RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9258
(163 letters)
>2x6u_A T-box transcription factor TBX5; developmental protein,
DNA-binding, HOLT-ORAM-syndrome, IG-fold, nuclear
protein, repressor; HET: PE4; 1.90A {Homo sapiens} PDB:
2x6v_A*
Length = 203
Score = 123 bits (309), Expect = 3e-36
Identities = 62/155 (40%), Positives = 83/155 (53%), Gaps = 7/155 (4%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTS-WEPVGDAERPIAH 59
MIITK GRRMFPS +++V+GL+ Y LL++ A H+YK+ + W G AE
Sbjct: 26 MIITKAGRRMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFADNKWSVTGKAE---PA 82
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFV--EGTILLNSMHKYIPRIHLIKNSP 117
RLY HP A G+ W Q + K+KL N + G I+LNSMHKY PR+H++K
Sbjct: 83 MPGRLYVHPDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMHKYQPRLHIVKADE 142
Query: 118 QPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKD 152
+ FP T FIAVT+Y N +
Sbjct: 143 NNGFGSKNTAFCT-HVFPETAFIAVTSYQNHKITQ 176
>1xbr_A Protein (T protein); complex (transcription factor/DNA),
transcription factor, DNA-binding protein,
transcription/DNA complex; HET: DNA; 2.50A {Xenopus
laevis} SCOP: b.2.5.4
Length = 184
Score = 117 bits (293), Expect = 6e-34
Identities = 59/153 (38%), Positives = 84/153 (54%), Gaps = 12/153 (7%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTS-WEPVGDAERPIAH 59
MI+TK GRRMFP L++ +SGLD A Y++L++F A H++KY W P G E
Sbjct: 22 MIVTKNGRRMFPVLKVSMSGLDPNAMYTVLLDFVAADNHRWKYVNGEWVPGGKPE---PQ 78
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAF-VEGTILLNSMHKYIPRIHLIKNSPQ 118
+ +Y HP G+ W + +K+KL N G I+LNS+HKY PRIH+++
Sbjct: 79 APSCVYIHPDSPNFGAHWMKDPVSFSKVKLTNKMNGGGQIMLNSLHKYEPRIHIVRVGGT 138
Query: 119 PSTHWETPLSRAIFAFPITEFIAVTAYANQTVK 151
+FP T+FIAVTAY N+ +
Sbjct: 139 QRMITS-------HSFPETQFIAVTAYQNEEIT 164
>4a04_A T-box transcription factor TBX1; transcription, T-box proteins;
HET: DNA; 2.58A {Homo sapiens}
Length = 203
Score = 116 bits (292), Expect = 1e-33
Identities = 57/156 (36%), Positives = 84/156 (53%), Gaps = 8/156 (5%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKT---SWEPVGDAERPI 57
MI+TK GRRMFP+ Q+++ G+D A Y LL++F +Y+Y SW G A+
Sbjct: 36 MIVTKAGRRMFPTFQVKLFGMDPMADYMLLMDFVPVDDKRYRYAFHSSSWLVAGKAD--- 92
Query: 58 AHPAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVE--GTILLNSMHKYIPRIHLIKN 115
R++ HP A G+ W Q + +K+KL N ++ G I+LNSMH+Y PR H++
Sbjct: 93 PATPGRVHYHPDSPAKGAQWMKQIVSFDKLKLTNNLLDDNGHIILNSMHRYQPRFHVVYV 152
Query: 116 SPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVK 151
P+ + + F F T F AVTAY N +
Sbjct: 153 DPRKDSEKYAEENFKTFVFEETRFTAVTAYQNHRIT 188
>1h6f_A T-box transcription factor TBX3; transcription factor, TBX3, T-box
transcription factor; 1.7A {Homo sapiens} SCOP: b.2.5.4
Length = 193
Score = 116 bits (291), Expect = 1e-33
Identities = 60/154 (38%), Positives = 85/154 (55%), Gaps = 9/154 (5%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTS-WEPVGDAERPIAH 59
M+ITK+GRRMFP +++ SGLD+ A Y LL++ A +YK+ S W G A+
Sbjct: 25 MVITKSGRRMFPPFKVRCSGLDKKAKYILLMDIIAADDCRYKFHNSRWMVAGKAD---PE 81
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFV--EGTILLNSMHKYIPRIHLIKNSP 117
R+Y HP A G W + + +K+KL N G +LNSMHKY PR H+++ +
Sbjct: 82 MPKRMYIHPDSPATGEQWMSKVVTFHKLKLTNNISDKHGFTILNSMHKYQPRFHIVRAND 141
Query: 118 QPSTHWETPLSRAIFAFPITEFIAVTAYANQTVK 151
+ T + + FP TEFIAVTAY N +
Sbjct: 142 ILKLPYSTFRT---YLFPETEFIAVTAYQNDKIT 172
>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 = 34.4 bits (78), Expect = 0.012
