RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13625
(322 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 = 217 bits (555), Expect = 3e-72
Identities = 69/99 (69%), Positives = 80/99 (80%)
Query: 63 KPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHNLSLNECFV 122
KPPYSYI+LI MAIQ AP K TL+ IYQ+IM+ FPYYREN+Q WQNSIRH+LS N+CFV
Sbjct: 3 KPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDCFV 62
Query: 123 KIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRRFKK 161
K+ R KPGKGSYW L P S NMF+NG YLRR++RFK
Sbjct: 63 KVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFKL 101
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus
norvegicus} SCOP: a.4.5.14
Length = 109
Score = 217 bits (554), Expect = 5e-72
Identities = 73/102 (71%), Positives = 84/102 (82%)
Query: 61 MVKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHNLSLNEC 120
MVKPPYSYIALI MAI +P K+ TL+GI +FI RFPYYRE WQNSIRHNLSLN+C
Sbjct: 1 MVKPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDC 60
Query: 121 FVKIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRRFKKK 162
FVKIPR+ PGKG+YWTLDP S +MFDNGS+LRRR+RFK+
Sbjct: 61 FVKIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKRFKRL 102
>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 = 216 bits (553), Expect = 9e-72
Identities = 56/111 (50%), Positives = 72/111 (64%)
Query: 48 SSPYSQQMVAGKDMVKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGW 107
+S Q + KPPYSY LI AI APDK+ TLNGIY I + +PYYR +GW
Sbjct: 1 ASMTGGQQMGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGW 60
Query: 108 QNSIRHNLSLNECFVKIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRR 158
QNSIRHNLSLN F+K+PR ++PGKGS+W +DP S + ++ +RR R
Sbjct: 61 QNSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 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 = 215 bits (550), Expect = 2e-71
Identities = 70/97 (72%), Positives = 80/97 (82%)
Query: 62 VKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHNLSLNECF 121
VKPPYSYIALI MAI +P K+ TL+GI +FI RFPYYRE WQNSIRHNLSLN+CF
Sbjct: 1 VKPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCF 60
Query: 122 VKIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRR 158
VKIPR+ PGKG+YWTLDP S +MFDNGS+LRRR+R
Sbjct: 61 VKIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKR 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 = 205 bits (524), Expect = 1e-67
Identities = 52/98 (53%), Positives = 72/98 (73%), Gaps = 1/98 (1%)
Query: 63 KPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHNLSLNECFV 122
KPPYSYIALI MAI+++ R TL I +++M +FP++R + GW+NS+RHNLSLN+CFV
Sbjct: 2 KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 123 KIPRDDKKP-GKGSYWTLDPDSYNMFDNGSYLRRRRRF 159
K+ RD +P GK +YW L+P+S 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 = 182 bits (464), Expect = 6e-58
Identities = 39/105 (37%), Positives = 56/105 (53%), Gaps = 4/105 (3%)
Query: 59 KDMVKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRE-NKQGWQNSIRHNLSL 117
+PPYSY+A+I AI + KR TL IY +I + FPY++ K GW+NSIRHNLSL
Sbjct: 14 SVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSL 73
Query: 118 NECFVKIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRRFKKK 162
++ FV+ GK S+WT+ P + + +
