RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy723
(395 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 = 174 bits (444), Expect = 1e-54
Identities = 48/100 (48%), Positives = 69/100 (69%), Gaps = 2/100 (2%)
Query: 97 PKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCF 156
KP +SYI LI MAI +P L LS+IYQ+I+D + Y+R W+NSIRH+LS NDCF
Sbjct: 2 AKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCF 61
Query: 157 IKAGRSAN--GKGHYWSIHPANVDDFKKGDFRRRKAQRKV 194
+K RS + GKG YW++HP++ + F+ G + RR+ + K+
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 = 172 bits (437), Expect = 2e-53
Identities = 52/104 (50%), Positives = 69/104 (66%), Gaps = 2/104 (1%)
Query: 98 KPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCFI 157
KP +SYI LI MAIL SP+ KL LS I ++I + + Y+R + P W+NSIRHNLSLNDCF+
Sbjct: 3 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 158 KAGRSAN--GKGHYWSIHPANVDDFKKGDFRRRKAQRKVRRHMG 199
K R GKG+YW++ P + D F G F RR+ + K +H
Sbjct: 63 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKRFKRLQHHH 106
>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 = 169 bits (430), Expect = 1e-52
Identities = 50/96 (52%), Positives = 66/96 (68%), Gaps = 2/96 (2%)
Query: 98 KPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCFI 157
KP +SYI LI MAIL SP+ KL LS I ++I + + Y+R + P W+NSIRHNLSLNDCF+
Sbjct: 2 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 158 KAGRSAN--GKGHYWSIHPANVDDFKKGDFRRRKAQ 191
K R GKG+YW++ P + D F G F RR+ +
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 = 168 bits (428), Expect = 3e-52
Identities = 46/96 (47%), Positives = 63/96 (65%), Gaps = 3/96 (3%)
Query: 97 PKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCF 156
PKP +SYI LI MAI S +L L++I +Y++ + +FR GWRNS+RHNLSLNDCF
Sbjct: 1 PKPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCF 60
Query: 157 IKAGRSAN---GKGHYWSIHPANVDDFKKGDFRRRK 189
+K R + GK +YW ++P + F G FRRR+
Sbjct: 61 VKVLRDPSRPWGKDNYWMLNPNSEYTFADGVFRRRR 96
>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 = 167 bits (424), Expect = 2e-51
Identities = 46/99 (46%), Positives = 60/99 (60%), Gaps = 2/99 (2%)
Query: 93 SSEEPKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSL 152
+ KP +SY LI AI +P+ +L L+ IY +I NY Y+RT GW+NSIRHNLSL
Sbjct: 11 RGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSL 70
Query: 153 NDCFIKAGRSAN--GKGHYWSIHPANVDDFKKGDFRRRK 189
N FIK RS GKG +W I PA+ + FR+R+
Sbjct: 71 NRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRR 109
>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 = 145 bits (368), Expect = 4e-43
Identities = 40/106 (37%), Positives = 56/106 (52%), Gaps = 8/106 (7%)
Query: 93 SSEEPKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRG-----PGWRNSIR 147
S SY LI AI SS E +L LS IY++++ + YF+ +G GW+NSIR
Sbjct: 6 SRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIR 65
