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= 042386
(699 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JUH|A Chain A, Solution Structure Of Dna Binding Domain Of Ngtrf1
Length = 121
Score = 160 bits (405), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 74/98 (75%), Positives = 81/98 (82%)
Query: 584 PVHRKSKRSEIVQRRIRRPFSXXXXXXXXXXXXKLGTGRWRDVKLRAFDNAKHRTYVDLK 643
PV++KSKRSE+ QRRIRRPFS LGTGRWRDVK+RAFDNA HRTYVDLK
Sbjct: 1 PVNQKSKRSELSQRRIRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLK 60
Query: 644 DKWKTLVHTARISPQQRRGEPVPQELLDRVLTAHAYWT 681
DKWKTLVHTA I+PQQRRGEPVPQ+LLDRVL AHAYW+
Sbjct: 61 DKWKTLVHTASIAPQQRRGEPVPQDLLDRVLAAHAYWS 98
>pdb|2ROH|A Chain A, The Dna Binding Domain Of Rtbp1
Length = 122
Score = 145 bits (365), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 71/103 (68%), Positives = 77/103 (74%), Gaps = 1/103 (0%)
Query: 579 ALAVVPVHRKSKRSEIVQRRIRRPFSXXXXXXXXXXXXKLGTGRWRDVKLRAFDNAKHRT 638
ALA VP+ R SKR + QRRIRRPF+ LGTGRWRDVK RAF+N HRT
Sbjct: 11 ALANVPLSR-SKRPDFGQRRIRRPFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRT 69
Query: 639 YVDLKDKWKTLVHTARISPQQRRGEPVPQELLDRVLTAHAYWT 681
YVDLKDKWKTLVHTA I+PQQRRG PVPQELLDRVL A AYW+
Sbjct: 70 YVDLKDKWKTLVHTASIAPQQRRGAPVPQELLDRVLAAQAYWS 112
>pdb|2QHB|A Chain A, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
pdb|2QHB|B Chain B, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
Length = 86
Score = 142 bits (357), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 65/85 (76%), Positives = 69/85 (81%)
Query: 597 RRIRRPFSXXXXXXXXXXXXKLGTGRWRDVKLRAFDNAKHRTYVDLKDKWKTLVHTARIS 656
RRIRRPFS LGTGRWRDVK+RAFDNA HRTYVDLKDKWKTLVHTA I+
Sbjct: 1 RRIRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIA 60
Query: 657 PQQRRGEPVPQELLDRVLTAHAYWT 681
PQQRRGEPVPQ+LLDRVL AHAYW+
Sbjct: 61 PQQRRGEPVPQDLLDRVLAAHAYWS 85
>pdb|2AJE|A Chain A, Solution Structure Of The Arabidopsis Thaliana Telomeric
Repeat-Binding Protein Dna Binding Domain
Length = 105
Score = 141 bits (355), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 66/86 (76%), Positives = 70/86 (81%)
Query: 596 QRRIRRPFSXXXXXXXXXXXXKLGTGRWRDVKLRAFDNAKHRTYVDLKDKWKTLVHTARI 655
QRRIRRPFS KLGTGRWRDVKL AF++A HRTYVDLKDKWKTLVHTA+I
Sbjct: 9 QRRIRRPFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTLVHTAKI 68
Query: 656 SPQQRRGEPVPQELLDRVLTAHAYWT 681
SPQQRRGEPVPQELL+RVL AH YWT
Sbjct: 69 SPQQRRGEPVPQELLNRVLNAHGYWT 94
>pdb|2CKX|A Chain A, Crystal Structure Of Ngtrf1, Double-Stranded Telomeric
Repeat Binding Factor From Nicotiana Tabacum
Length = 83
Score = 135 bits (339), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 61/81 (75%), Positives = 65/81 (80%)
Query: 601 RPFSXXXXXXXXXXXXKLGTGRWRDVKLRAFDNAKHRTYVDLKDKWKTLVHTARISPQQR 660
RPFS LGTGRWRDVK+RAFDNA HRTYVDLKDKWKTLVHTA I+PQQR
Sbjct: 1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQR 60
Query: 661 RGEPVPQELLDRVLTAHAYWT 681
RGEPVPQ+LLDRVL AHAYW+
Sbjct: 61 RGEPVPQDLLDRVLAAHAYWS 81
>pdb|2XSG|A Chain A, Structure Of The Gh92 Family Glycosyl Hydrolase Ccman5
pdb|2XSG|B Chain B, Structure Of The Gh92 Family Glycosyl Hydrolase Ccman5
Length = 774
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 42/97 (43%), Gaps = 20/97 (20%)
Query: 124 PPSCQQADAHPGFASVITTSDCSEGFGDQKLVNGKPKNEMGTLASKVEVGP-SGYMGYG- 181
P S DA PGF SV G G+ +G GT+ ++V SG Y
Sbjct: 100 PFSHDDEDAGPGFYSV--------GLGNVAGTDGAITGAPGTIEAEVAAATRSGVHRYAF 151
Query: 182 ------NCKVEAETNKFMKDESHKTAKVQLGTRADGC 212
+ V+ ETN + S +++ VQ+ TRADG
Sbjct: 152 PAGSTPSLVVDLETN----NTSRRSSSVQVETRADGT 184
>pdb|3CJP|A Chain A, Crystal Structure Of An Uncharacterized Amidohydrolase
Cac3332 From Clostridium Acetobutylicum
pdb|3CJP|B Chain B, Crystal Structure Of An Uncharacterized Amidohydrolase
Cac3332 From Clostridium Acetobutylicum
Length = 272
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 10/63 (15%)
Query: 154 LVNGKP-------KNEMGTLASKVEVGPSGYMGYGNCKV---EAETNKFMKDESHKTAKV 203
+VNGK +N + L + ++ PS Y+G+GN V E +TN ++++ V
Sbjct: 58 VVNGKTNSMIDVRRNSIKELTNVIQAYPSRYVGFGNVPVGLSENDTNSYIEENIVNNKLV 117
Query: 204 QLG 206
+G
Sbjct: 118 GIG 120
>pdb|4AQ0|A Chain A, Structure Of The Gh92 Family Glycosyl Hydrolase Ccman5 In
Complex With Deoxymannojirimycin
pdb|4AQ0|B Chain B, Structure Of The Gh92 Family Glycosyl Hydrolase Ccman5 In
Complex With Deoxymannojirimycin
Length = 790
Score = 29.3 bits (64), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 42/97 (43%), Gaps = 20/97 (20%)
Query: 124 PPSCQQADAHPGFASVITTSDCSEGFGDQKLVNGKPKNEMGTLASKVEVGP-SGYMGYG- 181
P S DA PGF SV G G+ +G GT+ ++V SG Y
Sbjct: 116 PFSHDDEDAGPGFYSV--------GLGNVAGTDGAITGAPGTIEAEVAAATRSGVHRYAF 167
Query: 182 ------NCKVEAETNKFMKDESHKTAKVQLGTRADGC 212
+ V+ ETN + S +++ VQ+ TRADG
Sbjct: 168 PAGSTPSLVVDLETN----NTSRRSSSVQVETRADGT 200
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
0.315 0.130 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,533,495
Number of Sequences: 62578
Number of extensions: 757560
Number of successful extensions: 1348
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1343
Number of HSP's gapped (non-prelim): 8
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)