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= 027267
(225 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 = 200 bits (509), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 91/125 (72%), Positives = 108/125 (86%), Gaps = 1/125 (0%)
Query: 98 VNEVGGQYEDSFEDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKH 157
+ +V G Y+D+F DV+KQI NYFTYKAVRTVLHQLYEMNP QY WFYN + TN+P DGK
Sbjct: 1 MEDVAGNYDDTFGDVQKQIVNYFTYKAVRTVLHQLYEMNPPQYTWFYNHIITNRPTDGKR 60
Query: 158 FIRILGKK-QDLAERVMITRLHLYGKWVKKCDHAQMYKAISDENLELMRERLIETVIWPS 216
F+R LGK+ Q+LAERVMITRLHLYGKW+KK DH ++Y+ ISDENL LMRERL+ETVIWPS
Sbjct: 61 FLRALGKESQELAERVMITRLHLYGKWIKKADHGKIYQEISDENLALMRERLMETVIWPS 120
Query: 217 DDSNT 221
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 = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 56/100 (56%), Gaps = 3/100 (3%)
Query: 110 EDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFI-RILGKKQDL 168
+D K +Q+Y TY+A+RTVL QL E NP +W +NF A K DG+ +I + +K DL
Sbjct: 28 KDTAKTLQSYLTYQALRTVLAQLGETNPPLALWLHNFSA-GKVQDGEKYIEELFLEKPDL 86
Query: 169 AERVMITRLHLYGKWVKKCDHAQMYKAISDENLELMRERL 208
A R+M R H+ + + + + I N+E R+ L
Sbjct: 87 ALRIMTVREHI-AEEIAEFLPEMVVTGIQQANMEKRRQHL 125
>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 = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 37/104 (35%), Positives = 54/104 (51%), Gaps = 7/104 (6%)
Query: 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKKQ----DLA 169
K + ++FTY AVR V QL NP YM F+ TN DG F+ L ++ +LA
Sbjct: 17 KHLHDFFTYVAVRIVSAQLESYNPEAYMELREFLDTNSVSDGDKFLATLMRRSSRHMNLA 76
Query: 170 ERVMITRLHLYGKWVKKCDHAQ--MYKAISDENLELMRERLIET 211
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 = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKKQ-DLAERV 172
K + +Y TY+AVRTV+ QL E +P + +W + F + DG+ ++ L ++Q DL R+
Sbjct: 12 KTLISYLTYQAVRTVIGQLAETDPPRSLWLHQFTSQESIQDGERYLEALFREQPDLGFRI 71
Query: 173 MITRLHL 179
+ 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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 37/130 (28%), Positives = 59/130 (45%), Gaps = 35/130 (26%)
Query: 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHF------------IRI 161
K +Q+Y TY+AV + +L E NP Q +W ++A++ +G+ F +RI
Sbjct: 12 KVLQSYLTYQAVLRIQSELGETNPPQAIWLNQYLASHSIQNGETFLTELLDENKELVLRI 71
Query: 162 LGKKQDLAERVM-----ITRLHLYGKWVKKCDHAQMYKAISDENLELMRERLIETVI--- 213
L ++D+AE V+ +TR L + H + ERL TV
Sbjct: 72 LAVREDIAESVLDFLPGMTRNSLAESNIAHRRH--------------LLERLTRTVAEVD 117
Query: 214 -WPSDDSNTE 222
+PS+ SN E
Sbjct: 118 NFPSETSNGE 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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 16/81 (19%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHF------ 158
F+ V K+ +Q+Y TY+AVR + QL E NP Q +W F + + +
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAMML 62
Query: 159 ------IRILGKKQDLAERVM 173
+RIL +++LAE V+
Sbjct: 63 ENKELVLRILTVRENLAEGVL 83
>pdb|2Z44|A Chain A, Crystal Structure Of Selenomethionine-Labeled Orf134
Length = 134
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 16/81 (19%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHF------ 158
F+ V K+ +Q+Y TY+AVR + QL E NP Q +W F + + +
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAXXL 62
Query: 159 ------IRILGKKQDLAERVM 173
+RIL +++LAE V+
Sbjct: 63 ENKELVLRILTVRENLAEGVL 83
>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 = 25/81 (30%), Positives = 40/81 (49%), Gaps = 16/81 (19%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHF------ 158
F+ V K+ +Q+Y TY+AVR + QL E NP Q +W F + + +
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAXXL 62
Query: 159 ------IRILGKKQDLAERVM 173
+RIL +++LAE V+
Sbjct: 63 ENKELVLRILTVRENLAEGVL 83
>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 = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 16/81 (19%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHF------ 158
F+ V K+ +Q+Y TY+AVR + L E NP Q +W F + + +
Sbjct: 3 FKKVAKETAITLQSYLTYQAVRLISQALSETNPGQAIWLGEFSKRHPIQESDLYLEAMML 62
Query: 159 ------IRILGKKQDLAERVM 173
+RIL +++LAE V+
Sbjct: 63 ENKELVLRILTVRENLAEGVL 83
>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 = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 16/81 (19%)
Query: 109 FEDVKKQ----IQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHF------ 158
F+ V K+ +Q+ T +AVR + QL E NP Q +W F + + +
Sbjct: 3 FKKVAKETAITLQSALTLQAVRLISQQLSETNPGQAIWLGEFSKRHPIQESDLYLEAMML 62
Query: 159 ------IRILGKKQDLAERVM 173
+RIL +++LAE V+
Sbjct: 63 ENKELVLRILTVRENLAEGVL 83
>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 = 6.3, 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|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 = 6.4, 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: 5,764,223
Number of Sequences: 62578
Number of extensions: 194002
Number of successful extensions: 387
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 372
Number of HSP's gapped (non-prelim): 15
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)