RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17633
(99 letters)
>4a04_A T-box transcription factor TBX1; transcription, T-box proteins;
HET: DNA; 2.58A {Homo sapiens}
Length = 203
Score = 111 bits (278), Expect = 2e-32
Identities = 57/91 (62%), Positives = 68/91 (74%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFPT +V G+ P Y +LMD VPVD+KRYRYA+H SSWLVAGKADP P R++ HP
Sbjct: 44 RMFPTFQVKLFGMDPMADYMLLMDFVPVDDKRYRYAFHSSSWLVAGKADPATPGRVHYHP 103
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNGQ 99
DSP G Q KQ+VSF+K+KLTNN +D NG
Sbjct: 104 DSPAKGAQWMKQIVSFDKLKLTNNLLDDNGH 134
>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 = 110 bits (275), Expect = 4e-32
Identities = 48/91 (52%), Positives = 63/91 (69%), Gaps = 2/91 (2%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFP+ +V TGL P +Y +LMDIVP D+ RY++ + W V GKA+P P RLY+HP
Sbjct: 34 RMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKF--ADNKWSVTGKAEPAMPGRLYVHP 91
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNGQ 99
DSP TG +Q+VSF+K+KLTNN +D G
Sbjct: 92 DSPATGAHWMRQLVSFQKLKLTNNHLDPFGH 122
>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 = 100 bits (251), Expect = 1e-28
Identities = 42/90 (46%), Positives = 52/90 (57%), Gaps = 2/90 (2%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFP L+VS +GL P+ Y VL+D V DN R++Y W+ GK +P AP +Y+HP
Sbjct: 30 RMFPVLKVSMSGLDPNAMYTVLLDFVAADNHRWKY--VNGEWVPGGKPEPQAPSCVYIHP 87
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNG 98
DSP G K VSF KVKLTN
Sbjct: 88 DSPNFGAHWMKDPVSFSKVKLTNKMNGGGQ 117
>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 = 97.9 bits (243), Expect = 2e-27
Identities = 48/91 (52%), Positives = 64/91 (70%), Gaps = 2/91 (2%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFP +V +GL +Y +LMDI+ D+ RY++ H S W+VAGKADP P R+Y+HP
Sbjct: 33 RMFPPFKVRCSGLDKKAKYILLMDIIAADDCRYKF--HNSRWMVAGKADPEMPKRMYIHP 90
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNGQ 99
DSP TG+Q +VV+F K+KLTNN DK+G
Sbjct: 91 DSPATGEQWMSKVVTFHKLKLTNNISDKHGF 121
>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 = 28.8 bits (63), Expect = 0.20
Identities = 7/13 (53%), Positives = 8/13 (61%), Gaps = 2/13 (15%)
Query: 60 APLRLYMHPDS-P 71
A L+LY DS P
Sbjct: 27 ASLKLYA-DDSAP 38
>1mk1_A ADPR pyrophosphatase; nudix hydrolase, adprase, adenosine DI
ribose, RV1700, hydrolase; HET: APR; 2.00A
{Mycobacterium tuberculosis} SCOP: d.113.1.1 PDB:
1mp2_A 1mqe_A* 1mqw_A* 1mr2_A*
Length = 207
Score = 28.4 bits (64), Expect = 0.33
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 8/35 (22%)
Query: 33 IVPVDN-------KRYRYAYHRSSW-LVAGKADPP 59
IV +D+ +YR+ Y R W L AG D
Sbjct: 48 IVAMDDNGNIPMVYQYRHTYGRRLWELPAGLLDVA 82
>2imh_A Hypothetical protein UNP Q5LQD5_silpo; structural genomics, unknown
function, PSI-2, protein struct initiative; HET: MSE;
1.57A {Silicibacter pomeroyi} SCOP: d.153.1.7
Length = 231
Score = 26.9 bits (59), Expect = 1.1
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 46 HRSSWLVAGKADPPAPLRLYMHPDSPFTGDQLRK 79
++ LV PP LR+ HPD+P L +
Sbjct: 164 LSAAMLVLHPDRPPVTLRIDYHPDNPI--GALEQ 195
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 25.6 bits (56), Expect = 3.5
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 20 GLRP--DQRYAVLMDIVPVDNKRYRYAYHR 47
LRP ++ AVL +++ A R
Sbjct: 435 ILRPSKGKKEAVLYELISRGTGEVNTARRR 464
>1yy7_A SSPA, stringent starvation protein A; GST fold, transcription;
HET: CIT; 2.02A {Yersinia pestis}
Length = 213
Score = 25.0 bits (55), Expect = 4.3
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 53 AGKADPPAPLRLYMHPDSPF 72
A A+ + + L+ P F
Sbjct: 2 AVAANKRSVMTLFSGPTDIF 21
>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 = 24.6 bits (53), Expect = 7.9
Identities = 20/108 (18%), Positives = 29/108 (26%), Gaps = 36/108 (33%)
Query: 4 LSHFLRMFPTLRVSF---TGLRPDQRYAVLMD----IVPVDNKRYRYAYHRSSWLVAGKA 56
LSH +L T + L + I+P + + A
Sbjct: 11 LSH-----GSLEHVLLVPTASFF--IASQLQEQFNKILPEPTEGF-----------AADD 52
Query: 57 DPPAPLRLYMH----------PDSPFTGDQ-LRKQVVSFEKVKLTNNE 93
+P P L P DQ L + FE L N+
Sbjct: 53 EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Score = 24.2 bits (52), Expect = 9.2
Identities = 16/69 (23%), Positives = 24/69 (34%), Gaps = 7/69 (10%)
Query: 30 LMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMH--PDS-PFTG-DQLRKQVVSFE 85
L+ K + + WL P Y+ P S P G QL VV+ +
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKD---YLLSIPISCPLIGVIQLAHYVVTAK 254
Query: 86 KVKLTNNEM 94
+ T E+
Sbjct: 255 LLGFTPGEL 263
>1ybe_A Naprtase, nicotinate phosphoribosyltransferase; structural
genomics, protein structure initiative, NYSGXRC, PSI;
2.50A {Agrobacterium tumefaciens} SCOP: c.1.17.2
d.41.2.2
Length = 449
Score = 24.5 bits (53), Expect = 9.1
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 3 GLSHFLRMFPTLRVSFTGLRPD 24
G + FLR P +TG RPD
Sbjct: 293 GTAAFLRNAPEWVADWTGFRPD 314
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
0.323 0.138 0.422
Gapped
Lambda K H
0.267 0.0702 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,580,996
Number of extensions: 82967
Number of successful extensions: 254
Number of sequences better than 10.0: 1
Number of HSP's gapped: 251
Number of HSP's successfully gapped: 34
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
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: 51 (23.5 bits)