RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8120
(463 letters)
>2c6y_A Forkhead box protein K2; transcription regulation, DNA-binding
domain, forkhead transcription factors, interleukin
enhancer binding factor; 2.4A {Homo sapiens} SCOP:
a.4.5.14 PDB: 1jxs_A 2a3s_A 2d2w_A
Length = 111
Score = 178 bits (454), Expect = 3e-55
Identities = 43/110 (39%), Positives = 56/110 (50%)
Query: 273 SSPISSPSSTTTDSNKPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYFEKNKKGW 332
+S +KPPYSY LI AI K+ TL IY +I +PY+ KGW
Sbjct: 1 ASMTGGQQMGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGW 60
Query: 333 QNSIRHNLSLNDCFVKVAKEGAGERKGNYWTLATKHEDMFENGNYRRRRR 382
QNSIRHNLSLN F+KV + KG++W + E +R+RR
Sbjct: 61 QNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRP 110
>1vtn_C HNF-3/FORK head DNA-recognition motif; protein-DNA complex, double
helix, transcription-DNA complex; HET: DNA; 2.50A {Homo
sapiens} PDB: 1d5v_A
Length = 102
Score = 176 bits (448), Expect = 2e-54
Identities = 52/95 (54%), Positives = 66/95 (69%)
Query: 288 KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFV 347
KPPYSY++LI MAI K TL+EIY +I FPY+ +N++ WQNSIRH+LS NDCFV
Sbjct: 3 KPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFV 62
Query: 348 KVAKEGAGERKGNYWTLATKHEDMFENGNYRRRRR 382
KVA+ KG+YW L +MFENG Y RR++
Sbjct: 63 KVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQK 97
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus
norvegicus} SCOP: a.4.5.14
Length = 109
Score = 175 bits (445), Expect = 5e-54
Identities = 57/107 (53%), Positives = 75/107 (70%), Gaps = 1/107 (0%)
Query: 288 KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFV 347
KPPYSY+ALI MAI + K+ TL+ I +I+ +FPY+ + WQNSIRHNLSLNDCFV
Sbjct: 3 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 348 KVAKEGAGERKGNYWTLATKHEDMFENGNY-RRRRRMKRPVRTPSYN 393
K+ +E KGNYWTL + EDMF+NG++ RRR+R KR ++
Sbjct: 63 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKRFKRLQHHHHHH 109
>2hdc_A Protein (transcription factor); structure, dyanamics, genesis,
winged helix protein, protein/DNA complex; HET: DNA; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 97
Score = 174 bits (443), Expect = 7e-54
Identities = 54/95 (56%), Positives = 70/95 (73%)
Query: 288 KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFV 347
KPPYSY+ALI MAI + K+ TL+ I +I+ +FPY+ + WQNSIRHNLSLNDCFV
Sbjct: 2 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 348 KVAKEGAGERKGNYWTLATKHEDMFENGNYRRRRR 382
K+ +E KGNYWTL + EDMF+NG++ RRR+
Sbjct: 62 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRK 96
>1kq8_A HFH-1, hepatocyte nuclear factor 3 forkhead homolog 1, winged;
winged helix protein, structure, transcription; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 100
Score = 169 bits (430), Expect = 6e-52
Identities = 52/96 (54%), Positives = 64/96 (66%), Gaps = 1/96 (1%)
Query: 288 KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFV 347
KPPYSY+ALI MAI ++ R TLAEI Y+ KFP+F + GW+NS+RHNLSLNDCFV
Sbjct: 2 KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 348 KVAKE-GAGERKGNYWTLATKHEDMFENGNYRRRRR 382
KV ++ K NYW L E F +G +RRRR
Sbjct: 62 KVLRDPSRPWGKDNYWMLNPNSEYTFADGVFRRRRY 97
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 152 bits (386), Expect = 5e-45
Identities = 45/136 (33%), Positives = 64/136 (47%), Gaps = 4/136 (2%)