Query: 148 HNLSLNDCFIKAGRSANGKGHYWSIHPANVDDFKKGDFRRRKAQRK 193
HNLSL+ FI+ GK +W ++P + K G RR+A
Sbjct: 66 HNLSLHSKFIRVQNEGTGKSSWWMLNP---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 = 143 bits (363), Expect = 7e-43
Identities = 34/82 (41%), Positives = 49/82 (59%), Gaps = 5/82 (6%)
Query: 97 PKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGP-----GWRNSIRHNLS 151
SY LI+ AI S+PE +L L+ IY++++ YF+ +G GW+NSIRHNLS
Sbjct: 4 AWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLS 63
Query: 152 LNDCFIKAGRSANGKGHYWSIH 173
L+ FIK A GK +W ++
Sbjct: 64 LHSKFIKVHNEATGKSSWWMLN 85
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 145 bits (367), Expect = 9e-43
Identities = 39/105 (37%), Positives = 60/105 (57%), Gaps = 2/105 (1%)
Query: 93 SSEEPKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFR-TRGPGWRNSIRHNLS 151
+S +P +SY+ +I AI S+ ++ L DIY +I D++ YF+ PGW+NSIRHNLS
Sbjct: 13 NSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLS 72
Query: 152 LNDCFIKAGRSANGKGHYWSIHPANVDDFKKGDFRRRKAQRKVRR 196
L+D F++ SANGK +W+IHP+ + +
Sbjct: 73 LHDMFVRE-TSANGKVSFWTIHPSANRYLTLDQVFKPLDPGSPQL 116
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 144 bits (365), Expect = 2e-42
Identities = 43/111 (38%), Positives = 60/111 (54%), Gaps = 8/111 (7%)
Query: 88 PRFQISSEEPKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRG-----PGW 142
PR S SY LI+ AI S+PE +L L+ IY++++ YF+ +G GW
Sbjct: 30 PRKGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGW 89
Query: 143 RNSIRHNLSLNDCFIKAGRSANGKGHYWSIHPANVDDFKKGDFRRRKAQRK 193
+NSIRHNLSL+ FIK A GK +W ++P + K G RR+A
Sbjct: 90 KNSIRHNLSLHSKFIKVHNEATGKSSWWMLNP---EGGKSGKAPRRRAASM 137
>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 = 142 bits (360), Expect = 3e-42
Identities = 29/98 (29%), Positives = 53/98 (54%), Gaps = 11/98 (11%)
Query: 98 KPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCFI 157
+P +Y LI AI+ S + +L L++IY + ++YFR W+N++RHNLSL+ CF+
Sbjct: 3 RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62
Query: 158 KAGRSANGKGHYWSIHPANVDDFKKGDFRRRKAQRKVR 195
+ KG W++ +++R++Q+
Sbjct: 63 RVEN---VKGAVWTVDEVE--------YQKRRSQKITG 89
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 142 bits (360), Expect = 4e-42
Identities = 38/92 (41%), Positives = 53/92 (57%), Gaps = 5/92 (5%)
Query: 88 PRFQISSEEPKPQHSYIGLIAMAILSSPEMKLVLSDIYQYILDNYSYFRTRG-----PGW 142
PR S SY LI+ AI S+PE +L L+ IY++++ YF+ +G GW
Sbjct: 14 PRKGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGW 73
Query: 143 RNSIRHNLSLNDCFIKAGRSANGKGHYWSIHP 174
+NSIRHNLSL+ FIK A GK +W ++P
Sbjct: 74 KNSIRHNLSLHSKFIKVHNEATGKSSWWMLNP 105
>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 = 52.0 bits (124), Expect = 3e-07
Identities = 67/427 (15%), Positives = 116/427 (27%), Gaps = 157/427 (36%)
