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= 046367
(260 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3O1Q|A Chain A, Native Crystal Structure Of Helicobacter Pylori Urease
Accessory Protein Uref
pdb|3O1Q|B Chain B, Native Crystal Structure Of Helicobacter Pylori Urease
Accessory Protein Uref
pdb|3O1Q|C Chain C, Native Crystal Structure Of Helicobacter Pylori Urease
Accessory Protein Uref
pdb|3SF5|A Chain A, Crystal Structure Of Helicobacter Pylori Urease Accessory
Protein UrefH COMPLEX
pdb|3SF5|C Chain C, Crystal Structure Of Helicobacter Pylori Urease Accessory
Protein UrefH COMPLEX
Length = 254
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 61/260 (23%), Positives = 102/260 (39%), Gaps = 30/260 (11%)
Query: 12 VGGPPEASTEANVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAIQARLIS 71
VG PP+ N +H + + Q+ D++ P G + HSFGLE IQ + ++
Sbjct: 14 VGMPPKTPKTDNNAH---------VDNEFLILQVNDAVFPIGSYTHSFGLETYIQQKKVT 64
Query: 72 SPDDLRTYVIHILENTGSLLLPFVCTATTSPDLETWHKLDRMLDATLTNEVSRKASTAQG 131
+ + Y+ +L F+ T S L L + L L E ST+
Sbjct: 65 NKESALEYL------KANLSSQFLYTEMLSLKLTYESALQQDLKKILGVEEVIMLSTSPM 118
Query: 132 SALLRVAASVFTE--VPSLKKMREISLN--FGDVAFH-----HAPLFGIICGLLGLHRGT 182
LR+A + +L+ M E+ + F A HA +G+ LG+
Sbjct: 119 E--LRLANQKLGNRFIKTLQAMNELDMGEFFNAYAQKTKDPTHATSYGVFAASLGIELKK 176
Query: 183 SQRAYMFITLRD-IISAATRLNLVGPLGAAV-LQHQIAFVAEAMLKKWKDRAVEEACQTS 240
+ R Y++ + +I+ + L G + L Q F +++K + C S
Sbjct: 177 ALRHYLYAQTSNMVINCVKSVPLSQNDGQKILLSLQSPF--NQLIEKTLELDESHLCTAS 234
Query: 241 PLLDTVQGCHAYLFSRLFCS 260
D H L+SRL+ S
Sbjct: 235 VQNDIKAMQHESLYSRLYMS 254
>pdb|3CXN|A Chain A, Structure Of The Urease Accessory Protein Uref From
Helicobacter Pylori
pdb|3CXN|B Chain B, Structure Of The Urease Accessory Protein Uref From
Helicobacter Pylori
pdb|3CXN|C Chain C, Structure Of The Urease Accessory Protein Uref From
Helicobacter Pylori
Length = 274
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 54/255 (21%), Positives = 101/255 (39%), Gaps = 20/255 (7%)
Query: 12 VGGPPEASTEANVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAIQARLIS 71
VG PP+ N +H + + Q+ D++ P G + HSFGLE IQ + ++
Sbjct: 34 VGXPPKTPKTDNNAH---------VDNEFLILQVNDAVFPIGSYTHSFGLETYIQQKKVT 84
Query: 72 SPDDLRTYVIHILEN----TGSLLLPFVCTATTSPDLETWHKLDRMLDATLTNEVSRKAS 127
+ + Y+ L + T L L + DL+ ++ ++ + + R A+
Sbjct: 85 NKESALEYLKANLSSQFLYTEXLSLKLTYESALQQDLKKILGVEEVIXLSTSPXELRLAN 144
Query: 128 TAQGSALLRVAASVFTEVPSLKKMREISLNFGDVAFHHAPLFGIICGLLGLHRGTSQRAY 187
G+ ++ + E+ + + D HA +G+ LG+ + R Y
Sbjct: 145 QKLGNRFIKTLQAX-NELDXGEFFNAYAQKTKDPT--HATSYGVFAASLGIELKKALRHY 201
Query: 188 MFI-TLRDIISAATRLNLVGPLGAAV-LQHQIAFVAEAMLKKWKDRAVEEACQTSPLLDT 245
++ T +I+ + L G + L Q F +++K + C S D
Sbjct: 202 LYAQTSNXVINCVKSVPLSQNDGQKILLSLQSPF--NQLIEKTLELDESHLCTASVQNDI 259
Query: 246 VQGCHAYLFSRLFCS 260
H L+SRL+ S
Sbjct: 260 KAXQHESLYSRLYXS 274
>pdb|2WGL|A Chain A, Crystal Structure Of Helicobactor Pylori Uref
