BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy9258
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2X6U|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Free Form
pdb|2X6V|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
Free Form
pdb|2X6V|B Chain B, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
Free Form
Length = 203
Score = 108 bits (269), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 64/155 (41%), Positives = 88/155 (56%), Gaps = 11/155 (7%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGDAERPIAH 59
MIITK GRRMFPS +++V+GL+ Y LL++ A H+YK+ W G AE
Sbjct: 26 MIITKAGRRMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFADNKWSVTGKAE----- 80
Query: 60 PA--ARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVE--GTILLNSMHKYIPRIHLIKN 115
PA RLY HP A G+ W Q + K+KL N ++ G I+LNSMHKY PR+H++K
Sbjct: 81 PAMPGRLYVHPDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMHKYQPRLHIVK- 139
Query: 116 SPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTV 150
+ + + + FP T FIAVT+Y N +
Sbjct: 140 ADENNGFGSKNTAFCTHVFPETAFIAVTSYQNHKI 174
>pdb|4A04|A Chain A, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
Transcription Factor Associated With The Digeorge
Syndrome
pdb|4A04|B Chain B, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
Transcription Factor Associated With The Digeorge
Syndrome
Length = 203
Score = 106 bits (265), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 59/157 (37%), Positives = 87/157 (55%), Gaps = 12/157 (7%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY---KTSWEPVGDAERPI 57
MI+TK GRRMFP+ Q+++ G+D A Y LL++F +Y+Y +SW G A+
Sbjct: 36 MIVTKAGRRMFPTFQVKLFGMDPMADYMLLMDFVPVDDKRYRYAFHSSSWLVAGKAD--- 92
Query: 58 AHPA--ARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVE--GTILLNSMHKYIPRIHLI 113
PA R++ HP A G+ W Q + +K+KL N ++ G I+LNSMH+Y PR H++
Sbjct: 93 --PATPGRVHYHPDSPAKGAQWMKQIVSFDKLKLTNNLLDDNGHIILNSMHRYQPRFHVV 150
Query: 114 KNSPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTV 150
P+ + + F F T F AVTAY N +
Sbjct: 151 YVDPRKDSEKYAEENFKTFVFEETRFTAVTAYQNHRI 187
>pdb|1XBR|A Chain A, T Domain From Xenopus Laevis Bound To Dna
pdb|1XBR|B Chain B, T Domain From Xenopus Laevis Bound To Dna
Length = 184
Score = 105 bits (263), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 60/152 (39%), Positives = 86/152 (56%), Gaps = 12/152 (7%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGDAERPIAH 59
MI+TK GRRMFP L++ +SGLD A Y++L++F A H++KY W P G +P
Sbjct: 22 MIVTKNGRRMFPVLKVSMSGLDPNAMYTVLLDFVAADNHRWKYVNGEWVPGG---KPEPQ 78
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFV-EGTILLNSMHKYIPRIHLIKNSPQ 118
+ +Y HP G+ W + +K+KL N G I+LNS+HKY PRIH+++
Sbjct: 79 APSCVYIHPDSPNFGAHWMKDPVSFSKVKLTNKMNGGGQIMLNSLHKYEPRIHIVRVG-- 136
Query: 119 PSTHWETPLSRAIFAFPITEFIAVTAYANQTV 150
T +FP T+FIAVTAY N+ +
Sbjct: 137 -----GTQRMITSHSFPETQFIAVTAYQNEEI 163
>pdb|1H6F|A Chain A, Human Tbx3, A Transcription Factor Responsible For Ulnar-
Mammary Syndrome, Bound To A Palindromic Dna Site
pdb|1H6F|B Chain B, Human Tbx3, A Transcription Factor Responsible For Ulnar-
Mammary Syndrome, Bound To A Palindromic Dna Site
Length = 193
Score = 105 bits (262), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 60/153 (39%), Positives = 87/153 (56%), Gaps = 9/153 (5%)
Query: 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTS-WEPVGDAERPIAH 59
M+ITK+GRRMFP +++ SGLD+ A Y LL++ A +YK+ S W G A+ +
Sbjct: 25 MVITKSGRRMFPPFKVRCSGLDKKAKYILLMDIIAADDCRYKFHNSRWMVAGKADPEM-- 82
Query: 60 PAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVE--GTILLNSMHKYIPRIHLIKNSP 117
R+Y HP A G W + + +K+KL N + G +LNSMHKY PR H+++ +
Sbjct: 83 -PKRMYIHPDSPATGEQWMSKVVTFHKLKLTNNISDKHGFTILNSMHKYQPRFHIVRAND 141
Query: 118 QPSTHWETPLSRAIFAFPITEFIAVTAYANQTV 150
+ T + + FP TEFIAVTAY N +
Sbjct: 142 ILKLPYSTFRT---YLFPETEFIAVTAYQNDKI 171
>pdb|2P5U|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8 Udp-Glucose
