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= 034157
(102 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|V Chain V, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 306
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 3/82 (3%)
Query: 24 VVQIEGLVMLKIIKHCKEFSPALVTGQLLGLDVGS-VLEVTNCFPFPEEDEEIEADGAN- 81
V I + +LK++KH + P V G +LG V + V + F P+ + + +
Sbjct: 26 TVYISSIALLKMLKHGRAGVPMEVMGLMLGEFVDDYTVNVVDVFAMPQSGTGVSVEAVDD 85
Query: 82 -YQLEMMRCLREVNVDNNTVGW 102
+Q +MM L++ D VGW
Sbjct: 86 VFQAKMMDMLKQTGRDQMVVGW 107
>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
pdb|2O96|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-177)
Length = 178
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 39/86 (45%), Gaps = 8/86 (9%)
Query: 25 VQIEGLVMLKIIKHCKEFSPA----LVTGQLLGLDVGSVLEVTNCF--PFPEEDEE--IE 76
V + LV+L ++ H V G LLG VL+V+N F PF E+D++ +
Sbjct: 10 VVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVW 69
Query: 77 ADGANYQLEMMRCLREVNVDNNTVGW 102
+Y M ++VN VGW
Sbjct: 70 FLDHDYLENMYGMFKKVNARERIVGW 95
>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
pdb|2O95|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
Mpn Domain (Residues 1-186)
Length = 187
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 39/86 (45%), Gaps = 8/86 (9%)
Query: 25 VQIEGLVMLKIIKHCKEFSPA----LVTGQLLGLDVGSVLEVTNCF--PFPEEDEE--IE 76
V + LV+L ++ H V G LLG VL+V+N F PF E+D++ +
Sbjct: 10 VVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVW 69
Query: 77 ADGANYQLEMMRCLREVNVDNNTVGW 102
+Y M ++VN VGW
Sbjct: 70 FLDHDYLENMYGMFKKVNARERIVGW 95
>pdb|4B4T|U Chain U, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 338
Score = 33.5 bits (75), Expect = 0.030, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 7/85 (8%)
Query: 25 VQIEGLVMLKIIKHCKEFSPA---LVTGQLLGLDVGSVLEVTNCFPFPEEDEEIEAD--- 78
V I LV+L + H + G +LG S + VTN F P E++E +D
Sbjct: 8 VTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVWF 67
Query: 79 -GANYQLEMMRCLREVNVDNNTVGW 102
NY M +++N +GW
Sbjct: 68 LDHNYIENMNEMCKKINAKEKLIGW 92
>pdb|3EFD|L Chain L, The Crystal Structure Of The Cytoplasmic Domain Of Kcsa
Length = 211
Score = 28.5 bits (62), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 38 HCKEFSPALVT-GQLLGLDVGSVLEVTNCFPFPEEDEEIEADGAN 81
+C+++S +L+T GQ +++ + + F FP DE++++ A+
Sbjct: 87 YCQQYSYSLLTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTAS 131
>pdb|2VXV|L Chain L, Crystal Structure Of Human Igg Abt-325 Fab Fragment
Length = 214
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/48 (22%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 36 IKHCKEFS--PALVTGQLLGLDVGSVLEVTNCFPFPEEDEEIEADGAN 81
+ +C++++ P++ GQ L++ + + F FP DE++++ A+
Sbjct: 85 VYYCQQYNNWPSITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTAS 132
>pdb|3KRA|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium
pdb|3KRA|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium
pdb|3KRC|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Ipp
pdb|3KRC|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Ipp
pdb|3KRF|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (I)
pdb|3KRF|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (I)
pdb|3KRO|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (Ii)
pdb|3KRO|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (Ii)
pdb|3KRP|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|3KRP|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|3OAB|A Chain A, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAB|D Chain D, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAC|A Chain A, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAC|D Chain D, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
Length = 295
