCCCeeccCCCcccccc
Q 020131           14 TVQEYICPNCQRRYNALDAL--RLVSL------EDDSFHCENCNGELVAE   55 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~--~Lld~------~~~~F~C~~Cg~eL~~~   55 (330)
                      ....|+|+.|+..|....-.  .-+-|      ....|.||.||..-..+
T Consensus       422 ~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~k~~f  471 (479)
T PRK05452        422 LGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVF  471 (479)
T ss_pred             CCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCcHHHh
Confidence            45689999999999875221  11111      12368999999875433

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=83.40  E-value=1.4  Score=43.41  Aligned_cols=16  Identities=25%  Similarity=0.482  Sum_probs=12.7

Q ss_pred             CCCeeccCCCcccccc
Q 020131           40 DDSFHCENCNGELVAE   55 (330)
Q Consensus        40 ~~~F~C~~Cg~eL~~~   55 (330)
                      .+...||.|+.+|...
T Consensus        41 ~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570        41 RGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCCCCCCCCCccchh
Confidence            3567999999998654

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=83.38  E-value=0.51  Score=46.88  Aligned_cols=30  Identities=30%  Similarity=0.763  Sum_probs=25.5

Q ss_pred             CCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           14 TVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...+|+||+|++++-.     |      .-.||.|+..|+-
T Consensus       273 ~~~Gy~CP~CkakvCs-----L------P~eCpiC~ltLVs  302 (378)
T KOG2807|consen  273 SGGGYFCPQCKAKVCS-----L------PIECPICSLTLVS  302 (378)
T ss_pred             ccCceeCCcccCeeec-----C------CccCCccceeEec
Confidence            4568999999999976     3      5789999999975

>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=83.22  E-value=0.6  Score=43.76  Aligned_cols=29  Identities=24%  Similarity=0.573  Sum_probs=21.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccch
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD   57 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~   57 (330)
                      +=.||.||.          ++  ...|.|+.||...-.+.+
T Consensus       309 S~~C~~cg~----------~~--~r~~~C~~cg~~~~rD~n  337 (364)
T COG0675         309 SKTCPCCGH----------LS--GRLFKCPRCGFVHDRDVN  337 (364)
T ss_pred             cccccccCC----------cc--ceeEECCCCCCeehhhHH
Confidence            346999999          22  357999999999855433

>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species

Probab=83.17  E-value=0.45  Score=29.90  Aligned_cols=8  Identities=50%  Similarity=1.373  Sum_probs=5.3

Q ss_pred             CeeccCCC
Q 020131           42 SFHCENCN   49 (330)
Q Consensus        42 ~F~C~~Cg   49 (330)
                      .|.||+||
T Consensus        16 ~f~CPnCG   23 (24)
T PF07754_consen   16 PFPCPNCG   23 (24)
T ss_pred             eEeCCCCC
Confidence            46677776

It is likely to bind zinc via its four well-conserved cysteine residues.

>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc

Probab=83.13  E-value=0.67  Score=32.76  Aligned_cols=33  Identities=18%  Similarity=0.572  Sum_probs=21.2

Q ss_pred             hcCCCCeeecCCCCcc-ccHHHHHhhcCCCCCCeeccCCCc
Q 020131           11 CKNTVQEYICPNCQRR-YNALDALRLVSLEDDSFHCENCNG   50 (330)
Q Consensus        11 ~~~~~~~Y~CP~C~~~-YT~lDA~~Lld~~~~~F~C~~Cg~   50 (330)
                      .-.=..+++||.||.. +..     +=+  .+.|.|..|+.
T Consensus        12 ~~RW~~g~~CP~Cg~~~~~~-----~~~--~~~~~C~~C~~   45 (46)
T PF12760_consen   12 EIRWPDGFVCPHCGSTKHYR-----LKT--RGRYRCKACRK   45 (46)
T ss_pred             HhcCCCCCCCCCCCCeeeEE-----eCC--CCeEECCCCCC
Confidence            3334457899999984 222     211  35799999985

It may be a zinc-binding beta ribbon domain that could bind DNA.

>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation

Probab=82.61  E-value=1.1  Score=42.10  Aligned_cols=39  Identities=15%  Similarity=0.348  Sum_probs=26.3

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+.|..|+..|........+... ...+|+.||+.|..+
T Consensus       115 ~~~~C~~C~~~~~~~~~~~~~~~~-~~p~C~~Cgg~lrP~  153 (235)
T cd01408         115 ATAHCIKCKHKYPGDWMREDIFNQ-EVPKCPRCGGLVKPD  153 (235)
T ss_pred             CccccccCCCcCCHHHHHHHHhCC-CCccCCCCCCCccCc
Confidence            457899999999864433332211 246899999988643

Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.

>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed

Probab=82.33  E-value=0.44  Score=39.02  Aligned_cols=30  Identities=20%  Similarity=0.665  Sum_probs=21.2

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-|.||.|++.---       -...|.+.|..|+..+
T Consensus        35 a~y~CpfCgk~~vk-------R~a~GIW~C~~C~~~~   64 (90)
T PRK03976         35 AKHVCPVCGRPKVK-------RVGTGIWECRKCGAKF   64 (90)
T ss_pred             cCccCCCCCCCceE-------EEEEEEEEcCCCCCEE
Confidence            46999999754211       1234679999999877

>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ]

Probab=81.94  E-value=0.37  Score=35.50  Aligned_cols=33  Identities=18%  Similarity=0.480  Sum_probs=23.8

Q ss_pred             CeeecCCCCccccH-HHHHhhcCCCCCCeeccCCCccccc
Q 020131           16 QEYICPNCQRRYNA-LDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~-lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      +.+.|+.|++..-- -++..+      ..+||+|++.-..
T Consensus         3 ~eiRC~~CnklLa~~g~~~~l------eIKCpRC~tiN~~   36 (51)
T PF10122_consen    3 KEIRCGHCNKLLAKAGEVIEL------EIKCPRCKTINHV   36 (51)
T ss_pred             cceeccchhHHHhhhcCccEE------EEECCCCCccceE
Confidence            46899999987644 234444      7999999987643

>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose

Probab=81.92  E-value=1.2  Score=40.89  Aligned_cols=39  Identities=18%  Similarity=0.454  Sum_probs=27.1

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+.|..|+..|...+....+.. ...-.|+.||+.|...
T Consensus       108 ~~~~C~~C~~~~~~~~~~~~~~~-~~~p~C~~Cg~~lrP~  146 (218)
T cd01407         108 FRVRCTKCGKEYPRDELQADIDR-EEVPRCPKCGGLLRPD  146 (218)
T ss_pred             CcceeCCCcCCCcHHHHhHhhcc-CCCCcCCCCCCccCCC
Confidence            35789999999987654322221 1256899999998654

Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.

>PTZ00255 60S ribosomal protein L37a; Provisional

Probab=81.89  E-value=0.57  Score=38.36  Aligned_cols=30  Identities=20%  Similarity=0.681  Sum_probs=21.3

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-|.||.|++.-       +--...|.+.|..|+..+
T Consensus        35 a~y~CpfCgk~~-------vkR~a~GIW~C~~C~~~~   64 (90)
T PTZ00255         35 AKYFCPFCGKHA-------VKRQAVGIWRCKGCKKTV   64 (90)
T ss_pred             CCccCCCCCCCc-------eeeeeeEEEEcCCCCCEE
Confidence            469999998532       111234789999999877

>PF13453 zf-TFIIB: Transcription factor zinc-finger

Probab=81.52  E-value=0.27  Score=33.92  Aligned_cols=31  Identities=26%  Similarity=0.594  Sum_probs=21.1

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .||+|+....   ...+-+  -....|+.|++.+..
T Consensus         1 ~CP~C~~~l~---~~~~~~--~~id~C~~C~G~W~d   31 (41)
T PF13453_consen    1 KCPRCGTELE---PVRLGD--VEIDVCPSCGGIWFD   31 (41)
T ss_pred             CcCCCCcccc---eEEECC--EEEEECCCCCeEEcc
Confidence            5999998543   333311  235789999999964

>cd01409 SIRT4 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation

Probab=81.24  E-value=1.2  Score=42.36  Aligned_cols=17  Identities=18%  Similarity=0.444  Sum_probs=13.1

Q ss_pred             CeeecCCCCccccHHHH
Q 020131           16 QEYICPNCQRRYNALDA   32 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA   32 (330)
                      ..+.|+.|+++|.....
T Consensus       117 ~~~~C~~C~~~~~~~~~  133 (260)
T cd01409         117 HRVVCLSCGFRTPRAEL  133 (260)
T ss_pred             CEEEeCCCcCccCHHHH
Confidence            35789999999985443

Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.

>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.14  E-value=0.83  Score=38.91  Aligned_cols=28  Identities=14%  Similarity=0.262  Sum_probs=21.4

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      --+||.|+++|-.|        .....+||+||...
T Consensus         9 KridPetg~KFYDL--------NrdPiVsPytG~s~   36 (129)
T COG4530           9 KRIDPETGKKFYDL--------NRDPIVSPYTGKSY   36 (129)
T ss_pred             cccCccccchhhcc--------CCCccccCcccccc
Confidence            46899999999552        23468999999765

>PLN02569 threonine synthase

Probab=80.96  E-value=0.78  Score=47.67  Aligned_cols=31  Identities=19%  Similarity=0.314  Sum_probs=23.2

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+++|+.|+++|...         ...|.| .||+.|...
T Consensus        47 ~~~l~C~~Cg~~y~~~---------~~~~~C-~cgg~l~~~   77 (484)
T PLN02569         47 VPFLECPLTGEKYSLD---------EVVYRS-KSGGLLDVR   77 (484)
T ss_pred             ccccEeCCCCCcCCCc---------cccccC-CCCCeEEEe
Confidence            4468999999999642         125899 699999543

>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit

Probab=80.59  E-value=1.1  Score=43.69  Aligned_cols=32  Identities=19%  Similarity=0.365  Sum_probs=26.3

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      -..+||.|+...-..+....      .+.||.||+-+.
T Consensus        25 ~~~~c~~c~~~~~~~~l~~~------~~vc~~c~~h~r   56 (285)
T TIGR00515        25 VWTKCPKCGQVLYTKELERN------LEVCPKCDHHMR   56 (285)
T ss_pred             CeeECCCCcchhhHHHHHhh------CCCCCCCCCcCc
Confidence            47899999999888776665      589999999764

The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.

>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed

Probab=80.36  E-value=1.1  Score=44.03  Aligned_cols=32  Identities=22%  Similarity=0.177  Sum_probs=26.3

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      -..+||.|+...-..+....      .+.||.||+-+.
T Consensus        37 lw~kc~~C~~~~~~~~l~~~------~~vcp~c~~h~r   68 (296)
T CHL00174         37 LWVQCENCYGLNYKKFLKSK------MNICEQCGYHLK   68 (296)
T ss_pred             CeeECCCccchhhHHHHHHc------CCCCCCCCCCcC
Confidence            36799999999888776665      589999999764

>PHA00626 hypothetical protein

Probab=80.14  E-value=0.92  Score=34.21  Aligned_cols=15  Identities=20%  Similarity=0.684  Sum_probs=13.5

Q ss_pred             CCeeecCCCCccccH
Q 020131           15 VQEYICPNCQRRYNA   29 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~   29 (330)
                      ++.|+||.||..||-
T Consensus        21 snrYkCkdCGY~ft~   35 (59)
T PHA00626         21 SDDYVCCDCGYNDSK   35 (59)
T ss_pred             CcceEcCCCCCeech
Confidence            468999999999996

>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]

Probab=80.10  E-value=0.92  Score=46.47  Aligned_cols=29  Identities=24%  Similarity=0.744  Sum_probs=21.6

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      =+||.||.+-..        --.++|+|+.||.....
T Consensus       351 p~Cp~Cg~~m~S--------~G~~g~rC~kCg~~~~~  379 (421)
T COG1571         351 PVCPRCGGRMKS--------AGRNGFRCKKCGTRARE  379 (421)
T ss_pred             CCCCccCCchhh--------cCCCCcccccccccCCc
Confidence            379999998543        22348999999998743

>PRK05638 threonine synthase; Validated

Probab=80.04  E-value=0.94  Score=46.13  Aligned_cols=27  Identities=33%  Similarity=0.728  Sum_probs=20.9

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      |+|+.||++|..    ..      .+.| .||+.|...
T Consensus         2 l~C~~Cg~~~~~----~~------~~~C-~c~~~l~~~   28 (442)
T PRK05638          2 MKCPKCGREYNS----YI------PPFC-ICGELLEII   28 (442)
T ss_pred             eEeCCCCCCCCC----CC------ceec-CCCCcEEEE
Confidence            799999999962    11      3789 899998654

---

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	330
1vd4_A	62	Transcription initiation factor IIE, alpha subunit	3e-12

>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1 Length = 62

 Score = 60.3 bits (146), Expect = 3e-12
 Identities = 10/60 (16%), Positives = 25/60 (41%)

Query: 4  KLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQE 63
          +++ +         + CP C   +  L+A +L      +F C  C+ E+  +   +  ++
Sbjct: 1  RIETDERDSTNRASFKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTEVEEDESAMPKKD 60

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	330
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	97.4
1vd4_A	62	Transcription initiation factor IIE, alpha subunit	97.32
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.43
4ayb_P	48	DNA-directed RNA polymerase; transferase, multi-su	96.38
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	96.17
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.16
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.96
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.81
6rxn_A	46	Rubredoxin; electron transfer(iron-sulfur protein)	95.59
2e72_A	49	POGO transposable element with ZNF domain; zinc fi	95.31
1twf_L	70	ABC10-alpha, DNA-directed RNA polymerases I, II, a	95.13
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	95.07
2kn9_A	81	Rubredoxin; metalloprotein, ssgcid, structural gen	94.64
1e8j_A	52	Rubredoxin; iron-sulfur-protein, zinc-substitution	94.53
2v3b_B	55	Rubredoxin 2, rubredoxin; alkane degradation, iron	94.26
2epr_A	48	POZ-, at HOOK-, and zinc finger-containing protein	94.03
1dx8_A	70	Rubredoxin; electron transport, zinc-substitution;	93.79
2akl_A	138	PHNA-like protein PA0128; two domains, Zn binding	93.76
1yk4_A	52	Rubredoxin, RD; electron transport; 0.69A {Pyrococ	93.73
2epq_A	45	POZ-, at HOOK-, and zinc finger-containing protein	93.72
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	93.33
1x5w_A	70	Zinc finger protein 64, isoforms 1; ZNF338, nuclea	92.92
2adr_A	60	ADR1; transcription regulation, zinc finger,; NMR	92.9
1x6e_A	72	Zinc finger protein 24; ZNF24, KOX17, ZNF191, zsca	92.89
1s24_A	87	Rubredoxin 2; electron transport; NMR {Pseudomonas	92.88
3h0g_L	63	DNA-directed RNA polymerases I, II, and III subuni	92.87
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	92.87
1bbo_A	57	Human enhancer-binding protein MBP-1; DNA-binding	92.84
2lv2_A	85	Insulinoma-associated protein 1; structural genomi	92.74
4rxn_A	54	Rubredoxin; electron transfer(iron-sulfur protein)	92.62
2eps_A	54	POZ-, at HOOK-, and zinc finger-containing protein	92.4
2ene_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	92.26
2lce_A	74	B-cell lymphoma 6 protein; structural genomics, no	92.26
2ysp_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	92.16
2eme_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	92.12
2epz_A	46	Zinc finger protein 28 homolog; C2H2, zinc finger	92.1
2ct1_A	77	Transcriptional repressor CTCF; CCCTC-BINDING fact	92.08
3jyw_9	72	60S ribosomal protein L43; eukaryotic ribosome, RA	92.04
2ytn_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	92.03
2eop_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	91.99
2epx_A	47	Zinc finger protein 28 homolog; C2H2, zinc finger	91.9
2em5_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	91.9
2em7_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	91.87
2el4_A	46	Zinc finger protein 268; alternative splicing, DNA	91.85
2ytr_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	91.82
2eml_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	91.79
2elz_A	46	Zinc finger protein 224; DNA-binding, metal-bindin	91.76
2csh_A	110	Zinc finger protein 297B; ZF-C2H2 domain, zinc fin	91.67
3uk3_C	57	Zinc finger protein 217; transcription factor, DNA	91.64
2eq0_A	46	Zinc finger protein 347; C2H2, zinc finger domain,	91.6
2eq4_A	46	Zinc finger protein 224; C2H2, zinc finger domain,	91.58
2drp_A	66	Protein (tramtrack DNA-binding domain); protein-DN	91.57
2en8_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	91.54
2dmd_A	96	Zinc finger protein 64, isoforms 1 and 2; ZNF338,	91.53
2em9_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	91.48
2ytq_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	91.47
2ep0_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	91.41
2cot_A	77	Zinc finger protein 435; ADK_LID domain, zinc fing	91.36
2en1_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	91.35
2ep2_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	91.28
2em0_A	46	Zinc finger protein 224; DNA-binding, metal-bindin	91.28
2epw_A	46	Zinc finger protein 268; C2H2, zinc finger domain,	91.2
2eoe_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	91.2
2ee8_A	106	Protein ODD-skipped-related 2; zinc binding, ZF-C2	91.17
2emf_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	91.13
2ctd_A	96	Zinc finger protein 512; zinc binding, two ZF-C2H2	91.13
2eoq_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	91.1
4gzn_C	60	ZFP-57, zinc finger protein 57; transcription-DNA	91.04
2el6_A	46	Zinc finger protein 268; alternative splicing, DNA	91.04
2ytg_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	90.95
2eov_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	90.92
2enc_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	90.87
2ema_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	90.85
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	90.8
1dl6_A	58	Transcription factor II B (TFIIB); zinc ribbon, ge	90.66
2emy_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	90.57
2yso_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	90.56
2emx_A	44	Zinc finger protein 268; ZF-C2H2, structural genom	90.48
3cc2_Z	116	50S ribosomal protein L37AE, 50S ribosomal protein	90.48
2ely_A	46	Zinc finger protein 224; DNA-binding, metal-bindin	90.43
2emm_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	90.39
2en6_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	90.37
2ytj_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	90.34
2emk_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	90.24
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	90.22
2ytd_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	90.01
2ytk_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	89.99
2d9h_A	78	Zinc finger protein 692; ZF-C2H2 domain, structura	89.92
2em8_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	89.64
2kmk_A	82	Zinc finger protein GFI-1; tandem repeat zinc fing	89.55
1yc5_A	246	NAD-dependent deacetylase; SIR2, sirtuin, SIR2TM,	89.49
2k5c_A	95	Uncharacterized protein PF0385; structural genomic	89.43
2eoo_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	89.3
2yt9_A	95	Zinc finger-containing protein 1; C2H2, structural	89.28
1a1h_A	90	QGSR zinc finger peptide; complex (zinc finger/DNA	89.26
2yu8_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	89.23
1x6h_A	86	Transcriptional repressor CTCF; zinc finger protei	89.15
2ytm_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	89.08
2emh_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	89.04
2ep3_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	88.81
2emp_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	88.72
2gqj_A	98	Zinc finger protein KIAA1196; ZF-C2H2 like domain,	88.6
3j21_i	83	50S ribosomal protein L37AE; archaea, archaeal, KI	88.39
2yt9_A	95	Zinc finger-containing protein 1; C2H2, structural	87.9
2dmd_A	96	Zinc finger protein 64, isoforms 1 and 2; ZNF338,	87.8
1q1a_A	289	HST2 protein; ternary complex, histone deacetylase	87.69
2ytt_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	87.6
3iz5_m	92	60S ribosomal protein L43 (L37AE); eukaryotic ribo	87.51
1dxg_A	36	Desulforedoxin; non-heme iron protein, rubredoxin	87.32
2em2_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	87.24
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	87.2
2ghf_A	102	ZHX1, zinc fingers and homeoboxes protein 1; C2H2	87.09
4a17_Y	103	RPL37A, 60S ribosomal protein L32; eukaryotic ribo	86.9
1llm_C	88	Chimera of ZIF23-GCN4; dimerization, DNA recogniti	86.38
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	86.05
2ee8_A	106	Protein ODD-skipped-related 2; zinc binding, ZF-C2	85.82
1q14_A	361	HST2 protein; histone deacetylase, hydrolase; 2.50	85.77
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	85.76
3j21_g	51	50S ribosomal protein L40E; archaea, archaeal, KIN	85.66
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	85.65
2ctu_A	73	Zinc finger protein 483; zinc finger domain, struc	85.63
1f2i_G	73	Fusion of N-terminal 17-MER peptide extension to Z	85.41
2wbt_A	129	B-129; zinc finger; 2.70A {Sulfolobus virus 1}	85.31
3izc_m	92	60S ribosomal protein RPL43 (L37AE); eukaryotic ri	85.25
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	84.58
3k7a_M	345	Transcription initiation factor IIB; RNA polymeras	84.28
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	84.26
2kmk_A	82	Zinc finger protein GFI-1; tandem repeat zinc fing	84.25
2dlk_A	79	Novel protein; ZF-C2H2 domain, zinc finger protein	83.4
3o9x_A	133	Uncharacterized HTH-type transcriptional regulato;	83.38
2apo_B	60	Ribosome biogenesis protein NOP10; protein-protein	83.21
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	82.99
1p7a_A	37	BF3, BKLF, kruppel-like factor 3; classical zinc f	82.99
1nui_A	255	DNA primase/helicase; zinc-biding domain, toprim f	82.66
4esj_A	257	Type-2 restriction enzyme DPNI; restriction endonu	82.19
2eod_A	66	TNF receptor-associated factor 4; zinc binding, NF	81.96
1ma3_A	253	SIR2-AF2, transcriptional regulatory protein, SIR2	81.79
2ent_A	48	Krueppel-like factor 15; zinc binding, transcripti	81.69
3mjh_B	34	Early endosome antigen 1; protein-zinc finger comp	81.61
2lt7_A	133	Transcriptional regulator kaiso; zinc finger, doub	81.6
1znf_A	27	31ST zinc finger from XFIN; zinc finger DNA bindin	81.46
3flo_B	206	DNA polymerase alpha catalytic subunit A; protein-	81.44
2wbs_A	89	Krueppel-like factor 4; transcription-DNA complex,	81.39
2ebt_A	100	Krueppel-like factor 5; C2H2-type zinc-finger, met	81.33
2kvh_A	27	Zinc finger and BTB domain-containing protein 32;	80.76
1ffk_W	73	Ribosomal protein L37AE; ribosome assembly, RNA-RN	80.6
1wjp_A	107	Zinc finger protein 295; ZF-C2H2 domain, zinc bind	80.59
1x6h_A	86	Transcriptional repressor CTCF; zinc finger protei	80.4
2kvf_A	28	Zinc finger and BTB domain-containing protein 32;	80.36
3k1f_M	197	Transcription initiation factor IIB; RNA polymeras	80.22
2elx_A	35	Zinc finger protein 406; ZFAT zinc finger 1, struc	80.18