Sbjct: 74 HDMFVRETSA---NGKVSFWTIHPSANRYLTLDQVFKPLDPGSPQ 115
>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 = 176 bits (448), Expect = 3e-56
Identities = 37/105 (35%), Positives = 58/105 (55%), Gaps = 12/105 (11%)
Query: 61 MVKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHNLSLNEC 120
+V+PP++Y LI AI + D++ TLN IY + F Y+R N W+N++RHNLSL++C
Sbjct: 1 IVRPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKC 60
Query: 121 FVKIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRRFKKKDVM 165
FV++ KG+ WT+D Y RR ++ +
Sbjct: 61 FVRVEN-----VKGAVWTVDEVEY-------QKRRSQKITGSPTL 93
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 169 bits (428), Expect = 1e-52
Identities = 42/154 (27%), Positives = 73/154 (47%), Gaps = 12/154 (7%)
Query: 25 SVNSSNQIPPSYYEHYSRYSAYTSSPYSQQMVAGKDMVKPPYSYIALIAMAIQNAPDKRC 84
S + + S + + + SY LI+ AI++AP+KR
Sbjct: 2 SSHHHHHHSSGLVPRGSHMLEDPGAVTGPRKGGSRRNAWGNQSYAELISQAIESAPEKRL 61
Query: 85 TLNGIYQFIMERFPYYRE-----NKQGWQNSIRHNLSLNECFVKIPRDDKKPGKGSYWTL 139
TL IY++++ PY+++ + GW+NSIRHNLSL+ F+K+ + GK S+W L
Sbjct: 62 TLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEA--TGKSSWWML 119
Query: 140 DPDSYNMFDNGSYLRRRRRFK--KKDVMKEKEEA 171
+P+ +G RRR +++ + +A
Sbjct: 120 NPEG---GKSGKAPRRRAASMDSSSKLLRGRSKA 150
>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 = 165 bits (419), Expect = 2e-51
Identities = 36/109 (33%), Positives = 62/109 (56%), Gaps = 10/109 (9%)
Query: 57 AGKDMVKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRE-----NKQGWQNSI 111
+ + SY LI AI+++ +KR TL+ IY+++++ PY+++ + GW+NSI
Sbjct: 5 SSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSI 64
Query: 112 RHNLSLNECFVKIPRDDKKPGKGSYWTLDPDSYNMFDNGSYLRRRRRFK 160
RHNLSL+ F+++ + GK S+W L+P+ +G RRR
Sbjct: 65 RHNLSLHSKFIRVQNEG--TGKSSWWMLNPEG---GKSGKSPRRRAASM 108
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 162 bits (411), Expect = 2e-50
Identities = 35/92 (38%), Positives = 56/92 (60%), Gaps = 7/92 (7%)
Query: 59 KDMVKPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRE-----NKQGWQNSIRH 113
+ SY LI+ AI++AP+KR TL IY++++ PY+++ + GW+NSIRH
Sbjct: 20 RRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRH 79
Query: 114 NLSLNECFVKIPRDDKKPGKGSYWTLDPDSYN 145
NLSL+ F+K+ + GK S+W L+P+
Sbjct: 80 NLSLHSKFIKVHNEA--TGKSSWWMLNPEGGK 109
>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 = 159 bits (405), Expect = 8e-50
Identities = 34/83 (40%), Positives = 53/83 (63%), Gaps = 7/83 (8%)
Query: 63 KPPYSYIALIAMAIQNAPDKRCTLNGIYQFIMERFPYYRE-----NKQGWQNSIRHNLSL 117
SY LI+ AI++AP+KR TL IY++++ PY+++ + GW+NSIRHNLSL
Sbjct: 5 WGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSL 64
Query: 118 NECFVKIPRDDKKPGKGSYWTLD 140
+ F+K+ + GK S+W L+
Sbjct: 65 HSKFIKVHNEA--TGKSSWWMLN 85
>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 = 41.6 bits (97), Expect = 3e-04
Identities = 46/320 (14%), Positives = 89/320 (27%), Gaps = 106/320 (33%)
Query: 19 HHNSSYSVNSSNQIPPSYYEHYSR-YSAYTSS-PYSQQMVAGKDMVKPPYSYIALIA--- 73
H S + +P + + S+ + P + A D P + L+
Sbjct: 12 SHGS---LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD---EPTTPAELVGKFL 65
Query: 74 --MAIQNAPDKRCTLNGIYQFIMERFPYYRENK--QGWQNSIRHNLSLNECFVKIPRDDK 129
++ P K + + + F EN +G N I H L+ K+ +++
