RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13925
(344 letters)
>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 = 204 bits (520), Expect = 1e-66
Identities = 70/100 (70%), Positives = 84/100 (84%)
Query: 12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCF 71
KPPYSYISL MAI +P KML LS+IY++I D FPYYR N QRWQNS+RH+LSFNDCF
Sbjct: 2 AKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCF 61
Query: 72 VKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKL 111
VK+ R PD+PGKG+YWALHP++ +MFENG LRR++RFKL
Sbjct: 62 VKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFKL 101
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus
norvegicus} SCOP: a.4.5.14
Length = 109
Score = 203 bits (518), Expect = 2e-66
Identities = 66/103 (64%), Positives = 76/103 (73%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
KPPYSYI+L MAI SP+K L LS I FI++RFPYYR WQNS+RHNLS NDCFV
Sbjct: 3 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 73 KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
KIPR P PGKG YW L P + DMF+NGS LRRR+RFK ++
Sbjct: 63 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKRFKRLQHH 105
>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 = 202 bits (517), Expect = 5e-66
Identities = 44/103 (42%), Positives = 59/103 (57%)
Query: 6 RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNL 65
D KPPYSY L AI +P+K L L+ IY I +PYYR + WQNS+RHNL
Sbjct: 9 MGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNL 68
Query: 66 SFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
S N F+K+PR + PGKG++W + P + + +RR R
Sbjct: 69 SLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 111
>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 = 197 bits (504), Expect = 3e-64
Identities = 64/96 (66%), Positives = 72/96 (75%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
KPPYSYI+L MAI SP+K L LS I FI++RFPYYR WQNS+RHNLS NDCFV
Sbjct: 2 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 73 KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
KIPR P PGKG YW L P + DMF+NGS LRRR+R
Sbjct: 62 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKR 97
>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 = 189 bits (482), Expect = 5e-61
Identities = 49/98 (50%), Positives = 64/98 (65%), Gaps = 1/98 (1%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
KPPYSYI+L MAI S L L++I ++ +FP++R + W+NS+RHNLS NDCFV
Sbjct: 2 KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 73 KIPRRPDRP-GKGAYWALHPNALDMFENGSLLRRRRRF 109
K+ R P RP GK YW L+PN+ F +G RRR R
Sbjct: 62 KVLRDPSRPWGKDNYWMLNPNSEYTFADGVFRRRRYRL 99
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 166 bits (422), Expect = 2e-51
Identities = 37/110 (33%), Positives = 56/110 (50%), Gaps = 4/110 (3%)
Query: 2 PRPCRDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRR-NTQRWQNS 60
P ++PPYSY+++ AI S+ K + L DIY +I D FPY++ W+NS
Sbjct: 7 PSASWQNSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNS 66
Query: 61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFK 110
+RHNLS +D FV R GK ++W +HP+A + +
Sbjct: 67 IRHNLSLHDMFV---RETSANGKVSFWTIHPSANRYLTLDQVFKPLDPGS 113
>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 = 153 bits (388), Expect = 6e-47
Identities = 34/103 (33%), Positives = 54/103 (52%), Gaps = 14/103 (13%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
+PP++Y +L AI S ++ L L++IY + F Y+RRN W+N++RHNLS + CFV
Sbjct: 3 RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62
Query: 73 KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSD 115
++ KGA W + ++RR K+ S
Sbjct: 63 RVEN-----VKGAVWTVDEVE---------YQKRRSQKITGSP 91
>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 = 148 bits (376), Expect = 7e-45