pdb|2WGL|B Chain B, Crystal Structure Of Helicobactor Pylori Uref
pdb|2WGL|C Chain C, Crystal Structure Of Helicobactor Pylori Uref
Length = 254
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 54/255 (21%), Positives = 101/255 (39%), Gaps = 20/255 (7%)
Query: 12 VGGPPEASTEANVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAIQARLIS 71
VG PP+ N +H + + Q+ D++ P G + HSFGLE IQ + ++
Sbjct: 14 VGXPPKTPKTDNNAH---------VDNEFLILQVNDAVFPIGSYTHSFGLETYIQQKKVT 64
Query: 72 SPDDLRTYVIHILEN----TGSLLLPFVCTATTSPDLETWHKLDRMLDATLTNEVSRKAS 127
+ + Y+ L + T L L + DL+ ++ ++ + + R A+
Sbjct: 65 NKESALEYLKANLSSQFLYTEXLSLKLTYESALQQDLKKILGVEEVIXLSTSPXELRLAN 124
Query: 128 TAQGSALLRVAASVFTEVPSLKKMREISLNFGDVAFHHAPLFGIICGLLGLHRGTSQRAY 187
G+ ++ + E+ + + D HA +G+ LG+ + R Y
Sbjct: 125 QKLGNRFIKTLQAX-NELDXGEFFNAYAQKTKDPT--HATSYGVFAASLGIELKKALRHY 181
Query: 188 MFI-TLRDIISAATRLNLVGPLGAAV-LQHQIAFVAEAMLKKWKDRAVEEACQTSPLLDT 245
++ T +I+ + L G + L Q F +++K + C S D
Sbjct: 182 LYAQTSNXVINCVKSVPLSQNDGQKILLSLQSPF--NQLIEKTLELDESHLCTASVQNDI 239
Query: 246 VQGCHAYLFSRLFCS 260
H L+SRL+ S
Sbjct: 240 KAXQHESLYSRLYXS 254
>pdb|3HA6|A Chain A, Crystal Structure Of Aurora A In Complex With Tpx2 And
Compound 10
Length = 268
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 49/135 (36%), Gaps = 5/135 (3%)
Query: 1 GRLAPGLRSFHVGGPPEASTEANVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFG 60
G+ L F +G P NV +EKQ+ L L L + L G H
Sbjct: 1 GKRQWALEDFEIGRPLGKGKFGNVYLAREKQSKFILALK----VLFKAQLEKAGVEHQLR 56
Query: 61 LEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSPDLETWHKLDRMLDATLTN 120
E IQ+ L P+ LR Y L+L + T +L+ K D AT
Sbjct: 57 REVEIQSHL-RHPNILRLYGYFHDATRVYLILEYAPLGTVYRELQKLSKFDEQRTATYIT 115
Query: 121 EVSRKASTAQGSALL 135
E++ S ++
Sbjct: 116 ELANALSYCHSKRVI 130
>pdb|3E5A|A Chain A, Crystal Structure Of Aurora A In Complex With Vx-680 And
Tpx2
Length = 268
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 49/135 (36%), Gaps = 5/135 (3%)
Query: 1 GRLAPGLRSFHVGGPPEASTEANVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFG 60
G+ L F +G P NV +EKQ+ L L L + L G H
Sbjct: 1 GKRQWALEDFEIGRPLGKGKFGNVYLAREKQSKFILALK----VLFKAQLEKAGVEHQLR 56
Query: 61 LEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSPDLETWHKLDRMLDATLTN 120
E IQ+ L P+ LR Y L+L + T +L+ K D AT
Sbjct: 57 REVEIQSHL-RHPNILRLYGYFHDATRVYLILEYAPLGTVYRELQKLSKFDEQRTATYIT 115
Query: 121 EVSRKASTAQGSALL 135
E++ S ++
Sbjct: 116 ELANALSYCHSKRVI 130
>pdb|3BCC|B Chain B, Stigmatellin And Antimycin Bound Cytochrome Bc1 Complex
From Chicken
pdb|2BCC|B Chain B, Stigmatellin-Bound Cytochrome Bc1 Complex From Chicken
Length = 422
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 46 LDSILPTGG---FAHSFGLEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSP 102
L S L T G F + G+EA + S + Y + L + +L+ F+ TT+P
Sbjct: 54 LASSLTTKGASSFKITRGIEAVGGKLSVESTRENMAYTVECLRDDVEILMEFLLNVTTAP 113