Query: 31 ALVPTLDSHPLLPIEQYRIQLYNY---------------------AIQAERLRLSQQY-- 67
AL L + + + + NY A+ +L +
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG 162
Query: 68 -GTP----------YTNYQTPNVNRVMNYFHPRFQ-ISSEEPKPQHSYI-GLIAMAILSS 114
G Y Y V ++ + + + + GL + L +
Sbjct: 163 QGNTDDYFEELRDLYQTYH-VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 115 PEMK------------LVLSDIYQYILDNYSYF-RTRG--PGWRNSIRHNLSLNDCFIKA 159
P L + Q L +Y + G PG +R L
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQ--LAHYVVTAKLLGFTPG---ELRSYLK-------- 268
Query: 160 GRSANGKGHYWSIHPANVDDFKKGDFRR--RKAQRKVRRHMGLSVDDDNDSNSPPPLSPP 217
G + + +G ++ A D ++ F RKA
Sbjct: 269 GATGHSQGLVTAVAIAETDSWE--SFFVSVRKA--------------------------- 299
Query: 218 LTFPNILFS----SHPFQCFPQM-LPPL-------GSTNTTSP--CISRKRQFDVDSLLA 263
+T +LF + + +P LPP + SP IS Q V +
Sbjct: 300 IT---VLFFIGVRCY--EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 264 P--DH-PASD-----LENTGKRQFDVDSLLAPDHPASDLE--NTDARKKLKPTSSPQTKV 313
H PA L N G + V P L N RK P+ Q+++
Sbjct: 355 KTNSHLPAGKQVEISLVN-GAKNLVVSG------PPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 314 KHA----------------------ASITDEVFERLQPGEEDRNKSDEEI---DAENEAD 348
+ +D + + L N D +I D + +D
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 349 IDVVNNN 355
+ V++ +
Sbjct: 468 LRVLSGS 474
Score = 40.0 bits (93), Expect = 0.001
Identities = 43/265 (16%), Positives = 73/265 (27%), Gaps = 77/265 (29%)
Query: 113 SSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCFIKAGRSANGKGHYWSI 172
+S + V + + D Y G+ SI + +N N I
Sbjct: 1638 TSKAAQDVWNRADNHFKDTY--------GF--SILD-IVIN----------NPVNLT--I 1674
Query: 173 HPANVDDFKKGDFRRRKAQRKVRRHMGLSVDDDNDSNSPPPLSPPLTFPNILFSSHPFQC 232
H F K +R + + + D N +S+ F+
Sbjct: 1675 H-----------FGGEKGKRIRENYSAMIFETIVDGK--LKTEKIFKEINEHSTSYTFRS 1721
Query: 233 FPQMLPPLGSTNTTSPCISRKRQFDVDSLLAPDHPASDLENTGKRQFDVD----SL---- 284
+ L L +T T P + + A DL++ G D SL
Sbjct: 1722 -EKGL--LSATQFTQPAL-----TLM-EKAA----FEDLKSKGLIPADATFAGHSLGEYA 1768
Query: 285 -LAPDHPAS--DLENTDA------RKKLKPTSSPQTKVKH-----AASITDEVFERLQPG 330
LA A +E R + P+ ++ A V
Sbjct: 1769 ALA--SLADVMSIE--SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF--S 1822
Query: 331 EEDRNKSDEEIDAENEADIDVVNNN 355
+E E + +++VN N
Sbjct: 1823 QEALQYVVERVGKRTGWLVEIVNYN 1847
Score = 37.0 bits (85), Expect = 0.011
Identities = 32/190 (16%), Positives = 59/190 (31%), Gaps = 69/190 (36%)
Query: 1 MSSVSDKSQTE----------------------INSPP-----GSPADQNEPLGNATALV 33
M S+S+ +Q + +N G P L L
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS----L---YGLN 390
Query: 34 PTLDSHPLLP-IEQYRIQLYNYAIQAER-LRLSQQY---GTPY-TNYQTPNVNRVMNYFH 87
TL ++Q RI +ER L+ S ++ +P+ ++ P + +
Sbjct: 391 LTLRKAKAPSGLDQSRIPF------SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV 444
Query: 88 PR-FQISSEEPK-PQH-------------SYIGLIAMAILSSP-EMKLVLSDIYQYILDN 131