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=97.40  E-value=0.00018  Score=66.16  Aligned_cols=63  Identities=21%  Similarity=0.211  Sum_probs=53.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      ..+||.||+.|..     .++|....-+|+.||.+|+...++.                .+.++.+|..|..|+.||+++
T Consensus       131 R~~~~~~G~~Yh~-----~~~pp~~~~~~d~~g~~L~~R~DD~----------------~e~i~~Rl~~y~~~t~pl~~~  189 (230)
T 3gmt_A          131 RRTHPASGRTYHV-----KFNPPKVEGKDDVTGEPLVQRDDDK----------------EETVKKRLDVYEAQTKPLITY  189 (230)
T ss_dssp             EEEETTTTEEEET-----TTBCCSSTTBCTTTCCBCBCCGGGS----------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccccCCcccc-----cCCCCCccCcCCCccCccccCCCCC----------------HHHHHHHHHHHHHHHHHHHHH
Confidence            4789999999986     5778777789999999998876642                256788999999999999999


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      +++.
T Consensus       190 Y~~~  193 (230)
T 3gmt_A          190 YGDW  193 (230)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            9874

>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=97.32  E-value=4.5e-05  Score=54.67  Aligned_cols=46  Identities=22%  Similarity=0.573  Sum_probs=37.0

Q ss_pred             CCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchh
Q 020131           13 NTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDK   58 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~   58 (330)
                      +....|.|+.|++.|+....+..+-.....|.|+.||.......+.
T Consensus        10 ~~~k~~~C~~C~k~F~~~~~l~~~H~~~k~~~C~~C~k~f~~~~~~   55 (62)
T 1vd4_A           10 TNRASFKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTEVEEDESA   55 (62)
T ss_dssp             CSSSEEECSSSCCEEEHHHHHHHEETTTTEEBCSSSCCBCEECTTC
T ss_pred             CCCCCccCCCCCchhccHHHhHhhcCCCCCEECCCCCCccccCccc
Confidence            4456899999999999998887655545679999999988766553

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.43  E-value=0.0024  Score=57.01  Aligned_cols=56  Identities=18%  Similarity=0.271  Sum_probs=47.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      ..+||.||..|..            .|.||.||..|+...++.                .+.++.+|..|++|+.||+++
T Consensus       124 R~~~~~~g~~y~~------------~~~pp~~g~~l~~r~DD~----------------~e~i~~Rl~~Y~~~t~pl~~~  175 (206)
T 3sr0_A          124 RRINPETGEVYHV------------KYNPPPPGVKVIQREDDK----------------PEVIKKRLEVYREQTAPLIEY  175 (206)
T ss_dssp             EEECTTTCCEEET------------TTBCCCTTCCCBCCGGGS----------------HHHHHHHHHHHHHHTTHHHHH
T ss_pred             CccccCCCceeee------------eccCCCCCceecccCCCC----------------HHHHHHHHHHHHHHHHHHHHH
Confidence            4789999999975            689999999998876642                246688899999999999999


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      +++-
T Consensus       176 Y~~~  179 (206)
T 3sr0_A          176 YKKK  179 (206)
T ss_dssp             HHTT
T ss_pred             HHhc
Confidence            9874

>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X

Probab=96.38  E-value=0.00043  Score=48.91  Aligned_cols=33  Identities=18%  Similarity=0.509  Sum_probs=26.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      -|+|-+||+.|+..|-..|     -+-+||+||..+..
T Consensus         3 iY~C~rCg~~fs~~el~~l-----P~IrCpyCGyrii~   35 (48)
T 4ayb_P            3 VYRCGKCWKTFTDEQLKVL-----PGVRCPYCGYKIIF   35 (48)
T ss_dssp             --CCCCTTTTCCCCCSCCC-----SSSCCTTTCCSCEE
T ss_pred             EEEeeccCCCccHHHHhhC-----CCcccCccCcEEEE
Confidence            6999999999998776655     26899999998765

>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...

Probab=96.17  E-value=0.0014  Score=51.55  Aligned_cols=29  Identities=21%  Similarity=0.621  Sum_probs=24.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .|.||+||+..       ++++..+.+.|+.||...
T Consensus        27 ~y~Cp~CG~~~-------v~r~atGiW~C~~Cg~~~   55 (83)
T 1vq8_Z           27 DHACPNCGEDR-------VDRQGTGIWQCSYCDYKF   55 (83)
T ss_dssp             CEECSSSCCEE-------EEEEETTEEEETTTCCEE
T ss_pred             cCcCCCCCCcc-------eeccCCCeEECCCCCCEe
Confidence            69999999854       456677899999999875

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.16  E-value=0.0064  Score=52.73  Aligned_cols=63  Identities=21%  Similarity=0.363  Sum_probs=50.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      ..+||.||..|..     .++|......|+.||..|....+..                .+.++.++..+..++.|++++
T Consensus       127 R~~~~~~g~~y~~-----~~~pp~~~~~~~~~~~~l~~r~~d~----------------~e~i~~rl~~~~~~~~~~~~~  185 (216)
T 3dl0_A          127 RRICSVCGTTYHL-----VFNPPKTPGICDKDGGELYQRADDN----------------EETVTKRLEVNMKQTAPLLDF  185 (216)
T ss_dssp             EEEETTTCCEEET-----TTBCCSSTTBCTTTCCBEECCTTCS----------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcCCccCCcccc-----ccCCCcccCccccccccccCCCCCC----------------HHHHHHHHHHHHHHHHHHHHH
Confidence            4689999999986     4677777789999999997654421                245677889999999999999


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      ++..
T Consensus       186 ~~~~  189 (216)
T 3dl0_A          186 YDEK  189 (216)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8864

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.96  E-value=0.0062  Score=54.79  Aligned_cols=62  Identities=19%  Similarity=0.263  Sum_probs=50.9

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQI   97 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~L   97 (330)
                      ..||.||+.|..     .++|......|+.||.+|+...+..                .+.++.+|..+..++.||+++.
T Consensus       157 ~~~~~~g~~y~~-----~~~pp~~~~~~~~~~~~l~~r~dd~----------------~e~i~~Rl~~~~~~~~~l~~~y  215 (243)
T 3tlx_A          157 LIHKPSGRIYHK-----IFNPPKVPFRDDVTNEPLIQREDDN----------------EDVLKKRLTVFKSETSPLISYY  215 (243)
T ss_dssp             EEETTTTEEEET-----TTBCCSSTTBCTTTCCBCBCCGGGS----------------HHHHHHHHHHHHHHTTHHHHHH
T ss_pred             CCCcccCccccc-----ccCCCcccCccccccccccCCCCCC----------------HHHHHHHHHHHHHHHHHHHHHH
Confidence            579999999986     4778777889999999998765532                2456788999999999999998


Q ss_pred             Hhh
Q 020131           98 NRV  100 (330)
Q Consensus        98 k~i  100 (330)
                      +..
T Consensus       216 ~~~  218 (243)
T 3tlx_A          216 KNK  218 (243)
T ss_dssp             HHT
T ss_pred             Hhc
Confidence            864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.81  E-value=0.013  Score=50.73  Aligned_cols=63  Identities=22%  Similarity=0.407  Sum_probs=49.4

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQ   96 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~   96 (330)
                      ..+||.||..|..     .++|......|+.||..|....+..                .+.++.++..+..++.|+++.
T Consensus       127 R~~~~~~g~~y~~-----~~~pp~~~~~~~~~~~~l~~r~~d~----------------~e~i~~rl~~~~~~~~~~~~~  185 (216)
T 3fb4_A          127 RWICKTCGATYHT-----IFNPPAVEGICDKDGGELYQRIDDK----------------PETVKNRLDVNMKQTQPLLDF  185 (216)
T ss_dssp             EEEETTTCCEEET-----TTBCCSSTTBCTTTCCBEECCGGGS----------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCccCCcccc-----ccCCCCcccccccccCccccCCCCC----------------HHHHHHHHHHHHHhHHHHHHH
Confidence            3689999999985     4567667789999999997654431                235567889999999999998


Q ss_pred             HHhh
Q 020131           97 INRV  100 (330)
Q Consensus        97 Lk~i  100 (330)
                      +...
T Consensus       186 ~~~~  189 (216)
T 3fb4_A          186 YSQK  189 (216)
T ss_dssp             HHHT
T ss_pred             HHcC
Confidence            8764

>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} SCOP: g.41.5.1

Probab=95.59  E-value=0.0052  Score=43.18  Aligned_cols=39  Identities=21%  Similarity=0.432  Sum_probs=25.4

Q ss_pred             CeeecCCCCccccHHHHH-hhcCCCCCCeeccCCCccccc
Q 020131           16 QEYICPNCQRRYNALDAL-RLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~-~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      +.|+|+.||..|....-. ..|+-....|+||.||..-..
T Consensus         3 ~~y~C~vCGyvyd~~~Gd~t~f~~lP~dw~CP~Cg~~k~~   42 (46)
T 6rxn_A            3 QKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQ   42 (46)
T ss_dssp             CCEEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCBGGG
T ss_pred             CEEECCCCCeEEeCCcCCCcchhhCCCCCcCcCCCCcHHH
Confidence            369999999999753222 111111236999999987544

>2e72_A POGO transposable element with ZNF domain; zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.31  E-value=0.0045  Score=43.90  Aligned_cols=34  Identities=26%  Similarity=0.542  Sum_probs=27.7

Q ss_pred             CCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           14 TVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      +...|.||+|++.|+.+++++.       ..|.-|+..+.+
T Consensus         9 ~~~~~~CPrCn~~f~~~~sLr~-------HmkycCp~~v~~   42 (49)
T 2e72_A            9 DGGRKICPRCNAQFRVTEALRG-------HMCYCCPEMVEY   42 (49)
T ss_dssp             CSSCCCCTTTCCCCSSHHHHHH-------HHHHHCTTTCCC
T ss_pred             cCCceeCCcccccccchHHHHh-------hhhhcCcchhhh
Confidence            3468999999999999999987       667777777644

>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...

Probab=95.13  E-value=0.0066  Score=46.21  Aligned_cols=31  Identities=23%  Similarity=0.768  Sum_probs=24.2

Q ss_pred             CCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           14 TVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ....|+|+.||..|...      +  ...-+|+.||..+
T Consensus        25 ~~v~Y~C~~CG~~~e~~------~--~d~irCp~CG~RI   55 (70)
T 1twf_L           25 ATLKYICAECSSKLSLS------R--TDAVRCKDCGHRI   55 (70)
T ss_dssp             CCCCEECSSSCCEECCC------T--TSTTCCSSSCCCC
T ss_pred             ceEEEECCCCCCcceeC------C--CCCccCCCCCceE
Confidence            56789999999999864      1  1356899999944

>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1

Probab=95.07  E-value=0.0095  Score=41.70  Aligned_cols=33  Identities=18%  Similarity=0.596  Sum_probs=25.6

Q ss_pred             CeeecCCCCc-cccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQR-RYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~-~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..++||.|+. ..       .+|+..+.++|..||..+.+.
T Consensus         4 ~~~~CP~C~~~~l-------~~d~~~gelvC~~CG~v~~e~   37 (50)
T 1pft_A            4 KQKVCPACESAEL-------IYDPERGEIVCAKCGYVIEEN   37 (50)
T ss_dssp             SCCSCTTTSCCCE-------EEETTTTEEEESSSCCBCCCC
T ss_pred             ccEeCcCCCCcce-------EEcCCCCeEECcccCCccccc
Confidence            4689999988 32       346777899999999988543

>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis}

Probab=94.64  E-value=0.0093  Score=46.69  Aligned_cols=41  Identities=15%  Similarity=0.284  Sum_probs=26.6

Q ss_pred             CCeeecCCCCccccHHH--HHh------hcCCCCCCeeccCCCcccccc
Q 020131           15 VQEYICPNCQRRYNALD--ALR------LVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lD--A~~------Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ...|+|+.||..|....  ...      .|+.....|+||.||..=..+
T Consensus        25 m~~y~C~vCGyvYD~~~Gdp~~gI~pGT~fedlPddW~CPvCga~K~~F   73 (81)
T 2kn9_A           25 YKLFRCIQCGFEYDEALGWPEDGIAAGTRWDDIPDDWSCPDCGAAKSDF   73 (81)
T ss_dssp             CCEEEETTTCCEEETTTCBTTTTBCTTCCTTTSCTTCCCTTTCCCGGGE
T ss_pred             cceEEeCCCCEEEcCCcCCcccCcCCCCChhHCCCCCcCCCCCCCHHHc
Confidence            35799999999997532  111      112123479999999875444

>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} SCOP: g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A

Probab=94.53  E-value=0.011  Score=42.53  Aligned_cols=36  Identities=19%  Similarity=0.446  Sum_probs=24.0

Q ss_pred             eeecCCCCccccHHH--HHhh------cCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALD--ALRL------VSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lD--A~~L------ld~~~~~F~C~~Cg~eL   52 (330)
                      .|+|+.||..|....  ...-      |.-....|+||.||..=
T Consensus         3 ~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cg~~K   46 (52)
T 1e8j_A            3 IYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASK   46 (52)
T ss_dssp             CEECSSSCCCCCTTTCCTTTTCCSSCCTTSSCTTCCCSSSCCCT
T ss_pred             cEEeCCCCeEEcCCcCCcccCcCCCCchHHCCCCCcCCCCCCcH
Confidence            599999999997532  1111      11123479999999864

>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, ELE transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa}

Probab=94.26  E-value=0.01  Score=43.06  Aligned_cols=38  Identities=13%  Similarity=0.246  Sum_probs=24.6

Q ss_pred             eeecCCCCccccHHH--HHhh------cCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALD--ALRL------VSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lD--A~~L------ld~~~~~F~C~~Cg~eL~~   54 (330)
                      .|+|+.||..|....  ...-      |.-....|+||.||..=..
T Consensus         3 ~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cga~K~~   48 (55)
T 2v3b_B            3 KWQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVGKID   48 (55)
T ss_dssp             EEEETTTCCEEETTTCBTTTTBCTTCCGGGSCTTCCCTTTCCCGGG
T ss_pred             cEEeCCCCeEECCCcCCcccCcCCCCChhHCCCCCcCCCCCCCHHH
Confidence            699999999997532  1111      1112347999999986543

>2epr_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=94.03  E-value=0.047  Score=36.07  Aligned_cols=37  Identities=14%  Similarity=0.331  Sum_probs=26.1

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNG   50 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~   50 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|+.
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~k   48 (48)
T 2epr_A            9 TRKQVACEICGKIFRDVYHLNRHKLSHSGEKPYSSGPSSG   48 (48)
T ss_dssp             CCCSEEETTTTEEESSHHHHHHHGGGSCSCCCCCSCCCCC
T ss_pred             CCcCeeCCCCCcccCCHHHHHHHHHhcCCCCCccCCCCCC
Confidence            4457999999999986666542   212234699999983

>1dx8_A Rubredoxin; electron transport, zinc-substitution; NMR {Guillardia theta} SCOP: g.41.5.1 PDB: 1h7v_A

Probab=93.79  E-value=0.017  Score=43.96  Aligned_cols=42  Identities=21%  Similarity=0.368  Sum_probs=26.5

Q ss_pred             CCeeecCCCCccccHHH--HHhhc------CCCCCCeeccCCCccccccc
Q 020131           15 VQEYICPNCQRRYNALD--ALRLV------SLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lD--A~~Ll------d~~~~~F~C~~Cg~eL~~~~   56 (330)
                      -..|+|+.||..|....  ...-|      .-....|+||.||..=..+.
T Consensus         5 m~~y~C~vCGyiYd~~~Gdp~~gi~pGT~f~~lPddw~CP~Cga~K~~F~   54 (70)
T 1dx8_A            5 EGKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFK   54 (70)
T ss_dssp             SSCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCBGGGEE
T ss_pred             CceEEeCCCCEEEcCCCCCcccCcCCCCchhhCCCCCcCCCCCCCHHHce
Confidence            35799999999997532  11111      11124799999998754443

>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5

Probab=93.76  E-value=0.016  Score=49.14  Aligned_cols=30  Identities=27%  Similarity=0.593  Sum_probs=24.4

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .-.||.|+..||+.|        ...|.||.|+.++..
T Consensus        27 lP~CP~C~seytYeD--------g~l~vCPeC~hEW~~   56 (138)
T 2akl_A           27 LPPCPQCNSEYTYED--------GALLVCPECAHEWSP   56 (138)
T ss_dssp             SCCCTTTCCCCCEEC--------SSSEEETTTTEEECT
T ss_pred             CCCCCCCCCcceEec--------CCeEECCccccccCC
Confidence            467999999999743        246999999999953

>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A 3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ...

Probab=93.73  E-value=0.015  Score=41.73  Aligned_cols=37  Identities=19%  Similarity=0.327  Sum_probs=24.0

Q ss_pred             eeecCCCCccccHHH--HHhhcC------CCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALD--ALRLVS------LEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lD--A~~Lld------~~~~~F~C~~Cg~eL~   53 (330)
                      .|+|+.||..|....  ...-+.      -....|+||.||..=.
T Consensus         2 ~~~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cg~~K~   46 (52)
T 1yk4_A            2 KLSCKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAPKS   46 (52)
T ss_dssp             EEEESSSSCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGG
T ss_pred             cEEeCCCCeEECCCcCCcccCcCCCCCHhHCCCCCcCCCCCCCHH
Confidence            599999999997532  111111      1134799999998643

>2epq_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=93.72  E-value=0.035  Score=35.99  Aligned_cols=35  Identities=17%  Similarity=0.309  Sum_probs=24.8

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCN   49 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg   49 (330)
                      ...|.|+.|++.|.....+..   +-...-.|.|+.||
T Consensus         8 ~k~~~C~~C~k~f~~~~~l~~H~~~H~~~~~~~C~~cg   45 (45)
T 2epq_A            8 EKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKSGPSSG   45 (45)
T ss_dssp             CCSSEETTTTEECSCHHHHHHHHHHHSCCCCCCCCCCC
T ss_pred             CCCCcCCCCCcccCCHHHHHHHHHHccCCCCCCCcCCC
Confidence            357999999999986555432   11223479999997

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=93.33  E-value=0.019  Score=48.73  Aligned_cols=41  Identities=12%  Similarity=0.310  Sum_probs=27.7

Q ss_pred             CCCCeeecCCCCccccHHHHHhhcCCCC------------CCeeccCCCcccc
Q 020131           13 NTVQEYICPNCQRRYNALDALRLVSLED------------DSFHCENCNGELV   53 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Lld~~~------------~~F~C~~Cg~eL~   53 (330)
                      .....++|++||..|+..++..-|+-..            ..+.||.||++-.
T Consensus        66 ~~p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~~~  118 (139)
T 3a43_A           66 EEEAVFKCRNCNYEWKLKEVKDKFDERIKEDIHFIPEVVHAFLACPKCGSHDF  118 (139)
T ss_dssp             EECCEEEETTTCCEEEGGGCTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCCCE
T ss_pred             ecCCcEECCCCCCEEecccccccccccccccccccccccccCCcCccccCCcc
Confidence            3456899999999999876322222111            1478999998854

>1x5w_A Zinc finger protein 64, isoforms 1; ZNF338, nuclear protein, DNA binding, transcription, C2H2 type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=92.92  E-value=0.095  Score=37.08  Aligned_cols=41  Identities=22%  Similarity=0.497  Sum_probs=29.0

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCccccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~~   54 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|+.....
T Consensus         6 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~   49 (70)
T 1x5w_A            6 SGHPEKCSECSYSCSSKAALRIHERIHCTDRPFKCNYCSFDTKQ   49 (70)
T ss_dssp             CCCSEECSSSSCEESSHHHHHHHHGGGCCSCSEECSSSSCEESS
T ss_pred             CCCCeECCCCCcccCCHHHHHHHHHHcCCCCCEeCCCCCCccCC
Confidence            3467999999999996655532   2122345999999987743

>2adr_A ADR1; transcription regulation, zinc finger,; NMR {Saccharomyces cerevisiae} SCOP: g.37.1.1 g.37.1.1

Probab=92.90  E-value=0.097  Score=35.68  Aligned_cols=37  Identities=19%  Similarity=0.647  Sum_probs=26.6

Q ss_pred             eeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      .|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus         2 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   41 (60)
T 2adr_A            2 SFVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFT   41 (60)
T ss_dssp             CBCCTTTCCCBSCHHHHHHHHHTTTSSCSEECTTTCCEES
T ss_pred             cCcCCCCccccCCHHHHHHHHHHhCCCCCccCCCCCCccC
Confidence            5999999999986655542   212234699999998764