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEF----ENCYLEG--NDI-HALA-----AKLLQEND 113
Query: 130 KPGKGSYWTLDPDSYNMFDNGSYLRRRRRFKKKDVMKEKEEAIKRQHVHQAHLLQQENIL 189
+ + +Y+ R K+ + L + +
Sbjct: 114 TTLVKTKELIK----------NYITARIMAKRP-----------FDKKSNSALFRA---V 149
Query: 190 KKAEEKLMSI-----------KELKPCKREPSNNLSSSCMGGSHLDIKPNTGDQMDILAT 238
+ +L++I +EL R+ L + GD + A
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEEL----RD----LYQT--------YHVLVGDLIKFSAE 193
Query: 239 ---DLVMGQHSNYRHYYQSFGEDSTGTTGSNRHHWYSSDHAAIPGSGPPVDIFESATI-- 293
+L+ + + Q N W + P + P D S I
Sbjct: 194 TLSELIRTTLDAEKVFTQGL----------NILEWLEN-----PSNTPDKDYLLSIPISC 238
Query: 294 PGNANCQIGFRSAPTVVHYY 313
P Q+ HY
Sbjct: 239 PLIGVIQL--------AHYV 250
Score = 31.6 bits (71), Expect = 0.39
Identities = 40/257 (15%), Positives = 78/257 (30%), Gaps = 74/257 (28%)
Query: 32 IPPSYYEHYSRYSAYTSSPYSQQMVAGKDMVK--------------PPYS--YIALIAMA 75
+PPS E + SP M++ ++ + P I+L+
Sbjct: 319 LPPSILEDSLENNEGVPSP----MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV--- 371
Query: 76 IQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHN---LSLNECFVKIPRDDKKPG 132
N ++ P ++ G ++R L++ +IP ++K
Sbjct: 372 --NGAK---------NLVVSGPP---QSLYGLNLTLRKAKAPSGLDQS--RIPFSERKL- 414
Query: 133 KGSYWTLD---PDSYNMFDNGSYLRRRRRFKKKDVMKEKEEAIKRQ------HVHQAHLL 183
K S L P F + L KD++K + L
Sbjct: 415 KFSNRFLPVASP-----F-HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL 468
Query: 184 QQ--ENILKKAEEKLMSIKELKPCKREPSNNLSSS---CMG-GSHLDIKPNTGDQMD--- 234
+ +I ++ + ++ P K E + ++ G G + T D
Sbjct: 469 RVLSGSISERIVDCIIR----LPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 235 ---ILATDLVMGQHSNY 248
I+A L + +Y
Sbjct: 525 VRVIVAGTLDINPDDDY 541
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.7 bits (84), Expect = 0.004
Identities = 9/55 (16%), Positives = 23/55 (41%), Gaps = 10/55 (18%)
Query: 154 RRRRRFKKKD-VMKEKEEAIK---RQHVHQAHLLQQENILK------KAEEKLMS 198
+R+R ++ D K E+ + ++ + + + Q E + K A++
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQ 147
Score = 30.1 bits (67), Expect = 0.68
Identities = 9/45 (20%), Positives = 21/45 (46%), Gaps = 12/45 (26%)
Query: 153 LRR-RRRFKKKDVMKEKEEAIKRQHVHQAHLLQQENILKKAEEKL 196
+R+ R +K+ ++E + A K ++ +KA++ L
Sbjct: 87 IRKWREEQRKR--LQELDAASKV---------MEQEWREKAKKDL 120
Score = 27.8 bits (61), Expect = 3.4
Identities = 7/39 (17%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 163 DVMKEKEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKE 201
D + ++ E+I++ Q LQ+ + ++ +E
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELD--AASKVMEQEWRE 114
>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 = 36.4 bits (83), Expect = 0.014
Identities = 36/332 (10%), Positives = 88/332 (26%), Gaps = 93/332 (28%)
Query: 4 LFTDQHSAYYRHNPAHHNSSY-----SVNSSNQIPPSYYEHYSRY--SAYTSS-PYSQQM 55
L + Q + +Y + + + P Y Y + +++
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 56 VAGKDMVKP---------PYSYIA-----------LIAMAIQNAPDKRCTLNGIY----- 90
V+ P + + + + I+
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 91 -----QFIMERFP--YYRENKQGWQN-----SIRHNL-SLNECFVKIPRDDKKPGKGSYW 137
+ ++E Y+ + +I+ + S+ ++ + KP +
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS--KPYENCLL 248