Query: 103 DLETWHKLD 111
+ W D
Sbjct: 114 EFRPWEVAD 122
>pdb|1BCC|B Chain B, Cytochrome Bc1 Complex From Chicken
Length = 422
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 46 LDSILPTGG---FAHSFGLEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSP 102
L S L T G F + G+EA + S + Y + L + +L+ F+ TT+P
Sbjct: 54 LASSLTTKGASSFKITRGIEAVGGKLSVESTRENMAYTVECLRDDVEILMEFLLNVTTAP 113
Query: 103 DLETWHKLD 111
+ W D
Sbjct: 114 EFRPWEVAD 122
>pdb|1SQB|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Azoxystrobin
pdb|1SQP|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Myxothiazol
Length = 453
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 46 LDSILPTGG---FAHSFGLEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSP 102
L S L T G F + G+EA ++S + Y + L + +L+ F+ TT+P
Sbjct: 85 LASSLTTKGASSFKITRGIEAVGGKLSVTSTRENMAYTVECLRDDVDILMEFLLNVTTAP 144
Query: 103 DLETW 107
+ W
Sbjct: 145 EFRRW 149
>pdb|1QCR|B Chain B, Crystal Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex, Alpha Carbon Atoms Only
Length = 423
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 46 LDSILPTGG---FAHSFGLEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSP 102
L S L T G F + G+EA ++S + Y + L + +L+ F+ TT+P
Sbjct: 55 LASSLTTKGASSFKITRGIEAVGGKLSVTSTRENMAYTVECLRDDVDILMEFLLNVTTAP 114
Query: 103 DLETW 107
+ W
Sbjct: 115 EFRRW 119
>pdb|1BGY|B Chain B, Cytochrome Bc1 Complex From Bovine
pdb|1BGY|N Chain N, Cytochrome Bc1 Complex From Bovine
pdb|1BE3|B Chain B, Cytochrome Bc1 Complex From Bovine
pdb|1L0L|B Chain B, Structure Of Bovine Mitochondrial Cytochrome Bc1 Complex
With A Bound Fungicide Famoxadone
pdb|1L0N|B Chain B, Native Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex
pdb|1NTK|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1 In
Complex With Antimycin A1
pdb|1NTM|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1 Complex
At 2.4 Angstrom
pdb|1NTZ|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1 Complex
Bound With Ubiquinone
pdb|1NU1|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1
Complexed With 2- Nonyl-4-Hydroxyquinoline N-Oxide
(Nqno)
pdb|1PP9|B Chain B, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PP9|O Chain O, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PPJ|B Chain B, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|1PPJ|O Chain O, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|2A06|B Chain B, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|2A06|O Chain O, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1SQV|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Uhdbt
pdb|1SQX|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Stigmatellin
A
pdb|1SQQ|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Methoxy
Acrylate Stilbene (Moas)
pdb|2FYU|B Chain B, Crystal Structure Of Bovine Heart Mitochondrial Bc1 With
Jg144 Inhibitor