Query: 273 SSPISSPSSTTTDSNKPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYF-EKNKKG 331
S S + S +PPYSY+A+I AIN+ E KR TL +IY +I FPYF K G
Sbjct: 3 GPSRPSASWQNSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPG 62
Query: 332 WQNSIRHNLSLNDCFVKVAKEGAGERKGNYWTLATKHEDMFENGNYRRRRRMKRPVRTPS 391
W+NSIRHNLSL+D FV+ K ++WT+ + P
Sbjct: 63 WKNSIRHNLSLHDMFVRETSANG---KVSFWTIHPSANRYLTLDQVFKPLDPGSPQLPEH 119
Query: 392 YNAKPYLGDMYAHQNL 407
++ + +N+
Sbjct: 120 LESQQKRPNPELRRNM 135
>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer,
monomer, winged-helix, magnesium, transcription/DNA
complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB: 2as5_F
2kiu_A 3qrf_F
Length = 93
Score = 143 bits (363), Expect = 4e-42
Identities = 36/104 (34%), Positives = 58/104 (55%), Gaps = 14/104 (13%)
Query: 288 KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFV 347
+PP++Y LI AI + ++ TL EIY++ F YF +N W+N++RHNLSL+ CFV
Sbjct: 3 RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62
Query: 348 KVAKEGAGERKGNYWTLATKHEDMFENGNYRRRRRMKRPVRTPS 391
+V KG WT+ E + ++RR ++ +P+
Sbjct: 63 RVEN-----VKGAVWTV---DEVEY------QKRRSQKITGSPT 92
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 143 bits (363), Expect = 2e-41
Identities = 45/138 (32%), Positives = 65/138 (47%), Gaps = 11/138 (7%)
Query: 251 SSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSN-KPPYSYVALIAMAINNNEHKRA 309
SS S S ++ ++ P + N SY LI+ AI + KR
Sbjct: 2 SSHHHHHHSSGLVPRGSHMLEDPGAVTGPRKGGSRRNAWGNQSYAELISQAIESAPEKRL 61
Query: 310 TLAEIYNYIAVKFPYF-----EKNKKGWQNSIRHNLSLNDCFVKVAKEGAGERKGNYWTL 364
TLA+IY ++ PYF + GW+NSIRHNLSL+ F+KV E G K ++W L
Sbjct: 62 TLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATG--KSSWWML 119
Query: 365 ATKHEDMFENGNYRRRRR 382
+ + ++G RRR
Sbjct: 120 ---NPEGGKSGKAPRRRA 134
>3coa_C Forkhead box protein O1; winged helix, forkhead domain, chromosomal
rearrangement; HET: DNA; 2.20A {Homo sapiens} PDB:
3co7_C* 2k86_A 2uzk_A
Length = 117
Score = 137 bits (346), Expect = 2e-39
Identities = 41/110 (37%), Positives = 61/110 (55%), Gaps = 10/110 (9%)
Query: 278 SPSSTTTDSNKPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYF-----EKNKKGW 332
S SS++ + SY LI AI ++ KR TL++IY ++ PYF + GW
Sbjct: 1 SKSSSSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGW 60
Query: 333 QNSIRHNLSLNDCFVKVAKEGAGERKGNYWTLATKHEDMFENGNYRRRRR 382
+NSIRHNLSL+ F++V EG G K ++W L + + ++G RRR
Sbjct: 61 KNSIRHNLSLHSKFIRVQNEGTG--KSSWWML---NPEGGKSGKSPRRRA 105
>3bpy_A FORK head domain, forkhead transcription factor FOXO4, DNA binding
domain; forkhead BOX, winged helix; 1.87A {Homo sapiens}
SCOP: a.4.5.14
Length = 85
Score = 134 bits (340), Expect = 7e-39
Identities = 35/82 (42%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 288 KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYF-----EKNKKGWQNSIRHNLSL 342
SY LI+ AI + KR TLA+IY ++ PYF + GW+NSIRHNLSL
Sbjct: 5 WGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSL 64
Query: 343 NDCFVKVAKEGAGERKGNYWTL 364
+ F+KV E G K ++W L
Sbjct: 65 HSKFIKVHNEATG--KSSWWML 84
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 131 bits (331), Expect = 3e-37
Identities = 37/97 (38%), Positives = 51/97 (52%), Gaps = 8/97 (8%)
Query: 274 SPISSPSSTTTDSN-KPPYSYVALIAMAINNNEHKRATLAEIYNYIAVKFPYF-----EK 327
++ P + N SY LI+ AI + KR TLA+IY ++ PYF
Sbjct: 9 GAVTGPRKGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSN 68