>1x6e_A Zinc finger protein 24; ZNF24, KOX17, ZNF191, zscan3, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=92.89  E-value=0.083  Score=37.71  Aligned_cols=40  Identities=18%  Similarity=0.498  Sum_probs=28.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus        11 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~   53 (72)
T 1x6e_A           11 GEKPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFS   53 (72)
T ss_dssp             TCCCEECSSSCCEESSHHHHHHHHHGGGCSCCEECSSSCCEES
T ss_pred             CCCCccCCCCCCccCCHHHHHHHHHhcCCCCCeECCCCCcccC
Confidence            3457999999999986665542   112234699999998764

>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} SCOP: g.41.5.1

Probab=92.88  E-value=0.023  Score=45.05  Aligned_cols=41  Identities=17%  Similarity=0.353  Sum_probs=25.7

Q ss_pred             CCeeecCCCCccccHHH--HHhh------cCCCCCCeeccCCCcccccc
Q 020131           15 VQEYICPNCQRRYNALD--ALRL------VSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lD--A~~L------ld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ...|+|+.||..|....  ...-      |+-....|+||.||..=..+
T Consensus        33 m~~y~C~vCGyvYD~~~Gdp~~gI~pGT~fedlPddW~CPvCga~K~~F   81 (87)
T 1s24_A           33 YLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKEDY   81 (87)
T ss_dssp             CCEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCCGGGE
T ss_pred             CceEECCCCCeEecCCcCCcccCcCCCCChhHCCCCCCCCCCCCCHHHh
Confidence            35799999999997531  0100      11112479999999865443

>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}

Probab=92.87  E-value=0.037  Score=41.35  Aligned_cols=32  Identities=19%  Similarity=0.622  Sum_probs=25.5

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...|+|..||..++..       + ....+|++||..+..
T Consensus        19 ~v~Y~C~~Cg~~~~l~-------~-~~~iRC~~CG~RILy   50 (63)
T 3h0g_L           19 TMIYLCADCGARNTIQ-------A-KEVIRCRECGHRVMY   50 (63)
T ss_dssp             CCCCBCSSSCCBCCCC-------S-SSCCCCSSSCCCCCB
T ss_pred             CeEEECCCCCCeeecC-------C-CCceECCCCCcEEEE
Confidence            5689999999999832       2 246999999998865

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=92.87  E-value=0.038  Score=45.28  Aligned_cols=34  Identities=21%  Similarity=0.518  Sum_probs=25.9

Q ss_pred             CCCCeeecCCCCccccHHHHHhhcCCCCCCe-eccCCCcccccc
Q 020131           13 NTVQEYICPNCQRRYNALDALRLVSLEDDSF-HCENCNGELVAE   55 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F-~C~~Cg~eL~~~   55 (330)
                      .....|+|..||..|...         ...+ .||.||++....
T Consensus        69 ~~p~~~~C~~CG~~~e~~---------~~~~~~CP~Cgs~~~~i  103 (119)
T 2kdx_A           69 DEKVELECKDCSHVFKPN---------ALDYGVCEKCHSKNVII  103 (119)
T ss_dssp             EECCEEECSSSSCEECSC---------CSTTCCCSSSSSCCCEE
T ss_pred             eccceEEcCCCCCEEeCC---------CCCCCcCccccCCCcEE
Confidence            345689999999999862         1257 899999986543

>1bbo_A Human enhancer-binding protein MBP-1; DNA-binding protein; HET: ABA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 PDB: 3znf_A 4znf_A

Probab=92.84  E-value=0.081  Score=35.61  Aligned_cols=37  Identities=27%  Similarity=0.635  Sum_probs=26.3

Q ss_pred             eeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      .|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus         1 p~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   40 (57)
T 1bbo_A            1 KYICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFK   40 (57)
T ss_dssp             CCBCTTTCCBCSSHHHHHHHHHHTSSCCCEECSSSSCEES
T ss_pred             CCcCCCCcCcCCCHHHHHHHHHhcCCCCCccCCCCCchhc
Confidence            3899999999986555532   222234699999998764

>2lv2_A Insulinoma-associated protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=92.74  E-value=0.095  Score=40.32  Aligned_cols=41  Identities=17%  Similarity=0.481  Sum_probs=29.2

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCccccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~~   54 (330)
                      ....|+|+.|++.|+....+..   +=...-.|.|+.|+.....
T Consensus        25 ~~~~h~C~~Cgk~F~~~~~L~~H~~~H~~~k~~~C~~C~k~F~~   68 (85)
T 2lv2_A           25 SAECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYS   68 (85)
T ss_dssp             CCTTEECTTSCCEESSHHHHHHHHHTTSCSSSEECTTSSCEESS
T ss_pred             CCCCEECCCCCCCcCcHHHHhhhhhhccCCCccCCCCCCCEeCC
Confidence            3457999999999997666642   1112346999999987743

>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A 1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A 1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A 1smw_A 1be7_A 1t9o_A ...

Probab=92.62  E-value=0.035  Score=40.18  Aligned_cols=39  Identities=23%  Similarity=0.345  Sum_probs=25.4

Q ss_pred             eeecCCCCccccHHH--HHhhcCC------CCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALD--ALRLVSL------EDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lD--A~~Lld~------~~~~F~C~~Cg~eL~~~   55 (330)
                      .|+|+.||..|....  ...-|-|      ....|+||.||..-..+
T Consensus         3 ~y~C~vCGyvYd~~~Gdp~~gi~pGt~fe~lP~dw~CP~Cg~~K~~F   49 (54)
T 4rxn_A            3 KYTCTVCGYIYDPEDGDPDDGVNPGTDFKDIPDDWVCPLCGVGKDEF   49 (54)
T ss_dssp             CEEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGE
T ss_pred             ceECCCCCeEECCCcCCcccCcCCCCChhHCCCCCcCcCCCCcHHHc
Confidence            599999999997532  1111111      23479999999875443

>2eps_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=92.40  E-value=0.1  Score=35.47  Aligned_cols=39  Identities=21%  Similarity=0.439  Sum_probs=27.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh----cCCCCCCeeccCCCccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL----VSLEDDSFHCENCNGEL   52 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L----ld~~~~~F~C~~Cg~eL   52 (330)
                      ....|.|+.|++.|+....+..    +-...-.|.|+.|+...
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~~H~~~k~~~C~~C~k~F   51 (54)
T 2eps_A            9 VGKPYICQSCGKGFSRPDHLNGHIKQVHTSERPHKCQVWVSGP   51 (54)
T ss_dssp             SSCCEECSSSCCEESSHHHHHHHHHHTSCCCCCCCSSSSCCSS
T ss_pred             CCCCeECCCCCcccCCHHHHHHHHHHhcCCCCCccCCCCCCCC
Confidence            3457999999999986665542    22233469999999754

>2ene_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=92.26  E-value=0.14  Score=33.10  Aligned_cols=35  Identities=11%  Similarity=0.231  Sum_probs=24.8

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ene_A            9 GEKPYKCNECGKVFRHNSYLSRHQRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CSSSEECSSSCCEESSHHHHHHHHTTTCCCCCCSCCCC
T ss_pred             CCCCeECCCCCchhCChHHHHHHHhhcCCCCCCCCCCC
Confidence            3457999999999997666643   2112346999988

>2lce_A B-cell lymphoma 6 protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=92.26  E-value=0.097  Score=37.44  Aligned_cols=42  Identities=19%  Similarity=0.534  Sum_probs=29.4

Q ss_pred             cCCCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           12 KNTVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        12 ~~~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ......|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus        12 ~~~~~~~~C~~C~k~f~~~~~l~~H~~~H~~~~~~~C~~C~k~f~   56 (74)
T 2lce_A           12 THSDKPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFN   56 (74)
T ss_dssp             CCCCCSBCCTTSSCCBSCHHHHHHHHHHHCCCCSEECTTTCCEES
T ss_pred             cCCCCCeECCCCCceeCCHHHHHHHHHHcCCCCCEECCCCCchhC
Confidence            344568999999999986555432   111234699999998774

>2ysp_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=92.16  E-value=0.12  Score=33.38  Aligned_cols=35  Identities=20%  Similarity=0.341  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2ysp_A            9 GEKPYKCEKCGKGYNSKFNLDMHQKVHTGERPSGPSSG   46 (46)
T ss_dssp             SCCSEEETTTTEEESCHHHHHHHHTTSCSCCSSCCSCC
T ss_pred             CCCCeECCCCCCccCCHHHHHHHHHhhCCCCCCCCCCC
Confidence            3457999999999997666542   2122346999988

>2eme_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=92.12  E-value=0.13  Score=33.13  Aligned_cols=35  Identities=11%  Similarity=0.276  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2eme_A            9 GEKPYVCDYCGKAFGLSAELVRHQRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHGGGCCCSCCSSCCC
T ss_pred             CCCCeECCCCChhhCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            3457999999999997666542   2222346999988

>2epz_A Zinc finger protein 28 homolog; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=92.10  E-value=0.15  Score=32.93  Aligned_cols=35  Identities=9%  Similarity=0.215  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2epz_A            9 GEKPFDCIDCGKAFSDHIGLNQHRRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSBCCTTTCCCBSSHHHHHHHHTTTTTCCCCSSCCC
T ss_pred             CCCCeECCCCCceeCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666642   1112346999988

>2ct1_A Transcriptional repressor CTCF; CCCTC-BINDING factor, zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=92.08  E-value=0.11  Score=37.44  Aligned_cols=40  Identities=20%  Similarity=0.669  Sum_probs=28.3

Q ss_pred             CCCeeecCCCCccccHHHHHhh-c--CCCC--CCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL-V--SLED--DSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L-l--d~~~--~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+.. +  -...  ..|.|+.|+....
T Consensus        12 ~~k~~~C~~C~k~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~   56 (77)
T 2ct1_A           12 GEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIA   56 (77)
T ss_dssp             CCCSEECTTTCCEESCHHHHHHHHHHHSSSSCSSEECSSSSCEES
T ss_pred             CCCCeECCCcCchhCCHHHHHHHHHHhcCCCCCccCCCCCCCccC
Confidence            3457999999999997666532 1  1221  3699999998764

>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}

Probab=92.04  E-value=0.13  Score=39.30  Aligned_cols=39  Identities=21%  Similarity=0.459  Sum_probs=26.5

Q ss_pred             hhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131            2 RKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus         2 rk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .++|+.....     .|.||.|++.-       +--...|.+.|..|+..+
T Consensus        16 vkkie~~q~~-----ky~C~fCgk~~-------vkR~a~GIW~C~~C~~~~   54 (72)
T 3jyw_9           16 VKKLEIQQHA-----RYDCSFCGKKT-------VKRGAAGIWTCSCCKKTV   54 (72)
T ss_dssp             THHHHHHHHS-----CBCCSSCCSSC-------BSBCSSSCBCCSSSCCCC
T ss_pred             HHHHHHHhcc-----CccCCCCCCce-------eEecCCCeEECCCCCCEE
Confidence            4455554444     59999999773       112345789999999776

>2ytn_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=92.03  E-value=0.16  Score=32.80  Aligned_cols=35  Identities=11%  Similarity=0.250  Sum_probs=24.9

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ytn_A            9 GKKPYKCNECGKVFTQNSHLARHRGIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCSSCBCTTTCCBCSSHHHHHHHGGGTSCCCCCSCCCC
T ss_pred             CCcCeECCCCCCeeCCHHHHHHHhhhcCCCCCCCCCCC
Confidence            3457999999999997766643   1112346999988

>2eop_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.99  E-value=0.15  Score=32.80  Aligned_cols=35  Identities=9%  Similarity=0.191  Sum_probs=24.9

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2eop_A            9 GEKPHECRECGKSFSFNSQLIVHQRIHTGENPSGPSSG   46 (46)
T ss_dssp             CCCSCBCTTTCCBCSSHHHHHHHHTTTTTSCCSCCCCC
T ss_pred             CCCCeeCCCCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997766643   1112346999988

>2epx_A Zinc finger protein 28 homolog; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.90  E-value=0.11  Score=33.56  Aligned_cols=34  Identities=12%  Similarity=0.182  Sum_probs=24.4

Q ss_pred             CCeeecCCCCccccHHHHHhh----cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL----VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L----ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..    +-...-.|.|+.|
T Consensus        10 ~k~~~C~~C~k~F~~~~~L~~H~~~~H~~~k~~~C~~C   47 (47)
T 2epx_A           10 KKPYECIECGKAFIQNTSLIRHWRYYHTGEKPSGPSSG   47 (47)
T ss_dssp             CCSBCCSSSCCCBSSHHHHHHHHTTTTTTSCSSSCCCC
T ss_pred             CCCEECCccCchhCChHHHHHHhHhhcCCCCCCCCCCC
Confidence            457999999999997766643    1122345999988

>2em5_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.90  E-value=0.15  Score=33.03  Aligned_cols=35  Identities=11%  Similarity=0.180  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh-c-CC-CCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL-V-SL-EDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L-l-d~-~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+.. + .. ..-.|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2em5_A            9 STKSHQCHECGRGFTLKSHLNQHQRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CSCSEECSSSCCEESSHHHHHHHHTTTSCSCCSSCCCC
T ss_pred             CCCCeECCcCCCccCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666642 1 11 2235999988

>2em7_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.87  E-value=0.15  Score=32.99  Aligned_cols=35  Identities=14%  Similarity=0.242  Sum_probs=24.8

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2em7_A            9 GEKPYKCEECGKGFICRRDLYTHHMVHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESCHHHHHHHGGGGTTCCCSSTTCC
T ss_pred             CCcCccCCCccchhCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666643   1122346999988

>2el4_A Zinc finger protein 268; alternative splicing, DNA-binding, metal-binding, nuclear protein, repeat, transcription, transcription regulation; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2eog_A 2em1_A 2emw_A 2eok_A

Probab=91.85  E-value=0.15  Score=32.77  Aligned_cols=35  Identities=14%  Similarity=0.248  Sum_probs=24.9

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2el4_A            9 GVKPYGCSQCAKTFSLKSQLIVHQRSHTGVKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSSCEESSHHHHHHHGGGSSSCCCSCCTTC
T ss_pred             CCCceECCCCCchhCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997776643   1112346999988

>2ytr_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.82  E-value=0.14  Score=32.97  Aligned_cols=35  Identities=11%  Similarity=0.285  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2ytr_A            9 GEKPYKCNECGKAFSQTSKLARHQRIHTGEKPSGPSSG   46 (46)
T ss_dssp             SCCTTCCTTTCCCCSSHHHHHHHHTTTTTCSCCCSCCC
T ss_pred             CCcCcCCCCCCCccCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            3457999999999997666643   1112346999988

>2eml_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.79  E-value=0.15  Score=32.99  Aligned_cols=35  Identities=11%  Similarity=0.280  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2eml_A            9 GEKPYECSVCGKAFSHRQSLSVHQRIHSGKKPSGPSSG   46 (46)
T ss_dssp             SCCSEECSSSCCEESSHHHHHHHHGGGSSCCCSCSSCC
T ss_pred             CCCCeeCCCcCCccCCHHHHHHHHHHhcCCCCCCCCCC
Confidence            3457999999999997766642   1112346999988

>2elz_A Zinc finger protein 224; DNA-binding, metal-binding, nuclear protein, phosphorylation, polymorphism, repeat, repressor, transcription; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.76  E-value=0.14  Score=33.24  Aligned_cols=35  Identities=20%  Similarity=0.410  Sum_probs=24.8

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2elz_A            9 VEKPYKCEDCGKGYNRRLNLDMHQRVHMGEKTSGPSSG   46 (46)
T ss_dssp             CCSSCBCSSSCCBCSSHHHHHHHGGGGGSCCCCCSCCC
T ss_pred             CCCCeeCcccCchhCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            3457999999999997666642   1112346999988

>2csh_A Zinc finger protein 297B; ZF-C2H2 domain, zinc finger and BTB domain containing protein 22B, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=91.67  E-value=0.27  Score=37.52  Aligned_cols=49  Identities=12%  Similarity=0.369  Sum_probs=32.3

Q ss_pred             HHHHHhhcCCCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            5 LKDELECKNTVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      |..-++.-.....|.|+.|++.|.....+..   +-.....|.|+.|+....
T Consensus        25 l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   76 (110)
T 2csh_A           25 RDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFM   76 (110)
T ss_dssp             HHHHHHHHSCCCSEECTTTSCEESSSHHHHHHHTTTCCCCCEECSSSCCEES
T ss_pred             HHHHHHHcCCCcCccCCCCCcccCCHHHHHHHHHHcCCCCCeeCCCCcchhc
Confidence            4444444445567999999999986555432   222234699999998764

>3uk3_C Zinc finger protein 217; transcription factor, DNA binding, DNA-metal BI protein complex; 2.10A {Homo sapiens}

Probab=91.64  E-value=0.081  Score=35.61  Aligned_cols=38  Identities=16%  Similarity=0.425  Sum_probs=25.9

Q ss_pred             CeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           16 QEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ..|.|+.|++.|+....+..   +-.....|.|+.|+....
T Consensus         3 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   43 (57)
T 3uk3_C            3 SSRECSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAA   43 (57)
T ss_dssp             --CBCTTTCCBCSCHHHHHHHHHHHHCCCCEECSSSSCEES
T ss_pred             CCccCCCCcchhCChHHHHHHHHHcCCCCCcCCCCCcchhC
Confidence            46999999999986665532   111223699999998764

>2eq0_A Zinc finger protein 347; C2H2, zinc finger domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.60  E-value=0.19  Score=32.42  Aligned_cols=35  Identities=11%  Similarity=0.208  Sum_probs=24.8

Q ss_pred             CCCeeecCCCCccccHHHHHhh--cCC-CCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL--VSL-EDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L--ld~-~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..  ... ..-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~c   46 (46)
T 2eq0_A            9 GEKPYKCHECGKVFRRNSHLARHQLIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCCEECTTTCCEESSHHHHHHHHTTTCCCCCSCCSCC
T ss_pred             CCCCeECCCCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997766642  111 2346999988

>2eq4_A Zinc finger protein 224; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.58  E-value=0.15  Score=32.86  Aligned_cols=35  Identities=11%  Similarity=0.224  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2eq4_A            9 GEKLYNCKECGKSFSRAPCLLKHERLHSGEKPSGPSSG   46 (46)
T ss_dssp             CCCCCCBTTTTBCCSCHHHHHHHHHHCCSSSCCCCCCC
T ss_pred             CCCCeECCCCCCccCchHHHHHHHHhcCCCCCCCCCCC
Confidence            3457999999999997666542   1122346999988

>2drp_A Protein (tramtrack DNA-binding domain); protein-DNA complex, double helix, transcription/DNA complex; HET: DNA; 2.80A {Drosophila melanogaster} SCOP: g.37.1.1 g.37.1.1

Probab=91.57  E-value=0.093  Score=36.51  Aligned_cols=39  Identities=21%  Similarity=0.477  Sum_probs=28.3

Q ss_pred             CCeeecCCCCccccHHHHHhh---c-C-CCCCCeeccCCCcccc
Q 020131           15 VQEYICPNCQRRYNALDALRL---V-S-LEDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---l-d-~~~~~F~C~~Cg~eL~   53 (330)
                      ...|.|+.|++.|+....+..   . - .....|.|+.|+....
T Consensus         8 ~k~~~C~~C~k~f~~~~~l~~H~~~~H~~~~~~~~C~~C~k~f~   51 (66)
T 2drp_A            8 EHTYRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFT   51 (66)
T ss_dssp             TTEEECTTTCCEESSHHHHHHHHHHHSSSSCCCEECTTTCCEES
T ss_pred             CcceECCCCcchhCCHHHHHHHHHHHcCCCCcCeECCCCCCccC
Confidence            457999999999996665532   1 1 2335699999998764

>2en8_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.54  E-value=0.19  Score=32.32  Aligned_cols=35  Identities=17%  Similarity=0.379  Sum_probs=24.5

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2en8_A            9 GEKSHTCDECGKNFCYISALRIHQRVHMGEKCSGPSSG   46 (46)
T ss_dssp             CCSSEECTTTCCEESSHHHHHHHHTTTCCSCSSCCSCC
T ss_pred             CCCCeECCCcCcccCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666542   1112346999988

>2dmd_A Zinc finger protein 64, isoforms 1 and 2; ZNF338, nuclear protein, DNA- binding, transcription, C2H2-type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=91.53  E-value=0.21  Score=37.01  Aligned_cols=49  Identities=22%  Similarity=0.541  Sum_probs=29.3

Q ss_pred             HHHHHhhcCCCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            5 LKDELECKNTVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      |..-++.-.....|.|+.|++.|.....+..   .-.....|.|+.|+....
T Consensus        24 l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   75 (96)
T 2dmd_A           24 LKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPYASR   75 (96)
T ss_dssp             HHHHGGGCCCCCSEECSSSCCEESSHHHHHHHHHHSCCCCCEECSSSSCEES
T ss_pred             HHHHHHhcCCCCCEeCCCCCCccCCHHHHHHHHHHhCCCCCccCCCCCCccC
Confidence            4444444445567888888888875554432   112233588888887663

>2em9_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2yrh_A

Probab=91.48  E-value=0.17  Score=32.57  Aligned_cols=35  Identities=14%  Similarity=0.238  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2em9_A            9 GEKPYNCKECGKSFRWASCLLKHQRVHSGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHGGGGTSCCCCSTTCC
T ss_pred             CCcCeECCccccccCChHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666642   1122346999988

>2ytq_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.47  E-value=0.19  Score=32.53  Aligned_cols=35  Identities=11%  Similarity=0.256  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ytq_A            9 GEKPYGCSECGKAFSSKSYLIIHMRTHSGEKPSGPSSG   46 (46)
T ss_dssp             CCCSCBCSSSCCBCSCHHHHHHHHTTTCCSCSSCCCCC
T ss_pred             CCCCcCCCccChhhCChHHHHHHHHHhCCCCCCCCCCC
Confidence            3456999999999997666642   2112346999988