Query: 138 TLD----PDSYNMFDNGSYLRRRR-----RFKK-KDVMKEKEEAIKRQHVHQAHLL---- 183
L ++N F+ + RFK+ D + A H+ H
Sbjct: 249 VLLNVQNAKAWNAFNLSC-----KILLTTRFKQVTDFLS----AATTTHISLDHHSMTLT 299
Query: 184 --QQENILKKAEEKLMSIKELKP--CKREPSNNLSSSCMGGSHLDIKPNTGDQ------- 232
+ +++L K + ++L P S + + T D
Sbjct: 300 PDEVKSLLLKYLD--CRPQDLPREVLTTNP---RRLS-IIAESIRDGLATWDNWKHVNCD 353
Query: 233 --MDILATDLVMGQHSNYRHYYQSFG---EDS 259
I+ + L + + + YR + +
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385
>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle
protein; 2.50A {Gallus gallus}
Length = 101
Score = 33.0 bits (75), Expect = 0.024
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 160 KKKDVMK-EKEEAIKRQHVHQAHLLQQENILKKAEEKLMSI-KELKPCKRE 208
KK ++K +KE AI R +A Q E+ K+ EE+ + K+LK + E
Sbjct: 9 KKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDE 59
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1
PDB: 2tma_A 2w49_A 2w4u_A
Length = 284
Score = 32.3 bits (73), Expect = 0.18
Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 160 KKKDVMK-EKEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKE 201
KK ++K +KE A+ R +A E+ K+ E++L+S+++
Sbjct: 6 KKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQK 48
>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled
coil, alanine, symmetry, axial stagger, BEND,
contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1
Length = 81
Score = 29.4 bits (66), Expect = 0.32
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 160 KKKDVMK-EKEEAIKRQHVHQAHLLQQENILKKAEEKLMSI-KELK 203
KK ++K +KE A+ R +A E K+ E++L+++ K+LK
Sbjct: 6 KKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLK 51
>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding,
eukaryotic regulatory protein, transcription/DNA
complex; HET: DNA; 2.20A {Saccharomyces cerevisiae}
SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D
Length = 63
Score = 29.0 bits (65), Expect = 0.34
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 155 RRRRFKKKDVMKEKEEAIKRQHVHQAHLLQQENILKK 191
RR R +K MK+ E+ ++ HL + LKK
Sbjct: 22 RRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 58
>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle
protein; 1.80A {Gallus gallus} PDB: 3u1a_A
Length = 101
Score = 29.4 bits (66), Expect = 0.41
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 160 KKKDVMK-EKEEAIKRQHVHQAHLLQQENILKKAEEKLMSI-KELK 203
KK ++K +KE A+ R +A E K+ E+ ++ + K+L+
Sbjct: 9 KKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLR 54
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 31.4 bits (72), Expect = 0.43
Identities = 10/40 (25%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 162 KDVMKEKEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKE 201
+V KEK+ A++ Q +A L+ ++ E++ K+
Sbjct: 404 DEVRKEKDAAVQSQEFEKAASLRDT--EQRLREQVEDTKK 441
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 30.2 bits (69), Expect = 0.99
Identities = 10/40 (25%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 162 KDVMKEKEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKE 201
+V KEK+ A++ Q +A L+ ++ E++ K+
Sbjct: 404 DEVRKEKDAAVQSQEFEKAASLRDT--EQRLREQVEDTKK 441
>4f61_I Stathmin-like domain R4; alpha-tubulin, beta-tubulin, GTPase,
microtubule, RB3, stath tubulin, cell cycle; HET: GTP
