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= 040921
(374 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GL6|A Chain A, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|B Chain B, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|D Chain D, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|E Chain E, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|F Chain F, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|G Chain G, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
Length = 436
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 15 LVATLLLTNPIDCFGESNQEQEAEKTPKLLFVIGDSLYDPGNNQYFNAT----EITRQSY 70
+VA L T+ +D + Q + + L V+G S DP N+ + + E+ R Y
Sbjct: 310 VVAGLQSTSQLDDVYGVKEAQTLRASFRSLVVLGGSRTDPKTNEDMSLSLGEHEVERDRY 369
Query: 71 SWPYGMNLNHKKATGRASDGFVIPDFIA 98
S G + + +A R + V+P IA
Sbjct: 370 SKNTGKHHSTGRALERVRERVVMPAEIA 397
>pdb|1E9R|A Chain A, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|B Chain B, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|D Chain D, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|E Chain E, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|F Chain F, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|G Chain G, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9S|A Chain A, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|B Chain B, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|D Chain D, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|E Chain E, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|F Chain F, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|G Chain G, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|H Chain H, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|I Chain I, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|J Chain J, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|K Chain K, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|L Chain L, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|M Chain M, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1GKI|A Chain A, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|B Chain B, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|D Chain D, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|E Chain E, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|F Chain F, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|G Chain G, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GL7|A Chain A, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|B Chain B, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|D Chain D, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|E Chain E, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|F Chain F, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|G Chain G, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp
Length = 437
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 15 LVATLLLTNPIDCFGESNQEQEAEKTPKLLFVIGDSLYDPGNNQYFNAT----EITRQSY 70
+VA L T+ +D + Q + + L V+G S DP N+ + + E+ R Y
Sbjct: 311 VVAGLQSTSQLDDVYGVKEAQTLRASFRSLVVLGGSRTDPKTNEDMSLSLGEHEVERDRY 370
Query: 71 SWPYGMNLNHKKATGRASDGFVIPDFIA 98
S G + + +A R + V+P IA
Sbjct: 371 SKNTGKHHSTGRALERVRERVVMPAEIA 398
>pdb|3RQI|A Chain A, Crystal Structure Of A Response Regulator Protein From
Burkholderia Pseudomallei With A Phosphorylated Aspartic
Acid, Calcium Ion And Citrate
Length = 184
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 29/125 (23%), Positives = 53/125 (42%), Gaps = 9/125 (7%)
Query: 56 NNQYFNATEITRQSYSWPYGMNLNHKKATGRASDGFVIPDFIAFCL------GITPLQPY 109
+N+ F T + R Y + H K G +FI L G++ + P
Sbjct: 15 DNEVFAGT-LARGLERRGYAVRQAHNKDEALKLAGAEKFEFITVXLHLGNDSGLSLIAPL 73
Query: 110 --LQPGADLAHGANFASAGSGCLDIHPGVMNLKMQLSNLKKVAKSLEQNLNEQKAKQVLK 167
LQP A + +AS + + G N + +N++ + +L+ N +E +A++ L+
Sbjct: 74 CDLQPDARILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNASEVQAEEALE 133
Query: 168 GSVYL 172
V L
Sbjct: 134 NPVVL 138
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 262 SNVLKKLALKFTDFKYSIFDYYSALDERINNPSNHDFTEGKI 303
+N ++ LA K TD YS + ++ + ++ N H+F +GK+
Sbjct: 268 TNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKV 309
>pdb|2RGI|A Chain A, Crystal Structure Of Ca2+-Free S100a2 At 1.6 A Resolution
pdb|2RGI|B Chain B, Crystal Structure Of Ca2+-Free S100a2 At 1.6 A Resolution
Length = 98
Score = 28.9 bits (63), Expect = 4.6, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 30/55 (54%)
Query: 134 PGVMNLKMQLSNLKKVAKSLEQNLNEQKAKQVLKGSVYLIGLGANDYFEFNKNHP 188
P + K+ LKK+ SL++N ++Q Q + LI + +ND+F+ + + P
Sbjct: 44 PSFVGEKVDEEGLKKLMGSLDENSDQQVDFQEYAVFLALITVMSNDFFQGSPDRP 98
>pdb|3BOB|A Chain A, Carbonic Anhydrase From Marine Diatom Thalassiosira
Weissflo Cadmium Bound Domain 2
pdb|3BOC|A Chain A, Carbonic Anhydrase From Marine Diatom Thalassiosira
Weissflo Bound Domain 2 (Cdca1-R2)
pdb|3BOE|A Chain A, Carbonic Anhydrase From Marine Diatom Thalassiosira
Weissflo Cadmium Bound Domain 2 With Acetate (Cdca1-R2)
Length = 210
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 55/137 (40%), Gaps = 8/137 (5%)
Query: 25 IDCFGESNQEQEAEKTPKLLFVIGDSLYDPGNNQYFNATEITRQSYSWPYGMNLNHKKAT 84
+D G N K P ++ I ++ G +IT++ S + +++ ++
Sbjct: 42 VDGRGSDNTRMGGPKMPGGIYAIA---HNRGVTSIEGLKQITKEVASKGHLPSVHGDHSS 98
Query: 85 GRASDGFVIPDFIAFCLGITPLQPYLQPGADLAHGANFASAGSGCLDIHPGVMNLKMQLS 144
GF F + G Y +P D GAN G +++H G K+
Sbjct: 99 DMLGCGF----FKLWVTGRFDDMGYPRPQFDADQGANAVKDAGGIIEMHHGSHTEKVVYI 154
Query: 145 NLKKVAKSLEQNLNEQK 161
NL K+LE N N+Q+
Sbjct: 155 NL-LANKTLEPNENDQR 170
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
0.320 0.138 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,854,528
Number of Sequences: 62578
Number of extensions: 520076
Number of successful extensions: 1049
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1046
Number of HSP's gapped (non-prelim): 10
length of query: 374
length of database: 14,973,337
effective HSP length: 100
effective length of query: 274
effective length of database: 8,715,537
effective search space: 2388057138
effective search space used: 2388057138
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)