Query: 328 NKKGWQNSIRHNLSLNDCFVKVAKEGAGERKGNYWTL 364
+ GW+NSIRHNLSL+ F+KV E G K ++W L
Sbjct: 69 SSAGWKNSIRHNLSLHSKFIKVHNEATG--KSSWWML 103
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 49.7 bits (118), Expect = 2e-06
Identities = 81/534 (15%), Positives = 142/534 (26%), Gaps = 212/534 (39%)
Query: 8 ISLRNNNDYSHLPPSLSDAPGEHFTTLEALAPSPSHYR-ETLYEDDSHRYKEHNRY--ED 64
S R P +LS EH L L P+ S + L E + E D
Sbjct: 4 YSTR--------PLTLSHGSLEH--VL--LVPTASFFIASQLQEQFNKILPEPTEGFAAD 51
Query: 65 N----------RYLEH---QVQDISHDRYIEYVE------EQSDIKYNDISHA------- 98
+ ++L + V+ ++ + + E ++ NDI HA
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI-HALAAKLLQ 110
Query: 99 --DISRHDRLDISSQYLDHDFDSREVTSGESRSKPET---FHSKDDP---------GYGS 144
D + ++ Y +R + K F + + G G+
Sbjct: 111 ENDTTLVKTKELIKNY----ITARIMA-KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGN 165
Query: 145 V---------IYETMTVPLTG---EEGGETF------TVSYNVYNTK-------LNGDVS 179
+Y+T L G + ET T+ T+ L +
Sbjct: 166 TDDYFEELRDLYQTYH-VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 180 QPS-DILRQA-----------FA-------DLDITP----DQSAGRT-------TSVIIS 209
P D L A L TP G T T+V I+
Sbjct: 225 TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIA 284
Query: 210 NSPEPK--------------------QQ----------ILGENSNVQNKKPDP------- 232
+ + + IL ++ P P
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 233 ----------QENQTTPRNKKTKVSQKNSSSQ------PSS------------SSPPPDE 264
+ N P K+ ++S N + P S + D+
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 265 S----SSTSIKVSS---PISSP--SSTTTDSNKPPYSYVALIAMAINNNEHKRATLAEIY 315
S S +K S+ P++SP S ++ + ++ N + +
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD-----IQ--- 456
Query: 316 NYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFVKVAKEGAGERKGNYWTLATKHE 369
I V + + + SI + DC + R W T+ +
Sbjct: 457 --IPVYDTFDGSDLRVLSGSISE--RIVDCII---------RLPVKWETTTQFK 497
Score = 36.6 bits (84), Expect = 0.022
Identities = 33/242 (13%), Positives = 64/242 (26%), Gaps = 85/242 (35%)
Query: 256 SSSSPPPDESSSTSIKVSSPISSPSS-----TTTDSNKPPYSYVALIAMAIN-------- 302
+ P P E + + ++P ++ + ++ + +
Sbjct: 38 NKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97
Query: 303 -NNEH---------KRATLAEIYNYIAVKFPYFEKNKKGWQNSIRHNLSLNDCFVKVAKE 352
N+ H TL + I Y + + + S + E
Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKELIKN---YITARIMAKRPFDKKSNSA---LFRAVGE 151
Query: 353 GA--------GERKGN---YWT-LATKHE-------DMFENGNYRRRRRMKRPVRTPSYN 393
G G+ GN Y+ L ++ D+ + + +RT +
Sbjct: 152 GNAQLVAIFGGQ--GNTDDYFEELRDLYQTYHVLVGDLIK----FSAETLSELIRTTL-D 204
Query: 394 AKPYLGDMYAHQNLIGRDIFSATASPFSSRNTW-SGPS--PNNVYYPSCVRALPPTSPYS 450
A+ + G +I W PS P+ Y S P S
Sbjct: 205 AEKV----FTQ----GLNILE-----------WLENPSNTPDKDYLLSI--------PIS 237
Query: 451 FP 452
P
Sbjct: 238 CP 239
Score = 33.1 bits (75), Expect = 0.22
Identities = 35/225 (15%), Positives = 67/225 (29%), Gaps = 84/225 (37%)
Query: 1 MKLKHTQISLRNNNDYSHLPP------SLSDAPGEHFTTLEALAPSPSHYRETLYEDDSH 54
+ + Q + N SHLP SL + ++ ++ P ++LY
Sbjct: 344 LTQEQVQDYVNKTN--SHLPAGKQVEISLVNGA-KNLV----VSGPP----QSLYG---- 388
Query: 55 RYKEHNRYEDNRYLEHQVQDISHDRYIEYVEEQSDIKYNDISHADISRHDRLDISSQYLD 114
L ++ ++ QS I +++ R +L S+++L
Sbjct: 389 -------------LNLTLRKAKAPSGLD----QSRIPFSE-------R--KLKFSNRFL- 421
Query: 115 HDFDSREVTSGESRSKPETFHSKDDPGYGSVIYETMTVPLTGE---EGGETFTVSY---N 168
V S P FHS L + + +F
