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= 039695
(605 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 32.7 bits (73), Expect = 0.63, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 379 RTGRLDEAYKL-AKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA 437
+ G DEA + K++++DP+ W L +A G D A+E + +E + A A
Sbjct: 21 KQGDYDEAIEYYQKALELDPNNAEA-WYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEA 79
Query: 438 YVTLSNTYALAGEWE 452
+ L N Y G+++
Sbjct: 80 WYNLGNAYYKQGDYD 94
Score = 28.9 bits (63), Expect = 9.1, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 395 VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE 452
+DP W L +A G D A+E + +E + A A+ L N Y G+++
Sbjct: 3 MDPGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYD 60
>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Trigonal Crystal Form)
pdb|2HYZ|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Orthorombic Crystal Form)
Length = 136
Score = 32.3 bits (72), Expect = 0.73, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 379 RTGRLDEAYKL-AKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA 437
+ G DEA + K++++DP W L +A G D A+E + +E + + A A
Sbjct: 13 KQGDYDEAIEYYQKALELDPRSAEA-WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEA 71
Query: 438 YVTLSNTYALAGEWE 452
+ L N Y G+++
Sbjct: 72 WYNLGNAYYKQGDYD 86
Score = 32.3 bits (72), Expect = 0.73, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 379 RTGRLDEAYKL-AKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA 437
+ G DEA + K++++DP W L +A G D A+E + +E + + A A
Sbjct: 47 KQGDYDEAIEYYQKALELDPRSAEA-WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEA 105
Query: 438 YVTLSNTYALAGEWE 452
+ L N Y G+++
Sbjct: 106 WYNLGNAYYKQGDYD 120
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 2/80 (2%)
Query: 310 GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKH 369
GL R D+F +MI + PN+ TF + + M + +GI P +
Sbjct: 85 GLSR-GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQM-KAFGIQPRLRS 142
Query: 370 YTCVVDMLGRTGRLDEAYKL 389
Y + R G D+AY++
Sbjct: 143 YGPALFGFCRKGDADKAYEV 162
>pdb|3SJN|A Chain A, Crystal Structure Of Enolase Spea_3858 (Target Efi-500646)
From Shewanella Pealeana With Magnesium Bound
pdb|3SJN|B Chain B, Crystal Structure Of Enolase Spea_3858 (Target Efi-500646)
From Shewanella Pealeana With Magnesium Bound
Length = 374
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 210 GHEAL--EMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVV 267
GH A+ + EFN + P +LA + + L R VS K+A G + + EF + +
Sbjct: 208 GHSAMMAKRLEEFNLNWIEEP---VLADSLISYEKLSRQVSQKIAGGESLTTRYEFQEFI 264
Query: 268 ASALVDMY----AKCGSVNYSDKVFN 289
+ D+ +CG + K+++
Sbjct: 265 TKSNADIVQPDITRCGGITEMKKIYD 290
>pdb|3I31|A Chain A, Hera Helicase Rna Binding Domain Is An Rrm Fold
Length = 88
Score = 31.2 bits (69), Expect = 2.0, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 510 ERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIP 551
E G V G +VD+ EAR E+ GL E GL+ IP
Sbjct: 38 EVGKVAEAEGGFYVDLRPEARPEVAGLRLEPARRVEGLLEIP 79
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 510 ERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIP 551
E G V G +VD+ EAR E+ GL E GL+ IP
Sbjct: 250 EVGKVAEAEGGFYVDLRPEARPEVAGLRLEPARRVEGLLEIP 291
>pdb|1QWR|A Chain A, Crystal Structure Analysis Of The Mannose 6-Phosphate
Isomerase From Bacillus Subtilis
pdb|1QWR|B Chain B, Crystal Structure Analysis Of The Mannose 6-Phosphate
Isomerase From Bacillus Subtilis
Length = 319
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 327 IKPNDVTFV--GVLHACSHSGLVDEGIQHLDSMYRKY 361
IKP D +V G LHA LV E Q+ D+ YR Y
Sbjct: 162 IKPGDFYYVPSGTLHALCKGALVLETQQNSDATYRVY 198
>pdb|2Q7Z|A Chain A, Solution Structure Of The 30 Scr Domains Of Human
Complement Receptor 1
Length = 1931
Score = 29.3 bits (64), Expect = 6.1, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 10/68 (14%)
Query: 123 LVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGA 182
++W NE I C + + G I T+ E F Y VV +CN G
Sbjct: 111 VIWDNETPICDRI-PCGLPPTITNGDFISTNRENF--HYGSVVTY-------RCNPGSGG 160
Query: 183 RRVFDLMG 190
R+VF+L+G
Sbjct: 161 RKVFELVG 168
>pdb|1NA3|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA3|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 91
Score = 28.9 bits (63), Expect = 9.1, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 395 VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE 452
+DP W L +A G D A+E + +E + A A+ L N Y G+++
Sbjct: 3 MDPGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYD 60
>pdb|4B91|A Chain A, Crystal Structure Of Truncated Human Crmp-5
pdb|4B91|B Chain B, Crystal Structure Of Truncated Human Crmp-5
pdb|4B92|A Chain A, Crystal Structure Of Truncated Human Crmp-5 Soaked With Zn
pdb|4B92|B Chain B, Crystal Structure Of Truncated Human Crmp-5 Soaked With Zn
Length = 484
Score = 28.9 bits (63), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 167 SSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQN---AQGHEALEMFREFN-- 221
+SLVD Y KC + + D + W + A + +G + +MF +
Sbjct: 108 TSLVDAYEKCRGLADPKVCCDYALHVGITWWAPKVKAEMETLVREKGVNSFQMFMTYKDL 167
Query: 222 YQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE 262
Y RD L V++AC +G + +G +V G +
Sbjct: 168 YMLRDSE----LYQVLHACKDIGAIARVHAENGELVAEGAK 204
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
0.323 0.136 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,806,634
Number of Sequences: 62578
Number of extensions: 660644
Number of successful extensions: 1289
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1278
Number of HSP's gapped (non-prelim): 21
length of query: 605
length of database: 14,973,337
effective HSP length: 104
effective length of query: 501
effective length of database: 8,465,225
effective search space: 4241077725
effective search space used: 4241077725
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)