RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6789
(331 letters)
>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 = 101 bits (254), Expect = 3e-27
Identities = 33/79 (41%), Positives = 48/79 (60%), Gaps = 5/79 (6%)
Query: 51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
+PPFTY LI QA+ E QLT++ IY W + F Y+ +N WKN+VRHNLS++ F
Sbjct: 3 RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCF- 61
Query: 109 KGVKASQGAGHLWNLSDME 127
V+ G +W + ++E
Sbjct: 62 --VRVENVKGAVWTVDEVE 78
>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 = 97.7 bits (244), Expect = 1e-25
Identities = 36/79 (45%), Positives = 49/79 (62%), Gaps = 4/79 (5%)
Query: 49 HRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPH 106
H KPP++Y LI A+++ LT+S IYQWI + FPYY +N RW+NS+RH+LS N
Sbjct: 1 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 60
Query: 107 FRKGVKASQ--GAGHLWNL 123
F K ++ G G W L
Sbjct: 61 FVKVARSPDKPGKGSYWAL 79
>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 = 96.2 bits (240), Expect = 5e-25
Identities = 33/84 (39%), Positives = 51/84 (60%), Gaps = 4/84 (4%)
Query: 44 SHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNL 101
+ KPP++Y +LI QA+ QLT++GIY I++ +PYY D W+NS+RHNL
Sbjct: 9 MGRGSDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNL 68
Query: 102 SINPHFRKGVKASQ--GAGHLWNL 123
S+N +F K ++ + G G W +
Sbjct: 69 SLNRYFIKVPRSQEEPGKGSFWRI 92
>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 = 94.2 bits (235), Expect = 2e-24
Identities = 34/77 (44%), Positives = 49/77 (63%), Gaps = 4/77 (5%)
Query: 51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
KPP++Y LI A+ + + +LT+SGI ++IS RFPYY + W+NS+RHNLS+N F
Sbjct: 2 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 109 KGVKASQ--GAGHLWNL 123
K + G G+ W L
Sbjct: 62 KIPREPGNPGKGNYWTL 78
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus
norvegicus} SCOP: a.4.5.14
Length = 109
Score = 93.9 bits (234), Expect = 3e-24
Identities = 34/77 (44%), Positives = 49/77 (63%), Gaps = 4/77 (5%)
Query: 51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
KPP++Y LI A+ + + +LT+SGI ++IS RFPYY + W+NS+RHNLS+N F
Sbjct: 3 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 62
Query: 109 KGVKASQ--GAGHLWNL 123
K + G G+ W L
Sbjct: 63 KIPREPGNPGKGNYWTL 79
>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 = 92.8 bits (231), Expect = 5e-24
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 47 KTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYY-----NQNDDRWKNSVRH 99
+ + +Y ELI QA++ + +LT++ IY+W+ PY+ + + WKNS+RH
Sbjct: 1 RRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRH 60
Query: 100 NLSINPHFRKGVKASQGAGHLWNL 123
NLS++ F K + G W L
Sbjct: 61 NLSLHSKFIKVHNEATGKSSWWML 84
>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 = 93.1 bits (232), Expect = 6e-24
Identities = 27/78 (34%), Positives = 47/78 (60%), Gaps = 5/78 (6%)
Query: 51 KPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFR 108
KPP++Y LI A+++ +LT++ I +++ +FP++ + W+NSVRHNLS+N F
Sbjct: 2 KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 109 KGVKAS---QGAGHLWNL 123
K ++ G + W L
Sbjct: 62 KVLRDPSRPWGKDNYWML 79
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 91.0 bits (226), Expect = 5e-23
Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 43 PSHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYY-----NQNDDRWKN 95
++ + +Y ELI QA++ + +LT++ IY+W+ PY+ + + WKN
Sbjct: 16 KGGSRRNAWGNQSYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKN 75
Query: 96 SVRHNLSINPHFRKGVKASQGAGHLWNL 123
S+RHNLS++ F K + G W L
Sbjct: 76 SIRHNLSLHSKFIKVHNEATGKSSWWML 103
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 90.3 bits (224), Expect = 2e-22
Identities = 26/84 (30%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 43 PSHAKTHRKPPFTYTELIEQALK--EKHQLTVSGIYQWISERFPYY-NQNDDRWKNSVRH 99
+PP++Y +I+ A+ E+ ++T+ IY WI + FPY+ + WKNS+RH
Sbjct: 10 SWQNSVSERPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRH 69
Query: 100 NLSINPHFRKGVKASQGAGHLWNL 123
NLS++ F + ++ G W +
Sbjct: 70 NLSLHDMFVR-ETSANGKVSFWTI 92
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 88.5 bits (219), Expect = 1e-21
Identities = 30/117 (25%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 14 PGQFSPMEPCQTSSHKPEPSQSEVEDRCCPSHAKTHRKPPFTYTELIEQALKE--KHQLT 71
S + S +P ++ + +Y ELI QA++ + +LT
Sbjct: 6 HHHHSSGLVPRGSHMLEDPGAVTGPR---KGGSRRNAWGNQSYAELISQAIESAPEKRLT 62
Query: 72 VSGIYQWISERFPYY-----NQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHLWNL 123
++ IY+W+ PY+ + + WKNS+RHNLS++ F K + G W L
Sbjct: 63 LAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKFIKVHNEATGKSSWWML 119
>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 = 86.0 bits (213), Expect = 4e-21
Identities = 26/87 (29%), Positives = 47/87 (54%), Gaps = 7/87 (8%)
Query: 44 SHAKTHRKPPFTYTELIEQALKE--KHQLTVSGIYQWISERFPYY-----NQNDDRWKNS 96
S ++ + +Y +LI +A++ + +LT+S IY+W+ + PY+ + + WKNS
Sbjct: 4 SSSRRNAWGNLSYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNS 63
Query: 97 VRHNLSINPHFRKGVKASQGAGHLWNL 123
+RHNLS++ F + G W L
Sbjct: 64 IRHNLSLHSKFIRVQNEGTGKSSWWML 90
>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 = 39.5 bits (91), Expect = 0.001
Identities = 36/246 (14%), Positives = 73/246 (29%), Gaps = 83/246 (33%)
Query: 50 RKPPFTYTELIEQALKEKHQLTVSGIYQWISERFPY-YNQNDDRWK--NSVRHNL-SINP 105
K + +E+ L+ Y+++ Q + R L + N
Sbjct: 73 SKQEEMVQKFVEEVLRIN--------YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 106 HFRKGVKASQGAGHLWNLSDMEPVEDASKSNWKKNRLKTYLESLQPSEW----GDDYSGQ 161
F K +N+S ++P +L+ L L+P++ G SG+
Sbjct: 125 VFAK-----------YNVSRLQPY----------LKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 162 NSTETPAPSMETMPQPQPQPLNTMSLAHDPLQPFEVYSQESKTFPYEECKDVLYIQ-SND 220
+A D ++V + ++ + ++ N
Sbjct: 164 T-----------------------WVALDVCLSYKVQCK----MDFK----IFWLNLKNC 192
Query: 221 NVLYTPHED----HKLYHNDNVLYTPGEDHKLYQYEPSKNLIMAAYDGGQEKVEIFASDT 276
N +P KL + + +T DH S N+ + + E + S
Sbjct: 193 N---SPETVLEMLQKLLYQIDPNWTSRSDH-------SSNIKLRIHSIQAELRRLLKSKP 242
Query: 277 ISKNLI 282
L+
Sbjct: 243 YENCLL 248
Score = 32.1 bits (72), Expect = 0.30
Identities = 17/165 (10%), Positives = 47/165 (28%), Gaps = 60/165 (36%)
Query: 209 ECKDVLYIQSN-------DNVLYTPHEDHKLYHNDNVLYTPGEDHKLYQY------EPSK 255
+CKDV + + D+++ + L + E ++ Q +
Sbjct: 34 DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE--EMVQKFVEEVLRINY 91
Query: 256 NLIMAAYDGGQEKVEIFASDTISKNLIMAAYDGGQEK----VEIFASDTISRKSIHR--R 309
+M+ ++ +++ Y +++ ++FA +SR + R
Sbjct: 92 KFLMSPI----------KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141