>2ep0_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.41  E-value=0.18  Score=32.58  Aligned_cols=34  Identities=12%  Similarity=0.303  Sum_probs=24.4

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus        10 ~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ep0_A           10 EKPYKCDVCHKSFRYGSSLTVHQRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCSEECSSSCCEESSHHHHHHHHTTTSSSCCCSCCCC
T ss_pred             CCCeeCcccCcccCChHHHHHHHHHhCCCCCCCCCCC
Confidence            457999999999997766643   1112245999988

>2cot_A Zinc finger protein 435; ADK_LID domain, zinc finger and SCAN domain containing protein 16, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=91.36  E-value=0.2  Score=35.98  Aligned_cols=40  Identities=15%  Similarity=0.610  Sum_probs=28.3

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+..   +-.....|.|+.|+....
T Consensus        15 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   57 (77)
T 2cot_A           15 ERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFI   57 (77)
T ss_dssp             CSCSSBCSSSCCBCSCHHHHHHHHTTTCCSCSEECSSSCCEES
T ss_pred             CCCCEECCCCCcccCCHHHHHHHHHHcCCCcCeeCCCCCCccC
Confidence            3467999999999986555532   212234699999998764

>2en1_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.35  E-value=0.16  Score=32.84  Aligned_cols=35  Identities=14%  Similarity=0.311  Sum_probs=24.8

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2en1_A            9 GEKPFKCEECGKRFTQNSQLHSHQRVHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEEETTTTEEESSHHHHHHHGGGGSCCCCSCCCCC
T ss_pred             CCCCeeCCCCCcccCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666642   1122346999988

>2ep2_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.28  E-value=0.2  Score=32.31  Aligned_cols=35  Identities=11%  Similarity=0.299  Sum_probs=24.9

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~c   46 (46)
T 2ep2_A            9 GEKPYECSICGKSFTKKSQLHVHQQIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHHTTSSCCSCCSCCC
T ss_pred             CCcCcCCCCCCcccCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997776643   1112346999988

>2em0_A Zinc finger protein 224; DNA-binding, metal-binding, nuclear protein, phosphorylation, polymorphism, repeat, repressor, transcription; NMR {Homo sapiens}

Probab=91.28  E-value=0.17  Score=32.66  Aligned_cols=35  Identities=17%  Similarity=0.372  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2em0_A            9 GEKTWKCRECDMCFSQASSLRLHQNVHVGEKPSGPSSG   46 (46)
T ss_dssp             CCCCCCCSSSCCCCSSHHHHHHHGGGGSSSSCSCSSCC
T ss_pred             CCcCeECCCCCcccCCHHHHHHHHHHcCCCCCcCCCCC
Confidence            3457999999999997666643   1112346999988

>2epw_A Zinc finger protein 268; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.20  E-value=0.17  Score=32.55  Aligned_cols=34  Identities=12%  Similarity=0.247  Sum_probs=23.9

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus        10 ~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2epw_A           10 EKPCKCTECGKAFCWKSQLIMHQRTHVDDKHSGPSSG   46 (46)
T ss_dssp             CCSEECSSSCCEESSSHHHHHHHHHCCSCCCSCCCCC
T ss_pred             CCCeeCCCCCCccCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            456999999999997666542   2122346999988

>2eoe_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.20  E-value=0.16  Score=32.70  Aligned_cols=35  Identities=11%  Similarity=0.188  Sum_probs=25.0

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2eoe_A            9 GEKPYKCNECGKVFTQNSHLANHQRIHTGVKPSGPSSG   46 (46)
T ss_dssp             CCCSSEETTTTEECSSHHHHHHHHGGGSCCCSCSSCCC
T ss_pred             CCCCeECCCcChhhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997766643   1122346999988

>2ee8_A Protein ODD-skipped-related 2; zinc binding, ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: k.12.1.1

Probab=91.17  E-value=0.29  Score=36.97  Aligned_cols=49  Identities=20%  Similarity=0.524  Sum_probs=29.2

Q ss_pred             HHHHHhhcCCCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            5 LKDELECKNTVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      |..-++.-.....|.|+.|++.|.....+..   +-.....|.|+.|+....
T Consensus        33 l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   84 (106)
T 2ee8_A           33 LLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKGFC   84 (106)
T ss_dssp             HHHHHHHHCCSCCCBCSSSCCBCSCHHHHHHHGGGSCCCCTTSCSSSCCCCS
T ss_pred             HHHHHHHcCCCCCcCCCCccchhCCHHHHHHHHHHhCCCCCeECCCcCCccc
Confidence            3333444444567888888888875555432   112233588888887653

>2emf_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.13  E-value=0.2  Score=32.34  Aligned_cols=35  Identities=9%  Similarity=0.304  Sum_probs=24.5

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~c   46 (46)
T 2emf_A            9 GGKHFECTECGKAFTRKSTLSMHQKIHTGEKPSGPSSG   46 (46)
T ss_dssp             SSCCEECSSSCCEESCHHHHHHHGGGTSCSSCSCCCCC
T ss_pred             CCCCeECCCCCchhCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666642   1112346999987

>2ctd_A Zinc finger protein 512; zinc binding, two ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=91.13  E-value=0.1  Score=40.33  Aligned_cols=38  Identities=24%  Similarity=0.603  Sum_probs=26.5

Q ss_pred             CCeeecCCCCccc-cHHHHHh---hcCCCCCCeeccCCCcccc
Q 020131           15 VQEYICPNCQRRY-NALDALR---LVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP~C~~~Y-T~lDA~~---Lld~~~~~F~C~~Cg~eL~   53 (330)
                      ...|.|+.|++.| +....+.   .+- ....|.|..||....
T Consensus        32 ~~~~~C~~C~k~F~~~~~~L~~H~~~h-~~k~~~C~~Cgk~F~   73 (96)
T 2ctd_A           32 KGSVSCPTCQAVGRKTIEGLKKHMENC-KQEMFTCHHCGKQLR   73 (96)
T ss_dssp             TSCEECTTTCSCEESSHHHHHHHHHHH-CCCCCCCSSSCCCCS
T ss_pred             CCCcCCCCCCCCcccCHHHHHHHHHHH-CCCCeECCCCCCeeC
Confidence            3579999999999 6433332   111 334799999998774

>2eoq_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=91.10  E-value=0.17  Score=32.64  Aligned_cols=35  Identities=11%  Similarity=0.220  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2eoq_A            9 GEKPFKCDICGKSFCGRSRLNRHSMVHTAEKPSGPSSG   46 (46)
T ss_dssp             SSCSCCCSSSCCCCSSHHHHHHHHHHTTCCCSSSCCCC
T ss_pred             CCCCcCCCcCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666542   1122346999988

>4gzn_C ZFP-57, zinc finger protein 57; transcription-DNA complex; HET: DNA 5CM; 0.99A {Mus musculus}

Probab=91.04  E-value=0.1  Score=37.55  Aligned_cols=39  Identities=18%  Similarity=0.456  Sum_probs=27.6

Q ss_pred             CeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCccccc
Q 020131           16 QEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~~   54 (330)
                      ..|.|+.|++.|+..-.+..   +=...-.|.|+.||.....
T Consensus         3 Kpy~C~~C~k~F~~~~~L~~H~~~Ht~ekp~~C~~C~k~F~~   44 (60)
T 4gzn_C            3 RPFFCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRD   44 (60)
T ss_dssp             CCEECTTTCCEESSHHHHHHHHHHHHTCCCEECTTTCCEESS
T ss_pred             CCccCCCCCCEeCCHHHHHHHHHHhCCCcCeECCCCCCCcCC
Confidence            36999999999996555532   1112336999999988754

>2el6_A Zinc finger protein 268; alternative splicing, DNA-binding, metal-binding, nuclear protein, repeat, transcription, transcription regulation; NMR {Homo sapiens}

Probab=91.04  E-value=0.19  Score=32.50  Aligned_cols=35  Identities=14%  Similarity=0.342  Sum_probs=24.5

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2el6_A            9 GVNPYKCSQCEKSFSGKLRLLVHQRMHTREKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSSCEESSHHHHHHHHGGGCCSSCCSCCCC
T ss_pred             CCCCeECCCCCcccCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3456999999999997666642   1112346999988

>2ytg_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.95  E-value=0.15  Score=32.94  Aligned_cols=35  Identities=17%  Similarity=0.278  Sum_probs=24.8

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ytg_A            9 GEKPFKCGECGKSYNQRVHLTQHQRVHTGEKPSGPSSG   46 (46)
T ss_dssp             SCCSEECTTTCCEESSSHHHHTTGGGGSSCCSSCSCCC
T ss_pred             CCCCeECCCCCcccCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666643   1112346999988

>2eov_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.92  E-value=0.14  Score=32.92  Aligned_cols=34  Identities=15%  Similarity=0.343  Sum_probs=23.9

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus        10 ~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2eov_A           10 EKPYKCSDCGKSFTWKSRLRIHQKCHTGERHSGPSSG   46 (46)
T ss_dssp             CCSCBCSSSCCBCSSHHHHHHHHHHHSCCSSCCSCCC
T ss_pred             CCCccCCccChhhCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            456999999999997666542   1112246999988

>2enc_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.87  E-value=0.19  Score=32.43  Aligned_cols=35  Identities=6%  Similarity=0.122  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2enc_A            9 GEKPFKCEECGKGFYTNSQCYSHQRSHSGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHHHSCCSSCCSSCCC
T ss_pred             CCCCcCCCCCCCcCCChHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666642   1122346999988

>2ema_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2emc_A

Probab=90.85  E-value=0.18  Score=32.50  Aligned_cols=35  Identities=11%  Similarity=0.272  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~c   46 (46)
T 2ema_A            9 GEKRYKCNECGKVFSRNSQLSQHQKIHTGEKPSGPSSG   46 (46)
T ss_dssp             TSCCEECSSSCCEESSHHHHHHHHTGGGCCCCCSSSCC
T ss_pred             CCcCcCCCCCcchhCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            3457999999999997666642   1112346999988

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=90.80  E-value=0.28  Score=37.82  Aligned_cols=49  Identities=20%  Similarity=0.448  Sum_probs=30.2

Q ss_pred             HHHHHhhcCCCCeeecCCCCccccHHHHHhh------cCCCCCCeeccCCCcccc
Q 020131            5 LKDELECKNTVQEYICPNCQRRYNALDALRL------VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~L------ld~~~~~F~C~~Cg~eL~   53 (330)
                      |..-++.-.....|.|+.|++.|.....+..      +......|.|+.|+....
T Consensus        23 l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~C~~C~~~f~   77 (124)
T 2dlq_A           23 LKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFR   77 (124)
T ss_dssp             HHHHHHHHSSCCSCBCTTTCCBCSSHHHHHHHHHHCCCCSCCCCEECSSSCCEES
T ss_pred             HHHHHHhCCCCCCeECCCCCchhcCHHHHHHHHhhhhcCCCCCCeECCCCCCccC
Confidence            3333333344457888888888876555532      123345688888887763

>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A

Probab=90.66  E-value=0.12  Score=37.56  Aligned_cols=33  Identities=15%  Similarity=0.334  Sum_probs=25.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+||.|+..=      -.+|+..+..+|..||..|.+.
T Consensus        11 ~~~Cp~C~~~~------lv~D~~~ge~vC~~CGlVl~e~   43 (58)
T 1dl6_A           11 RVTCPNHPDAI------LVEDYRAGDMICPECGLVVGDR   43 (58)
T ss_dssp             CCSBTTBSSSC------CEECSSSCCEECTTTCCEECCS
T ss_pred             cccCcCCCCCc------eeEeCCCCeEEeCCCCCEEecc
Confidence            45899998731      1357788999999999998654

>2emy_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.57  E-value=0.16  Score=32.79  Aligned_cols=35  Identities=11%  Similarity=0.185  Sum_probs=24.4

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2emy_A            9 GENPYECHECGKAFSRKYQLISHQRTHAGEKPSGPSSG   46 (46)
T ss_dssp             SSCCEECSSSCCEESSHHHHHHHHHHHTTSCCSCSSCC
T ss_pred             CCcCcCCCCCCcccCcHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666542   1112346999988

>2yso_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.56  E-value=0.17  Score=32.60  Aligned_cols=34  Identities=9%  Similarity=0.122  Sum_probs=23.8

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus        10 ~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2yso_A           10 EKSHQCRECGEIFFQYVSLIEHQVLHMGQKNSGPSSG   46 (46)
T ss_dssp             CCCEECTTTCCEESSHHHHHHHHHHHSCCSCCCTTCC
T ss_pred             CCCEEccccChhhCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            457999999999997665542   1112236999988

>2emx_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.48  E-value=0.16  Score=32.44  Aligned_cols=35  Identities=11%  Similarity=0.273  Sum_probs=24.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-.....|.|+.|
T Consensus         7 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   44 (44)
T 2emx_A            7 GEKPFGCSCCEKAFSSKSYLLVHQQTHAEEKPSGPSSG   44 (44)
T ss_dssp             SCCCEECSSSSCEESSHHHHHHHHHHHTSSCSCSCCCC
T ss_pred             CCcCccCCCCCcccCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666642   1112346999988

>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, ribosoma protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* 4adx_Z

Probab=90.48  E-value=0.11  Score=43.20  Aligned_cols=30  Identities=23%  Similarity=0.666  Sum_probs=21.1

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ..|.||.|++. +   +...   ..+.+.|..|+..+
T Consensus        59 akytCPfCGk~-~---vKR~---avGIW~C~~Cgk~f   88 (116)
T 3cc2_Z           59 EDHACPNCGED-R---VDRQ---GTGIWQCSYCDYKF   88 (116)
T ss_dssp             SCEECSSSCCE-E---EEEE---ETTEEEETTTCCEE
T ss_pred             cCCcCCCCCCc-e---eEec---CceeEECCCCCCEE
Confidence            36999999982 1   1111   23789999999885

>2ely_A Zinc finger protein 224; DNA-binding, metal-binding, nuclear protein, phosphorylation, polymorphism, repeat, repressor, transcription; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2ena_A 2en4_A

Probab=90.43  E-value=0.17  Score=32.74  Aligned_cols=35  Identities=11%  Similarity=0.296  Sum_probs=23.9

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ely_A            9 GEKPFKCVECGKGFSRRSALNVHHKLHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSBCCSSSCCCBSSTTHHHHHHHHHSCCSSCSCCCC
T ss_pred             CCCCcccCccCcccCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999996555532   1112246999988

>2emm_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.39  E-value=0.16  Score=32.66  Aligned_cols=35  Identities=9%  Similarity=0.129  Sum_probs=24.5

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2emm_A            9 GERPHKCNECGKSFIQSAHLIQHQRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHHHHSCCCTTSSSCC
T ss_pred             CCCCeeCCCCChhhCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997666542   1112346999988

>2en6_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.37  E-value=0.14  Score=33.01  Aligned_cols=35  Identities=11%  Similarity=0.239  Sum_probs=24.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2en6_A            9 GEKPYGCNECGKTFSQKSILSAHQRTHTGEKPSGPSSG   46 (46)
T ss_dssp             SSCCEEETTTTEEESSHHHHHHHHHHHSSCCCSSSCCC
T ss_pred             CCcCeECCCCCcccCchHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666643   1112346999988

>2ytj_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.34  E-value=0.22  Score=32.08  Aligned_cols=34  Identities=15%  Similarity=0.343  Sum_probs=24.2

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~c   46 (46)
T 2ytj_A           10 EKPYICAECGKAFTIRSNLIKHQKIHTKQKPSGPSSG   46 (46)
T ss_dssp             CCSEECSSSCCEESSHHHHHHHHHHTSCCCCSSCSCC
T ss_pred             CcCeECCCCChhhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            457999999999997766643   1122346999987

>2emk_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2ysv_A

Probab=90.24  E-value=0.17  Score=32.71  Aligned_cols=35  Identities=14%  Similarity=0.265  Sum_probs=24.4

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2emk_A            9 GEKPYECKECGKAFSQTTHLIQHQRVHTGEKPSGPSSG   46 (46)
T ss_dssp             SSCSCBCSSSCCBCSCHHHHHHHHHHHSSCCCSSCCCC
T ss_pred             CCCceECCCCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3456999999999997666642   1112346999988

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=90.22  E-value=0.33  Score=42.24  Aligned_cols=62  Identities=18%  Similarity=0.164  Sum_probs=46.8

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQI   97 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~L   97 (330)
                      -.||.||+.|..     .++|....-.|+.|+.+|+...+.                .++.++.++..|..+..||++.+
T Consensus       133 ~~~~~~g~~y~~-----~~~pp~~~~~~~~~~~~l~~~~dd----------------~~e~v~~r~~~~~~~~~~l~~~y  191 (217)
T 3be4_A          133 CTHPASGRIYHV-----KYNPPKQPGIDDVTGEPLVWRDDD----------------NAEAVKVRLDVFHKQTAPLVKFY  191 (217)
T ss_dssp             EECTTTCCEEET-----TTBCCSSTTBCTTTCCBCBCCGGG----------------SHHHHHHHHHHHHHHTTHHHHHH
T ss_pred             CCCccccCcccc-----ccCCCCccccccccccccccCCCC----------------CHHHHHHHHHHHHHHHHHHHHHH
Confidence            469999999976     356665566899999999765432                12456778888999999999888


Q ss_pred             Hhh
Q 020131           98 NRV  100 (330)
Q Consensus        98 k~i  100 (330)
                      ++.
T Consensus       192 ~~~  194 (217)
T 3be4_A          192 EDL  194 (217)
T ss_dssp             HTT
T ss_pred             HhC
Confidence            753

>2ytd_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=90.01  E-value=0.2  Score=32.33  Aligned_cols=34  Identities=12%  Similarity=0.243  Sum_probs=24.1

Q ss_pred             CCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2ytd_A           10 EKPYKCSECGKAFHRHTHLNEHRRIHTGYRPSGPSSG   46 (46)
T ss_dssp             CCSEECSSSCCEESSHHHHHHHHHHHTCCCSSCSSCC
T ss_pred             CcCeECCCCCCeeCChHHHHHHHHHcCCCCCCCCCCC
Confidence            457999999999997666542   1112346999988

>2ytk_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=89.99  E-value=0.18  Score=32.58  Aligned_cols=35  Identities=11%  Similarity=0.245  Sum_probs=24.3

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~c   46 (46)
T 2ytk_A            9 GEKPYKCNECGKVFTQNSHLTNHWRIHTGEKPSGPSSG   46 (46)
T ss_dssp             SSCSEECSSSCCEESSHHHHHHHHHHHSSSSCSSCCCC
T ss_pred             CCCCEeCCcCCCccCCHHHHHHHHHHHCCCCCCCCCCC
Confidence            3457999999999997666542   1112246999988

>2d9h_A Zinc finger protein 692; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.92  E-value=0.087  Score=38.02  Aligned_cols=39  Identities=18%  Similarity=0.299  Sum_probs=27.6

Q ss_pred             CCeeecCCCCccccHHHHHhh-cC-C----CCCCeeccCCCcccc
Q 020131           15 VQEYICPNCQRRYNALDALRL-VS-L----EDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L-ld-~----~~~~F~C~~Cg~eL~   53 (330)
                      ...|.|+.|++.|+....+.. +. .    ....|.|+.|+....
T Consensus         5 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~~C~~C~k~f~   49 (78)
T 2d9h_A            5 SSGLQCEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFE   49 (78)
T ss_dssp             CCCEECSSSCCEESSHHHHHHHHHHHHHHTTTCCEECTTTCCEES
T ss_pred             CcCeECCCCCCeeCCHHHHHHHHHHhhccCCCcccCCCCCCchhC
Confidence            457999999999986655532 10 1    124699999998764

>2em8_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=89.64  E-value=0.16  Score=32.93  Aligned_cols=35  Identities=17%  Similarity=0.265  Sum_probs=24.2

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2em8_A            9 GEKPYKCVECGKGYKRRLDLDFHQRVHTGEKLSGPSSG   46 (46)
T ss_dssp             SCCSEECSSSCCEESSHHHHHHHHHHHHCCCCCCSCCC
T ss_pred             CCCCeECcccCchhCCHHHHHHHHHHHcCCCCCCCCCC
Confidence            3457999999999997666542   1112235999988

>2kmk_A Zinc finger protein GFI-1; tandem repeat zinc finger domain, protein-DNA complex, DNA-B metal-binding, nucleus; HET: DNA; NMR {Rattus norvegicus}

Probab=89.55  E-value=0.17  Score=36.12  Aligned_cols=45  Identities=16%  Similarity=0.526  Sum_probs=29.5

Q ss_pred             HhhcCCCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            9 LECKNTVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         9 l~~~~~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ++.-.....|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus        21 ~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   68 (82)
T 2kmk_A           21 LLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFS   68 (82)
T ss_dssp             HHHHHTCCCEECSSSCCEESSHHHHHHHHHHHHTCCCEECTTTSCEES
T ss_pred             HHHcCCCCCeeCCcCChhhCCHHHHHHHHHHhcCCCCCcCCCcchhhC
Confidence            333334567999999999986655532   111234699999997663

>1yc5_A NAD-dependent deacetylase; SIR2, sirtuin, SIR2TM, SIRT1, nicotinamide, hydrolase; HET: ALY; 1.40A {Thermotoga maritima} SCOP: c.31.1.5 PDB: 2h2d_A* 2h2f_A 2h2g_A* 2h2h_A* 2h2i_A* 2h4f_A* 2h4j_A* 3d4b_A* 3d81_A* 3pdh_A* 2h4h_A* 3jr3_A* 2h59_A*

Probab=89.49  E-value=0.21  Score=45.56  Aligned_cols=38  Identities=26%  Similarity=0.724  Sum_probs=28.8

