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= 027198
(226 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GR6|A Chain A, Crystal Structure Of Atrbcx2 From Arabidopsis Thaliana
pdb|4GR6|B Chain B, Crystal Structure Of Atrbcx2 From Arabidopsis Thaliana
Length = 126
Score = 203 bits (517), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 91/125 (72%), Positives = 107/125 (85%)
Query: 98 VNEVGGQYEDSFEDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKH 157
+ +V G Y+D+F DV+KQI NYFTYKAVRTVLHQLYEMNP QY WFYN + TN+P DGK
Sbjct: 1 MEDVAGNYDDTFGDVQKQIVNYFTYKAVRTVLHQLYEMNPPQYTWFYNHIITNRPTDGKR 60
Query: 158 FIRILGKVKQDLAERVMITRLHLYGKWVKKCDHAQMYKAISDENLELMRERLIETVIWPS 217
F+R LGK Q+LAERVMITRLHLYGKW+KK DH ++Y+ ISDENL LMRERL+ETVIWPS
Sbjct: 61 FLRALGKESQELAERVMITRLHLYGKWIKKADHGKIYQEISDENLALMRERLMETVIWPS 120
Query: 218 DDSNT 222
DD+N+
Sbjct: 121 DDTNS 125
>pdb|2PEO|A Chain A, Crystal Structure Of Rbcx From Anabaena Ca
pdb|2PEO|B Chain B, Crystal Structure Of Rbcx From Anabaena Ca
pdb|2WVW|I Chain I, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|J Chain J, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|K Chain K, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|L Chain L, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|M Chain M, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|N Chain N, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|O Chain O, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|P Chain P, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|Q Chain Q, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|R Chain R, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|S Chain S, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|T Chain T, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|U Chain U, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|V Chain V, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|W Chain W, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|2WVW|X Chain X, Cryo-Em Structure Of The Rbcl-Rbcx Complex
pdb|3HYB|A Chain A, Crystal Structure Of Rbcx From Anabaena, Crystal Form Ii
pdb|3HYB|B Chain B, Crystal Structure Of Rbcx From Anabaena, Crystal Form Ii
pdb|3RG6|C Chain C, Crystal Structure Of A Chaperone-Bound Assembly
Intermediate Of Form I Rubisco
pdb|3RG6|D Chain D, Crystal Structure Of A Chaperone-Bound Assembly
Intermediate Of Form I Rubisco
pdb|3RG6|E Chain E, Crystal Structure Of A Chaperone-Bound Assembly
Intermediate Of Form I Rubisco
pdb|3RG6|F Chain F, Crystal Structure Of A Chaperone-Bound Assembly
Intermediate Of Form I Rubisco
Length = 155
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 65/121 (53%), Gaps = 6/121 (4%)
Query: 110 EDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQDL 169
+D K +Q+Y TY+A+RTVL QL E NP +W +NF A K DG+ +I L K DL
Sbjct: 28 KDTAKTLQSYLTYQALRTVLAQLGETNPPLALWLHNFSA-GKVQDGEKYIEELFLEKPDL 86
Query: 170 AERVMITRLHLYGKWVKKCDHAQMYKAISDENLELMR---ERLIE-TVIWPSDDSNTEKI 225
A R+M R H+ + + + + I N+E R ER+ + ++ PS +S ++
Sbjct: 87 ALRIMTVREHI-AEEIAEFLPEMVVTGIQQANMEKRRQHLERMTQVSLSHPSPESEQQQF 145
Query: 226 G 226
Sbjct: 146 S 146
>pdb|4GR2|A Chain A, Structure Of Atrbcx1 From Arabidopsis Thaliana.