++++ + P + S I I+ P + + +ILD
Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD- 503
Query: 132 YSYFRTRGPG 141
F GPG
Sbjct: 504 ---F---GPG 507
Score = 36.6 bits (84), Expect = 0.017
Identities = 22/135 (16%), Positives = 45/135 (33%), Gaps = 37/135 (27%)
Query: 260 SLLAP--DHP-ASDLENTGKRQFDVDSLLAP-DHPASDLENTDARKKLKPTSSPQTKVKH 315
LL P AS L + QF L P + A+D E PT+ + K
Sbjct: 19 VLLVPTASFFIASQL----QEQF-NKILPEPTEGFAADDE---------PTTPAELVGKF 64
Query: 316 AASITDEVFERLQPGEEDRNKSDEEI--DAENEADIDVVNNNN----------DSESEKV 363
++ V E + +++ E + + N+ ++++ V
Sbjct: 65 LGYVSSLV-------EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 364 QESLILQRYYQTIAL 378
+ +++ Y +
Sbjct: 118 KTKELIKNYITARIM 132
Score = 30.8 bits (69), Expect = 0.95
Identities = 43/253 (16%), Positives = 71/253 (28%), Gaps = 81/253 (32%)
Query: 6 DKSQTEINSPPGSPADQNEP----------LGNATALVPTLDSHPLLPI---------EQ 46
++ + P A +EP LG ++LV +
Sbjct: 35 EQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC 94
Query: 47 YRIQLYNYAIQAERLRLSQQYGTPYTNYQTPNVNRVMNYFHPRFQISSEEPKPQHSYIGL 106
Y L I A +L Q+ T + + NY R K +S L
Sbjct: 95 Y---LEGNDIHALAAKLLQENDTTLVKTK----ELIKNYITARIMAKRPFDKKSNS--AL 145
Query: 107 IAMAILSSPEMKLVLSDIYQYILDNYSYFRTRGPGWRNSIRHNLSLNDCF-----IKAGR 161
+L + F G G N+ +D F +
Sbjct: 146 FRAV--GEGNAQL------------VAIF--GGQG--NT-------DDYFEELRDL---- 176
Query: 162 SANGKGHYWSIHPANVDDFKK------GDFRRRKAQRKVRRHMGLSVDD--DNDSNSPPP 213
+ + V D K + R + GL++ + +N SN+P
Sbjct: 177 --------YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 214 ---LSPPLTFPNI 223
LS P++ P I
Sbjct: 229 DYLLSIPISCPLI 241
>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 = 45.6 bits (107), Expect = 3e-05
Identities = 51/363 (14%), Positives = 102/363 (28%), Gaps = 101/363 (27%)
Query: 52 YNYAIQAERLRL-SQQYGTPYTNYQTPNVNRVMN---YFHPRFQISSEEPKPQ------- 100
NY ++ +Q Y +R+ N F +S +P +
Sbjct: 89 INYKFLMSPIKTEQRQPSMMTRMYIE-QRDRLYNDNQVFAKYN-VSRLQPYLKLRQALLE 146
Query: 101 ---HSYIGLIAMA-----ILSSPEMKLVLSDIYQYILDNYSYFRTRGPGW-----RNSIR 147
+ + + ++ V ++ F W NS
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVAL----DVCLSYKVQCKMDFKIF------WLNLKNCNSPE 196
Query: 148 HNLS-LNDCFIKAGRSANGKGHYWSIHPANVDDFKKGDFRRRKAQRKVRRHMGLSVDDDN 206
L L + + + + S + + RR + K + L + +
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ--AELRRLLKSKPYENCLLVLLNVQ 254
Query: 207 DSNSPPPLSPPLTFPNIL--FSSHPFQCFPQMLPPLGSTNTTSPCISRKRQ-FDVDSLLA 263
+ F+ C ++L TT R +Q D S
Sbjct: 255 N-------------AKAWNAFN---LSC--KILL------TT-----RFKQVTDFLSAAT 285
Query: 264 PDHPASDLENTGKRQFDVDSLLAP--DHPASDLENTDARKKLKPTSSPQTKVKHAASITD 321
H + D + +V SLL D DL + T++P+ A SI D
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL------PREVLTTNPRRLSIIAESIRD 339
Query: 322 EV--FERLQPGEEDRNKSDEEIDAENEADIDVVNNNNDSESEKVQESLILQRYYQTIALR 379
+ ++ + + +K I++ S V E ++ + +++