Sbjct: 422 ------PVAS------P--FHSH---------LLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 169 VYNTKLNGDVSQPSDILRQAFADLDIT------PDQSAGRTTSVI 207
VY+T D+ S + + D I + + T ++
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDC-IIRLPVKWETTTQFKATHIL 502
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.5 bits (99), Expect = 3e-04
Identities = 61/435 (14%), Positives = 119/435 (27%), Gaps = 117/435 (26%)
Query: 77 HDRYIEYVEEQSDIKYNDISH-------ADISRHDRLD-----ISSQYLDHDFDSREVTS 124
H ++++ + +Y DI + D D +S + +DH S++ S
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS 62
Query: 125 GESR------SKPET-----FHSKDDPGYGSVIYETMTVPLTGEEGGETFTVSYNVYNTK 173
G R SK E Y + + T Y +
Sbjct: 63 GTLRLFWTLLSKQEEMVQKFVEEVLRINYK-FLMSPIKTEQRQPSMM---TRMYIEQRDR 118
Query: 174 LNGDVS----------QPSDILRQAFADLDITPDQS--------AGRTTSVIISNSPEPK 215
L D QP LRQA +L P ++ +G+T +
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELR--PAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 216 QQILGENS---NVQNKKPDPQENQTTPRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKV 272
Q + N++N E K N +S+ SS S ++
Sbjct: 177 QCKMDFKIFWLNLKNCNSP--ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 273 SSPISSPSSTTTDSNKPPYSYVALIAMAINNNEHKRA------TL-----AEIYNYIAV- 320
+ S PY L+ + + N + A L ++ ++++
Sbjct: 235 RRLLKS----------KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284
Query: 321 --KFPYFEKNKKGWQNSIRHNLSLNDCFVKVAKEGAGE-----RKGN------YWTLATK 367
+ + + SL +K + N
Sbjct: 285 TTTHISLDHHSMTL--TPDEVKSL---LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339
Query: 368 HEDMFENGNYRRRRRMKRPVRTPSYNA-KPY-LGDMYAHQNLIGRDIFSATASPFSSRNT 425
++N + ++ + + S N +P M+ L +F
Sbjct: 340 GLATWDNWKHVNCDKLTTIIES-SLNVLEPAEYRKMF--DRLS---VF------------ 381
Query: 426 WSGPSPNNVYYPSCV 440
P + + P+ +
Sbjct: 382 -----PPSAHIPTIL 391
Score = 33.3 bits (75), Expect = 0.18
Identities = 54/410 (13%), Positives = 110/410 (26%), Gaps = 119/410 (29%)
Query: 13 NNDYSHLPPSLSDAPGEHFTTLEALAPSPSHYRETLYEDDSHRYKEHNRYE------DNR 66
+ P+ + +H + + ++ + R + YE N
Sbjct: 203 QKLLYQIDPNWTSRS-DH-------SSNIKLRIHSIQAELR-RLLKSKPYENCLLVLLN- 252
Query: 67 YLEHQVQDISH----D---------RYIEYVEEQSDIKYNDISHADIS----RHDRLDIS 109
VQ+ + R+ + + S IS S + +
Sbjct: 253 -----VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307
Query: 110 SQYLDHDFDS--REVTS---------GES-RSKPETFHSKDDPGYGSVIYETMTVPLTGE 157
+YLD REV + ES R T+ + V + +T
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD-----NWKHVNCDKLT------ 356
Query: 158 EGGETFTVSYNVYNTKLNGDVSQPSDILRQAFADLDITPDQSAGRTTSVIISNSPEPKQQ 217
S NV R+ F L + P S I P
Sbjct: 357 ---TIIESSLNV----------LEPAEYRKMFDRLSVFPP-------SAHI---PTILLS 393
Query: 218 ILGENSNVQNKKPDPQENQTTPRNKK--TKVSQKNSSSQPS---SSSPPPDESSSTSIKV 272
++ + D K ++++ S PS + + +
Sbjct: 394 LIWFDVIKS----DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI 449
Query: 273 SSPISSPSSTTTDSNKPP------YSYVA--LIAMAINNNEHKRATLAEIY-NYIAVKFP 323
+ P + +D PP YS++ L + + + ++ ++
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI---EHPERMTLFRMVFLDF------ 500
Query: 324 YFEKNKKGWQNSIRHNLSLNDCFVKVAKEGAGERKGNYWTLATKHEDMFE 373
F + K IRH+ + + + + Y ++ +E
Sbjct: 501 RFLEQK------IRHDSTAWNASGSILNTLQQLKF--YKPYICDNDPKYE 542
>1s99_A YKOF; thiamin-binding protein, ACT-domain family, ligand binding
protein; 1.65A {Bacillus subtilis} SCOP: d.58.48.2 PDB:
1sbr_A* 1s7h_A
Length = 200
Score = 32.3 bits (73), Expect = 0.18