GDP; 4.17A {Artificial gene}
Length = 240
Score = 29.9 bits (66), Expect = 1.0
Identities = 14/55 (25%), Positives = 24/55 (43%)
Query: 154 RRRRRFKKKDVMKEKEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKELKPCKRE 208
RR+ + + + E+ + V Q + + N +K A+EKL E RE
Sbjct: 56 ERRKYQEAELLKHLAEKREHEREVIQRAIEENNNWIKMAKEKLAQKMESNKENRE 110
Score = 28.0 bits (61), Expect = 3.5
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 3/58 (5%)
Query: 154 RRRRRFKKKDVMKEKEEAIKRQH---VHQAHLLQQENILKKAEEKLMSIKELKPCKRE 208
+ K ++ K A KR+H V Q + + N +K A+EKL E RE
Sbjct: 155 SNKENRKYQEAELLKHLAEKREHEREVIQRAIEENNNWIKMAKEKLAQKMESNKENRE 212
>1zgh_A Methionyl-tRNA formyltransferase; southeast collaboratory FO
structural genomics, PSI, protein structure initiative,
secsg; 2.05A {Clostridium thermocellum} SCOP: b.46.1.1
c.65.1.1
Length = 260
Score = 28.4 bits (64), Expect = 2.9
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 8/59 (13%)
Query: 154 RRRRRFKKKDVMKEKEEAIKRQHVHQAHLLQQENILK--------KAEEKLMSIKELKP 204
+ +KK +M K ++ A ++EN K K E +K + P
Sbjct: 20 QSTSLYKKAGLMNIIIATTKSWNIKNAQKFKKENESKYNTTIITNKDELTFEKVKLINP 78
>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 = 27.6 bits (60), Expect = 3.9
Identities = 6/23 (26%), Positives = 9/23 (39%), Gaps = 8/23 (34%)
Query: 271 YSSDHAAIPGSGPPVDIFESATI 293
Y+ S P + I AT+
Sbjct: 32 YA------DDSAPALAI--KATM 46
>2d29_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national
project protein structural and functional analyses; HET:
FAD; 1.65A {Thermus thermophilus} SCOP: a.29.3.1 e.6.1.1
PDB: 1ws9_A 2cx9_A*
Length = 387
Score = 27.9 bits (63), Expect = 5.0
Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 9/55 (16%)
Query: 87 NGIYQFIMER-FPYYR----ENKQGWQNSIRHNLSLNECFVKIPRDDK--KPGKG 134
GI F R + E K G S L L + +P + + GKG
Sbjct: 185 QGISAFAFFRPERGLKVGRKEEKLGLTASDTAQLILEDL--FVPEEALLGERGKG 237
>3fo5_A Thioesterase, adipose associated, isoform BFIT2; orthogonal bundle,
consortium, lipid transport; HET: 1PE TCE; 2.00A {Homo
sapiens}
Length = 258
Score = 27.3 bits (60), Expect = 6.5
Identities = 10/60 (16%), Positives = 17/60 (28%)
Query: 73 AMAIQNAPDKRCTLNGIYQFIMERFPYYRENKQGWQNSIRHNLSLNECFVKIPRDDKKPG 132
+ D+ ++ Q Y N G + E F+ R+D P
Sbjct: 195 GFCLWREGDQLTKVSYYNQATPGVLNYVTTNVAGLSSEFYTTFKACEQFLLDNRNDLAPS 254
>3iuk_A Uncharacterized protein; PF05960.1, DUF885, M32
carboxypeptidase-like fold, PSI, MCSG structural
genomics, protein structure initiative; 1.85A
{Arthrobacter aurescens}
Length = 562
Score = 27.6 bits (61), Expect = 6.5
Identities = 9/81 (11%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 1 MHPLFTDQHSAYYRHNPAHHNSSYSVNSSNQIPPSYYEHYSRYSAYTS--SPYSQQMVAG 58
+++ + ++ P HH + ++ ++ + S + + Y++Q++
Sbjct: 376 TFTTWSETTTVFHEGVPGHHLQVATATYRRELLNNWRRNVCWVSGHGEGWALYAEQLMLE 435
Query: 59 KDMVKPPYSYIALIAMAIQNA 79
+K P ++ ++ A
Sbjct: 436 LGYLKDPGDHMGMLDGQRMRA 456
>1rx0_A Acyl-COA dehydrogenase family member 8, mitochondrial;
flavoprotein, coenzyme A, oxidoreductase; HET: FAD 2MC;
1.77A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1
Length = 393
Score = 27.5 bits (62), Expect = 7.0
Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 13/71 (18%)
Query: 71 LIAMAIQNAPDKRCTLNGIYQFIMER----FPYYR-ENKQGWQNSIRHNLSLNECFVKIP 125