Sbjct: 340 GLATWDNWK--HVNCDKLTTIIES----------------SLNVLEPAEYRKMFDRLSV- 380
Query: 380 RFQ 382
F
Sbjct: 381 -FP 382
Score = 35.2 bits (80), Expect = 0.042
Identities = 33/286 (11%), Positives = 75/286 (26%), Gaps = 87/286 (30%)
Query: 12 INSPPGS-P--ADQNEPLGNATALVPTLDSHPLLPIEQYRIQLYNYAIQAERLRLSQQYG 68
++ P P P +++ L + ++ N + S
Sbjct: 311 LDCRPQDLPREVLTTNPR--RLSIIAESIRDGLATWDNWK--HVNCDKLTTIIESSLNVL 366
Query: 69 TPY---TNYQT-----PNVN-------------------RVMNYFHPRFQISSEEPKPQH 101
P + P+ + V+N H + ++PK
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE-KQPKEST 425
Query: 102 SYIGLIAMAILSSPEMKLVLSD--IYQY--------------ILDNYSYF------RTRG 139
I I + + E + L + Y LD Y Y +
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 140 PGWRNSIRHNLSLNDCFIKAGRSANGK----GHYWSIHPANVDDFKKGDFRRRKAQRKVR 195
R ++ + L+ F++ K W+ + ++ + +
Sbjct: 486 HPERMTLFRMVFLDFRFLEQ------KIRHDSTAWNASGSILNTL--QQL------KFYK 531
Query: 196 RHMGLSVDDDNDSNSPPPLSPPLTF-----PNILFSSHPFQCFPQM 236
++ DND ++ L F N++ + ++
Sbjct: 532 PYI-----CDNDPKYERLVNAILDFLPKIEENLI--CSKYTDLLRI 570
Score = 27.5 bits (60), Expect = 9.5
Identities = 46/377 (12%), Positives = 100/377 (26%), Gaps = 116/377 (30%)
Query: 88 PRFQISSEE------PKPQHSYIGLIAMAILSSPE------MKLVLSDIYQYILDNYSYF 135
P+ +S EE K S + +LS E ++ VL Y++++
Sbjct: 42 PKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT- 100
Query: 136 RTRGPGWRNSIRHNLSLNDCFIKAGRSANGKGHYWSIHPANVDDFKKGDFRRRKAQRKVR 195
R P + + + R N + F K + R + K+R
Sbjct: 101 EQRQPS-MMTRMYIEQRD-------RLYN-----------DNQVFAKYNVSRLQPYLKLR 141
Query: 196 RH--------------M---GLSVDDDNDSNSPPPLSPPLTFPNILFSSHPFQCFPQMLP 238
+ + G + + + S+ QC +
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTW---------------VA--LDVCLSYKVQC---KMD 181
Query: 239 ------PLGSTNTTSPCI----SRKRQFDVDSLLAPDHPASDLENTGKRQFDVDSLLA-P 287
L + N+ + Q D + DH ++ Q ++ LL
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 288 DHPAS-----DLENTDARKKLKPTSSPQTKVKHAASIT--DEVFERLQPGEEDRNKSDEE 340
+ +++N A + + + T +V + L D
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSC--KILL-----TTRFKQVTDFLSAATTTHISLDHH 294
Query: 341 IDAENEAD-----IDVVNNNNDSESEKVQE------SLI--LQR-------YYQTIALRR 380
+ + ++ +V S+I R ++ + +
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354
Query: 381 FQMYQQQ--LHQNPSEH 395
+ P+E+
Sbjct: 355 LTTIIESSLNVLEPAEY 371
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.42
Identities = 8/42 (19%), Positives = 19/42 (45%)
Query: 325 ERLQPGEEDRNKSDEEIDAENEADIDVVNNNNDSESEKVQES 366
+RLQ + ++E + + D++ N + EK + +
Sbjct: 96 KRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN 137
Score = 29.7 bits (66), Expect = 1.2
Identities = 12/61 (19%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 294 LENTDARKKLKPTSSPQTKVKHAASITDEVFERLQPGEEDRNK-----SDEEIDAENEAD 348
L+ DA K+ + + K + + + + Q + ++NK +D+ + +AD
Sbjct: 98 LQELDAASKVMEQ---EWREKAKKDLEE--WNQRQSEQVEKNKINNRIADKAFYQQPDAD 152