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 9/84 (10%)
Query: 138 DDPGYGSVIYETMTVPLTGEEGGETFTVSYNVYNTKLNGDVSQPSDILRQAFADLDITPD 197
++P Y +I E + + + G TF + Y ++L+GD L F +
Sbjct: 125 NEPDYMGLIMEAVDI---AKAQG-TFVQGVH-YASELDGDAHDVFSTLEAVF---RMAEQ 176
Query: 198 QSAGRTTSVIIS-NSPEPKQQILG 220
Q+ T +V +S NSP K + G
Sbjct: 177 QTNHITMTVNLSANSPSRKNRKQG 200
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.8 bits (71), Expect = 0.25
Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 27/48 (56%)
Query: 264 ESSSTSIKVSSPISSPSSTTTDSNKPPYSYVALIAMAINNNEHKRATL 311
++S +K+ + S+P A+AI AT+
Sbjct: 26 QAS---LKLYADDSAP------------------ALAIK------ATM 46
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 31.2 bits (70), Expect = 0.79
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 1/61 (1%)
Query: 232 PQENQTTPRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPY 291
P + T+P T S +S S +SP +S S +SP SP+S P Y
Sbjct: 1610 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPS-YSPTSPSYSPTSPSYSPTSPAYSPTSPSY 1668
Query: 292 S 292
S
Sbjct: 1669 S 1669
Score = 30.1 bits (67), Expect = 2.1
Identities = 14/49 (28%), Positives = 18/49 (36%)
Query: 244 TKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPYS 292
T + S + +S VSSP SP+S T P YS
Sbjct: 1509 TAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYS 1557
Score = 29.7 bits (66), Expect = 3.1
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 232 PQENQTTPRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPY 291
P + T+P T S +S S +SP +S + +SP SP+S + P Y
Sbjct: 1652 PSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSY-SPTSPNYSPTSPSYSPTSPGY 1710
Query: 292 S 292
S
Sbjct: 1711 S 1711
Score = 27.8 bits (61), Expect = 9.3
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 250 NSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPYS 292
+ +S S + P +S S +SP SP+S + P YS
Sbjct: 1634 SPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYS 1676
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 30.7 bits (69), Expect = 1.2
Identities = 11/81 (13%), Positives = 26/81 (32%)
Query: 237 TTPRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPYSYVAL 296
T+P + + ++ P++ +PP ++ T P + T + VA
Sbjct: 6 TSPGTPGVAAATQAANGGPATPAPPALGAAPTGDPKPKKNKKPKNPTPPRPAGDNATVAA 65
Query: 297 IAMAINNNEHKRATLAEIYNY 317
+ + N+
Sbjct: 66 GHATLREHLRDIKAENTDANF 86
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 30.0 bits (67), Expect = 2.0
Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 6/67 (8%)
Query: 232 PQENQTTPRNKKTKVSQKNSSSQPSSSSPPPDESS------STSIKVSSPISSPSSTTTD 285
P + T+P T S +S S +SP +S S S +SP SP+S +
Sbjct: 1604 PSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1663
Query: 286 SNKPPYS 292
P YS
Sbjct: 1664 PTSPSYS 1670
Score = 29.3 bits (65), Expect = 3.3
Identities = 21/62 (33%), Positives = 28/62 (45%), Gaps = 3/62 (4%)
Query: 232 PQENQTTPRNKKTKVSQKNSSSQPSSSSPPPDES-SSTSIKVSSPISSPSSTTTDSNKPP 290
P + T+P T S S + PS S P S +S S +SP SP+S + P
Sbjct: 1597 PSYSPTSPSYSAT--SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1654
Query: 291 YS 292
YS
Sbjct: 1655 YS 1656
Score = 28.9 bits (64), Expect = 4.9
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 231 DPQENQTTPRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPP 290
P + T+P T S +S S +SP ++S S +SP SP+S + P
Sbjct: 1575 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY-SATSPSYSPTSPSYSPTSPSYSPTSPS 1633
