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= 029950
(185 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J8K|A Chain A, Structure Of The Fusion Of Np275 And Np276, Pentapeptide
Repeat Proteins From Nostoc Punctiforme
Length = 201
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 5/65 (7%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKF-----NGAYLEKAVAYKANFTG 165
A +A+L +A+ N R A+ + A++ +D SG+ + A L +A +AN TG
Sbjct: 120 ANLKAANLEQAILSHANIREADLSEANLEAADLSGADLAIADLHQANLHQAALERANLTG 179
Query: 166 ADLSD 170
A+L D
Sbjct: 180 ANLED 184
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 33/75 (44%), Gaps = 15/75 (20%)
Query: 113 FGSADLRKAVHVKENFR----------RANFTSADMRESDFSGSKFNGAYLEKAVAYKAN 162
F DLR AV N AN A++ +D SG+ NGA L AN
Sbjct: 37 FSIVDLRGAVLENINLSGAILHGAMLDEANLQQANLSRADLSGATLNGADLR-----GAN 91
Query: 163 FTGADLSDTLMDRMV 177
+ ADLSD ++D +
Sbjct: 92 LSKADLSDAILDNAI 106
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 31/63 (49%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLSD 170
A ADL A + R AN + AD+ ++ + GA L++AV +AN A+L
Sbjct: 70 ANLSRADLSGATLNGADLRGANLSKADLSDAILDNAILEGAILDEAVLNQANLKAANLEQ 129
Query: 171 TLM 173
++
Sbjct: 130 AIL 132
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 125 KENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLS 169
+ +F + A + + SG+ +GA L++A +AN + ADLS
Sbjct: 34 ERDFSIVDLRGAVLENINLSGAILHGAMLDEANLQQANLSRADLS 78
>pdb|2F3L|A Chain A, Crystal Structure Of A Lumenal Rfr-Domain Protein
(Contig83.1_1_243_746) From Cyanothece Sp. 51142 At 2.1
Angstrom Resolution
Length = 184
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 15/72 (20%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGS-----KFNGAYLEKAVAYKANFTG 165
AQF +ADL +NF+ AD+R + F+GS +GA L +AY +F G
Sbjct: 72 AQFTNADLTD----------SNFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSFKG 121
Query: 166 ADLSDTLMDRMV 177
ADL++ ++ +
Sbjct: 122 ADLTNAVLTEAI 133
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 91 LADLNKYEAETRGEFGIGSA---AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSK 147
L D N EA+ RG GSA A ADL + +F+ A+ T+A + E+ +K
Sbjct: 79 LTDSNFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSFKGADLTNAVLTEAIXXRTK 138
Query: 148 FNGAYLEKAVAYKANFTGADLSDTLMD 174
F+ A TGAD S ++D
Sbjct: 139 FD----------DAKITGADFSLAVLD 155
>pdb|2J8I|A Chain A, Structure Of Np275, A Pentapeptide Repeat Protein From
Nostoc Punctiforme
pdb|2J8I|B Chain B, Structure Of Np275, A Pentapeptide Repeat Protein From
Nostoc Punctiforme
Length = 118
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 33/75 (44%), Gaps = 15/75 (20%)
Query: 113 FGSADLRKAVHVKENFR----------RANFTSADMRESDFSGSKFNGAYLEKAVAYKAN 162
F DLR AV N AN A++ +D SG+ NGA L AN
Sbjct: 37 FSIVDLRGAVLENINLSGAILHGAMLDEANLQQANLSRADLSGATLNGADLR-----GAN 91
Query: 163 FTGADLSDTLMDRMV 177
+ ADLSD ++D +
Sbjct: 92 LSKADLSDAILDNAI 106
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 125 KENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLS 169
+ +F + A + + SG+ +GA L++A +AN + ADLS
Sbjct: 34 ERDFSIVDLRGAVLENINLSGAILHGAMLDEANLQQANLSRADLS 78
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAV 157
A ADL A + R AN + AD+ ++ + GA L++AV
Sbjct: 70 ANLSRADLSGATLNGADLRGANLSKADLSDAILDNAILEGAILDEAV 116