pdb|2YBB|B Chain B, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|2YBB|BB Chain b, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
Length = 439
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 46 LDSILPTGG---FAHSFGLEAAIQARLISSPDDLRTYVIHILENTGSLLLPFVCTATTSP 102
L S L T G F + G+EA ++S + Y + L + +L+ F+ TT+P
Sbjct: 71 LASSLTTKGASSFKITRGIEAVGGKLSVTSTRENMAYTVECLRDDVDILMEFLLNVTTAP 130
Query: 103 DLETW 107
+ W
Sbjct: 131 EFRRW 135
>pdb|1JV2|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|A Chain A, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 957
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 12 VGGPPEASTEA------NVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAI 65
+G P +A T+ +V E SV+ L L D + P + AA+
Sbjct: 683 LGNPMKAGTQLLAGLRFSVHQQSEMDTSVKFDLQIQSSNLFDKVSPVVSHKVDLAVLAAV 742
Query: 66 QARLISSPD 74
+ R +SSPD
Sbjct: 743 EIRGVSSPD 751
>pdb|4G1M|A Chain A, Re-Refinement Of Alpha V Beta 3 Structure
Length = 959
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 12 VGGPPEASTEA------NVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAI 65
+G P +A T+ +V E SV+ L L D + P + AA+
Sbjct: 683 LGNPMKAGTQLLAGLRFSVHQQSEMDTSVKFDLQIQSSNLFDKVSPVVSHKVDLAVLAAV 742
Query: 66 QARLISSPD 74
+ R +SSPD
Sbjct: 743 EIRGVSSPD 751
>pdb|3IJE|A Chain A, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 967
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 12 VGGPPEASTEA------NVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAI 65
+G P +A T+ +V E SV+ L L D + P + AA+
Sbjct: 683 LGNPMKAGTQLLAGLRFSVHQQSEMDTSVKFDLQIQSSNLFDKVSPVVSHKVDLAVLAAV 742
Query: 66 QARLISSPD 74
+ R +SSPD
Sbjct: 743 EIRGVSSPD 751
>pdb|4G1E|A Chain A, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 998
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 12 VGGPPEASTEA------NVSHGKEKQASVELPLHWSEWQLLDSILPTGGFAHSFGLEAAI 65
+G P +A T+ +V E SV+ L L D + P + AA+
Sbjct: 683 LGNPMKAGTQLLAGLRFSVHQQSEMDTSVKFDLQIQSSNLFDKVSPVVSHKVDLAVLAAV 742
Query: 66 QARLISSPD 74
+ R +SSPD
Sbjct: 743 EIRGVSSPD 751
>pdb|4DNS|A Chain A, Crystal Structure Of Bermuda Grass Isoallergen Bg60
Provides Insight Into The Various Cross-Allergenicity Of
The Pollen Group 4 Allergens
pdb|4DNS|B Chain B, Crystal Structure Of Bermuda Grass Isoallergen Bg60
Provides Insight Into The Various Cross-Allergenicity Of
The Pollen Group 4 Allergens
Length = 497
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 53 GGFAHSFGLEAAIQARLISSPDDLRTYVIH--ILENTGSLLLPFVCTATTSPD 103
GG SFG+ A+ Q +L+ P + + +H I E L+ + A PD
Sbjct: 208 GGGGESFGIVASWQVKLLPVPPKVTVFQVHKGIKEGAIDLVTKWQTVAPALPD 260
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
0.321 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,355,585
Number of Sequences: 62578
Number of extensions: 278702
Number of successful extensions: 645
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 635
Number of HSP's gapped (non-prelim): 16
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)