Query: 349 I 349
I
Sbjct: 153 I 153
>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 = 29.5 bits (65), Expect = 1.2
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 294 LENTDARKKL-KPTSSPQTKVKHAASI 319
L+ A KL S+P +K A++
Sbjct: 22 LKKLQASLKLYADDSAPALAIK--ATM 46
>3nrk_A LIC12922; NC domain, parvulin domain, SURA homology, probable
chaperon unknown function; 3.10A {Leptospira interrogans
serovar copenhaorganism_taxid}
Length = 325
Score = 29.1 bits (65), Expect = 2.6
Identities = 18/108 (16%), Positives = 41/108 (37%), Gaps = 10/108 (9%)
Query: 292 SDLENTDARKKLKPTSSPQTKVKHAASITDEVFERL-------QPGEEDRNK-SDEEIDA 343
DL++ + + S + + L EE+ + +++ +D+
Sbjct: 28 LDLDDATEKYNRLQKHLKHEDYR--KSFRTRIIDFLIDRAIVDVVAEEESIQVNEQRVDS 85
Query: 344 ENEADIDVVNNNNDSESEKVQESLILQRYYQTIALRRFQMYQQQLHQN 391
E E ++V+ N + EK E+ + + +Q+ + QL Q
Sbjct: 86 EIEKRMEVMGITNRKQFEKTMETSSGMPFELWVTELPYQIKKGQLLQL 133
>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class
I, activator, RNA polymeras holoenzyme, sigma70, open
complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia
coli k-12}
Length = 613
Score = 28.8 bits (64), Expect = 4.0
Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 314 KHAASIT-DEVFERLQPGEEDRNKSDEEIDAENEADIDVVNNNNDSESEKVQES 366
K +T EV + L D ++ ++ I N+ I V+ D++ + E+
Sbjct: 17 KEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAEN 70
>2zbl_A Putative isomerase; N-acyl-D-glucosamine 2-epimerase protein
family; HET: BMA; 1.60A {Salmonella typhimurium} PDB:
2afa_A 2rgk_A*
Length = 421
Score = 28.2 bits (62), Expect = 5.8
Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 4/53 (7%)
Query: 131 NYSYFRTRG-PGWRNSIRHNLSLNDCFIKAGRSANGKGHYWSIHPANVDDFKK 182
YS + G PG + + H + A R G Y ++ V D K
Sbjct: 59 VYSVAASMGRPGAYDLVDHGI---KAMNGALRDKKYGGWYACVNDQGVVDASK 108
>2lhu_A Mybpc3 protein; cardiac, structural protein; NMR {Mus musculus}
Length = 124
Score = 26.7 bits (58), Expect = 7.7
Identities = 14/66 (21%), Positives = 22/66 (33%)
Query: 263 APDHPASDLENTGKRQFDVDSLLAPDHPASDLENTDARKKLKPTSSPQTKVKHAASITDE 322
A DL + +R + D D LK S + K A ++
Sbjct: 24 AIGSGDLDLRSAFRRTSLAGAGRRTSDSHEDAGTLDFSSLLKKRDSFRRDSKLEAPAEED 83
Query: 323 VFERLQ 328
V+E L+
Sbjct: 84 VWEILR 89
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
0.314 0.131 0.386
Gapped
Lambda K H
0.267 0.0589 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,911,951
Number of extensions: 345873
Number of successful extensions: 547
Number of sequences better than 10.0: 1
Number of HSP's gapped: 531
Number of HSP's successfully gapped: 32
Length of query: 395
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 299
Effective length of database: 4,021,377
Effective search space: 1202391723
Effective search space used: 1202391723
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.4 bits)