Query: 310 KW-------------------KSS----------RRIRFPGNLSW 325
+ K+ + + + W
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Score = 27.5 bits (60), Expect = 7.1
Identities = 36/275 (13%), Positives = 67/275 (24%), Gaps = 110/275 (40%)
Query: 23 CQ---TSSHKPEPSQSEVEDRCCPSHAK----THRKPPFTYTE---------------LI 60
C+ T+ K +V D + H T E L
Sbjct: 266 CKILLTTRFK------QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 61 EQALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRHNLSINPHFRKGVKASQGAGHL 120
+ L + +S I + I + W N
Sbjct: 320 REVLTT-NPRRLSIIAESIRDGL-------ATWDN------------------------- 346
Query: 121 WNLSDMEPVEDASKSNWKKNRLKTYLESLQPSEWGDDYSGQNSTETPAPSMETMPQPQPQ 180
W + + + +++ L L+P+E+ + + P
Sbjct: 347 WKHVNCDKLTTI---------IESSLNVLEPAEYRKMFD----------RLSVFPPSAHI 387
Query: 181 PLNTMSL------AHDP---LQPFEVYS---QESKTFPYEECKDVLY-----IQSNDNVL 223
P +SL D + YS ++ K + ++
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS-----IPSIYLELKVKLENE 442
Query: 224 YTPH-------EDHKLYHNDNVLYTPGEDHKLYQY 251
Y H K + +D+ L P D Y +
Sbjct: 443 YALHRSIVDHYNIPKTFDSDD-LIPPYLDQYFYSH 476
>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 = 36.2 bits (83), Expect = 0.017
Identities = 27/182 (14%), Positives = 59/182 (32%), Gaps = 54/182 (29%)
Query: 179 PQPLNTMSLAHDPLQPFEVYS----------QESKTFPYEEC-KDVL------YIQSND- 220
P+P + +P P E+ + SK +++ L Y++ ND
Sbjct: 42 PEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI 101
Query: 221 NVL---YTPHEDHKLYHNDNVL--Y-----------TPGEDHKLYQYEPSKNL-IMAAYD 263
+ L D L ++ Y + L++ N ++A +
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF- 160
Query: 264 GGQ--------EKVEIFAS-DTISKNLIMAAYDGGQEKVEIFASDTISRKSIHRR----- 309
GGQ E +++ + + +LI + E + T+ + + +
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFS----AETLSELIRTTLDAEKVFTQGLNIL 216
Query: 310 KW 311
+W
Sbjct: 217 EW 218
>2rqp_A Heterochromatin protein 1-binding protein 3; histone H1,
alternative splicing, chromosomal protein, DNA-binding,
nucleus, phosphoprotein; NMR {Homo sapiens}
Length = 88
Score = 28.6 bits (64), Expect = 0.85
Identities = 10/74 (13%), Positives = 25/74 (33%), Gaps = 14/74 (18%)
Query: 43 PSHAKTHRKPPFTYTELIE---QALKEKHQLTVSGIYQWISERFPYYNQNDDRWKNSVRH 99
P A + +P ++ +A +K +V I ++I ++P R
Sbjct: 2 PGMASS-PRPK--MDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELE--------RR 50
Query: 100 NLSINPHFRKGVKA 113
+ ++ +
Sbjct: 51 GYLLKQALKRELNR 64
>1xdw_A NAD+-dependent (R)-2-hydroxyglutarate dehydrogenase; structural
variant of the BAB rossmann fold, oxidoreductase; 1.98A
{Acidaminococcus fermentans}
Length = 331
Score = 29.9 bits (68), Expect = 1.1
Identities = 9/38 (23%), Positives = 12/38 (31%), Gaps = 7/38 (18%)
Query: 197 VYSQESKTFPYEECKDVL-------YIQSNDNVLYTPH 227
V E+ F + L + VL TPH
Sbjct: 260 VLDGEASVFGKDLEGQKLENPLFEKLVDLYPRVLITPH 297
>2pi1_A D-lactate dehydrogenase; oxidoreductase, D-LDH, NAD, 3D-structure,
structural genomics, NPPSFA; HET: MSE NAD; 2.12A
{Aquifex aeolicus VF5} PDB: 3kb6_A*
Length = 334
Score = 29.1 bits (66), Expect = 2.2
Identities = 8/46 (17%), Positives = 14/46 (30%), Gaps = 8/46 (17%)
Query: 197 VYSQESKTFPYEECKDVLYIQSNDNVLYTPHEDHKLYHNDNVLYTP 242
V+ E + + + +L DNV+ TP
Sbjct: 256 VFEDEEILILKK--------YTEGKATDKNLKILELACKDNVIITP 293