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ...|..|++.|...++...++.. ..-+|+.||+.|..+
T Consensus       121 ~~~C~~C~~~~~~~~~~~~~~~~-~~p~C~~Cgg~lrP~  158 (246)
T 1yc5_A          121 EYYCVRCEKKYTVEDVIKKLESS-DVPLCDDCNSLIRPN  158 (246)
T ss_dssp             EEEETTTCCEEEHHHHHHHTTTC-SSCBCTTTCCBEEEE
T ss_pred             eeEcCCCCCCCcHHHHHHHhccC-CCCCCCCCCCccCcc
Confidence            46799999999987777655421 246999999998654

>2k5c_A Uncharacterized protein PF0385; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Pyrococcus furiosus}

Probab=89.43  E-value=0.19  Score=39.59  Aligned_cols=37  Identities=22%  Similarity=0.513  Sum_probs=24.2

Q ss_pred             eeecCCCCccccHHHHHh-hcCC-----------------CCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALR-LVSL-----------------EDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~-Lld~-----------------~~~~F~C~~Cg~eL~   53 (330)
                      .-+||.||+...-.|-.. .|..                 ..-.|+||.||.+.-
T Consensus         8 ~~~~PlCG~~L~W~eLIeQML~~en~~ei~kDr~~Fl~~~e~F~FkCP~CgEEFy   62 (95)
T 2k5c_A            8 MAKCPICGSPLKWEELIEEMLIIENFEEIVKDRERFLAQVEEFVFKCPVCGEEFY   62 (95)
T ss_dssp             CEECSSSCCEECHHHHHHHSTTCSTHHHHTTCHHHHHHHHHHSEEECTTTCCEEE
T ss_pred             cccCCcCCCccCHHHHHHHHHhhccHHHHHhhHHHHHHHHHHHhhcCCCccHHHh
Confidence            358999999776444332 1211                 134699999999874

>2eoo_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=89.30  E-value=0.17  Score=32.72  Aligned_cols=35  Identities=14%  Similarity=0.242  Sum_probs=24.4

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2eoo_A            9 GERPYGCNECGKNFGRHSHLIEHLKRHFREKSSGPSSG   46 (46)
T ss_dssp             CCCCEECSSSCCEESSHHHHHHHHHHHHSTTSSCCSCC
T ss_pred             CCCCEEccccCcccCCHHHHHHHHHHHcCCCCCCCCCC
Confidence            3457999999999997666642   1112246999988

>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=89.28  E-value=0.27  Score=36.34  Aligned_cols=48  Identities=19%  Similarity=0.492  Sum_probs=29.7

Q ss_pred             HHHHHhhcCCCCeeecCCCCccccHHHHHhh---c-CCC-CCCeeccCCCccc
Q 020131            5 LKDELECKNTVQEYICPNCQRRYNALDALRL---V-SLE-DDSFHCENCNGEL   52 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~L---l-d~~-~~~F~C~~Cg~eL   52 (330)
                      |..-++.-.....|.|+.|++.|.....+..   . ... ...|.|+.|+...
T Consensus        23 l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~C~~C~~~f   75 (95)
T 2yt9_A           23 LNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGF   75 (95)
T ss_dssp             HHHHHHHSCSSCSEECSSSCCEESCHHHHHHHHHHHCCCCCSSBCCSSSCCCB
T ss_pred             HHHHHHhcCCCCCCcCCCCCCccCCHHHHHHHHHHhcCCCCCceECCCccchh
Confidence            3344444445567999999999986555532   1 111 1469999998765

>1a1h_A QGSR zinc finger peptide; complex (zinc finger/DNA), DNA-binding protein, transcription/DNA complex; HET: DNA; 1.60A {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1jk2_A 1jk1_A 1a1g_A* 1a1f_A* 1a1i_A* 1a1j_A* 1a1k_A* 1aay_A* 1a1l_A* 1p47_A 1zaa_C* 1g2f_C 1g2d_C

Probab=89.26  E-value=0.19  Score=36.63  Aligned_cols=45  Identities=18%  Similarity=0.526  Sum_probs=28.8

Q ss_pred             HhhcCCCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            9 LECKNTVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         9 l~~~~~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ++.-.....|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus        26 ~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   73 (90)
T 1a1h_A           26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFA   73 (90)
T ss_dssp             HHHHHCCCCEECTTTCCEESCHHHHHHHHHHHHCCCCEECTTTCCEES
T ss_pred             HHHhCCCCCccCCCCCcccCCHHHHHHHHHHcCCCCCccCCCCCchhC
Confidence            333334557999999999986655532   111224599999997764

>2yu8_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=89.23  E-value=0.16  Score=32.73  Aligned_cols=35  Identities=11%  Similarity=0.175  Sum_probs=24.4

Q ss_pred             CCCeeecCCCCccccHHHHHhhc---CCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRLV---SLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Ll---d~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..-   -...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2yu8_A            9 GEKPYKCNECGKVFTQNSHLARHRRVHTGGKPSGPSSG   46 (46)
T ss_dssp             CCSSEECSSSCCEESSSHHHHHHTHHHHSCCCSCSCCC
T ss_pred             CCCCeECCcCCchhCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            34579999999999976665431   112246999988

>1x6h_A Transcriptional repressor CTCF; zinc finger protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=89.15  E-value=0.29  Score=35.35  Aligned_cols=40  Identities=18%  Similarity=0.597  Sum_probs=28.0

Q ss_pred             CCCeeecCCCCccccHHHHHhh-c--CCCC----CCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL-V--SLED----DSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L-l--d~~~----~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+.. +  -...    ..|.|+.|+....
T Consensus        12 ~~k~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~C~~C~~~f~   58 (86)
T 1x6h_A           12 GEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFT   58 (86)
T ss_dssp             CCCCEECSSSSCEESSHHHHHHHHHHTTCSSCCCCCEECSSSCCEES
T ss_pred             CCCCCcCCCCCCccCCHHHHHHHHHHhcCCcCCCcceECCCCCChhC
Confidence            3457999999999987665532 1  1111    3599999998774

>2ytm_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=89.08  E-value=0.17  Score=32.83  Aligned_cols=35  Identities=9%  Similarity=0.184  Sum_probs=24.2

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C   46 (46)
T 2ytm_A            9 GEKPYKCMECGKAFGDNSSCTQHQRLHTGQRPSGPSSG   46 (46)
T ss_dssp             SCCSSSBTTTTBCCSSHHHHHHHHHHHHSCCCCCCCCC
T ss_pred             CCCCcCCCCCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666542   1111236999988

>2emh_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=89.04  E-value=0.18  Score=32.53  Aligned_cols=35  Identities=14%  Similarity=0.246  Sum_probs=24.4

Q ss_pred             CCCeeecCCCCccccHHHHHhhc---CCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRLV---SLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Ll---d~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..-   -...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~c   46 (46)
T 2emh_A            9 GERPYICTVCGKAFTDRSNLIKHQKIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECTTTCCEESSHHHHHHHHHHHHCSSCSSSCCC
T ss_pred             CCCCcCCCCCCchhCCHHHHHHHHHhcCCCCCCCCCCC
Confidence            34579999999999977666431   112236999988

>2ep3_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=88.81  E-value=0.42  Score=30.70  Aligned_cols=35  Identities=11%  Similarity=0.201  Sum_probs=24.1

Q ss_pred             CCCeeecCCCCccccHHHHHhh-c-CC-CCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL-V-SL-EDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L-l-d~-~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+.. + .. ..-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~~   46 (46)
T 2ep3_A            9 GEKPYRCAECGKAFTDRSNLFTHQKIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHTTTTTSCCCCTTCC
T ss_pred             CCCCeECCCCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997766643 1 11 2235899876

>2emp_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=88.72  E-value=0.2  Score=32.33  Aligned_cols=35  Identities=14%  Similarity=0.421  Sum_probs=24.3

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2emp_A            9 GVKPYMCNECGKAFSVYSSLTTHQVIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESCHHHHHHHHHHHHCCSCCSCCCC
T ss_pred             CCcCeECCCCCchhCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            3457999999999997666642   1112236999988

>2gqj_A Zinc finger protein KIAA1196; ZF-C2H2 like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=88.60  E-value=0.063  Score=41.08  Aligned_cols=41  Identities=24%  Similarity=0.611  Sum_probs=26.6

Q ss_pred             CCCCeeecCCCCcccc-HHHHHhh---cCCC-CCCeeccCCCcccc
Q 020131           13 NTVQEYICPNCQRRYN-ALDALRL---VSLE-DDSFHCENCNGELV   53 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT-~lDA~~L---ld~~-~~~F~C~~Cg~eL~   53 (330)
                      .....|.|+.|++.|. ....+..   +-.. ...|.|+.|+....
T Consensus        20 ~~~~~~~C~~C~k~f~~~~~~L~~H~~~h~~~~~~~~C~~C~k~F~   65 (98)
T 2gqj_A           20 HERGEAVCPTCNVVTRKTLVGLKKHMEVCQKLQDALKCQHCRKQFK   65 (98)
T ss_dssp             TTTSCCCCTTTCCCCSSCSHHHHHHHHHHHHHHHHHSCSSSCCCCS
T ss_pred             ccCCCcCCCCCCCChhhhHHHHHHHHHHHcCCCCCEECCCCCCccC
Confidence            3456799999999998 4333321   1000 12599999998764

>3j21_i 50S ribosomal protein L37AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=88.39  E-value=0.15  Score=40.02  Aligned_cols=29  Identities=21%  Similarity=0.778  Sum_probs=21.6

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      -|.||.|++.-     +.-  ...|.+.|..|+..+
T Consensus        35 ky~CpfCGk~~-----vkR--~a~GIW~C~kCg~~~   63 (83)
T 3j21_i           35 KHTCPVCGRKA-----VKR--ISTGIWQCQKCGATF   63 (83)
T ss_dssp             CBCCSSSCSSC-----EEE--EETTEEEETTTCCEE
T ss_pred             ccCCCCCCCce-----eEe--cCcCeEEcCCCCCEE
Confidence            59999999873     111  234789999999876

>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=87.90  E-value=0.47  Score=34.97  Aligned_cols=40  Identities=13%  Similarity=0.345  Sum_probs=28.2

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+..   .-.....|.|+.|+....
T Consensus         4 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   46 (95)
T 2yt9_A            4 GSSGVACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFK   46 (95)
T ss_dssp             CCSCEECSSSCCEESSSHHHHHHHHHSCSSCSEECSSSCCEES
T ss_pred             CCCCeECCCCCCccCChHHHHHHHHhcCCCCCCcCCCCCCccC
Confidence            4467999999999985554432   222234699999998774

>2dmd_A Zinc finger protein 64, isoforms 1 and 2; ZNF338, nuclear protein, DNA- binding, transcription, C2H2-type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=87.80  E-value=0.57  Score=34.57  Aligned_cols=40  Identities=15%  Similarity=0.424  Sum_probs=28.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+..   .-.....|.|+.|+....
T Consensus         5 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   47 (96)
T 2dmd_A            5 SSGPHKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAA   47 (96)
T ss_dssp             CCCCCCBTTTTBCCCCHHHHHHHGGGCCCCCSEECSSSCCEES
T ss_pred             CCcCeECCCCCCccCCHHHHHHHHHhcCCCCCEeCCCCCCccC
Confidence            3457999999999986665532   112234699999998774

>1q1a_A HST2 protein; ternary complex, histone deacetylase, 2'-O-ADP ribose,, gene regulation; HET: ALY OAD; 1.50A {Saccharomyces cerevisiae} SCOP: c.31.1.5 PDB: 1szd_A* 1szc_A* 2od7_A* 2od9_A* 2qqf_A* 2qqg_A* 1q17_A* 2od2_A*

Probab=87.69  E-value=0.31  Score=45.57  Aligned_cols=39  Identities=15%  Similarity=0.304  Sum_probs=28.0

Q ss_pred             eeecCCCCccccHHHHHhhcCC--CCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSL--EDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~--~~~~F~C~~Cg~eL~~~   55 (330)
                      ...|..|++.|...+....+..  ....-+|+.||+.|..+
T Consensus       136 ~~~C~~C~~~~~~~~~~~~~~~~~~~~~P~C~~Cgg~lrP~  176 (289)
T 1q1a_A          136 HCHCIGCGKVYPPQVFKSKLAEHPIKDFVKCDVCGELVKPA  176 (289)
T ss_dssp             EEEETTTCCEECHHHHHHHHTCSSCCSCCBCTTTCCBEEEE
T ss_pred             ceEECCCCCCCcHHHHHHHHhhccCCCCccCCCCCCEECCC
Confidence            4679999999998776654432  11235999999998654

>2ytt_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=87.60  E-value=0.16  Score=32.84  Aligned_cols=35  Identities=11%  Similarity=0.226  Sum_probs=24.2

Q ss_pred             CCCeeecCCCCccccHHHHHhhc-C--CCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRLV-S--LEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Ll-d--~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..- -  ...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   46 (46)
T 2ytt_A            9 GEKPYQCSECGKSFSGSYRLTQHWITHTREKPSGPSSG   46 (46)
T ss_dssp             CCCTTCCSSSCCCCSSHHHHHHHHTHHHHCCCCSCCCC
T ss_pred             CCCCeeCCCCCcccCCHHHHHHHHHHcCCCCCCCCCCC
Confidence            34569999999999976666431 1  11235999988

>1dxg_A Desulforedoxin; non-heme iron protein, rubredoxin type metal center, electron transport; 1.80A {Desulfovibrio gigas} SCOP: g.41.5.2 PDB: 1dcd_A 1dhg_A 1cfw_A 2lk5_A 2lk6_A

Probab=87.32  E-value=0.075  Score=35.05  Aligned_cols=31  Identities=23%  Similarity=0.570  Sum_probs=21.8

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      .++|+|+.||.....+      ..-.+.+.|  ||.+|.
T Consensus         4 ~~fY~C~~CGnivev~------~~g~~~l~C--CG~~M~   34 (36)
T 1dxg_A            4 GDVYKCELCGQVVKVL------EEGGGTLVC--CGEDMV   34 (36)
T ss_dssp             TCEEECTTTCCEEEEE------ECCSSCEEE--TTEECE
T ss_pred             ccEEEcCCCCcEEEEE------eCCCcCEEe--CCcccC
Confidence            4699999999877642      223357788  888775

>2em2_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=87.24  E-value=0.4  Score=30.91  Aligned_cols=35  Identities=9%  Similarity=0.197  Sum_probs=23.6

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ....|.|+.|++.|+....+..   +-...-.|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~~   46 (46)
T 2em2_A            9 GEKPFKCKECGKAFRQNIHLASHLRIHTGEKPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHHHHCCCCSSCSSCC
T ss_pred             CCCCEECCcCCchhCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            3457999999999997665542   1112235899876

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=87.20  E-value=0.52  Score=40.68  Aligned_cols=61  Identities=15%  Similarity=0.162  Sum_probs=45.4

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQI   97 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~L   97 (330)
                      -.||.|+..|..     .+.|....-.|+.|+.+|....+..                .+.++.++..+..+..||++..
T Consensus       124 ~~~~~~g~~~~~-----~~~pp~~~~~~~~~~~~l~~r~dd~----------------~~~~~~rl~~y~~~~~~l~~~~  182 (214)
T 1e4v_A          124 RVHAPSGRVYHV-----KFNPPKVEGKDDVTGEELTTRKDDQ----------------EETVRKRLVEYHQMTAPLIGYY  182 (214)
T ss_dssp             EEETTTTEEEET-----TTBCCSSTTBCTTTCCBCBCCTTCS----------------HHHHHHHHHHHHHHTTHHHHHH
T ss_pred             cccCCcCCcccc-----cCCCCCccccccccccccccCCCCC----------------HHHHHHHHHHHHHHHHHHHHHH
Confidence            359999999986     4566655668999999997654421                1345677788999999999988


Q ss_pred             Hh
Q 020131           98 NR   99 (330)
Q Consensus        98 k~   99 (330)
                      ++
T Consensus       183 ~~  184 (214)
T 1e4v_A          183 SK  184 (214)
T ss_dssp             HH
T ss_pred             Hh
Confidence            74

>2ghf_A ZHX1, zinc fingers and homeoboxes protein 1; C2H2 zinc fingers, 4-stranded parallel/anti-parallel beta- sheet, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=87.09  E-value=0.36  Score=38.26  Aligned_cols=44  Identities=25%  Similarity=0.397  Sum_probs=30.2

Q ss_pred             hcCCCCeeecCCCCccccHHHHHhh-c-C-C----CCCCeeccCCCccccc
Q 020131           11 CKNTVQEYICPNCQRRYNALDALRL-V-S-L----EDDSFHCENCNGELVA   54 (330)
Q Consensus        11 ~~~~~~~Y~CP~C~~~YT~lDA~~L-l-d-~----~~~~F~C~~Cg~eL~~   54 (330)
                      +.+....|.|+.|++.|+....+.. + . .    ..-.|.|+.||.....
T Consensus        12 ~~~gekpy~C~~Cgk~F~~~~~L~~H~r~~H~~~~~ekpf~C~~Cgk~F~~   62 (102)
T 2ghf_A           12 NKKVEGGYECKYCTFQTPDLNMFTFHVDSEHPNVVLNSSYVCVECNFLTKR   62 (102)
T ss_dssp             CCCCCSSEECSSCSCEESCHHHHHHHHHHHCSSCCCSCCEEETTTTEEESS
T ss_pred             cCCCCcCcCCCCCCCccCCHHHHHHHHHhhCCCCCCCCCcCCCCCCcccCC
Confidence            3455678999999999986555432 1 1 1    1236999999987743

>4a17_Y RPL37A, 60S ribosomal protein L32; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_Y 4a1c_Y 4a1e_Y

Probab=86.90  E-value=0.19  Score=40.89  Aligned_cols=29  Identities=24%  Similarity=0.618  Sum_probs=21.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .|.||.|++.-    +-+   ...|.+.|..|+..+
T Consensus        36 ky~CpfCgk~~----vKR---~a~GIW~C~kCg~~~   64 (103)
T 4a17_Y           36 KYGCPFCGKVA----VKR---AAVGIWKCKPCKKII   64 (103)
T ss_dssp             CEECTTTCCEE----EEE---EETTEEEETTTTEEE
T ss_pred             CCCCCCCCCce----eee---cCcceEEcCCCCCEE
Confidence            69999999763    111   124789999999776

>1llm_C Chimera of ZIF23-GCN4; dimerization, DNA recognition, leucine zipper, X-RAY crystallography, structure-based design, zinc fingers; 1.50A {Mus musculus} SCOP: g.37.1.1 g.37.1.1 PDB: 1xf7_A

Probab=86.38  E-value=0.33  Score=35.80  Aligned_cols=37  Identities=22%  Similarity=0.620  Sum_probs=25.8

Q ss_pred             eeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      .|.|+.|++.|+....+..   .-.....|.|+.|+....
T Consensus         3 ~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~~C~~C~k~f~   42 (88)
T 1llm_C            3 PFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFA   42 (88)
T ss_dssp             CEECTTTCCEESCHHHHHHHHHHHHCCCCEECTTTCCEES
T ss_pred             CCcCCCCCCccCCHHHHHHHHHHcCCCCCccCCCCCCccC
Confidence            5999999999986555432   111224699999998764

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=86.05  E-value=0.33  Score=42.52  Aligned_cols=60  Identities=18%  Similarity=0.273  Sum_probs=42.2

Q ss_pred             ecCC-CCccccHHHHHhhcCCCCCCe-eccCCCccccccchhhhhhcCCCCChhHHHHHHH-HHHHHHHHHHHhHHHHHH
Q 020131           19 ICPN-CQRRYNALDALRLVSLEDDSF-HCENCNGELVAESDKLAAQEGGDGDDNARRRRRE-KLKDLLQKLEVHLKPLME   95 (330)
Q Consensus        19 ~CP~-C~~~YT~lDA~~Lld~~~~~F-~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e-~~k~~l~r~n~QlkpI~~   95 (330)
                      .||. ||..|...     ++|....- .|+.||.+|+...++.                .+ .++.+|..|..++.||++
T Consensus       128 ~~~~~~g~~y~~~-----~~~p~~~~~~~~~~~~~l~~r~dd~----------------~e~~i~~rl~~~~~~~~p~~~  186 (223)
T 2xb4_A          128 ICKNNPNHPNNIF-----IDAIKPNGDVCRVCGGALSARADDQ----------------DEGAINKRHDIYYNTVDGTLA  186 (223)
T ss_dssp             EESSCTTSCCBTT-----CGGGCCBTTBCTTTCCBEECCGGGG----------------CHHHHHHHHHHHTCTTTSHHH
T ss_pred             CCccccCCccccc-----cCCCccccccccccccccccCCCCC----------------HHHHHHHHHHHHHHhHHHHHh
Confidence            5887 99999862     44433333 8999999998654321                13 456778889999988888


Q ss_pred             ---HHHh
Q 020131           96 ---QINR   99 (330)
Q Consensus        96 ---~Lk~   99 (330)
                         .+.+
T Consensus       187 ~~~~y~~  193 (223)
T 2xb4_A          187 AAYYYKN  193 (223)
T ss_dssp             HHHHHHT
T ss_pred             hHHHHhh
Confidence               7665

>2ee8_A Protein ODD-skipped-related 2; zinc binding, ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: k.12.1.1

Probab=85.82  E-value=0.51  Score=35.61  Aligned_cols=40  Identities=23%  Similarity=0.625  Sum_probs=28.3

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+..   .-.....|.|+.|+....
T Consensus        14 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   56 (106)
T 2ee8_A           14 TKKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFR   56 (106)
T ss_dssp             CCCCCBCSSSCCBCSSHHHHHHHHHHHCCSCCCBCSSSCCBCS
T ss_pred             CCcCeECCCCCCccCCHHHHHHHHHHcCCCCCcCCCCccchhC
Confidence            4567999999999986555532   112234699999998774