Query: 291 YS 292
YS
Sbjct: 1634 YS 1635
Score = 28.5 bits (63), Expect = 5.9
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 6/68 (8%)
Query: 231 DPQENQTTPRNKKTKVSQKNSSSQPSSSSP------PPDESSSTSIKVSSPISSPSSTTT 284
P + T+P T S +S S +SP P +S S +SP SP+S +
Sbjct: 1659 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1718
Query: 285 DSNKPPYS 292
P YS
Sbjct: 1719 SPTSPSYS 1726
>1x9n_A DNA ligase I; 5'-adenylated nicked DNA, protein-DNA complex, L
complex; HET: DNA DOC AMP; 3.00A {Homo sapiens} SCOP:
a.235.1.1 b.40.4.6 d.142.2.1
Length = 688
Score = 29.2 bits (65), Expect = 3.3
Identities = 12/80 (15%), Positives = 26/80 (32%)
Query: 239 PRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPYSYVALIA 298
P KK ++ + ++ P + S + ++ + K PY VA
Sbjct: 6 PAVKKEVKEEEPGAPGKEGAAEGPLDPSGYNPAKNNYHPVEDACWKPGQKVPYLAVARTF 65
Query: 299 MAINNNEHKRATLAEIYNYI 318
I + + + N +
Sbjct: 66 EKIEEVSARLRMVETLSNLL 85
>3dh0_A SAM dependent methyltransferase; cystal structure, PSI-2, NYSGXRC,
structural genomics, protein structure initiative; HET:
SAM; 2.72A {Aquifex aeolicus}
Length = 219
Score = 28.1 bits (63), Expect = 4.5
Identities = 3/22 (13%), Positives = 6/22 (27%)
Query: 294 VALIAMAINNNEHKRATLAEIY 315
+A + L E+
Sbjct: 109 FIFMAFTFHELSEPLKFLEELK 130
>2i0q_B Telomere-binding protein beta subunit; single strand DNA-protein
complex, structural protein/DNA complex; 1.91A
{Sterkiella nova} SCOP: b.40.4.3
Length = 385
Score = 28.8 bits (63), Expect = 4.6
Identities = 15/110 (13%), Positives = 31/110 (28%)
Query: 179 SQPSDILRQAFADLDITPDQSAGRTTSVIISNSPEPKQQILGENSNVQNKKPDPQENQTT 238
S +D+ + + TP + + + T K P P ++
Sbjct: 267 SSAADVRKSVDKIVKYTPSKGSRKDTPQKSQAPAAGKSSAKKGGKKAVPSAPSPSGKKSA 326
Query: 239 PRNKKTKVSQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNK 288
K ++Q SS + S+T+ ++K
Sbjct: 327 LTTDKMTMAQFVKYLDWHEKKKGGKVSSGGKVLGKRSAGKASATSGKASK 376
>3a1j_C Cell cycle checkpoint protein RAD1; DNA damage, DNA repair,
exonuclease, hydrolase, nuclease, nucleus,
phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A
{Homo sapiens} PDB: 3g65_B 3ggr_C
Length = 263
Score = 28.4 bits (63), Expect = 5.1
Identities = 18/78 (23%), Positives = 30/78 (38%), Gaps = 18/78 (23%)
Query: 148 ETMTVPLTGEEGGETFTVSYNVYNTKLNGD-----------VSQPSDILRQAFADLDITP 196
+ L EEGG N + D + S+ LR+AF++LD+T
Sbjct: 103 YGYPLMLFLEEGGVVTVCKINTQEPEETLDFDFCSTNVINKIILQSEGLREAFSELDMTS 162
Query: 197 DQSAGRTTSVIISNSPEP 214
+ + I+ SP+
Sbjct: 163 E-------VLQITMSPDK 173
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 28.1 bits (62), Expect = 6.6
Identities = 11/47 (23%), Positives = 15/47 (31%)
Query: 247 SQKNSSSQPSSSSPPPDESSSTSIKVSSPISSPSSTTTDSNKPPYSY 293
K S+Q +SS P S + P P + P S
Sbjct: 12 DDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPIST 58
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.309 0.127 0.369
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,867,229
Number of extensions: 397836
Number of successful extensions: 802
Number of sequences better than 10.0: 1
Number of HSP's gapped: 758
Number of HSP's successfully gapped: 58
Length of query: 463
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 366
Effective length of database: 3,993,456
Effective search space: 1461604896
Effective search space used: 1461604896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 59 (27.0 bits)