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 6/45 (13%)
Query: 8 SFLQVAAAEEVAPPLRVVQIEGLVMLKIIKHCKEFSPALVTGQLL 52
+F VAAA + APP R+V++ G + + I S LV GQ++
Sbjct: 120 AFEHVAAATKGAPPERIVRVLGELAVSI------GSEGLVAGQVV 158
>pdb|4E0Q|A Chain A, Crystal Structure Of Mpn Domain From Cop9 Signalosome
pdb|4E0Q|B Chain B, Crystal Structure Of Mpn Domain From Cop9 Signalosome
Length = 141
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 10/87 (11%)
Query: 24 VVQIEGLVMLKIIKHCKEFS-----PALVTGQLLGLDVGSVLEVTNCFPFPEE---DEEI 75
+ + LV+ I +H F P V G L+G G +E+ N F + DE +
Sbjct: 7 TISLHPLVIXNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIXNSFELKTDVIGDETV 66
Query: 76 EADGANYQLEMMRCLREVNVDNNTVGW 102
+Y + + ++V D + +GW
Sbjct: 67 I--NKDYYNKKEQQYKQVFSDLDFIGW 91
>pdb|1IQD|A Chain A, Human Factor Viii C2 Domain Complexed To Human Monoclonal
Bo2c11 Fab
Length = 211
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/47 (23%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 36 IKHCKEFSPALVT-GQLLGLDVGSVLEVTNCFPFPEEDEEIEADGAN 81
+ +C+++ + +T GQ L++ + + F FP DE++++ A+
Sbjct: 85 VYYCQKYGTSAITFGQGTRLEIKGTVAAPSVFIFPPSDEQLKSGTAS 131
>pdb|1TZG|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|1TZG|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|2FX7|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 16-Residue Peptide Encompassing The 4e10
Epitope On Gp41
pdb|2FX8|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|N Chain N, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|O Chain O, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
Length = 214
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 36 IKHCKEFSPALVT-GQLLGLDVGSVLEVTNCFPFPEEDEEIEADGAN 81
+ +C+++ +L T GQ ++V + + F FP DE++++ A+
Sbjct: 86 VYYCQQYGQSLSTFGQGTKVEVKRTVAAPSVFIFPPSDEQLKSGTAS 132
>pdb|3EO0|A Chain A, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
pdb|3EO0|C Chain C, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
pdb|3EO1|A Chain A, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|D Chain D, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|G Chain G, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|J Chain J, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
Length = 215
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/47 (23%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 36 IKHCKEFSPALVT-GQLLGLDVGSVLEVTNCFPFPEEDEEIEADGAN 81
+ +C++++ + +T GQ L++ + + F FP DE++++ A+
Sbjct: 86 VYYCQQYADSPITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTAS 132
>pdb|4DGV|L Chain L, Structure Of The Hepatitis C Virus Envelope Glycoprotein
E2 Antigenic Region 412-423 Bound To The Broadly
Neutralizing Antibody Hcv1, P2(1) Form
pdb|4DGY|L Chain L, Structure Of The Hepatitis C Virus Envelope Glycoprotein
E2 Antigenic Region 412-423 Bound To The Broadly
Neutralizing Antibody Hcv1, C2 Form
Length = 213
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/46 (23%), Positives = 25/46 (54%)
Query: 36 IKHCKEFSPALVTGQLLGLDVGSVLEVTNCFPFPEEDEEIEADGAN 81
+ +C++ S + GQ L++ + + F FP DE++++ A+
Sbjct: 85 VYYCQQRSNWITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTAS 130
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 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,747,086
Number of Sequences: 62578
Number of extensions: 97379
Number of successful extensions: 315
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 311
Number of HSP's gapped (non-prelim): 13
length of query: 102
length of database: 14,973,337
effective HSP length: 67
effective length of query: 35
effective length of database: 10,780,611
effective search space: 377321385
effective search space used: 377321385
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: 45 (21.9 bits)