>1q14_A HST2 protein; histone deacetylase, hydrolase; 2.50A {Saccharomyces cerevisiae} SCOP: c.31.1.5

Probab=85.77  E-value=0.42  Score=46.47  Aligned_cols=39  Identities=15%  Similarity=0.330  Sum_probs=27.8

Q ss_pred             eeecCCCCccccHHHHHhhcCCC--CCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLE--DDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~--~~~F~C~~Cg~eL~~~   55 (330)
                      ...|..|++.|...+....+...  ...-+|+.||+.|..+
T Consensus       144 ~~~C~~C~~~~~~~~~~~~~~~~~~~~~P~Cp~Cgg~lrP~  184 (361)
T 1q14_A          144 HCHCIGCGKVYPPQVFKSKLAEHPIKDFVKCDVCGELVKPA  184 (361)
T ss_dssp             EEEETTTCCEECTHHHHHHTTSSSCSCCCBCTTTCCBEEEE
T ss_pred             ccCcCCCCccCcHHHHHHHHhhcccCCCCCCcCCCCEeCCC
Confidence            46799999999976665544331  1135999999998654

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=85.76  E-value=0.37  Score=37.09  Aligned_cols=40  Identities=18%  Similarity=0.522  Sum_probs=28.7

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+..   .-.....|.|+.|+....
T Consensus         4 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   46 (124)
T 2dlq_A            4 GSSGVECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYF   46 (124)
T ss_dssp             CCSSCCCTTTCCCCSSHHHHHHHHHHHSSCCSCBCTTTCCBCS
T ss_pred             CCCCCCCCCCCCcCCCHHHHHHHHHhCCCCCCeECCCCCchhc
Confidence            4567999999999986665542   112234699999998763

>3j21_g 50S ribosomal protein L40E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=85.66  E-value=0.4  Score=34.28  Aligned_cols=26  Identities=19%  Similarity=0.552  Sum_probs=21.2

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ..++||.|+++         +  .++...|..||...
T Consensus        13 ~k~iCpkC~a~---------~--~~gaw~CrKCG~~~   38 (51)
T 3j21_g           13 KKYVCLRCGAT---------N--PWGAKKCRKCGYKR   38 (51)
T ss_dssp             SEEECTTTCCE---------E--CTTCSSCSSSSSCC
T ss_pred             CCccCCCCCCc---------C--CCCceecCCCCCcc
Confidence            46999999998         1  23689999999884

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=85.65  E-value=1.3  Score=35.15  Aligned_cols=13  Identities=31%  Similarity=0.577  Sum_probs=10.7

Q ss_pred             CeeccCCCccccc
Q 020131           42 SFHCENCNGELVA   54 (330)
Q Consensus        42 ~F~C~~Cg~eL~~   54 (330)
                      +-.||.||.+|..
T Consensus        47 g~~CPvCgs~l~~   59 (112)
T 1l8d_A           47 KGKCPVCGRELTD   59 (112)
T ss_dssp             SEECTTTCCEECH
T ss_pred             CCCCCCCCCcCCH
Confidence            5689999999964

>2ctu_A Zinc finger protein 483; zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.63  E-value=0.056  Score=37.93  Aligned_cols=36  Identities=17%  Similarity=0.356  Sum_probs=26.9

Q ss_pred             CCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+..    ...|.|+.||....
T Consensus        15 ~~~~~~C~~C~k~f~~~~~l~~----~~~~~C~~C~~~f~   50 (73)
T 2ctu_A           15 GDRSQKCSKCGIIFIRRSTLSR----RKTPMCEKCRKDSC   50 (73)
T ss_dssp             CCSEEECSSSCCEEECCCCCCC----SSSCCCHHHHHTCS
T ss_pred             CCCCeeCCcccchhCCHHHhCc----CCCCCCCCCChhhc
Confidence            4467999999999986544443    34799999987653

>1f2i_G Fusion of N-terminal 17-MER peptide extension to ZIF12; zinc finger, dimer, protein-DNA complex, cooperativity, transcription/DNA complex; 2.35A {Mus musculus} SCOP: g.37.1.1 g.37.1.1

Probab=85.41  E-value=0.42  Score=33.70  Aligned_cols=39  Identities=28%  Similarity=0.778  Sum_probs=26.9

Q ss_pred             CCeeecC--CCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           15 VQEYICP--NCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP--~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      ...|.|+  .|++.|+....+..   .-.....|.|+.||....
T Consensus        17 ~~~~~C~~~~C~k~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   60 (73)
T 1f2i_G           17 MRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFS   60 (73)
T ss_dssp             CCCEECSSTTBCCEESSHHHHHHHHHHHHCCCCEECTTTCCEES
T ss_pred             CCccCCcCCCCCCccCCHHHHHHHHHhhCCCCCeECCCCCchhC
Confidence            4579998  69999986555532   111234699999998764

>2wbt_A B-129; zinc finger; 2.70A {Sulfolobus virus 1}

Probab=85.31  E-value=0.19  Score=39.62  Aligned_cols=38  Identities=18%  Similarity=0.567  Sum_probs=27.4

Q ss_pred             CCeeecCCCCccccHHHHHhh--cCCCCCCeeccCCCcccc
Q 020131           15 VQEYICPNCQRRYNALDALRL--VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L--ld~~~~~F~C~~Cg~eL~   53 (330)
                      ...|.|+.|++.|.....+..  ... ...|.|+.||....
T Consensus        72 ~~~~~C~~C~k~f~~~~~l~~H~~~H-~~~~~C~~C~k~f~  111 (129)
T 2wbt_A           72 ISQFVCPLCLMPFSSSVSLKQHIRYT-EHTKVCPVCKKEFT  111 (129)
T ss_dssp             HCSEECTTTCCEESSHHHHHHHHHHT-CCCCBCTTTCCBCS
T ss_pred             CCCeECCCCCcccCCHhHHHHHHHHC-CCCCCCCCCCcccC
Confidence            356999999999986655532  111 34699999998764

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=84.58  E-value=1.4  Score=38.61  Aligned_cols=61  Identities=21%  Similarity=0.328  Sum_probs=43.3

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhhhhcCCCCChhHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQEGGDGDDNARRRRREKLKDLLQKLEVHLKPLMEQI   97 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~~~e~~~g~~na~r~~~e~~k~~l~r~n~QlkpI~~~L   97 (330)
                      ..||.||..|..     .+.|....-.|..||.+|....+..                .+.++.++..|..+..||++..
T Consensus       144 ~~~~~~g~~y~~-----~~~pp~~~~~~~~~~~~l~~r~d~~----------------~~~~~~r~~~y~~~~~~~~~~y  202 (233)
T 1ak2_A          144 LIHPQSGRSYHE-----EFNPPKEPMKDDITGEPLIRRSDDN----------------KKALKIRLEAYHTQTTPLVEYY  202 (233)
T ss_dssp             EECTTTCCEEBT-----TTBCCSSTTBCTTTCCBCEECCCCC----------------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcCCccCCcccc-----ccCCCccccccccccccccCCCCCC----------------HHHHHHHHHHHHHHHHHHHHHH
Confidence            578999999985     3556555567999999886543311                1234566788888899998887


Q ss_pred             Hh
Q 020131           98 NR   99 (330)
Q Consensus        98 k~   99 (330)
                      ..
T Consensus       203 ~~  204 (233)
T 1ak2_A          203 SK  204 (233)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}

Probab=84.28  E-value=0.48  Score=45.30  Aligned_cols=35  Identities=17%  Similarity=0.364  Sum_probs=25.6

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...+||.|+..=+.    -.+|+..|...|..||..|.+
T Consensus        20 ~~~~Cp~Cg~~~~~----iv~D~~~G~~vC~~CG~Vl~e   54 (345)
T 3k7a_M           20 IVLTCPECKVYPPK----IVERFSEGDVVCALCGLVLSD   54 (345)
T ss_dssp             CCCCCSTTCCSCCC----CCCCSSSCSCCCSSSCCCCCC
T ss_pred             CCCcCcCCCCCCCc----eEEECCCCCEecCCCCeEccc
Confidence            35689999985110    134677899999999998863

>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82

Probab=84.26  E-value=0.54  Score=38.33  Aligned_cols=32  Identities=16%  Similarity=0.447  Sum_probs=23.9

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...|+|-.||..|        .+.....=+||.|+.+.+.
T Consensus        65 v~p~~C~~CG~~F--------~~~~~kPsrCP~CkSe~Ie   96 (105)
T 2gmg_A           65 IKPAQCRKCGFVF--------KAEINIPSRCPKCKSEWIE   96 (105)
T ss_dssp             ECCCBBTTTCCBC--------CCCSSCCSSCSSSCCCCBC
T ss_pred             EECcChhhCcCee--------cccCCCCCCCcCCCCCccC
Confidence            4579999999999        1222235799999998765

>2kmk_A Zinc finger protein GFI-1; tandem repeat zinc finger domain, protein-DNA complex, DNA-B metal-binding, nucleus; HET: DNA; NMR {Rattus norvegicus}

Probab=84.25  E-value=0.33  Score=34.59  Aligned_cols=37  Identities=14%  Similarity=0.541  Sum_probs=26.4

Q ss_pred             eeecCCCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131           17 EYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      .|.|+.|++.|.....+..   .-.....|.|+.|+....
T Consensus         1 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   40 (82)
T 2kmk_A            1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFH   40 (82)
T ss_dssp             CEECSSSCCEESSHHHHHHHHHHHHTCCCEECSSSCCEES
T ss_pred             CccCCCCcccccCchhHHHHHHHcCCCCCeeCCcCChhhC
Confidence            3899999999986655532   111234699999998774

>2dlk_A Novel protein; ZF-C2H2 domain, zinc finger protein 692, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=83.40  E-value=0.96  Score=32.09  Aligned_cols=19  Identities=26%  Similarity=0.784  Sum_probs=10.2

Q ss_pred             CCeeecCC--CCccccHHHHH
Q 020131           15 VQEYICPN--CQRRYNALDAL   33 (330)
Q Consensus        15 ~~~Y~CP~--C~~~YT~lDA~   33 (330)
                      ...|.|+.  |++.|+....+
T Consensus        36 ~~~~~C~~~~C~k~f~~~~~L   56 (79)
T 2dlk_A           36 QKSFSCPEPACGKSFNFKKHL   56 (79)
T ss_dssp             CCCEECSCTTTCCEESSHHHH
T ss_pred             CCCeECCCCCCcCccCCHHHH
Confidence            34566655  66666544433

>3o9x_A Uncharacterized HTH-type transcriptional regulato; HTH-XRE DNA binding motif, transcriptional regulator, bacter antitoxin, Zn binding protein, transcription regulator-DNA; HET: DNA; 2.10A {Escherichia coli} PDB: 3gn5_A* 3gn5_B* 2kz8_A

Probab=83.38  E-value=0.54  Score=38.00  Aligned_cols=14  Identities=14%  Similarity=0.669  Sum_probs=11.8

Q ss_pred             CeeccCCCcccccc
Q 020131           42 SFHCENCNGELVAE   55 (330)
Q Consensus        42 ~F~C~~Cg~eL~~~   55 (330)
                      .+.|+.||..+...
T Consensus        36 ~~~C~~CGE~~~d~   49 (133)
T 3o9x_A           36 GLYCVHCEESIMNK   49 (133)
T ss_dssp             EEEESSSSCEECCH
T ss_pred             eeECCCCCCEeecH
Confidence            68999999998653

>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: g.41.16.1 PDB: 2aqc_A

Probab=83.21  E-value=0.4  Score=35.36  Aligned_cols=25  Identities=28%  Similarity=0.647  Sum_probs=19.1

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .-+||+|+ .||.            .-.||.||+++.-
T Consensus         6 mr~C~~Cg-vYTL------------k~~CP~CG~~T~~   30 (60)
T 2apo_B            6 MKKCPKCG-LYTL------------KEICPKCGEKTVI   30 (60)
T ss_dssp             CEECTTTC-CEES------------SSBCSSSCSBCBC
T ss_pred             ceeCCCCC-CEec------------cccCcCCCCcCCC
Confidence            46899995 4665            4679999998853

>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8

Probab=82.99  E-value=0.53  Score=33.89  Aligned_cols=33  Identities=18%  Similarity=0.512  Sum_probs=22.7

Q ss_pred             CCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           13 NTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ..+..+.||.||..-       ++....+.|.|..||...
T Consensus        14 i~~~~~fCPkCG~~~-------~ma~~~dr~~C~kCgyt~   46 (55)
T 2k4x_A           14 LVRKHRFCPRCGPGV-------FLAEHADRYSCGRCGYTE   46 (55)
T ss_dssp             CCCSSCCCTTTTTTC-------CCEECSSEEECTTTCCCE
T ss_pred             EEEccccCcCCCCce-------eEeccCCEEECCCCCCEE
Confidence            345578999999844       112223489999999875

>1p7a_A BF3, BKLF, kruppel-like factor 3; classical zinc finger, transcription factor, DNA binding protein; NMR {Mus musculus} SCOP: g.37.1.1 PDB: 1u85_A 1u86_A

Probab=82.99  E-value=0.56  Score=28.40  Aligned_cols=21  Identities=29%  Similarity=0.872  Sum_probs=15.7

Q ss_pred             CCCeeecCCCCccccHHHHHh
Q 020131           14 TVQEYICPNCQRRYNALDALR   34 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~   34 (330)
                      ....|.|+.|++.|+....+.
T Consensus         8 ~~k~~~C~~C~k~f~~~~~l~   28 (37)
T 1p7a_A            8 GIKPFQCPDCDRSFSRSDHLA   28 (37)
T ss_dssp             CSSSBCCTTTCCCBSSHHHHH
T ss_pred             CCCCccCCCCCcccCcHHHHH
Confidence            345799999999998655443

>1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA-direct polymerase, primosome, late protein, ATP-binding; HET: DNA; 2.90A {Enterobacteria phage T7} SCOP: e.13.1.2 g.41.3.2

Probab=82.66  E-value=0.24  Score=44.87  Aligned_cols=32  Identities=25%  Similarity=0.438  Sum_probs=22.7

Q ss_pred             CCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcc
Q 020131           14 TVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGE   51 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~e   51 (330)
                      ......||.||.+    +++.++  .++.+.|.+||.-
T Consensus        11 ~~~~~~CP~Cg~~----d~~~~~--~dg~~~C~~Cg~~   42 (255)
T 1nui_A           11 FLYHIPCDNCGSS----DGNSLF--SDGHTFCYVCEKW   42 (255)
T ss_dssp             EEEEECCSSSCCS----SCEEEE--TTSCEEETTTCCE
T ss_pred             eecCCcCCCCCCC----CCceEe--CCCCeecccCCCc
Confidence            3446789999986    234443  2467999999975

>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA 6MA; 2.05A {Streptococcus pneumoniae}

Probab=82.19  E-value=0.32  Score=45.09  Aligned_cols=36  Identities=33%  Similarity=0.724  Sum_probs=22.9

Q ss_pred             eecCCCCcc-ccHHHHHhhcCCCCCCeeccCCCccccccch
Q 020131           18 YICPNCQRR-YNALDALRLVSLEDDSFHCENCNGELVAESD   57 (330)
Q Consensus        18 Y~CP~C~~~-YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~   57 (330)
                      ..||+||.. -+..++..=+    ..|.|+.|+.+.+--..
T Consensus        35 ~yCPnCG~~~l~~f~nN~PV----aDF~C~~C~EeyELKSk   71 (257)
T 4esj_A           35 SYCPNCGNNPLNHFENNRPV----ADFYCNHCSEEFELKSK   71 (257)
T ss_dssp             CCCTTTCCSSCEEC----CC----CEEECTTTCCEEEEEEE
T ss_pred             CcCCCCCChhhhhccCCCcc----cccccCCcchhheeccc
Confidence            459999995 4455555432    37999999988765433

>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.96  E-value=0.83  Score=31.85  Aligned_cols=39  Identities=18%  Similarity=0.406  Sum_probs=27.4

Q ss_pred             CCCeeecCCCCccccHHHHHhh---cCCCCCCeecc-CCCccccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL---VSLEDDSFHCE-NCNGELVA   54 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~-~Cg~eL~~   54 (330)
                      ....|.|+.|++.|+ ...+..   . ...-.|.|+ .||.....
T Consensus         7 ~~~~~~C~~C~k~f~-~~~L~~H~~~-~~~~p~~C~~~C~k~f~~   49 (66)
T 2eod_A            7 GKRTQPCTYCTKEFV-FDTIQSHQYQ-CPRLPVACPNQCGVGTVA   49 (66)
T ss_dssp             CCCEEECSSSCCEEE-HHHHHHHHHH-CSSSEEECTTCCSCCEEE
T ss_pred             CCCCeeccccCCccC-HHHHHHHHHH-cCCcCccCCcccCccccc
Confidence            345799999999998 444422   2 223469999 99987643

>1ma3_A SIR2-AF2, transcriptional regulatory protein, SIR2 family; enzyme-substrate complex, protein binding, transcription; HET: ALY MES; 2.00A {Archaeoglobus fulgidus} SCOP: c.31.1.5 PDB: 1s7g_A* 1yc2_A*

Probab=81.79  E-value=0.41  Score=43.91  Aligned_cols=37  Identities=14%  Similarity=0.389  Sum_probs=26.0

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCc-cccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNG-ELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~-eL~~   54 (330)
                      ...|..|+..|...++...+... ..-+|+.||+ .|..
T Consensus       123 ~~~C~~C~~~~~~~~~~~~~~~~-~~p~C~~Cgg~~lrP  160 (253)
T 1ma3_A          123 KLDCLDCHETYDWSEFVEDFNKG-EIPRCRKCGSYYVKP  160 (253)
T ss_dssp             EEEETTTCCEEEGGGTHHHHHTT-CCCCCTTTCCSCEEE
T ss_pred             eeeeCCCCCcCcHHHHHHHhccC-CCCCCCCCCCccccc
Confidence            46799999999876655433221 1358999999 7754

>2ent_A Krueppel-like factor 15; zinc binding, transcription factor, adipogenesis, CLCNKA, chloride channel Ka, rhodopsin, IRBP; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.69  E-value=1.6  Score=27.84  Aligned_cols=34  Identities=15%  Similarity=0.240  Sum_probs=23.7

Q ss_pred             CCeeecC--CCCccccHHHHHhh---cCCCCCCeeccCC
Q 020131           15 VQEYICP--NCQRRYNALDALRL---VSLEDDSFHCENC   48 (330)
Q Consensus        15 ~~~Y~CP--~C~~~YT~lDA~~L---ld~~~~~F~C~~C   48 (330)
                      ...|.|+  .|++.|+....+..   +-...-.|.|..|
T Consensus        10 ~k~~~C~~~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C   48 (48)
T 2ent_A           10 EKPFACTWPGCGWRFSRSDELSRHRRSHSGVKPSGPSSG   48 (48)
T ss_dssp             CCCEECCSSSCCCEESSHHHHHHHHTTSCCCCSCSSCCC
T ss_pred             CCCeECCCCCCCCccCCHHHHHHHHHHhCCCCCCCCCCC
Confidence            4579997  89999997666542   1122346999988

>3mjh_B Early endosome antigen 1; protein-zinc finger complex, beta BETA alpha fold, beta HAIR RAB5A GTPase, EEA1, protein transport; HET: GTP; 2.03A {Homo sapiens}

Probab=81.61  E-value=0.61  Score=30.63  Aligned_cols=19  Identities=32%  Similarity=0.891  Sum_probs=13.1

Q ss_pred             CCeeecCCCCccccHHHHH
Q 020131           15 VQEYICPNCQRRYNALDAL   33 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~   33 (330)
                      ..+|+||.|.+.++..+.+
T Consensus         3 ~EGFiCP~C~~~l~s~~~L   21 (34)
T 3mjh_B            3 SEGFICPQCMKSLGSADEL   21 (34)
T ss_dssp             SEEEECTTTCCEESSHHHH
T ss_pred             CcccCCcHHHHHcCCHHHH
Confidence            4578888888887755444

>2lt7_A Transcriptional regulator kaiso; zinc finger, double helix, metal binding protein-DNA complex; HET: DNA; NMR {Homo sapiens} PDB: 4f6m_A* 4f6n_A*

Probab=81.60  E-value=0.55  Score=38.43  Aligned_cols=39  Identities=28%  Similarity=0.595  Sum_probs=26.5

Q ss_pred             CCeeecCCCCccccHHHHHhh-cC--CCCCCeeccCCCcccc
Q 020131           15 VQEYICPNCQRRYNALDALRL-VS--LEDDSFHCENCNGELV   53 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~L-ld--~~~~~F~C~~Cg~eL~   53 (330)
                      ...|+|+.|++.|+....+.. +.  ...-.|.|+.||....
T Consensus        20 ek~y~C~~C~k~F~~~~~L~~H~~~H~~~k~~~C~~C~k~F~   61 (133)
T 2lt7_A           20 RVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFP   61 (133)
T ss_dssp             EEEEEETTTCCEESCHHHHHHHHHHHHCCSCEECSSSSCEES
T ss_pred             CcCeECCCCCCCcCCHHHHHHHHHHcCCCCCeeCCccCeecc
Confidence            346999999999986666542 11  1123599999997763

>1znf_A 31ST zinc finger from XFIN; zinc finger DNA binding domain; NMR {Xenopus laevis} SCOP: g.37.1.1

Probab=81.46  E-value=0.53  Score=26.20  Aligned_cols=17  Identities=35%  Similarity=0.741  Sum_probs=13.5