Identities = 34/110 (30%), Positives = 55/110 (50%), Gaps = 10/110 (9%)
Query: 6 RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
+ + SY L AI SS EK L LS IY ++ PY++ ++ W+NS
Sbjct: 4 SSSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNS 63
Query: 61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFK 110
+RHNLS + F+++ + GK ++W L+P + ++G RRR
Sbjct: 64 IRHNLSLHSKFIRVQN--EGTGKSSWWMLNP---EGGKSGKSPRRRAASM 108
>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 = 144 bits (366), Expect = 1e-43
Identities = 29/85 (34%), Positives = 48/85 (56%), Gaps = 7/85 (8%)
Query: 11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNSLRHNL 65
+ SY L + AI S+PEK L L+ IY ++ PY++ ++ W+NS+RHNL
Sbjct: 3 NAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNL 62
Query: 66 SFNDCFVKIPRRPDRPGKGAYWALH 90
S + F+K+ + GK ++W L+
Sbjct: 63 SLHSKFIKVHN--EATGKSSWWMLN 85
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 143 bits (363), Expect = 6e-43
Identities = 30/93 (32%), Positives = 50/93 (53%), Gaps = 7/93 (7%)
Query: 6 RDTYGDQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNS 60
+ + SY L + AI S+PEK L L+ IY ++ PY++ ++ W+NS
Sbjct: 17 GGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNS 76
Query: 61 LRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNA 93
+RHNLS + F+K+ + GK ++W L+P
Sbjct: 77 IRHNLSLHSKFIKVHN--EATGKSSWWMLNPEG 107
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 144 bits (365), Expect = 8e-43
Identities = 34/105 (32%), Positives = 55/105 (52%), Gaps = 10/105 (9%)
Query: 11 DQKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYR-----RNTQRWQNSLRHNL 65
+ SY L + AI S+PEK L L+ IY ++ PY++ ++ W+NS+RHNL
Sbjct: 38 NAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNL 97
Query: 66 SFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFK 110
S + F+K+ + GK ++W L+P ++G RRR
Sbjct: 98 SLHSKFIKVHN--EATGKSSWWMLNPEG---GKSGKAPRRRAASM 137
>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 = 44.8 bits (105), Expect = 3e-05
Identities = 41/271 (15%), Positives = 69/271 (25%), Gaps = 81/271 (29%)
Query: 90 HPNALDMFENGSLLR----RRRRFKLMKSDKDKLENELAALANVNRIYLSSQSPTTSDDF 145
+P L + +R +K + DK L + L+ P ++
Sbjct: 326 NPRRLSII--AESIRDGLATWDNWKHVNCDK---------LTTIIESSLNVLEP---AEY 371
Query: 146 EH--------PES-PIS---------NFDEDEEIDVIHDFSPKTL-DYSLKNLNYSPKSI 186
P S I + + + + V++ +L + K S SI
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 187 D----KSPEPMESSHAK------------PFDFSINSNSLISSSHLEQHTKLSEPSD--- 227
E + H D SH+ H K E +
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491
Query: 228 -------------SEIKKSSTSVKRPFDIENLIST----DSFTSQAHCLSPYLLQQPLMF 270
+I+ ST+ I N + + L+ L F
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551
Query: 271 LPPPG--LLSHPSYFPTQPNLLRFPPLSYPS 299
LP L+ +LLR L
Sbjct: 552 LPKIEENLICSKY-----TDLLRI-ALMAED 576
Score = 33.7 bits (76), Expect = 0.11
Identities = 43/279 (15%), Positives = 94/279 (33%), Gaps = 62/279 (22%)
Query: 90 HPNALDMFENGSLLRRRRRFKLMKSDKDKLENELAALANVNRIYLSSQSPTTSDDFEH-- 147
H + +D FE G + + ++ +D + + + +S + ++ +H
Sbjct: 3 HHHHMD-FETGEHQYQYK--DILSVFEDAFVDNF----DCKDVQDMPKSILSKEEIDHII 55
Query: 148 -PESPISN----FD--EDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKP 200
+ +S F ++ +++ F + L + K L K+ + P M + +
Sbjct: 56 MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 201 FDFSINSNSLISSSH---LEQHTKLSEPSDSEIK--------------KSS--TSVKRPF 241
D N N + + + L+ + KL + + E++ K+ V +
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLKLRQ-ALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174
Query: 242 DIENLISTDSF-TSQAHCLSPYLL---QQPLMFLPPPGLLSHPSYFPTQP--------NL 289
++ + F + +C SP + Q L++ P S + L
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 290 LRFPPLSYPSIPSSLL-----------HPFSLKSCSTFL 317
