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= 040365
(514 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DAF|A Chain A, The Crystal Structure Of [fe]-Hydrogenase Holoenzyme (Hmd)
From Methanocaldococcus Jannaschii Cocrystallized With
Cyanide
pdb|3DAG|A Chain A, The Crystal Structure Of [fe]-Hydrogenase Holoenzyme (Hmd)
From Methanocaldococcus Jannaschii
Length = 358
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 11/76 (14%)
Query: 258 LIDKAWSYFNSMTKDYGIAPSFEHYAAVADLLGRAGKLQEAYEFISNMHAGPTENVWLTL 317
+ D+A + +++ K+ GIA + E A LLG A +M GP + T
Sbjct: 285 MADEALTQIHNLMKEKGIA-NMEEALDPAALLGTA----------DSMCFGPLAEILPTA 333
Query: 318 LSACRVHKNVELAGKV 333
L VHK VE GK
Sbjct: 334 LKVLEVHKVVEEEGKT 349
>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 = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 35/163 (21%), Positives = 62/163 (38%), Gaps = 14/163 (8%)
Query: 184 LDMYAKCGNIRLARCIFDKMDL---------HDIVSWTAVIMGNALHGNAHDAIS----L 230
LDM +K G++ A ++D+ ++++ + + A + + +S +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 231 FEQMEKDGVKPNSVAFVAVLTACSHAGLIDKAWSYFNSMTKDYGIAPSFEHYAAVADLLG 290
F+QM D V PN F + A+ M K +GI P Y
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQM-KAFGIQPRLRSYGPALFGFC 151
Query: 291 RAGKLQEAYEFISNMHAGPTENVWLTLLSACRVHKNVELAGKV 333
R G +AYE ++M L + +V + + A KV
Sbjct: 152 RKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKV 194
>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 = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 23/105 (21%), Positives = 43/105 (40%), Gaps = 2/105 (1%)
Query: 305 MHAGPTENVWLTLLSACRVHKNVELAGKVAEKIFMIDPNNMGAYVILSNTYAAARRWKDA 364
M G + W L +A + + A + +K +DPNN A+ L N Y + +A
Sbjct: 3 MDPGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEA 62
Query: 365 ASLRVFMRNKGMKKTPACSWIEVKNKAYAFVAGDKSHPFYHRINE 409
+ + + + A +W + N Y D++ +Y + E
Sbjct: 63 --IEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE 105
>pdb|4A5W|A Chain A, Crystal Structure Of C5b6
Length = 1580
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 380 PACSWIEVKNKAYAFVAGDKSHPFYHRINEALK 412
PA S + AYA GDK+HP + I ALK
Sbjct: 1085 PAQSTFTLAISAYALSLGDKTHPQFRSIVSALK 1117
>pdb|3CU7|A Chain A, Human Complement Component 5
pdb|3CU7|B Chain B, Human Complement Component 5
pdb|3KLS|A Chain A, Structure Of Complement C5 In Complex With Ssl7
pdb|3KLS|B Chain B, Structure Of Complement C5 In Complex With Ssl7
pdb|3KM9|A Chain A, Structure Of Complement C5 In Complex With The C-Terminal
Beta-Grasp Domain Of Ssl7
pdb|3KM9|B Chain B, Structure Of Complement C5 In Complex With The C-Terminal
Beta-Grasp Domain Of Ssl7
pdb|4E0S|A Chain A, Crystal Structure Of C5b-6
Length = 1676
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 380 PACSWIEVKNKAYAFVAGDKSHPFYHRINEALK 412
PA S + AYA GDK+HP + I ALK
Sbjct: 1181 PAQSTFTLAISAYALSLGDKTHPQFRSIVSALK 1213
>pdb|3PRX|A Chain A, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PRX|C Chain C, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PVM|A Chain A, Structure Of Complement C5 In Complex With Cvf
pdb|3PVM|C Chain C, Structure Of Complement C5 In Complex With Cvf
Length = 1676
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 380 PACSWIEVKNKAYAFVAGDKSHPFYHRINEALK 412
PA S + AYA GDK+HP + I ALK
Sbjct: 1181 PAQSTFTLAISAYALSLGDKTHPQFRSIVSALK 1213
>pdb|4DJD|D Chain D, Crystal Structure Of Folate-Free Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr)
pdb|4DJD|F Chain F, Crystal Structure Of Folate-Free Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr)
pdb|4DJE|D Chain D, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate
pdb|4DJE|F Chain F, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate
pdb|4DJF|D Chain D, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate And Ti(Iii) Citrate
Reductant
pdb|4DJF|F Chain F, Crystal Structure Of Folate-Bound Corrinoid Iron-Sulfur
Protein (Cfesp) In Complex With Its Methyltransferase
(Metr), Co-Crystallized With Folate And Ti(Iii) Citrate
Reductant
Length = 323
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 394 FVAGDKSHPFYHRINEALKELLERMEQEGYVPDTKEVLHD 433
V GD + PF+H E + + ME + VPD +VL D
Sbjct: 34 VVGGDAALPFHHFEGEIVNRPVIGMEVQDIVPDWPDVLKD 73
>pdb|2PMZ|B Chain B, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|R Chain R, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|B Chain B, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|J Chain J, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 1124
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 392 YAFVAGD--KSHPFYHRINEALKELLERMEQEGYVPDTKEVLHDVEEEQK-KNLLYY 445
YA ++G+ + PFY E L+ + R GY+PD EV++D QK K+ +Y+
Sbjct: 932 YAALSGNIVDATPFYKTPIEQLQNEILRY---GYLPDATEVVYDGRTGQKIKSRIYF 985
>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha.
pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha
Length = 388
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 285 VADLLGRAGKLQEAYE-FISNMHAGPTENV-WLTLLSACRVHKNVELAGKVAEKIFMIDP 342
+ +LL G+L+EA ++ + P V W L + LA EK +DP
Sbjct: 141 LGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP 200
Query: 343 NNMGAYVILSNTYAAAR 359
N + AY+ L N AR
Sbjct: 201 NFLDAYINLGNVLKEAR 217
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
0.324 0.137 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,781,723
Number of Sequences: 62578
Number of extensions: 644129
Number of successful extensions: 2185
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 2176
Number of HSP's gapped (non-prelim): 18
length of query: 514
length of database: 14,973,337
effective HSP length: 103
effective length of query: 411
effective length of database: 8,527,803
effective search space: 3504927033
effective search space used: 3504927033
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (25.4 bits)