>3f7f_A Nucleoporin NUP120; nuclear pore complex, macromolecular assembly,
membrane coat, nucleocytoplasmic transport,
beta-propeller; 2.60A {Saccharomyces cerevisiae} PDB:
3h7n_A 3hxr_A
Length = 729
Score = 29.4 bits (65), Expect = 2.2
Identities = 12/101 (11%), Positives = 31/101 (30%), Gaps = 16/101 (15%)
Query: 93 WKNSVRHNLSINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSN----------WKKN-- 140
V + + F+ + + A +W++ D+ + WK
Sbjct: 301 GTLLVDSSGILTYTFQNNIPTNLSASAIWSIVDLVLTRPLELNVEASYLNLIVLWKSGTA 360
Query: 141 -RLKTY---LESLQPSEWGDDYSGQNSTETPAPSMETMPQP 177
+L+ ES + EW + + ++ + +
Sbjct: 361 SKLQILNVNDESFKNYEWIESVNKSLVDLQSEHDLDIVTKT 401
>1j4a_A D-LDH, D-lactate dehydrogenase; NAD-dependent dehydrogenase,
reversible interconversion of pyruvate INTO D-lactate;
1.90A {Lactobacillus delbrueckii subsp} SCOP: c.2.1.4
c.23.12.1 PDB: 1j49_A* 2dld_A*
Length = 333
Score = 28.7 bits (65), Expect = 2.8
Identities = 9/37 (24%), Positives = 12/37 (32%), Gaps = 6/37 (16%)
Query: 197 VYSQESKTFPYEECKDVL------YIQSNDNVLYTPH 227
VY E F + + + NVL TP
Sbjct: 261 VYEGEVGIFNEDWEGKEFPDARLADLIARPNVLVTPK 297
>3ghp_A Cellulosomal scaffoldin adaptor protein B; linker segments, beta
barrel, alpha helix, beta flaps, structural protein;
2.49A {Acetivibrio cellulolyticus}
Length = 227
Score = 28.3 bits (62), Expect = 3.1
Identities = 13/59 (22%), Positives = 19/59 (32%), Gaps = 3/59 (5%)
Query: 136 NWKKNRLKTYLESLQPSEWGDDYSGQNSTETPAPSMETMPQPQPQPLNTMSLAHDPLQP 194
NW NR+++ +QP E S +T TP P T +
Sbjct: 154 NWYGNRIQSGYFVIQPGEIN---SAPIATATPTTKPTAFASTMPTVTLTPTPTATTTTT 209
>1dxy_A D-2-hydroxyisocaproate dehydrogenase; D-2-hydroxycarboxylate
dehydrogenase, D-lactate dehydrogenas oxidoreductase;
HET: NAD; 1.86A {Lactobacillus casei} SCOP: c.2.1.4
c.23.12.1
Length = 333
Score = 28.3 bits (64), Expect = 3.9
Identities = 6/37 (16%), Positives = 11/37 (29%), Gaps = 6/37 (16%)
Query: 197 VYSQESKTFPYEECKDVL------YIQSNDNVLYTPH 227
Y E++ + NV+ +PH
Sbjct: 259 TYEYETEDLLNLAKHGSFKDPLWDELLGMPNVVLSPH 295
>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 = 12/40 (30%), Positives = 17/40 (42%), Gaps = 15/40 (37%)
Query: 138 KKNRLKTYLE-SLQPSEWGDDYSGQNSTETPA----PSME 172
+K LK L+ SL+ + DD PA +ME
Sbjct: 18 EKQALKK-LQASLKL--YADD-------SAPALAIKATME 47
>3er7_A Uncharacterized NTF2-like protein; YP_001812677.1, NTF2-like
protein of unknown function, struc genomics; HET: MSE;
1.50A {Exiguobacterium sibiricum 255-15} SCOP: d.17.4.24
Length = 131
Score = 26.7 bits (58), Expect = 6.1
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 102 SINPHFRKGVKASQGAGHLWNLSDMEPVEDASKSNW 137
+ R A+Q H++ D ++ W
Sbjct: 50 AWKQFVRMVFTANQDIKHMYAGWVPSETGDTMETRW 85
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
0.313 0.129 0.395
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,867,326
Number of extensions: 265395
Number of successful extensions: 512
Number of sequences better than 10.0: 1
Number of HSP's gapped: 493
Number of HSP's successfully gapped: 29
Length of query: 331
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 237
Effective length of database: 4,077,219
Effective search space: 966300903
Effective search space used: 966300903
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 (21.9 bits)
S2: 57 (26.3 bits)