R L + LL + F+L C L
Sbjct: 235 RRL--LKSKPYENCLLVLLNVQNAKAWNAFNLS-CKILL 270
>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 = 41.2 bits (96), Expect = 5e-04
Identities = 65/334 (19%), Positives = 104/334 (31%), Gaps = 103/334 (30%)
Query: 58 QNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRF-------- 109
SL H L +P A A + + +F
Sbjct: 13 HGSLEHVLL-------VPT-----------ASFFIAS---------QLQEQFNKILPEPT 45
Query: 110 -KLMKSDKDKLENELAA--LANVNRIYLSSQ-SPTTSDDFEHP-ESPISNFDED--EEID 162
D+ EL L Y+SS P+ F+ ++ F+ E D
Sbjct: 46 EGFAADDEPTTPAELVGKFLG-----YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Query: 163 VIHDFSPKTLDYSLKNLNYSPKSIDKSPEPM----ESSHAKPFDFSINSNSLISSSHLEQ 218
IH L L L + ++ K+ E + + F SNS + + E
Sbjct: 101 -IH-----ALAAKL--LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 219 HTKL---------SEPSDSEIKK-SSTSVKRPFDIENLISTDSFTSQAHCLSPYLLQQPL 268
+ +L ++ E++ T + +LI A LS L++ L
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELRDLYQTY--HVL-VGDLIK-----FSAETLSE-LIRTTL 203
Query: 269 MFLP--PPGL-----LSHPSYFPTQPNLLRFPPLSYPSIP-SSLLH-----------PFS 309
GL L +PS P + LL P+S P I L H P
Sbjct: 204 DAEKVFTQGLNILEWLENPSNTPDKDYLLS-IPISCPLIGVIQLAHYVVTAKLLGFTPGE 262
Query: 310 LKSCSTFLAATISPWFSLGILPSLCVCNIDQWTN 343
L+S AT S G++ ++ + D W +
Sbjct: 263 LRSY--LKGATGH---SQGLVTAVAIAETDSWES 291
Score = 31.6 bits (71), Expect = 0.44
Identities = 9/23 (39%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 268 LMFLPPPGLLSHPSYFPTQPNLL 290
F GLLS + TQP L
Sbjct: 1717 YTFRSEKGLLSATQF--TQPALT 1737
Score = 28.5 bits (63), Expect = 4.5
Identities = 17/113 (15%), Positives = 31/113 (27%), Gaps = 24/113 (21%)
Query: 38 DIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRPGKGAYWALHPNALDMF 97
D+Y + R N + F+ + I +P L +
Sbjct: 1634 DLY----KTSKAAQDVWNRADNHFKDTYGFS--ILDIVIN------------NPVNLTIH 1675
Query: 98 ENGSLLRR-RRRFKLMKSDKDKLENELAALANVNRIYLSSQSPTTSDDFEHPE 149
G +R R + M E + +I+ +TS F +
Sbjct: 1676 FGGEKGKRIRENYSAMI-----FETIVDGKLKTEKIFKEINEHSTSYTFRSEK 1723
>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 = 33.0 bits (74), Expect = 0.060
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 13/34 (38%)
Query: 157 EDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSP 190
E + + K L SLK L Y+ D +P
Sbjct: 18 EKQAL--------KKLQASLK-L-YAD---DSAP 38
Score = 26.5 bits (57), Expect = 9.5
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 15/35 (42%)
Query: 229 EIKKSSTSVKRPFDIENLISTDSFTSQAHCLSPYL 263
+KK S+K L + DS +P L
Sbjct: 21 ALKKLQASLK-------LYADDS--------APAL 40
>4anr_A Soluble lytic transglycosylase B; lyase, EF-hand like motif,
peptidoglycan; 1.84A {Pseudomonas aeruginosa}
Length = 323
Score = 28.1 bits (63), Expect = 4.1
Identities = 13/77 (16%), Positives = 30/77 (38%), Gaps = 6/77 (7%)
Query: 126 LANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKS 185
+ + + + SQ P + P+ ++ F + D + F+ + L +++N
Sbjct: 1 MGSSHHHHHHSQDPNSLVPRGSPQ--VAEFVSEMTRD--YGFAGEQLMGLFRDVNRKQSI 56
Query: 186 IDKSPEPMESSHAKPFD 202
+D P E K +
Sbjct: 57 LDAISRPAERV--KQWK 71
>1x7f_A Outer surface protein; structural genomics, unknown function, MCSG,
PSI, midwest center for struct genomics; 2.30A {Bacillus
cereus atcc 14579} SCOP: b.62.1.2 c.1.8.12
Length = 385
Score = 27.9 bits (62), Expect = 4.7
Identities = 17/67 (25%), Positives = 25/67 (37%), Gaps = 3/67 (4%)
Query: 111 LMKSDKDKLEN--ELAALANVNRIYLSSQSPTTSDDFEHPE-SPISNFDEDEEIDVIHDF 167
S K+K AA +RI+ S + E I N +D ++VI D
Sbjct: 35 PEHSTKEKDMAYISAAARHGFSRIFTCLLSVNRPKEEIVAEFKEIINHAKDNNMEVILDV 94
Query: 168 SPKTLDY 174
+P D
Sbjct: 95 APAVFDQ 101
>2vsm_A NIV-G, hemagglutinin-neuraminidase; developmental protein,
henipavirus, neurogenesis, glycoprotein, paramyxovirus,