pdb|4GR2|B Chain B, Structure Of Atrbcx1 From Arabidopsis Thaliana
Length = 128
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 37/104 (35%), Positives = 53/104 (50%), Gaps = 6/104 (5%)
Query: 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQ---DLA 170
K + ++FTY AVR V QL NP YM F+ TN DG F+ L + +LA
Sbjct: 17 KHLHDFFTYVAVRIVSAQLESYNPEAYMELREFLDTNSVSDGDKFLATLMRRSSRHMNLA 76
Query: 171 ERVMITRLHLYGKWVKKCDHAQ--MYKAISDENLELMRERLIET 212
R++ R Y K + D+ + +K + D N LMRE ++ET
Sbjct: 77 LRILEVR-SAYAKNDFEWDNMKRLAFKNVDDSNTRLMREYVLET 119
>pdb|3Q20|A Chain A, Crystal Structure Of Rbcx C103a Mutant From
Thermosynechococcus Elongatus
pdb|3Q20|B Chain B, Crystal Structure Of Rbcx C103a Mutant From
Thermosynechococcus Elongatus
Length = 126
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 40/67 (59%)
Query: 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQDLAERV 173
K + +Y TY+AVRTV+ QL E +P + +W + F + DG+ ++ L + + DL R+
Sbjct: 12 KTLISYLTYQAVRTVIGQLAETDPPRSLWLHQFTSQESIQDGERYLEALFREQPDLGFRI 71
Query: 174 MITRLHL 180
+ R HL
Sbjct: 72 LTVREHL 78
>pdb|2PY8|A Chain A, Rbcx
pdb|2PY8|B Chain B, Rbcx
pdb|2PY8|C Chain C, Rbcx
pdb|2PY8|D Chain D, Rbcx
Length = 147
Score = 47.0 bits (110), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 59/117 (50%), Gaps = 8/117 (6%)
Query: 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQDLAERV 173
K +Q+Y TY+AV + +L E NP Q +W ++A++ +G+ F+ L ++L R+
Sbjct: 12 KVLQSYLTYQAVLRIQSELGETNPPQAIWLNQYLASHSIQNGETFLTELLDENKELVLRI 71
Query: 174 MITRLHLYGKWVKKCDHAQMYKAISDENLELMR---ERLIETVI----WPSDDSNTE 223
+ R + + V ++++ N+ R ERL TV +PS+ SN E
Sbjct: 72 LAVREDI-AESVLDFLPGMTRNSLAESNIAHRRHLLERLTRTVAEVDNFPSETSNGE 127
>pdb|2PEM|A Chain A, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|B Chain B, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|C Chain C, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|D Chain D, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|E Chain E, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEM|F Chain F, Crystal Structure Of Rbcx In Complex With Substrate
pdb|2PEN|A Chain A, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|B Chain B, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|C Chain C, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|D Chain D, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|E Chain E, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEN|F Chain F, Crystal Structure Of Rbcx, Crystal Form I
pdb|2PEQ|A Chain A, Crystal Structure Of Rbcx, Crystal Form Ii
pdb|2PEQ|B Chain B, Crystal Structure Of Rbcx, Crystal Form Ii
pdb|2Z45|A Chain A, Crystal Structure Of Zn-bound Orf134
pdb|2Z45|B Chain B, Crystal Structure Of Zn-bound Orf134
pdb|2Z46|A Chain A, Crystal Structure Of Native-Orf134
pdb|2Z46|B Chain B, Crystal Structure Of Native-Orf134
pdb|2Z46|C Chain C, Crystal Structure Of Native-Orf134
pdb|2Z46|D Chain D, Crystal Structure Of Native-Orf134
pdb|2Z46|E Chain E, Crystal Structure Of Native-Orf134
pdb|2Z46|F Chain F, Crystal Structure Of Native-Orf134
Length = 134
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGK 164
F+ V K+ +Q+Y TY+AVR + QL E NP Q +W F + + ++ +
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAMML 62
Query: 165 VKQDLAERVMITRLHL 180
++L R++ R +L
Sbjct: 63 ENKELVLRILTVRENL 78
>pdb|2Z44|A Chain A, Crystal Structure Of Selenomethionine-Labeled Orf134
Length = 134
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGK 164
F+ V K+ +Q+Y TY+AVR + QL E NP Q +W F + + ++
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAXXL 62
Query: 165 VKQDLAERVMITRLHL 180
++L R++ R +L
Sbjct: 63 ENKELVLRILTVRENL 78
>pdb|2PEI|A Chain A, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|B Chain B, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|C Chain C, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|D Chain D, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|E Chain E, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|F Chain F, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|G Chain G, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|H Chain H, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|I Chain I, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|J Chain J, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|K Chain K, Crystal Structure Of Selenomethionine-Labeled Rbcx