>pdb|3DU1|X Chain X, The 2.0 Angstrom Resolution Crystal Structure Of Hetl, A
Pentapeptide Repeat Protein Involved In Heterocyst
Differentiation Regulation From The Cyanobacterium
Nostoc Sp. Strain Pcc 7120
Length = 257
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%)
Query: 116 ADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLSDTLMDR 175
ADL +A+ + A+ A +RE+D +G+K LE+A KA+ GA+L+ + R
Sbjct: 80 ADLSEAILWGIDLSEADLYRAILREADLTGAKLVKTRLEEANLIKASLCGANLNSANLSR 139
Score = 34.3 bits (77), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 109 SAAQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADL 168
+ A ADLR+ K NF AD+ E+ G + A L +A+ +A+ TGA L
Sbjct: 53 TGADLSYADLRQTRLGKSNFSHTCLREADLSEAILWGIDLSEADLYRAILREADLTGAKL 112
Query: 169 SDTLMD 174
T ++
Sbjct: 113 VKTRLE 118
Score = 33.9 bits (76), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 13/78 (16%)
Query: 109 SAAQFGSADLRKAVHVKENFR-----RANF--------TSADMRESDFSGSKFNGAYLEK 155
+ A ADLR A N RANF +AD+ + G+ + A LE
Sbjct: 163 TGADLSYADLRAASLHHANLDGAKLCRANFGRTIQWGNLAADLSGASLQGADLSYANLES 222
Query: 156 AVAYKANFTGADLSDTLM 173
A+ KAN GADL+ ++
Sbjct: 223 AILRKANLQGADLTGAIL 240
>pdb|2G0Y|A Chain A, Crystal Structure Of A Lumenal Pentapeptide Repeat Protein
From Cyanothece Sp 51142 At 2.3 Angstrom Resolution.
Tetragonal Crystal Form
Length = 184
Score = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 15/89 (16%)
Query: 108 GSAAQFGSADLRKAVHVKENFRRANFTSADMRESDFS---------------GSKFNGAY 152
GS+A + L ++ A FT+AD+ +S+FS G+ +GA
Sbjct: 49 GSSASYEDVKLIGEDFSGKSLTYAQFTNADLTDSNFSEADLRGAVFNGSALIGADLHGAD 108
Query: 153 LEKAVAYKANFTGADLSDTLMDRMVKLVT 181
L +AY +F GADL++ ++ + + T
Sbjct: 109 LTNGLAYLTSFKGADLTNAVLTEAIMMRT 137
Score = 30.8 bits (68), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 91 LADLNKYEAETRGEFGIGSA---AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSK 147
L D N EA+ RG GSA A ADL + +F+ A+ T+A + E+ +K
Sbjct: 79 LTDSNFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSFKGADLTNAVLTEAIMMRTK 138
Query: 148 FNGAYLEKAVAYKANFTGADLSDTLMD 174
F+ A TGAD S ++D
Sbjct: 139 FD----------DAKITGADFSLAVLD 155
>pdb|3N90|A Chain A, The 1.7 Angstrom Resolution Crystal Structure Of
At2g44920, A Pentapeptide Repeat Protein From
Arabidopsis Thaliana Thylakoid Lumen
Length = 152
Score = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 110 AAQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYK-ANFTGADL 168
A F ADL A + + R A+F+ A++ + + + + GA + ++K +N TGAD
Sbjct: 50 GASFFDADLTGADLSEADLRGADFSLANVTKVNLTNANLEGATMMGNTSFKGSNITGADF 109
Query: 169 SDT 171
+D
Sbjct: 110 TDV 112
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%)
Query: 116 ADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADL 168
A+ + A + +F A+ T AD+ E+D G+ F+ A + K AN GA +
Sbjct: 41 ANFKGAKLLGASFFDADLTGADLSEADLRGADFSLANVTKVNLTNANLEGATM 93
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 5/45 (11%)
Query: 126 ENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLSD 170
+ R +F ++ +R+++F G+K GA + A+ TGADLS+
Sbjct: 26 QTLIRQDFKTSILRQANFKGAKLLGASF-----FDADLTGADLSE 65
>pdb|3PSS|A Chain A, Crystal Structure Of Ahqnr, The Qnr Protein From Aeromonas
Hydrophila (P21 Crystal Form)
pdb|3PSS|B Chain B, Crystal Structure Of Ahqnr, The Qnr Protein From Aeromonas
