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= 025038
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F27|A Chain A, Crystal Structures Reveal The Multi-Ligand Binding
Mechanism Of The Staphylococcus Aureus Clfb
Length = 363
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 98 ARPSETNCKEDMAEIRKDIVNFHGEMVLLVNYSNINYTGLAKILKKYDKRTGGLLRLLFI 157
A P+++N KE E KD +++ + V +N+ +IN T + + YD TG L+ I
Sbjct: 269 ADPNDSNLKEVTGEF-KDKISYKYDNVASINFGDINKTYVVLVEGHYD-NTGKNLKTQVI 326
Query: 158 QK 159
Q+
Sbjct: 327 QE 328
>pdb|4F1Z|A Chain A, Crystal Structures Reveal The Multi-Ligand Binding
Mechanism Of The Staphylococcus Aureus Clfb
pdb|4F20|A Chain A, Crystal Structures Reveal The Multi-Ligand Binding
Mechanism Of The Staphylococcus Aureus Clfb
pdb|4F24|A Chain A, Crystal Structures Reveal The Multi-Ligand Binding
Mechanism Of The Staphylococcus Aureus Clfb
Length = 363
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 98 ARPSETNCKEDMAEIRKDIVNFHGEMVLLVNYSNINYTGLAKILKKYDKRTGGLLRLLFI 157
A P+++N KE E KD +++ + V +N+ +IN T + + YD TG L+ I
Sbjct: 269 ADPNDSNLKEVTGEF-KDKISYKYDNVASINFGDINKTYVVLVEGHYD-NTGKNLKTQVI 326
Query: 158 QK 159
Q+
Sbjct: 327 QE 328
>pdb|2C07|A Chain A, Oxoacyl-Acp Reductase Of Plasmodium Falciparum
Length = 285
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/107 (22%), Positives = 47/107 (43%), Gaps = 4/107 (3%)
Query: 30 KLVNLISSSPPPSHRHCVEAEADFVYLLNHEIDKFNAFFMEKEEDFIIKRKELQQRLQRV 89
+ +NL+S + ++ +C E + V I + A + K +I Q+ V
Sbjct: 25 EFMNLLSENKKENYYYCGENKVALVTGAGRGIGREIAKMLAKSVSHVICISRTQKSCDSV 84
Query: 90 IDTWGPNGARPS----ETNCKEDMAEIRKDIVNFHGEMVLLVNYSNI 132
+D G S + + KE+++E+ I+ H + +LVN + I
Sbjct: 85 VDEIKSFGYESSGYAGDVSKKEEISEVINKILTEHKNVDILVNNAGI 131
>pdb|2XWB|B Chain B, Crystal Structure Of Complement C3b In Complex With
Factors B And D
pdb|2XWB|D Chain D, Crystal Structure Of Complement C3b In Complex With
Factors B And D
Length = 912
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 199 TIRVTGEGVFRNTVAALLTMQEIRSGSSTRSQFSLPPLDLSD 240
+++V EG+ N A+ T+ R G + +PP DLSD
Sbjct: 177 SLKVVPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSD 218
>pdb|2I07|B Chain B, Human Complement Component C3b
pdb|2XWJ|B Chain B, Crystal Structure Of Complement C3b In Complex With Factor
B
pdb|2XWJ|D Chain D, Crystal Structure Of Complement C3b In Complex With Factor
B
pdb|2XWJ|F Chain F, Crystal Structure Of Complement C3b In Complex With Factor
B
pdb|2XWJ|H Chain H, Crystal Structure Of Complement C3b In Complex With Factor
B
Length = 915
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 199 TIRVTGEGVFRNTVAALLTMQEIRSGSSTRSQFSLPPLDLSD 240
+++V EG+ N A+ T+ R G + +PP DLSD
Sbjct: 180 SLKVVPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSD 221
>pdb|2HR0|B Chain B, Structure Of Complement C3b: Insights Into Complement
Activation And Regulation
pdb|2ICF|B Chain B, Crig Bound To C3b
pdb|3G6J|B Chain B, C3b In Complex With A C3b Specific Fab