+ M P + GI ++E+ + + E K GW + + +C +P
Sbjct: 179 YVVMCRTGGPGPK----GISCIVVEKGTPGLSFGKKEKKVGWNSQPTRAVIFEDC--AVP 232
Query: 126 RDDK--KPGKG 134
++ G+G
Sbjct: 233 VANRIGSEGQG 243
>1buc_A Butyryl-COA dehydrogenase; acyl-COA dehydrogenase short-chain
acyl-COA dehydrogenase, flavoprotein, oxidoreductase;
HET: CAA FAD; 2.50A {Megasphaera elsdenii} SCOP:
a.29.3.1 e.6.1.1
Length = 383
Score = 27.5 bits (62), Expect = 7.3
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 9/55 (16%)
Query: 87 NGIYQFIMER-FPYYR----ENKQGWQNSIRHNLSLNECFVKIPRDDK--KPGKG 134
+GI FI+E P + E+K G S L + K+P ++ + GKG
Sbjct: 183 HGITAFILEDGTPGFTYGKKEDKMGIHTSQTMELVFQDV--KVPAENMLGEEGKG 235
>2vig_A Short-chain specific acyl-COA dehydrogenase,; fatty acid
metabolism, FAD, polymorphism, flavoprotein,
mitochondrion, disease mutation; HET: FAD COS; 1.9A
{Homo sapiens} PDB: 1jqi_A*
Length = 391
Score = 27.5 bits (62), Expect = 7.4
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 9/55 (16%)
Query: 87 NGIYQFIMER-FPYYR----ENKQGWQNSIRHNLSLNECFVKIPRDDK--KPGKG 134
I F++ P E+K G + S NL +C +IP+D +PG G
Sbjct: 180 KSISAFLVPMPTPGLTLGKKEDKLGIRGSSTANLIFEDC--RIPKDSILGEPGMG 232
>2dvl_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national
project on protein STR and functional analyses; HET:
FAD; 2.50A {Thermus thermophilus}
Length = 372
Score = 27.1 bits (61), Expect = 7.8
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 85 TLNGIYQFIMER-FPYYR----ENKQGWQNSIRHNLSLNECFVKIPRDDK--KPGKG 134
T GI F++E+ P E K G + + L E +P ++ + G+G
Sbjct: 170 TEKGISAFLVEKGTPGLSFGRPEEKMGLHAAHTAEVRLEEV--FVPEENLLGEEGRG 224
>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP:
b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A
Length = 497
Score = 27.2 bits (60), Expect = 7.8
Identities = 10/61 (16%), Positives = 23/61 (37%)
Query: 168 KEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKELKPCKREPSNNLSSSCMGGSHLDIKP 227
KEE + Q + + ++E L + E + + + C+R+ + + P
Sbjct: 352 KEELLPAQDIKALFVSEEEKKLTRKEVYIKNGDKKGSCERDAQYAPGYDKVKDISEVVTP 411
Query: 228 N 228
Sbjct: 412 R 412
>3ryc_E Stathmin-4; alpha-tubulin, beta-tubulin, GTPase, microtubule,
tubulin, cell cycle; HET: GTP GDP; 2.10A {Rattus
norvegicus} PDB: 3ryf_E* 3ryh_E* 3ryi_E* 1sa0_E* 1sa1_E*
1z2b_E* 3du7_E* 3e22_E* 3hkb_E* 3hkc_E* 3hkd_E* 3hke_E*
3n2g_E* 3n2k_E*
Length = 143
Score = 26.6 bits (58), Expect = 7.9
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 156 RRRFKKKDVMKE-KEEAIKRQHVHQAHLLQQENILKKAEEKLMSIKELKPCKRE 208
RR++++ +++K E+ + V Q + + N +K A+EKL E RE
Sbjct: 58 RRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENRE 111
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
0.316 0.131 0.404
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,138,400
Number of extensions: 298484
Number of successful extensions: 742
Number of sequences better than 10.0: 1
Number of HSP's gapped: 721
Number of HSP's successfully gapped: 49
Length of query: 322
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 228
Effective length of database: 4,077,219
Effective search space: 929605932
Effective search space used: 929605932
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 (21.6 bits)
S2: 57 (26.5 bits)