envelope protein, cell surface receptor, hendra, virion;
HET: NAG; 1.80A {Nipah virus} PDB: 3d11_A* 3d12_A*
2vwd_A* 2vsk_A 2x9m_A*
Length = 416
Score = 28.2 bits (62), Expect = 4.9
Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 3/68 (4%)
Query: 264 LQQPLMFLPPPGLLSHPSYFPTQPNL-LRFPPLSYPSIPSSLLHPFSLKSCSTFLAATIS 322
LQ+ + P L+S+ Q + P L+ + H + SCS ++
Sbjct: 3 LQKTSNQILKPKLISYTLPVVGQSGTCITDPLLAMDEGYFAYSHLERIGSCSRGVSKQR- 61
Query: 323 PWFSLGIL 330
+G +
Sbjct: 62 -IIGVGEV 68
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 28.0 bits (62), Expect = 5.1
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 2/78 (2%)
Query: 248 STDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPN--LLRFPPLSYPSIPSSLL 305
+ + + SP++ M +PP G L + P+ + P Y S P S++
Sbjct: 37 NHAALPPTDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIM 96
Query: 306 HPFSLKSCSTFLAATISP 323
+ S T A+I
Sbjct: 97 GYSYMDSYQTSSPASIPH 114
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 27.7 bits (61), Expect = 6.9
Identities = 34/139 (24%), Positives = 46/139 (33%), Gaps = 6/139 (4%)
Query: 165 HDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSE 224
+SP + YS + +YS S SP S P +S S S +S T
Sbjct: 1590 PSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSP-SYSPTSPSYSPTSPSYSPTS-PS 1647
Query: 225 PSDSEIKKSSTSVKRPFDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFP 284
S + S TS S S + S P + PSY P
Sbjct: 1648 YSPTSPSYSPTSP-SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1706
Query: 285 TQPNLLRFPPLSYPSIPSS 303
T P+ + P S P+S
Sbjct: 1707 TSPS---YSPTSPSYSPTS 1722
>3bcy_A Protein YER067W; mixed alpha-helix/beta-sheet fold, unknown
function; 1.70A {Saccharomyces cerevisiae}
Length = 155
Score = 26.8 bits (59), Expect = 7.8
Identities = 23/81 (28%), Positives = 34/81 (41%), Gaps = 19/81 (23%)
Query: 143 DDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFD 202
+D + E+ I+N ED++ D +H LNY P P + SH P
Sbjct: 20 EDLQGFETFIANETEDDDFDHLH-----------CKLNYYP------PFVLHESHEDPEK 62
Query: 203 F--SINSNSLISSSHLEQHTK 221
+ NS+S HL QH +
Sbjct: 63 ISDAANSHSKKFVRHLHQHIE 83
>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 = 27.4 bits (60), Expect = 8.9
Identities = 25/119 (21%), Positives = 38/119 (31%), Gaps = 11/119 (9%)
Query: 216 LEQHTKLSEPSDSEIKKSSTSVKRPFDIENLISTDSFTSQAHCLSPYLLQQPLMFLPPPG 275
+ H D ++ + + S S T + +P L + PG
Sbjct: 1 MAHHHHHHVDDDDKMFSTQVN----------SSLTSPTGRGSMAAPSLHPSLGPGIGSPG 50
Query: 276 LLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCSTFLAATISPWFSLGILPSLC 334
L P + P PP S S P H S+ + T +T SP S + P
Sbjct: 51 QLHSPISTLSSPINGMGPPFSVISSPMG-PHSMSVPTTPTLGFSTGSPQLSSPMNPVSS 108
>1qus_A Lytic murein transglycosylase B; alpha-helical protein with AN
five-stranded antiparallel beta-sheet, hydrolase; HET:
BCN; 1.70A {Escherichia coli} SCOP: d.2.1.6 PDB: 1d0k_A*
1d0m_A* 1qdr_A* 1qdt_A 1d0l_A* 1qut_A* 1ltm_A*
Length = 322
Score = 26.9 bits (60), Expect = 10.0
Identities = 6/40 (15%), Positives = 10/40 (25%)
Query: 165 HDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFS 204
H F + L L + ++ KP
Sbjct: 32 HGFDRQQLQEILSQAKRLDSVLRLMDNQAPTTSVKPPSGP 71
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
0.317 0.133 0.412
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,265,292
Number of extensions: 297524
Number of successful extensions: 715
Number of sequences better than 10.0: 1
Number of HSP's gapped: 671
Number of HSP's successfully gapped: 40
Length of query: 344
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 250
Effective length of database: 4,077,219
Effective search space: 1019304750
Effective search space used: 1019304750
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.3 bits)