RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16661
(190 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 = 121 bits (305), Expect = 3e-35
Identities = 60/100 (60%), Positives = 77/100 (77%)
Query: 73 HNRRMFPAYKVRVMGLDKKAKYILLMDIVAADDCRYKFHNSRWMVAGKADPEMPKRMYIH 132
RRMFP+YKV+V GL+ K KYILLMDIV ADD RYKF +++W V GKA+P MP R+Y+H
Sbjct: 31 AGRRMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFADNKWSVTGKAEPAMPGRLYVH 90
Query: 133 PDSPSTGDQWMQKVVSFHKLKLTNNISDKHGFVMSASVDR 172
PDSP+TG WM+++VSF KLKLTNN D G ++ S+ +
Sbjct: 91 PDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMHK 130
Score = 51.3 bits (122), Expect = 2e-08
Identities = 22/38 (57%), Positives = 29/38 (76%)
Query: 1 MFPQMKFRVSGLDAKAKYILLLDIVASDDFRYKFHNRQ 38
MFP K +V+GL+ K KYILL+DIV +DD RYKF + +
Sbjct: 35 MFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFADNK 72
>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 = 112 bits (282), Expect = 5e-32
Identities = 44/95 (46%), Positives = 63/95 (66%)
Query: 73 HNRRMFPAYKVRVMGLDKKAKYILLMDIVAADDCRYKFHNSRWMVAGKADPEMPKRMYIH 132
+ RRMFP KV + GLD A Y +L+D VAAD+ R+K+ N W+ GK +P+ P +YIH
Sbjct: 27 NGRRMFPVLKVSMSGLDPNAMYTVLLDFVAADNHRWKYVNGEWVPGGKPEPQAPSCVYIH 86
Query: 133 PDSPSTGDQWMQKVVSFHKLKLTNNISDKHGFVMS 167
PDSP+ G WM+ VSF K+KLTN ++ +++
Sbjct: 87 PDSPNFGAHWMKDPVSFSKVKLTNKMNGGGQIMLN 121
Score = 50.1 bits (119), Expect = 4e-08
Identities = 19/38 (50%), Positives = 27/38 (71%)
Query: 1 MFPQMKFRVSGLDAKAKYILLLDIVASDDFRYKFHNRQ 38
MFP +K +SGLD A Y +LLD VA+D+ R+K+ N +
Sbjct: 31 MFPVLKVSMSGLDPNAMYTVLLDFVAADNHRWKYVNGE 68
>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 = 111 bits (279), Expect = 2e-31
Identities = 82/97 (84%), Positives = 88/97 (90%)
Query: 73 HNRRMFPAYKVRVMGLDKKAKYILLMDIVAADDCRYKFHNSRWMVAGKADPEMPKRMYIH 132
RRMFP +KVR GLDKKAKYILLMDI+AADDCRYKFHNSRWMVAGKADPEMPKRMYIH
Sbjct: 30 SGRRMFPPFKVRCSGLDKKAKYILLMDIIAADDCRYKFHNSRWMVAGKADPEMPKRMYIH 89
Query: 133 PDSPSTGDQWMQKVVSFHKLKLTNNISDKHGFVMSAS 169
PDSP+TG+QWM KVV+FHKLKLTNNISDKHGF + S
Sbjct: 90 PDSPATGEQWMSKVVTFHKLKLTNNISDKHGFTILNS 126
Score = 47.1 bits (111), Expect = 4e-07
Identities = 27/38 (71%), Positives = 31/38 (81%)
Query: 1 MFPQMKFRVSGLDAKAKYILLLDIVASDDFRYKFHNRQ 38
MFP K R SGLD KAKYILL+DI+A+DD RYKFHN +
Sbjct: 34 MFPPFKVRCSGLDKKAKYILLMDIIAADDCRYKFHNSR 71
>4a04_A T-box transcription factor TBX1; transcription, T-box proteins;
HET: DNA; 2.58A {Homo sapiens}
Length = 203
Score = 108 bits (271), Expect = 4e-30
Identities = 53/96 (55%), Positives = 72/96 (75%), Gaps = 2/96 (2%)
Query: 73 HNRRMFPAYKVRVMGLDKKAKYILLMDIVAADDCRYK--FHNSRWMVAGKADPEMPKRMY 130
RRMFP ++V++ G+D A Y+LLMD V DD RY+ FH+S W+VAGKADP P R++
Sbjct: 41 AGRRMFPTFQVKLFGMDPMADYMLLMDFVPVDDKRYRYAFHSSSWLVAGKADPATPGRVH 100
Query: 131 IHPDSPSTGDQWMQKVVSFHKLKLTNNISDKHGFVM 166
HPDSP+ G QWM+++VSF KLKLTNN+ D +G ++
Sbjct: 101 YHPDSPAKGAQWMKQIVSFDKLKLTNNLLDDNGHII 136
Score = 46.8 bits (110), Expect = 6e-07
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 1 MFPQMKFRVSGLDAKAKYILLLDIVASDDFRYKFHNRQ 38
MFP + ++ G+D A Y+LL+D V DD RY++
Sbjct: 45 MFPTFQVKLFGMDPMADYMLLMDFVPVDDKRYRYAFHS 82
>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 = 32.9 bits (74), Expect = 0.055
Identities = 31/152 (20%), Positives = 45/152 (29%), Gaps = 25/152 (16%)
Query: 4 QMKFRVSGLDAKAKYILLLDIVASDDFRYKFHNRQMFPQMKFRVSGLDAKAKYILLLDIV 63