4- Epimerase Complex With Nad
pdb|2P5U|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8 Udp-Glucose
4- Epimerase Complex With Nad
pdb|2P5U|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8 Udp-Glucose
4- Epimerase Complex With Nad
pdb|2P5U|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8 Udp-Glucose
4- Epimerase Complex With Nad
pdb|2P5Y|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8 Udp-glucose
4- Epimerase Complex With Nad
Length = 311
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 116 SPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKDDACLK 157
P+ H E + AIFA + + + VT YA +T D+ C++
Sbjct: 175 GPRQDPHGEAGVV-AIFAERVLKGLPVTLYARKTPGDEGCVR 215
>pdb|3TON|A Chain A, Crystral Structure Of The C-Terminal Subunit Of Human
Maltase- Glucoamylase
pdb|3TON|B Chain B, Crystral Structure Of The C-Terminal Subunit Of Human
Maltase- Glucoamylase
pdb|3TOP|A Chain A, Crystral Structure Of The C-Terminal Subunit Of Human
Maltase- Glucoamylase In Complex With Acarbose
pdb|3TOP|B Chain B, Crystral Structure Of The C-Terminal Subunit Of Human
Maltase- Glucoamylase In Complex With Acarbose
Length = 908
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 11 FPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTSWEPVGDAERPIAHPAARLY 65
FPS + LD H + +++F + P+K +Y+ P+ P + P +LY
Sbjct: 79 FPSTPVNPLRLDVTYHKNEMLQFKIYDPNKNRYEVP-VPLNIPSMPSSTPEGQLY 132
>pdb|3R5Q|A Chain A, Crystal Structure Of Sheep Lactoperoxidase In Complex With
Tetrahydrofuran At 2.7 A Resolution
Length = 595
Score = 27.3 bits (59), Expect = 3.5, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 73 LGSFWTGQTLHLNKIKLANAFVE--------GTILLNSMHKYIPRIHLIKNSPQP 119
L W G+ L+ K+ AF++ +L + M K+IPR NS P
Sbjct: 283 LNPHWDGEKLYQEARKILGAFIQIITFRDYLPIVLGSEMQKWIPRYQGYNNSVDP 337
>pdb|2IKC|A Chain A, Crystal Structure Of Sheep Lactoperoxidase At 3.25 A
Resolution Reveals The Binding Sites For Formate
pdb|2IKC|B Chain B, Crystal Structure Of Sheep Lactoperoxidase At 3.25 A
Resolution Reveals The Binding Sites For Formate
Length = 595
Score = 27.3 bits (59), Expect = 3.5, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 73 LGSFWTGQTLHLNKIKLANAFVE--------GTILLNSMHKYIPRIHLIKNSPQP 119
L W G+ L+ K+ AF++ +L + M K+IPR NS P
Sbjct: 283 LNPHWDGEKLYQEARKILGAFIQIITFRDYLPIVLGSEMQKWIPRYQGYNNSVDP 337
>pdb|2QW5|A Chain A, Crystal Structure Of A Putative Sugar Phosphate
IsomeraseEPIMERASE (Ava4194) From Anabaena Variabilis
Atcc 29413 At 1.78 A Resolution
pdb|2QW5|B Chain B, Crystal Structure Of A Putative Sugar Phosphate
IsomeraseEPIMERASE (Ava4194) From Anabaena Variabilis
Atcc 29413 At 1.78 A Resolution
Length = 335
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 77 WTGQTLHLNKIKLANAFVEGTILLNSMHKYIPRIHLIKNSPQPSTHWETP 126
W+ + K++ ANA +L+ + +Y I +K + +P THWETP
Sbjct: 147 WSDELQEHLKVRYANA----QPILDKLGEYA-EIKKVKLAIEPITHWETP 191
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
pdb|2XR1|B Chain B, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
Length = 640
Score = 26.2 bits (56), Expect = 7.8, Method: Composition-based stats.
Identities = 29/105 (27%), Positives = 42/105 (40%), Gaps = 13/105 (12%)
Query: 16 LQVSGLDQAAHYSLLVEFH---LASPHKYKYKTSWEPVGDAERPIAHPAARLYSHPAGHA 72
LQ+ +D AA + + +A K+ +E V D P +L H AGH
Sbjct: 279 LQLDYIDVAAKEGKKIPYESGMVAKTLKHTIPLDYEEVTDIA-----PDIKLTFHNAGHI 333
Query: 73 LGS----FWTGQTLHLNKIKLANAFVEGTILLNSMHKYIPRIHLI 113
LGS F G LH N + + E T L + PR+ +
Sbjct: 334 LGSAISHFHIGDGLH-NVVFTGDYKYEKTRLFDPAVNKFPRVETV 377
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.132 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,795,120
Number of Sequences: 62578
Number of extensions: 191168
Number of successful extensions: 344
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 329
Number of HSP's gapped (non-prelim): 10
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)