Q ss_pred             eecCCCCccccHHHHHh
Q 020131           18 YICPNCQRRYNALDALR   34 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~   34 (330)
                      |.|+.|++.|.....+.
T Consensus         2 ~~C~~C~k~f~~~~~l~   18 (27)
T 1znf_A            2 YKCGLCERSFVEKSALS   18 (27)
T ss_dssp             CBCSSSCCBCSSHHHHH
T ss_pred             ccCCCCCCcCCCHHHHH
Confidence            89999999998655543

>3flo_B DNA polymerase alpha catalytic subunit A; protein-protein complex, phosphoesterase fold, OB fold, zinc motif, DNA replication, nucleus; HET: DNA; 2.50A {Saccharomyces cerevisiae}

Probab=81.44  E-value=0.6  Score=42.11  Aligned_cols=38  Identities=18%  Similarity=0.542  Sum_probs=25.9

Q ss_pred             CCeeecCCCCccccHHHHHhhcC--CCCCCeeccCCCccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVS--LEDDSFHCENCNGEL   52 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld--~~~~~F~C~~Cg~eL   52 (330)
                      +=.+.||.|+..|.|--+....+  ....++.|+.|+..+
T Consensus        20 ~l~l~Cp~C~~~~~F~gv~~~~~~~~~~sg~~C~~C~~~~   59 (206)
T 3flo_B           20 TLELSCPSCDKRFPFGGIVSSNYYRVSYNGLQCKHCEQLF   59 (206)
T ss_dssp             CEEEECTTTCCEEEECSSSCCSSEEEETTEEEETTTCCBC
T ss_pred             eeEEECCCCCCccCCCCcccCCCcccccccccCCCCCCcC
Confidence            44689999999887654432211  122478999999987

>2wbs_A Krueppel-like factor 4; transcription-DNA complex, DNA-binding, transcription, metal-binding, DNA, protein, nucleus, activator; 1.70A {Mus musculus} PDB: 2wbu_A

Probab=81.39  E-value=1.1  Score=32.43  Aligned_cols=49  Identities=22%  Similarity=0.542  Sum_probs=29.2

Q ss_pred             HHHHHhhcCCCCeeecC--CCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            5 LKDELECKNTVQEYICP--NCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP--~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      |..-++.-.....|.|+  .|++.|.....+..   .-.....|.|+.|+....
T Consensus        23 l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   76 (89)
T 2wbs_A           23 LKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCDRAFS   76 (89)
T ss_dssp             HHHHHTTSCSSCCEECCSTTTCCEESSHHHHHHHHHHHHCCCCEECSSSSCEES
T ss_pred             HHHHHHhcCCCCCcCCCCCCCCCccCCHHHHHHHHHHcCCCCCccCCCCCcccC
Confidence            34444444455678887  58888876555432   111223588998887653

>2ebt_A Krueppel-like factor 5; C2H2-type zinc-finger, metal BIND, transcription factor, kruppel-like factor, GC-box promoter elements, structural genomics; NMR {Homo sapiens}

Probab=81.33  E-value=1.3  Score=32.73  Aligned_cols=49  Identities=27%  Similarity=0.550  Sum_probs=30.4

Q ss_pred             HHHHHhhcCCCCeeecC--CCCccccHHHHHhh---cCCCCCCeeccCCCcccc
Q 020131            5 LKDELECKNTVQEYICP--NCQRRYNALDALRL---VSLEDDSFHCENCNGELV   53 (330)
Q Consensus         5 Le~~l~~~~~~~~Y~CP--~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~   53 (330)
                      |..-++.-.....|.|+  .|++.|.....+..   .-.....|.|+.|+....
T Consensus        33 l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~   86 (100)
T 2ebt_A           33 LKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFS   86 (100)
T ss_dssp             HHHHHHHHSCCCCEECCSSSCCCEESSHHHHHHHHHHHTSCCSCBCSSSCCBCS
T ss_pred             HHHHHHHhCCCCCeeCCCCCCCCccCCHHHHHHHHHHhCCCCCeECCCCcCccC
Confidence            33444444455679997  69999986655532   111224699999998663

>2kvh_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}

Probab=80.76  E-value=0.56  Score=26.36  Aligned_cols=17  Identities=24%  Similarity=0.686  Sum_probs=13.6

Q ss_pred             eeecCCCCccccHHHHH
Q 020131           17 EYICPNCQRRYNALDAL   33 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~   33 (330)
                      .|.|+.|++.|.....+
T Consensus         3 ~~~C~~C~k~f~~~~~l   19 (27)
T 2kvh_A            3 PFSCSLCPQRSRDFSAM   19 (27)
T ss_dssp             CEECSSSSCEESSHHHH
T ss_pred             CccCCCcChhhCCHHHH
Confidence            59999999999865544

>1ffk_W Ribosomal protein L37AE; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1jj2_Y 1k73_1* 1k8a_1* 1k9m_1* 1kc8_1* 1kd1_1* 1kqs_Y* 1m1k_1* 1m90_1* 1n8r_1* 1nji_1* 1q7y_1* 1q81_1* 1q82_1* 1q86_1* 1qvf_Y 1qvg_Y 1w2b_Y 3cxc_Y*

Probab=80.60  E-value=0.48  Score=36.22  Aligned_cols=42  Identities=21%  Similarity=0.452  Sum_probs=25.7

Q ss_pred             hhHHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131            2 RKKLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus         2 rk~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      ||++++=+..  -+..|.||.|++.-    +.+.   ..|.+.|..|+..+
T Consensus        14 RK~vkkie~~--q~~ky~C~fCgk~~----vkR~---a~GIW~C~~C~~~~   55 (73)
T 1ffk_W           14 RVRVRDVEIK--HKKKYKCPVCGFPK----LKRA---STSIWVCGHCGYKI   55 (73)
T ss_pred             HHHHHHHHHh--cccCccCCCCCCce----eEEE---EeEEEECCCCCcEE
Confidence            4444443322  23579999999731    1111   24679999999775

>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic acid binding, KIAA1227 protein, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=80.59  E-value=0.3  Score=37.29  Aligned_cols=40  Identities=18%  Similarity=0.346  Sum_probs=27.2

Q ss_pred             CCCeeecCCCCccccHHHHHhh-cCCCCCCeeccCCCcccc
Q 020131           14 TVQEYICPNCQRRYNALDALRL-VSLEDDSFHCENCNGELV   53 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~L-ld~~~~~F~C~~Cg~eL~   53 (330)
                      ....|.|+.|++.|.....+.. +..-...|.|+.|+....
T Consensus        13 ~~~~~~C~~C~~~f~~~~~l~~H~~~H~~~~~C~~C~~~f~   53 (107)
T 1wjp_A           13 NKEVYQCRLCNAKLSSLLEQGSHERLCRNAAVCPYCSLRFF   53 (107)
T ss_dssp             CCCCCBCTTTCCBCSSHHHHHHHHHHHHHSBCCTTTCCCBS
T ss_pred             CCcCeECCCCCCccCCHHHHHHHHHHCCCCccCCCCCCccC
Confidence            4457999999999986555532 110123699999998774

>1x6h_A Transcriptional repressor CTCF; zinc finger protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=80.40  E-value=1.8  Score=30.90  Aligned_cols=35  Identities=14%  Similarity=0.424  Sum_probs=25.7

Q ss_pred             CeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCc
Q 020131           16 QEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNG   50 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~   50 (330)
                      ..|.|+.|++.|+....+..   +-.....|.|..|+.
T Consensus        46 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~   83 (86)
T 1x6h_A           46 AAFVCSKCGKTFTRRNTMARHADNCAGPDGVEGENSGP   83 (86)
T ss_dssp             CCEECSSSCCEESCHHHHHHHHHHCCCCCSCCCCCCCC
T ss_pred             cceECCCCCChhCCHHHHHHHHHHccCCCCcccCCCCC
Confidence            57999999999987666542   222345799999985

>2kvf_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}

Probab=80.36  E-value=0.58  Score=26.36  Aligned_cols=18  Identities=22%  Similarity=0.726  Sum_probs=14.2

Q ss_pred             eeecCCCCccccHHHHHh
Q 020131           17 EYICPNCQRRYNALDALR   34 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~   34 (330)
                      .|.|+.|++.|+....+.
T Consensus         3 ~~~C~~C~k~f~~~~~l~   20 (28)
T 2kvf_A            3 PYSCSVCGKRFSLKHQME   20 (28)
T ss_dssp             SEECSSSCCEESCHHHHH
T ss_pred             CccCCCCCcccCCHHHHH
Confidence            599999999998655443

>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae}

Probab=80.22  E-value=0.49  Score=42.19  Aligned_cols=36  Identities=17%  Similarity=0.413  Sum_probs=25.8

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ...+||.|+..=+.+    ..|+..|..+|..||..|.+.
T Consensus        20 ~~~~CPECGs~~t~I----V~D~erGE~VCsdCGLVLEEr   55 (197)
T 3k1f_M           20 IVLTCPECKVYPPKI----VERFSEGDVVCALCGLVLSDK   55 (197)
T ss_dssp             CCCCCTTTCCSSCCE----EEEGGGTEEEETTTCBBCCCC
T ss_pred             cCeECcCCCCcCCeE----EEeCCCCEEEEcCCCCCcCCc
Confidence            346899999831110    346677899999999999654

>2elx_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=80.18  E-value=0.76  Score=27.24  Aligned_cols=19  Identities=26%  Similarity=0.712  Sum_probs=14.3

Q ss_pred             CeeecCCCCccccHHHHHh
Q 020131           16 QEYICPNCQRRYNALDALR   34 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~   34 (330)
                      ..|.|+.|++.|+....+.
T Consensus         6 k~~~C~~C~k~f~~~~~L~   24 (35)
T 2elx_A            6 SGYVCALCLKKFVSSIRLR   24 (35)
T ss_dssp             CSEECSSSCCEESSHHHHH
T ss_pred             CCeECCCCcchhCCHHHHH
Confidence            4699999999998655543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	330
d1vd4a_	62	g.41.3.1 (A:) Transcription initiation factor TFII	2e-17

>d1vd4a_ g.41.3.1 (A:) Transcription initiation factor TFIIE-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 62

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIE-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.9 bits (179), Expect = 2e-17
 Identities = 10/60 (16%), Positives = 25/60 (41%)

Query: 4  KLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLAAQE 63
          +++ +         + CP C   +  L+A +L      +F C  C+ E+  +   +  ++
Sbjct: 1  RIETDERDSTNRASFKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTEVEEDESAMPKKD 60

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	330
d1vd4a_	62	Transcription initiation factor TFIIE-alpha {Human	99.7
d2ak3a2	37	Microbial and mitochondrial ADK, insert "zinc fing	97.61
d1akya2	38	Microbial and mitochondrial ADK, insert "zinc fing	97.09
d1zina2	35	Microbial and mitochondrial ADK, insert "zinc fing	97.07
d1e4va2	35	Microbial and mitochondrial ADK, insert "zinc fing	96.94
d1s3ga2	35	Microbial and mitochondrial ADK, insert "zinc fing	96.93
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	96.14
d1ak2a2	30	Microbial and mitochondrial ADK, insert "zinc fing	95.52
d6rxna_	45	Rubredoxin {Desulfovibrio desulfuricans, strain 27	95.15
d1s24a_	56	Two-iron rubredoxin {Pseudomonas oleovorans [TaxId	94.42
d1iroa_	53	Rubredoxin {Clostridium pasteurianum [TaxId: 1501]	94.39
d2dsxa1	52	Rubredoxin {Desulfovibrio gigas [TaxId: 879]}	93.92
d1dx8a_	70	Rubredoxin {Guillardia theta [TaxId: 55529]}	93.91
d1brfa_	53	Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2	93.88
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	93.67
d1dl6a_	58	Transcription initiation factor TFIIB, N-terminal	92.66
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	92.26
d1pfta_	50	Transcription initiation factor TFIIB, N-terminal	92.17
d1y0jb1	36	U-shaped transcription factor, different fingers {	91.7
d2csha1	53	Zinc finger protein 297b {Human (Homo sapiens) [Ta	87.18
d1jj2y_	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	86.17
d1lkoa2	44	Rubrerythrin, C-terminal domain {Desulfovibrio vul	85.67
d2adra1	29	ADR1 {Synthetic, based on Saccharomyces cerevisiae	85.51
d1vqoz1	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	84.93
d1a1ia2	28	ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}	84.8
d1sp1a_	29	Transcription factor sp1 {Human (Homo sapiens) [Ta	83.92
d2apob1	55	Ribosome biogenesis protein Nop10 {Archaeon Methan	83.01
d1yc5a1	245	NAD-dependent deacetylase NpdA {Thermotoga maritim	82.35
d1srka_	35	Zinc finger protein ZFPM1 (FOG-1) {Mouse (Mus musc	82.29
d1p7aa_	37	Kruppel-like factor 3, Bklf {Mouse (Mus musculus)	82.28
d1x6ea2	26	Zinc finger protein 24 {Human (Homo sapiens) [TaxI	81.82
d2cota2	38	Zinc finger and SCAN domain-containing protein 16,	81.73
d2ey4e1	52	Ribosome biogenesis protein Nop10 {Archaeon Pyroco	81.29
d2ct1a2	36	Transcriptional repressor CTCF {Human (Homo sapien	81.12
d1x6ha1	37	Transcriptional repressor CTCF {Human (Homo sapien	80.03

>d1vd4a_ g.41.3.1 (A:) Transcription initiation factor TFIIE-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIE-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=4.3e-19  Score=131.36  Aligned_cols=57  Identities=18%  Similarity=0.504  Sum_probs=54.2

Q ss_pred             HHHHHHhhcCCCCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccchhhh
Q 020131            4 KLKDELECKNTVQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESDKLA   60 (330)
Q Consensus         4 ~Le~~l~~~~~~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~~~~   60 (330)
                      ||+.++++.+++++|+||+|+++||.|||.+||||.++.|+|.+|+++|+++.++++
T Consensus         1 kie~~~rd~~~~~~y~Cp~C~~~ys~Lda~~L~d~~~~~F~C~~C~~el~eD~s~~~   57 (62)
T d1vd4a_           1 RIETDERDSTNRASFKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTEVEEDESAMP   57 (62)
T ss_dssp             CCCCCSSSCCSSSEEECSSSCCEEEHHHHHHHEETTTTEEBCSSSCCBCEECTTCSC
T ss_pred             CcchhhhccccCCceECCCCCCCcchhhHHHhcCcCCCeEEecCCCCEEecCCcccc
Confidence            578899999999999999999999999999999999999999999999999888766

>d2ak3a2 g.41.2.1 (A:125-161) Microbial and mitochondrial ADK, insert "zinc finger" domain {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.61  E-value=1e-05  Score=53.09  Aligned_cols=35  Identities=20%  Similarity=0.171  Sum_probs=31.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      .++||.||+.|..     ++.|..-..+|+.||++|+...
T Consensus         2 R~vc~~cG~~Yh~-----~~~pPk~~g~CD~cg~~L~qR~   36 (37)
T d2ak3a2           2 RWIHPGSGRVYNI-----EFNPPKTMGIDDLTGEPLVQRE   36 (37)
T ss_dssp             EEEETTTTEEEET-----TTBCCSSTTBCTTTCCBCBCCG
T ss_pred             ceeeCCcCChhhh-----ccCCccccCCccCCCCcCEecC
Confidence            5899999999997     7888888999999999998754

>d1akya2 g.41.2.1 (A:131-168) Microbial and mitochondrial ADK, insert "zinc finger" domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.09  E-value=0.0001  Score=48.42  Aligned_cols=36  Identities=22%  Similarity=0.375  Sum_probs=31.0

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccccch
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAESD   57 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~~~   57 (330)
                      .++||.||+.|..     ++.|..-.-+|..||++|+...+
T Consensus         2 Rr~C~~cG~~Yh~-----~~~ppk~~g~CD~cg~~L~qR~D   37 (38)
T d1akya2           2 RLIHPASGRSYHK-----IFNPPKEDMKDDVTGEALVQRSD   37 (38)
T ss_dssp             EEECTTTCCEEET-----TTBCCSSTTBCTTTCCBCBCCTT
T ss_pred             ccCCcCccchhhh-----hccCcCcCCccCCCCCEeeecCC
Confidence            3789999999987     78887778899999999987654

>d1zina2 g.41.2.1 (A:126-160) Microbial and mitochondrial ADK, insert "zinc finger" domain {Bacillus stearothermophilus [TaxId: 1422]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.07  E-value=9.6e-05  Score=47.68  Aligned_cols=33  Identities=30%  Similarity=0.683  Sum_probs=29.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .++||.||+.|..     .+.|..-..+|+.||++|+.
T Consensus         2 Rr~C~~CG~~Yh~-----~~~pPk~~g~CD~cG~~L~q   34 (35)
T d1zina2           2 RRICRNCGATYHL-----IFHPPAKPGVCDKCGGELYQ   34 (35)
T ss_dssp             EEEETTTCCEEET-----TTBCCSSTTBCTTTCCBEEC
T ss_pred             ccCCcCcCchhcc-----ccCCCCCCCcCCCCCCCccc
Confidence            3789999999987     67888888999999999975

>d1e4va2 g.41.2.1 (A:122-156) Microbial and mitochondrial ADK, insert "zinc finger" domain {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00014  Score=46.89  Aligned_cols=32  Identities=13%  Similarity=0.046  Sum_probs=28.8

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .+||.||+.|..     .+.|..-.-+|+.||++|+.
T Consensus         3 r~c~~cG~~Yh~-----~~~PPk~~g~CD~cg~~L~q   34 (35)
T d1e4va2           3 RVHAPSGRVYHV-----KFNPPKVEGKDDVTGEELTT   34 (35)
T ss_dssp             EEETTTTEEEET-----TTBCCSSTTBCTTTCCBCBC
T ss_pred             cCCcCcCChhhh-----ccCccccCCcccCCCCEeec
Confidence            689999999987     78888888899999999975

>d1s3ga2 g.41.2.1 (A:126-160) Microbial and mitochondrial ADK, insert "zinc finger" domain {Bacillus globisporus [TaxId: 1459]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Bacillus globisporus [TaxId: 1459]

Probab=96.93  E-value=0.00014  Score=46.87  Aligned_cols=33  Identities=27%  Similarity=0.507  Sum_probs=29.2

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .++||.||+.|..     ++.|..-.-+|+.||++|+.
T Consensus         2 R~~C~~CG~~Yh~-----~~~pPk~~g~CD~cg~~L~q   34 (35)
T d1s3ga2           2 RRICKVCGTSYHL-----LFNPPQVEGKCDKDGGELYQ   34 (35)
T ss_dssp             EEEETTTCCEEET-----TTBCCSBTTBCTTTCCBEEC
T ss_pred             ccCCcCcCchhcc-----ccCCCCCCCccCCCCCCcee
Confidence            3789999999987     78888888999999999975

>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: PhnA zinc-binding domain
domain: Hypothetical protein PA0128, N-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=96.14  E-value=0.00068  Score=44.28  Aligned_cols=29  Identities=28%  Similarity=0.691  Sum_probs=23.8

Q ss_pred             ecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           19 ICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        19 ~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .||.|+..||..|        ...|+||.|++++...
T Consensus         5 ~CP~C~seytYed--------g~l~vCPeC~hEW~~~   33 (38)
T d2akla2           5 PCPQCNSEYTYED--------GALLVCPECAHEWSPN   33 (38)
T ss_dssp             CCTTTCCCCCEEC--------SSSEEETTTTEEECTT
T ss_pred             cCCCCCCcceEcC--------CCEEECCcccCcCCcc
Confidence            5999999999732        3569999999999654

>d1ak2a2 g.41.2.1 (A:147-176) Microbial and mitochondrial ADK, insert "zinc finger" domain {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.52  E-value=0.0026  Score=39.47  Aligned_cols=29  Identities=14%  Similarity=0.276  Sum_probs=26.2

Q ss_pred             CCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           21 PNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        21 P~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      |.||+.|..     .++|..-.-+|+.||++|++
T Consensus         1 P~sG~~Yhv-----~f~PPk~~g~cD~cg~~L~q   29 (30)
T d1ak2a2           1 PQSGRSYHE-----EFNPPKEPMKDDITGEPLIR   29 (30)
T ss_dssp             TTTCCEEBT-----TTBCCSSTTBCTTTCCBCEE
T ss_pred             CCCCCCccc-----cccCCCCCCccCCCCCCccc
Confidence            789999987     78898889999999999975

>d6rxna_ g.41.5.1 (A:) Rubredoxin {Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]

Probab=95.15  E-value=0.0032  Score=42.43  Aligned_cols=38  Identities=18%  Similarity=0.440  Sum_probs=26.0

Q ss_pred             eeecCCCCccccHHHHHh-hcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALR-LVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~-Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .|+|..|+..|...+-.. -|+-....|+||.||.+-..
T Consensus         3 ~y~C~~CgyiYd~~~Gdgt~Fe~LP~dw~CP~C~a~K~~   41 (45)
T d6rxna_           3 KYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQ   41 (45)
T ss_dssp             CEEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCBGGG
T ss_pred             CeEeCCCCeEECcccCCCCCHHHCCCCCCCcCCCCcHHH
Confidence            599999999997654221 12222347999999987543

>d1s24a_ g.41.5.1 (A:) Two-iron rubredoxin {Pseudomonas oleovorans [TaxId: 301]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Two-iron rubredoxin
species: Pseudomonas oleovorans [TaxId: 301]

Probab=94.42  E-value=0.0032  Score=44.30  Aligned_cols=40  Identities=18%  Similarity=0.365  Sum_probs=26.3

Q ss_pred             CeeecCCCCccccHHHHH--------hhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDAL--------RLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~--------~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      +-|+|+.||..|....-.        -.|.-....|+||.||..-..+
T Consensus         3 kky~C~~CgyiYdp~~Gd~~~gi~pGT~F~~LP~dw~CP~C~a~K~~F   50 (56)
T d1s24a_           3 LKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKEDY   50 (56)
T ss_dssp             CEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCCGGGE
T ss_pred             ccEECCCCCcEECcccCCcccCcCCCCChhhCCCCCCCcCCCCcHHHc
Confidence            469999999999754311        1122123579999999875443