pdb|2PEI|L Chain L, Crystal Structure Of Selenomethionine-Labeled Rbcx
Length = 109
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGK 164
F+ V K+ +Q+Y TY+AVR + QL E NP Q +W F + + ++
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAXXL 62
Query: 165 VKQDLAERVMITRLHL 180
++L R++ R +L
Sbjct: 63 ENKELVLRILTVRENL 78
>pdb|2PEK|A Chain A, Crystal Structure Of Rbcx Point Mutant Q29a
pdb|2PEK|B Chain B, Crystal Structure Of Rbcx Point Mutant Q29a
pdb|2PEK|C Chain C, Crystal Structure Of Rbcx Point Mutant Q29a
pdb|2PEK|D Chain D, Crystal Structure Of Rbcx Point Mutant Q29a
pdb|2PEK|E Chain E, Crystal Structure Of Rbcx Point Mutant Q29a
pdb|2PEK|F Chain F, Crystal Structure Of Rbcx Point Mutant Q29a
Length = 134
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGK 164
F+ V K+ +Q+Y TY+AVR + L E NP Q +W F + + ++ +
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQALSETNPGQAIWLGEFSKRHPIQESDLYLEAMML 62
Query: 165 VKQDLAERVMITRLHL 180
++L R++ R +L
Sbjct: 63 ENKELVLRILTVRENL 78
>pdb|2PEJ|A Chain A, Crystal Structure Of Rbcx Point Mutant Y17aY20L
pdb|2PEJ|B Chain B, Crystal Structure Of Rbcx Point Mutant Y17aY20L
pdb|2PEJ|C Chain C, Crystal Structure Of Rbcx Point Mutant Y17aY20L
pdb|2PEJ|D Chain D, Crystal Structure Of Rbcx Point Mutant Y17aY20L
pdb|2PEJ|E Chain E, Crystal Structure Of Rbcx Point Mutant Y17aY20L
pdb|2PEJ|F Chain F, Crystal Structure Of Rbcx Point Mutant Y17aY20L
Length = 134
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGK 164
F+ V K+ +Q+ T +AVR + QL E NP Q +W F + + ++ +
Sbjct: 3 FKKVAKETAITLQSALTLQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAMML 62
Query: 165 VKQDLAERVMITRLHL 180
++L R++ R +L
Sbjct: 63 ENKELVLRILTVRENL 78
>pdb|3F7F|A Chain A, Structure Of Nup120
pdb|3F7F|B Chain B, Structure Of Nup120
pdb|3F7F|C Chain C, Structure Of Nup120
pdb|3F7F|D Chain D, Structure Of Nup120
Length = 729
Score = 28.5 bits (62), Expect = 3.2, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 130 HQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQDLAERVM 174
H LY++N T WFYN + + ++R L L+ V+
Sbjct: 481 HSLYKLNTTVENWFYNMHSETDGSELFKYLRTLNGFASTLSNDVL 525
>pdb|3H7N|A Chain A, Structure Of Nup120
pdb|3H7N|B Chain B, Structure Of Nup120
pdb|3H7N|C Chain C, Structure Of Nup120
pdb|3H7N|D Chain D, Structure Of Nup120
Length = 729
Score = 28.5 bits (62), Expect = 3.4, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 130 HQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQDLAERVM 174
H LY++N T WFYN + + ++R L L+ V+
Sbjct: 481 HSLYKLNTTVENWFYNMHSETDGSELFKYLRTLNGFASTLSNDVL 525
>pdb|3HXR|A Chain A, Nucleoporin Nup120 From S.Cerevisiae (Aa 1-757)
Length = 761
Score = 28.1 bits (61), Expect = 4.5, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 21/45 (46%)
Query: 130 HQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVKQDLAERVM 174
H LY++N T WFYN + + ++R L L+ V+
Sbjct: 485 HSLYKLNTTVENWFYNXHSETDGSELFKYLRTLNGFASTLSNDVL 529
>pdb|3CVQ|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (pts1) Binding
Domain Of Trypanosoma Brucei Peroxin 5 (tbpex5)complexed
To Pts1 Peptide (7- Skl)
Length = 327
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 101 VGGQYEDSFEDVKKQIQNYF-----TYKAVRTVLHQLYEMNPT 138
V Q + +D+ Q +++F Y+ RT+LH EMNP
Sbjct: 128 VNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN 170
>pdb|3CV0|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
To T. Brucei Phosphoglucoisomerase (Pgi) Pts1 Peptide
pdb|3CVL|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
To T. Brucei Phosphofructokinase (Pfk) Pts1 Peptide
pdb|3CVN|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
To T. Brucei Glyceraldehyde-3-Phosphate Dehydrogenase
(Gapdh) Pts1 Peptide
pdb|3CVP|A Chain A, Structure Of Peroxisomal Targeting Signal 1 (Pts1) Binding
Domain Of Trypanosoma Brucei Peroxin 5 (Tbpex5)complexed
To Pts1 Peptide (10-Skl)
Length = 327
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 101 VGGQYEDSFEDVKKQIQNYF-----TYKAVRTVLHQLYEMNPT 138
V Q + +D+ Q +++F Y+ RT+LH EMNP
Sbjct: 128 VNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN 170
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
0.318 0.135 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,790,408
Number of Sequences: 62578
Number of extensions: 196675
Number of successful extensions: 467
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 18
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)