M F + K IL V D F F + + K +S + I+
Sbjct: 6 HMDFETGEHQYQYKDILS---VFEDAFVDNFDCKDVQDMPKSILSKEEID-------HII 55
Query: 64 ASDDFRYKFHNRRMFPAYKVRVMGLDKKAKYILLMDIVAADDCRYKFHNSRWMVAGKADP 123
S D R+F L K + ++ + YKF S + P
Sbjct: 56 MSKDAVSGT--LRLFWT-------LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR-QP 105
Query: 124 EMPKRMYIHPDSPSTGDQWMQKVVSFHKLKLT 155
M RMYI D F K ++
Sbjct: 106 SMMTRMYIEQRDRLYND-----NQVFAKYNVS 132
Score = 32.1 bits (72), Expect = 0.097
Identities = 31/172 (18%), Positives = 56/172 (32%), Gaps = 39/172 (22%)
Query: 7 FRVSGLDAKAKYILL-LDIVASDDFRYKFHNRQMFPQMKFRVSGLDAKAKYILL----LD 61
++ D I L+++ ++R F +FP A ILL D
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP--------SAHIPTILLSLIWFD 398
Query: 62 IVASD--DFRYKFHNRRMFPAYKVRVMGLDKKAK------YILLMDIVAADDCRYKFHNS 113
++ SD K H + ++K+ K + +++ + Y H S
Sbjct: 399 VIKSDVMVVVNKLHKYSL----------VEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 114 RWMVAGKADPEMPKRMYIHPD-SPSTGDQWMQKVVSFHKLKLTNNISDKHGF 164
+V D + + D P DQ+ + H LK + F
Sbjct: 449 --IV----DHYNIPKTFDSDDLIPPYLDQYFYSHIGHH-LKNIEHPERMTLF 493
>3nqk_A Uncharacterized protein; structural genomics, unknown function,
joint center for STRU genomics, JCSG, protein structure
initiative, PSI-2; HET: MSE; 2.61A {Bacteroides ovatus}
PDB: 3sot_A*
Length = 319
Score = 27.5 bits (60), Expect = 2.7
Identities = 11/42 (26%), Positives = 21/42 (50%)
Query: 6 KFRVSGLDAKAKYILLLDIVASDDFRYKFHNRQMFPQMKFRV 47
F + +D K++L L IV + Y+ H R+ + + +V
Sbjct: 113 DFNLQDIDMLEKWVLPLTIVDDGSYAYQSHPRKNYAKALLKV 154
>3ugj_A Phosphoribosylformylglycinamidine synthase; amidotransferase,
glutaminase, thioester intermediate, ligas; HET: ADP;
1.78A {Salmonella enterica subsp} PDB: 1t3t_A* 3ujn_A*
3umm_A*
Length = 1303
Score = 27.3 bits (60), Expect = 4.2
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 106 CRYKFHNSRWMVAGKADPEMPKRMY 130
CR+K N+ W++ GK PK ++
Sbjct: 225 CRHKIFNADWIIDGK---PQPKSLF 246
>4edg_A DNA primase; catalytic domain, nucleoside triphosphate, nucleoside
polyph protein-ligand complex, transferase; HET: DNA
ATP; 2.00A {Staphylococcus aureus} PDB: 4edk_A* 4edr_A*
4edt_A* 4edv_A* 4ee1_A*
Length = 329
Score = 26.8 bits (60), Expect = 5.0
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 10/34 (29%)
Query: 71 KFHNRRMFPAY----KV-----RVMGLDKKAKYI 95
+F NR MFP ++ R ++ KY+
Sbjct: 93 RFRNRIMFPLKNAQGRIVGYSGRTYT-GQEPKYL 125
>2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication,
transf; HET: DNA; 2.00A {Aquifex aeolicus}
Length = 407
Score = 26.7 bits (60), Expect = 5.7
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 10/44 (22%)
Query: 62 IVASDDFRY-KFHNRRMFPAY----KV-----RVMGLDKKAKYI 95
+ + F R + P +V R + DK KYI
Sbjct: 174 LSPTKGVYRDLFLRRVVIPIKDPRGRVIGFGGRRIVEDKSPKYI 217
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
0.325 0.138 0.412
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,944,063
Number of extensions: 170767
Number of successful extensions: 325
Number of sequences better than 10.0: 1
Number of HSP's gapped: 320
Number of HSP's successfully gapped: 23
Length of query: 190
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 102
Effective length of database: 4,244,745
Effective search space: 432963990
Effective search space used: 432963990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.5 bits)