>d1iroa_ g.41.5.1 (A:) Rubredoxin {Clostridium pasteurianum [TaxId: 1501]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Clostridium pasteurianum [TaxId: 1501]

Probab=94.39  E-value=0.0055  Score=42.59  Aligned_cols=38  Identities=26%  Similarity=0.407  Sum_probs=25.8

Q ss_pred             eeecCCCCccccHHHH--HhhcCC------CCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDA--LRLVSL------EDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA--~~Lld~------~~~~F~C~~Cg~eL~~   54 (330)
                      .|+|+.||..|....-  ..-+.|      ....|+||.||..-..
T Consensus         3 ky~C~~CgyiYd~~~Gd~~~gi~pGT~F~~LP~dw~CP~C~a~K~~   48 (53)
T d1iroa_           3 KYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQ   48 (53)
T ss_dssp             CEEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGG
T ss_pred             CeEcCCCCcEECcccCCcccCCCCCCCHHHCCCCCCCcCCCCcHHH
Confidence            5999999999975431  111221      2357999999987544

>d2dsxa1 g.41.5.1 (A:1-52) Rubredoxin {Desulfovibrio gigas [TaxId: 879]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio gigas [TaxId: 879]

Probab=93.92  E-value=0.0079  Score=41.64  Aligned_cols=39  Identities=21%  Similarity=0.396  Sum_probs=26.3

Q ss_pred             eeecCCCCccccHHHHH--h------hcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDAL--R------LVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~--~------Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      .|+|+.||..|....-.  .      .|+-....|+||.||..-..+
T Consensus         3 ~y~C~~CgyiYdp~~Gd~~~gi~pGT~F~~LP~~w~CP~C~a~K~~F   49 (52)
T d2dsxa1           3 IYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAF   49 (52)
T ss_dssp             CEEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGE
T ss_pred             eEEeCCCCeEECcccCCcccCCCCCCCHHHCCCCCCCcCCCCcHHHh
Confidence            69999999999754311  1      122223589999999875443

>d1dx8a_ g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId: 55529]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Guillardia theta [TaxId: 55529]

Probab=93.91  E-value=0.0072  Score=44.28  Aligned_cols=44  Identities=20%  Similarity=0.285  Sum_probs=29.1

Q ss_pred             CCCCeeecCCCCccccHHHHH--h------hcCCCCCCeeccCCCccccccc
Q 020131           13 NTVQEYICPNCQRRYNALDAL--R------LVSLEDDSFHCENCNGELVAES   56 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~--~------Lld~~~~~F~C~~Cg~eL~~~~   56 (330)
                      .+...|+|+.|+..|....-.  .      .|.-....|+||.|+..-..+.
T Consensus         3 ~~~~ky~C~~CgyiYDp~~GD~~~gI~pGT~F~dLP~dW~CP~Cga~K~~F~   54 (70)
T d1dx8a_           3 IDEGKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFK   54 (70)
T ss_dssp             CCSSCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCBGGGEE
T ss_pred             ccCCeEEcCCCCeEECcccCCcccCCCCCCChHHCCCCCCCcCCCCcHHHhe
Confidence            345679999999999754311  1      1221245899999998765544

>d1brfa_ g.41.5.1 (A:) Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.88  E-value=0.0068  Score=42.14  Aligned_cols=38  Identities=16%  Similarity=0.361  Sum_probs=25.3

Q ss_pred             eeecCCCCccccHHHHH--h------hcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDAL--R------LVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~--~------Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      .|+|+.||..|....-.  .      .|+-....|+||.||..-..
T Consensus         2 ky~C~~CgyiYd~~~Gd~~~gi~pGT~f~dLP~dw~CP~C~a~K~~   47 (53)
T d1brfa_           2 KWVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSE   47 (53)
T ss_dssp             EEEETTTCCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGG
T ss_pred             ceECCCCCcEECcccCCcccCCCCCCCHHHCCCCCCCcCCCCcHHH
Confidence            59999999999754311  1      11212357999999987543

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=93.67  E-value=0.006  Score=39.24  Aligned_cols=30  Identities=17%  Similarity=0.268  Sum_probs=22.6

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...|+|+.||..+.- ++         .-.||.||.+-..
T Consensus         3 ~~~~vC~vCGyi~~g-~~---------Pe~CPvCg~~~~~   32 (36)
T d1yuza2           3 DKFHLCPICGYIHKG-ED---------FEKCPICFRPKDT   32 (36)
T ss_dssp             CCEEECSSSCCEEES-SC---------CSBCTTTCCBGGG
T ss_pred             CCEEECCCCCCEeeC-CC---------CCcCCCCCCcHHH
Confidence            468999999999863 21         3479999987543

>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIB, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.66  E-value=0.018  Score=40.54  Aligned_cols=34  Identities=15%  Similarity=0.322  Sum_probs=26.7

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ...+||.|+..=      -++|...|...|..||..|.+.
T Consensus        10 ~~~~Cp~Cgs~~------ii~D~~~Ge~vC~~CG~Vlee~   43 (58)
T d1dl6a_          10 PRVTCPNHPDAI------LVEDYRAGDMICPECGLVVGDR   43 (58)
T ss_dssp             SCCSBTTBSSSC------CEECSSSCCEECTTTCCEECCS
T ss_pred             cccCCCCCCCCC------EEEECCCCcEecccCCCEeccc
Confidence            457999999762      1357788999999999998543

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=92.26  E-value=0.012  Score=37.91  Aligned_cols=30  Identities=23%  Similarity=0.466  Sum_probs=22.4

Q ss_pred             CCeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           15 VQEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      ...|+|+.||..|.- +   .      .-.||.||.+=..
T Consensus         3 ~~~~~C~vCG~i~~g-~---~------P~~CPvCg~~~~~   32 (37)
T d1nnqa2           3 KKVYICPICGYTAVD-E---A------PEYCPVCGAPKEK   32 (37)
T ss_dssp             SCEEECTTTCCEEES-C---C------CSBCTTTCCBGGG
T ss_pred             CcEEECCCCCCEecC-C---C------CCcCCCCCCcHHH
Confidence            357999999999874 1   1      2479999987543

>d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIB, N-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=92.17  E-value=0.027  Score=38.31  Aligned_cols=33  Identities=18%  Similarity=0.522  Sum_probs=25.9

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..+||.|+...      -..|...|...|..||..|.+.
T Consensus         5 ~~~Cp~Cgs~~------iv~D~~~Ge~vC~~CG~Viee~   37 (50)
T d1pfta_           5 QKVCPACESAE------LIYDPERGEIVCAKCGYVIEEN   37 (50)
T ss_dssp             CCSCTTTSCCC------EEEETTTTEEEESSSCCBCCCC
T ss_pred             cccCcCCCCCc------EEEECCCCeEecccCCcEeccc
Confidence            56899999763      1456778999999999988553

>d1y0jb1 g.37.1.2 (B:1-36) U-shaped transcription factor, different fingers {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: C2HC finger
domain: U-shaped transcription factor, different fingers
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=91.70  E-value=0.044  Score=34.21  Aligned_cols=21  Identities=19%  Similarity=0.570  Sum_probs=16.2

Q ss_pred             CCeeecCCCCcccc---HHHHHhh
Q 020131           15 VQEYICPNCQRRYN---ALDALRL   35 (330)
Q Consensus        15 ~~~Y~CP~C~~~YT---~lDA~~L   35 (330)
                      +..|+|+.||.+|+   .|||-+.
T Consensus         6 parf~c~pcgirfss~stleahqt   29 (36)
T d1y0jb1           6 PARFMCLPCGIAFSSPSTLEAHQA   29 (36)
T ss_dssp             CCCCBCTTTCCBCSCHHHHHHHTT
T ss_pred             ccceeccccceeecChhHHHhhhh
Confidence            56799999999998   4555543

>d2csha1 g.37.1.1 (A:8-60) Zinc finger protein 297b {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 297b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.18  E-value=0.17  Score=33.65  Aligned_cols=38  Identities=16%  Similarity=0.456  Sum_probs=27.1

Q ss_pred             CeeecCCCCccccHHHHHhh---cCCCCCCeeccCCCccccc
Q 020131           16 QEYICPNCQRRYNALDALRL---VSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~L---ld~~~~~F~C~~Cg~eL~~   54 (330)
                      ..|.| .||+.|+....+..   +=...-.|.|..||.-...
T Consensus         2 K~y~C-~Cgk~F~~~~~l~~H~~~Ht~ekpy~C~~C~k~F~~   42 (53)
T d2csha1           2 KLYPC-QCGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKM   42 (53)
T ss_dssp             CCEEC-TTSCEESSHHHHHHHHHHHSCCCSEECTTTSCEESS
T ss_pred             cCCCC-CCCCeECCHHHhHHHhhccccccCCcCCCcCCEecC
Confidence            36999 59999997776653   1122346999999987754

>d1jj2y_ g.41.8.1 (Y:) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=86.17  E-value=0.061  Score=39.42  Aligned_cols=30  Identities=20%  Similarity=0.522  Sum_probs=21.1

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-|.||.|++.---    +   -..|.+.|..|+..+
T Consensus        26 ~ky~Cp~Cgk~~vk----R---~a~GIW~C~kC~~~~   55 (73)
T d1jj2y_          26 KKHKCPVCGFKKLK----R---AGTGIWMCGHCGYKI   55 (73)
T ss_dssp             SCBCCSSSCCSCEE----E---EETTEEEETTTCCEE
T ss_pred             CCccCCCCCCCceE----E---EEEEEEECCCCCCEE
Confidence            36999999974211    1   123679999999776

>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=85.67  E-value=0.043  Score=36.57  Aligned_cols=31  Identities=19%  Similarity=0.349  Sum_probs=23.5

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ..|+|.+||..|.-.+|         .-.||.|+.+-..+
T Consensus         7 ~~W~C~~CGyi~~g~~a---------P~~CPvC~~p~~~F   37 (44)
T d1lkoa2           7 TKWRCRNCGYVHEGTGA---------PELCPACAHPKAHF   37 (44)
T ss_dssp             EEEEETTTCCEEEEEEC---------CSBCTTTCCBGGGE
T ss_pred             eEEEcCCCCcEEECCCC---------CCcCCCCCCcHHHH
Confidence            47999999999975333         23899999876544

>d2adra1 g.37.1.1 (A:102-130) ADR1 {Synthetic, based on Saccharomyces cerevisiae sequence}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ADR1
species: Synthetic, based on Saccharomyces cerevisiae sequence

Probab=85.51  E-value=0.13  Score=30.89  Aligned_cols=18  Identities=22%  Similarity=0.814  Sum_probs=14.7

Q ss_pred             eeecCCCCccccHHHHHh
Q 020131           17 EYICPNCQRRYNALDALR   34 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~   34 (330)
                      .|.|+.|++.|+...-+.
T Consensus         2 p~~C~~C~k~F~~~~~L~   19 (29)
T d2adra1           2 SFVCEVCTRAFARQEHLK   19 (29)
T ss_dssp             CBCCTTTCCCBSCHHHHH
T ss_pred             cCCCCCCCCCCCCchHcc
Confidence            599999999999766553

>d1vqoz1 g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=84.93  E-value=0.075  Score=38.94  Aligned_cols=30  Identities=23%  Similarity=0.617  Sum_probs=21.3

Q ss_pred             CeeecCCCCccccHHHHHhhcCCCCCCeeccCCCccc
Q 020131           16 QEYICPNCQRRYNALDALRLVSLEDDSFHCENCNGEL   52 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL   52 (330)
                      .-|.||.|++.--    -+.   ..|.+.|..|+..+
T Consensus        26 ~ky~Cp~Cgk~~v----kR~---a~GIW~C~kC~~~~   55 (73)
T d1vqoz1          26 EDHACPNCGEDRV----DRQ---GTGIWQCSYCDYKF   55 (73)
T ss_dssp             SCBCCSSSSCSCE----EEE---ETTEEEETTTCCEE
T ss_pred             CCccCCCCCCcee----EEE---EEEEEECCCCCCEE
Confidence            3699999997521    111   24789999999776

>d1a1ia2 g.37.1.1 (A:132-159) ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZIF268
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.80  E-value=0.16  Score=30.40  Aligned_cols=18  Identities=28%  Similarity=0.717  Sum_probs=14.3

Q ss_pred             CeeecCCCCccccHHHHH
Q 020131           16 QEYICPNCQRRYNALDAL   33 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA~   33 (330)
                      ..|+|+.|++.|+...-+
T Consensus         2 KPy~C~~C~k~F~~~~~L   19 (28)
T d1a1ia2           2 KPFQCRICMRNFSRSDHL   19 (28)
T ss_dssp             CCEECTTTCCEESCHHHH
T ss_pred             cCccCCCCcCEecccccc
Confidence            369999999999865544

>d1sp1a_ g.37.1.1 (A:) Transcription factor sp1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcription factor sp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.92  E-value=0.16  Score=30.59  Aligned_cols=16  Identities=31%  Similarity=1.005  Sum_probs=12.5

Q ss_pred             eeecCCCCccccHHHH
Q 020131           17 EYICPNCQRRYNALDA   32 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA   32 (330)
                      .|.|+.|++.|+...-
T Consensus         2 py~C~~C~k~F~~~s~   17 (29)
T d1sp1a_           2 KFACPECPKRFMRSDH   17 (29)
T ss_dssp             CSCCTTTTCCCSCSHH
T ss_pred             CEECCcCCCeecchHH
Confidence            5899999999985443

>d2apob1 g.41.16.1 (B:403-457) Ribosome biogenesis protein Nop10 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Nop10-like SnoRNP
family: Nucleolar RNA-binding protein Nop10-like
domain: Ribosome biogenesis protein Nop10
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=83.01  E-value=0.2  Score=34.64  Aligned_cols=25  Identities=28%  Similarity=0.647  Sum_probs=19.7

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      --+|+.|+. ||.            .=.||.||+....
T Consensus         4 lrkC~~C~~-YTL------------~~~CP~CG~~t~~   28 (55)
T d2apob1           4 MKKCPKCGL-YTL------------KEICPKCGEKTVI   28 (55)
T ss_dssp             CEECTTTCC-EES------------SSBCSSSCSBCBC
T ss_pred             eeeCCcccc-eec------------cccCcCCCCccCc
Confidence            357999997 765            5689999988753

>d1yc5a1 c.31.1.5 (A:1-245) NAD-dependent deacetylase NpdA {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Sir2 family of transcriptional regulators
domain: NAD-dependent deacetylase NpdA
species: Thermotoga maritima [TaxId: 2336]

Probab=82.35  E-value=0.39  Score=41.38  Aligned_cols=38  Identities=26%  Similarity=0.724  Sum_probs=30.3

Q ss_pred             eeecCCCCccccHHHHHhhcCCCCCCeeccCCCcccccc
Q 020131           17 EYICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVAE   55 (330)
Q Consensus        17 ~Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~~   55 (330)
                      ...|..|+++|...+....+... ....|+.||+.|..+
T Consensus       121 ~~~C~~c~~~~~~~~~~~~~~~~-~~p~c~~Cgg~lrP~  158 (245)
T d1yc5a1         121 EYYCVRCEKKYTVEDVIKKLESS-DVPLCDDCNSLIRPN  158 (245)
T ss_dssp             EEEETTTCCEEEHHHHHHHTTTC-SSCBCTTTCCBEEEE
T ss_pred             eeeecccCCCccHHHHhhhhhcc-cCCCccccCCcccCc
Confidence            56899999999988887765543 467999999998654

>d1srka_ g.37.1.1 (A:) Zinc finger protein ZFPM1 (FOG-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein ZFPM1 (FOG-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.29  E-value=0.25  Score=30.95  Aligned_cols=21  Identities=10%  Similarity=0.417  Sum_probs=15.8

Q ss_pred             CCCCeeecCCCCccccHHHHH
Q 020131           13 NTVQEYICPNCQRRYNALDAL   33 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~   33 (330)
                      +....|.|+.|++.|+...-+
T Consensus         3 TGekPy~C~~C~k~F~~~~~L   23 (35)
T d1srka_           3 SGKRPFVCRICLSAFTTKANC   23 (35)
T ss_dssp             SCCSCEECSSSCCEESSHHHH
T ss_pred             CCCccccCCCCCCcccChHHH
Confidence            345679999999999865444

>d1p7aa_ g.37.1.1 (A:) Kruppel-like factor 3, Bklf {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Kruppel-like factor 3, Bklf
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.28  E-value=0.28  Score=30.79  Aligned_cols=22  Identities=27%  Similarity=0.840  Sum_probs=16.9

Q ss_pred             CCCCeeecCCCCccccHHHHHh
Q 020131           13 NTVQEYICPNCQRRYNALDALR   34 (330)
Q Consensus        13 ~~~~~Y~CP~C~~~YT~lDA~~   34 (330)
                      +....|.|+.|++.|+...-+.
T Consensus         7 TgeKPy~C~~C~k~F~~~~~L~   28 (37)
T d1p7aa_           7 TGIKPFQCPDCDRSFSRSDHLA   28 (37)
T ss_dssp             CCSSSBCCTTTCCCBSSHHHHH
T ss_pred             CCccCeEeCCCCCEecCHHHHH
Confidence            4456899999999999765543

>d1x6ea2 g.37.1.1 (A:41-66) Zinc finger protein 24 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 24
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.82  E-value=0.23  Score=29.35  Aligned_cols=13  Identities=23%  Similarity=0.863  Sum_probs=10.4

Q ss_pred             eeecCCCCccccH
Q 020131           17 EYICPNCQRRYNA   29 (330)
Q Consensus        17 ~Y~CP~C~~~YT~   29 (330)
                      .|.|+.||+.|+.
T Consensus         2 Py~C~eCgK~F~~   14 (26)
T d1x6ea2           2 PYKCLECGKAFSQ   14 (26)
T ss_dssp             CEECSSSCCEESS
T ss_pred             CccCCCCcCeecc
Confidence            5888888888874

>d2cota2 g.37.1.1 (A:7-44) Zinc finger and SCAN domain-containing protein 16, ZSCAN16 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger and SCAN domain-containing protein 16, ZSCAN16
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.73  E-value=0.27  Score=31.03  Aligned_cols=20  Identities=20%  Similarity=0.625  Sum_probs=15.7

Q ss_pred             CCCeeecCCCCccccHHHHH
Q 020131           14 TVQEYICPNCQRRYNALDAL   33 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~   33 (330)
                      ....|.|+.|++.|+....+
T Consensus         9 ~ekpy~C~~CgK~F~~~s~L   28 (38)
T d2cota2           9 ERRRYKCDECGKSFSHSSDL   28 (38)
T ss_dssp             CSCSSBCSSSCCBCSCHHHH
T ss_pred             CCCCEecCCCCceeeCHHHH
Confidence            45679999999999865544

>d2ey4e1 g.41.16.1 (E:4-55) Ribosome biogenesis protein Nop10 {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Nop10-like SnoRNP
family: Nucleolar RNA-binding protein Nop10-like
domain: Ribosome biogenesis protein Nop10
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=81.29  E-value=0.24  Score=33.89  Aligned_cols=24  Identities=29%  Similarity=0.704  Sum_probs=18.6

Q ss_pred             eecCCCCccccHHHHHhhcCCCCCCeeccCCCccccc
Q 020131           18 YICPNCQRRYNALDALRLVSLEDDSFHCENCNGELVA   54 (330)
Q Consensus        18 Y~CP~C~~~YT~lDA~~Lld~~~~~F~C~~Cg~eL~~   54 (330)
                      -+|+.|+. ||.            .=.||.||+....
T Consensus         3 rkC~~C~~-YTL------------~~~CP~CG~~t~~   26 (52)
T d2ey4e1           3 RKCPKCGR-YTL------------KEVCPVCGEKTKV   26 (52)
T ss_dssp             EECTTTCC-EES------------SSBCTTTCCBCEE
T ss_pred             ccCCcccc-eec------------cccCcCCCCcccc
Confidence            37999997 664            4679999987753

>d2ct1a2 g.37.1.1 (A:8-43) Transcriptional repressor CTCF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcriptional repressor CTCF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.12  E-value=0.31  Score=30.52  Aligned_cols=21  Identities=19%  Similarity=0.556  Sum_probs=15.9

Q ss_pred             CCCeeecCCCCccccHHHHHh
Q 020131           14 TVQEYICPNCQRRYNALDALR   34 (330)
Q Consensus        14 ~~~~Y~CP~C~~~YT~lDA~~   34 (330)
                      .-..|+|+.|++.|+.-.-+.
T Consensus         5 gekP~~C~~C~k~F~~~~~L~   25 (36)
T d2ct1a2           5 GEKPYECYICHARFTQSGTMK   25 (36)
T ss_dssp             CCCSEECTTTCCEESCHHHHH
T ss_pred             CCCCEeCCCCcccccchHHHH
Confidence            345799999999998765543

>d1x6ha1 g.37.1.1 (A:44-80) Transcriptional repressor CTCF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcriptional repressor CTCF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.03  E-value=0.29  Score=30.56  Aligned_cols=17  Identities=12%  Similarity=0.770  Sum_probs=12.8

Q ss_pred             CeeecCCCCccccHHHH
Q 020131           16 QEYICPNCQRRYNALDA   32 (330)
Q Consensus        16 ~~Y~CP~C~~~YT~lDA   32 (330)
                      ..|+|..|+++||---.
T Consensus         3 ~afvcskcgktftrrnt   19 (37)
T d1x6ha1           3 AAFVCSKCGKTFTRRNT   19 (37)
T ss_dssp             CCEECSSSCCEESCHHH
T ss_pred             ceeeecccccchhcchH
Confidence            46899999999985433