Identities = 23/133 (17%), Positives = 39/133 (29%), Gaps = 29/133 (21%)
Query: 5 KTGRRMFPSLQL--QVSGLDQAAHYSLLVEFHLASPHKYKYKTSWEPVGDAERPIAHPAA 62
K PS+ L +V ++ A + +V+ H P + P D
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVD-HYNIPKTFDSDDLIPPYLDQ--------- 471
Query: 63 RLYSHPAGHALGSFWTGQTLHLNKIKLANAFVEGTI---------------LLNSMHKYI 107
YSH H + + L F+E I L + Y
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFY- 530
Query: 108 PRIHLIKNSPQPS 120
+ ++ N P+
Sbjct: 531 -KPYICDNDPKYE 542
>3v5n_A Oxidoreductase; structural genomics, PSI-biology, protein structure
initiati nysgrc, NEW YORK structural genomics research
consortium; 2.80A {Sinorhizobium meliloti}
Length = 417
Score = 27.9 bits (62), Expect = 1.6
Identities = 19/72 (26%), Positives = 26/72 (36%), Gaps = 11/72 (15%)
Query: 6 TGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTSWEPVGDAERPIA--HPAAR 63
G L ++V G + +E+ P+ Y EP R A PAA
Sbjct: 294 PGHEN--GLMVRVYG-TKGG-----LEWTQKDPNYLWYTPFGEPKRLLTRAGAGASPAAA 345
Query: 64 LYSH-PAGHALG 74
S P+GH G
Sbjct: 346 RVSRIPSGHPEG 357
>1lsh_B Lipovitellin (LV-2); vitellogenin, lipoprotein, plasma apolipoprote
apolipoprotein B, APOB; HET: PLD UPL; 1.90A
{Ichthyomyzon unicuspis} SCOP: f.7.1.1
Length = 319
Score = 27.5 bits (60), Expect = 2.2
Identities = 13/62 (20%), Positives = 22/62 (35%), Gaps = 9/62 (14%)
Query: 12 PSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTSW---------EPVGDAERPIAHPAA 62
P ++ L + + L +F L++ K K W +HPAA
Sbjct: 85 PKAKIVAVELSDLSVWKLCAKFRLSAHMKAKAAIGWGKNCQQYRAMLEASTGNLQSHPAA 144
Query: 63 RL 64
R+
Sbjct: 145 RV 146
>2gnr_A Conserved hypothetical protein; 13815350, structural genomics,
PSI, protein structure initiative; 1.80A {Sulfolobus
solfataricus P2} SCOP: b.40.4.15 PDB: 3irb_A
Length = 145
Score = 26.5 bits (58), Expect = 3.3
Identities = 9/37 (24%), Positives = 12/37 (32%), Gaps = 3/37 (8%)
Query: 46 SWEPVGDAERPIAHPAARL---YSHPAGHALGSFWTG 79
SWE G + Y + G A F+ G
Sbjct: 3 SWEKSGKEGSLLRWYDVMEAERYEYTVGPAGEQFFNG 39
>3kzv_A Uncharacterized oxidoreductase YIR035C; cytoplasmic protein,
unknown function, structural genomics, MCSG, protein
structure initiative; 2.00A {Saccharomyces cerevisiae}
Length = 254
Score = 26.5 bits (59), Expect = 4.4
Identities = 11/51 (21%), Positives = 15/51 (29%), Gaps = 6/51 (11%)
Query: 37 SPHKYKYKTSWEPVGDAERP--IAHPAARLYSHPAGHALGSFWTGQTLHLN 85
S + K + A A+L A H + GQ L N
Sbjct: 199 SAEQLKMFRGLKENNQLLDSSVPATVYAKL----ALHGIPDGVNGQYLSYN 245
>2qq5_A DHRS1, dehydrogenase/reductase SDR family member 1; short-chain,
structura genomics consortium, SGC, oxidoreductase;
1.80A {Homo sapiens}
Length = 260
Score = 26.4 bits (59), Expect = 4.5
Identities = 6/38 (15%), Positives = 9/38 (23%), Gaps = 6/38 (15%)
Query: 48 EPVGDAERP--IAHPAARLYSHPAGHALGSFWTGQTLH 83
AE L + P +G+ L
Sbjct: 219 SAFSSAETTELSGKCVVALATDPNI----LSLSGKVLP 252
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
0.321 0.132 0.407
Gapped
Lambda K H
0.267 0.0479 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,419,614
Number of extensions: 129614
Number of successful extensions: 267
Number of sequences better than 10.0: 1
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 25
Length of query: 163
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 77
Effective length of database: 4,300,587
Effective search space: 331145199
Effective search space used: 331145199
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.8 bits)