pdb|3G6J|D Chain D, C3b In Complex With A C3b Specific Fab
pdb|2WII|B Chain B, Complement C3b In Complex With Factor H Domains 1-4
pdb|2WIN|B Chain B, C3 Convertase (C3bbb) Stabilized By Scin
pdb|2WIN|D Chain D, C3 Convertase (C3bbb) Stabilized By Scin
pdb|2WIN|F Chain F, C3 Convertase (C3bbb) Stabilized By Scin
pdb|2WIN|H Chain H, C3 Convertase (C3bbb) Stabilized By Scin
pdb|3L5N|B Chain B, Staphylococcal Complement Inhibitor (Scin) In Complex With
Human Complement Component C3b
Length = 915
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 199 TIRVTGEGVFRNTVAALLTMQEIRSGSSTRSQFSLPPLDLSD 240
+++V EG+ N A+ T+ R G + +PP DLSD
Sbjct: 180 SLKVVPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSD 221
>pdb|3DIN|C Chain C, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|F Chain F, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 431
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 135 TGLAKILKKYDKRTGGLLRLLFIQKVLKQPFFTTEVVSKLIKECESTIAQVFPVDEKEIG 194
G+A IL YD TGG L + + P+ T ++ +L+ ++ ++ + E E G
Sbjct: 55 AGVAGILSFYDVFTGGALSRFSVFTMSVTPYITASIILQLLASVMPSLKEM--LREGEEG 112
Query: 195 RRE 197
R++
Sbjct: 113 RKK 115
>pdb|2A73|B Chain B, Human Complement Component C3
Length = 991
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 199 TIRVTGEGVFRNTVAALLTMQEIRSGSSTRSQFSLPPLDLSD 240
+++V EG+ N A+ T+ R G + +PP DLSD
Sbjct: 256 SLKVVPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSD 297
>pdb|2K8H|A Chain A, Solution Structure Of Sumo From Trypanosoma Brucei
Length = 110
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 96 NGARPSETNCKEDMAEIRKDIVNFHG-EMVLLVNYSNINYTGLAKILKKYDKRTG---GL 151
NG +E CKE+ A + +VN G EM + + T L K++ Y K+ G
Sbjct: 11 NGGEGAEGTCKEETALVAVKVVNADGAEMFFRIK----SRTALKKLIDTYCKKQGISRNS 66
Query: 152 LRLLF 156
+R LF
Sbjct: 67 VRFLF 71
>pdb|2P9Q|A Chain A, Crystal Structure Of Phosphoglycerate Kinase-2
pdb|2P9Q|B Chain B, Crystal Structure Of Phosphoglycerate Kinase-2
pdb|2P9T|A Chain A, Crystal Structure Of Phosphoglycerate Kinase-2 Bound To
3- Phosphoglycerate
pdb|2PAA|A Chain A, Crystal Structure Of Phosphoglycerate Kinase-2 Bound To
Atp And 3pg
pdb|2PAA|B Chain B, Crystal Structure Of Phosphoglycerate Kinase-2 Bound To
Atp And 3pg
Length = 416
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 8/56 (14%)
Query: 4 GKRLQQQIEETLPGWRDKFLSYKRLKKLVNLISSSPPPSHRHCVEAEADFVYLLNH 59
GKR+ +++ +P ++ + +R+K + PS +HC++ A V L++H
Sbjct: 15 GKRVIMRVDFNVPMKNNQITNNQRIKAAI--------PSIKHCLDNGAKSVVLMSH 62
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 0.137 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,241,489
Number of Sequences: 62578
Number of extensions: 282016
Number of successful extensions: 793
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 786
Number of HSP's gapped (non-prelim): 22
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
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: 50 (23.9 bits)