Hydrophila (P21 Crystal Form)
Length = 216
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 127 NFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLS 169
NF ANF + + + SG+++ GA L + A+ G+DLS
Sbjct: 122 NFSYANFEGCLLEQCELSGNRWQGANL-----FGASLAGSDLS 159
>pdb|3PSZ|A Chain A, Crystal Structure Of Ahqnr, The Qnr Protein From Aeromonas
Hydrophila (P21212 Crystal Form)
pdb|3PSZ|B Chain B, Crystal Structure Of Ahqnr, The Qnr Protein From Aeromonas
Hydrophila (P21212 Crystal Form)
Length = 216
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 127 NFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFTGADLS 169
NF ANF + + + SG+++ GA L + A+ G+DLS
Sbjct: 122 NFSYANFEGCLLEQCELSGNRWQGANL-----FGASLAGSDLS 159
>pdb|3OF4|A Chain A, Crystal Structure Of A FmnFAD- And Nad(P)h-Dependent
Nitroreductase (Nfnb, Il2077) From Idiomarina Loihiensis
L2tr At 1.90 A Resolution
pdb|3OF4|B Chain B, Crystal Structure Of A FmnFAD- And Nad(P)h-Dependent
Nitroreductase (Nfnb, Il2077) From Idiomarina Loihiensis
L2tr At 1.90 A Resolution
pdb|3OF4|C Chain C, Crystal Structure Of A FmnFAD- And Nad(P)h-Dependent
Nitroreductase (Nfnb, Il2077) From Idiomarina Loihiensis
L2tr At 1.90 A Resolution
Length = 209
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 150 GAYLEKAVAYK---ANFTGADLSDTLMDRMVKLVTTTNS 185
G YLEK ++ A+F+GA ++D ++D+++ T S
Sbjct: 1 GXYLEKLQQWRYATADFSGAHITDDVLDKLLNTTRLTAS 39
>pdb|3SQV|A Chain A, Crystal Structure Of E. Coli O157:h7 E3 Ubiquitin Ligase,
Nlel, With A Human E2, Ubch7
pdb|3SQV|B Chain B, Crystal Structure Of E. Coli O157:h7 E3 Ubiquitin Ligase,
Nlel, With A Human E2, Ubch7
Length = 616
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 35/87 (40%), Gaps = 6/87 (6%)
Query: 92 ADLNKYEAETRGEFGIGSAAQFGSADLRKAVHVKENFRRANFTSA-----DMRESDFSGS 146
ADL A GE + DL V N NF+ A D+R SD S +
Sbjct: 17 ADLIWLSANRTGEES-AEELNYSGCDLSGLSLVGLNLSSVNFSGAVLDDTDLRMSDLSQA 75
Query: 147 KFNGAYLEKAVAYKANFTGADLSDTLM 173
+ ++ + NF A+LS+ ++
Sbjct: 76 VLENCSFKNSILNECNFCYANLSNCII 102
>pdb|3NAW|A Chain A, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
pdb|3NAW|B Chain B, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
pdb|3NB2|A Chain A, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
pdb|3NB2|B Chain B, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
pdb|3NB2|C Chain C, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
pdb|3NB2|D Chain D, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
Length = 613
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 35/87 (40%), Gaps = 6/87 (6%)
Query: 92 ADLNKYEAETRGEFGIGSAAQFGSADLRKAVHVKENFRRANFTSA-----DMRESDFSGS 146
ADL A GE + DL V N NF+ A D+R SD S +
Sbjct: 14 ADLIWLSANRTGEES-AEELNYSGCDLSGLSLVGLNLSSVNFSGAVLDDTDLRMSDLSQA 72
Query: 147 KFNGAYLEKAVAYKANFTGADLSDTLM 173
+ ++ + NF A+LS+ ++
Sbjct: 73 VLENCSFKNSILNECNFCYANLSNCII 99
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
0.315 0.127 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,449,611
Number of Sequences: 62578
Number of extensions: 144297
Number of successful extensions: 280
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 183
Number of HSP's gapped (non-prelim): 79
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)