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= 026244
(241 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZXS|A Chain A, Cryptochrome B From Rhodobacter Sphaeroides
pdb|3ZXS|B Chain B, Cryptochrome B From Rhodobacter Sphaeroides
pdb|3ZXS|C Chain C, Cryptochrome B From Rhodobacter Sphaeroides
Length = 522
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 143 IKFDSDGRF---DDEYFQQTEESSQFRQEYEMRKMKQDQGLDM 182
++F D RF DE+ + TE Q R E+ R+M++ GL M
Sbjct: 134 VRFLPDDRFLCPADEFARWTEGRKQLRMEWFYREMRRRTGLLM 176
>pdb|4B6G|A Chain A, The Crystal Structure Of The Neisserial Esterase D.
pdb|4B6G|B Chain B, The Crystal Structure Of The Neisserial Esterase D
Length = 283
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 53/109 (48%), Gaps = 16/109 (14%)
Query: 80 LLEEVPKL--QRLAIKKVKGLSTEELVARNDLVLAL--PDRIQAIPDGTAAAPKQSGG-- 133
+L E+P+L + + + + LVLAL +R Q++ +A +P S
Sbjct: 129 ILNELPRLIEKHFPTNGKRSIMGHSMGGHGALVLALRNQERYQSV---SAFSPILSPSLV 185
Query: 134 -WGASASRTEIKFDSDGRFDDEYFQQTEESSQFRQEYEMRKMKQDQGLD 181
WG A + G+ D E +QQ + +S +Q Y+++ M+ DQGL+
Sbjct: 186 PWGEKAFTAYL-----GK-DREKWQQYDANSLIQQGYKVQGMRIDQGLE 228
>pdb|1B7B|A Chain A, Carbamate Kinase From Enterococcus Faecalis
pdb|1B7B|B Chain B, Carbamate Kinase From Enterococcus Faecalis
pdb|1B7B|C Chain C, Carbamate Kinase From Enterococcus Faecalis
pdb|1B7B|D Chain D, Carbamate Kinase From Enterococcus Faecalis
pdb|2WE4|A Chain A, Carbamate Kinase From Enterococcus Faecalis Bound To A
Sulfate Ion And Two Water Molecules, Which Mimic The
Substrate Carbamyl Phosphate
pdb|2WE4|B Chain B, Carbamate Kinase From Enterococcus Faecalis Bound To A
Sulfate Ion And Two Water Molecules, Which Mimic The
Substrate Carbamyl Phosphate
pdb|2WE4|C Chain C, Carbamate Kinase From Enterococcus Faecalis Bound To A
Sulfate Ion And Two Water Molecules, Which Mimic The
Substrate Carbamyl Phosphate
pdb|2WE4|D Chain D, Carbamate Kinase From Enterococcus Faecalis Bound To A
Sulfate Ion And Two Water Molecules, Which Mimic The
Substrate Carbamyl Phosphate
pdb|2WE5|A Chain A, Carbamate Kinase From Enterococcus Faecalis Bound To Mgadp
pdb|2WE5|B Chain B, Carbamate Kinase From Enterococcus Faecalis Bound To Mgadp
pdb|2WE5|C Chain C, Carbamate Kinase From Enterococcus Faecalis Bound To Mgadp
Length = 310
Score = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 34/64 (53%), Gaps = 12/64 (18%)
Query: 6 ILTRVDSICKKYDKYDVEKQRETNVSGDD--------AFARLYGAVEADIEAALQKAESA 57
ILT VD +C Y K D EKQ TNV+ + FA G++ IEAA+Q ES
Sbjct: 227 ILTGVDYVCINYGKPD-EKQL-TNVTVAELEEYKQAGHFAP--GSMLPKIEAAIQFVESQ 282
Query: 58 SNEK 61
N++
Sbjct: 283 PNKQ 286
>pdb|2H21|A Chain A, Structure Of Rubisco Lsmt Bound To Adomet
pdb|2H21|B Chain B, Structure Of Rubisco Lsmt Bound To Adomet
pdb|2H21|C Chain C, Structure Of Rubisco Lsmt Bound To Adomet
pdb|2H23|A Chain A, Structure Of Rubisco Lsmt Bound To Trimethyllysine And
Adohcy
pdb|2H23|B Chain B, Structure Of Rubisco Lsmt Bound To Trimethyllysine And
Adohcy
pdb|2H23|C Chain C, Structure Of Rubisco Lsmt Bound To Trimethyllysine And
Adohcy
pdb|2H2E|A Chain A, Structure Of Rubisco Lsmt Bound To Azaadomet And Lysine
pdb|2H2E|B Chain B, Structure Of Rubisco Lsmt Bound To Azaadomet And Lysine
pdb|2H2E|C Chain C, Structure Of Rubisco Lsmt Bound To Azaadomet And Lysine
pdb|2H2J|A Chain A, Structure Of Rubisco Lsmt Bound To Sinefungin And
Monomethyllysine
pdb|2H2J|B Chain B, Structure Of Rubisco Lsmt Bound To Sinefungin And
Monomethyllysine
pdb|2H2J|C Chain C, Structure Of Rubisco Lsmt Bound To Sinefungin And
Monomethyllysine
Length = 440
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 97 GLSTEELVARNDLVLALPDRIQAIPDGTAAA 127
GL + ++RND++L +P R+ PD AA+
Sbjct: 35 GLVALKDISRNDVILQVPKRLWINPDAVAAS 65
>pdb|1MLV|A Chain A, Structure And Catalytic Mechanism Of A Set Domain Protein
Methyltransferase
pdb|1MLV|B Chain B, Structure And Catalytic Mechanism Of A Set Domain Protein
Methyltransferase
pdb|1MLV|C Chain C, Structure And Catalytic Mechanism Of A Set Domain Protein
Methyltransferase
pdb|1OZV|A Chain A, Crystal Structure Of The Set Domain Of Lsmt Bound To
Lysine And Adohcy
pdb|1OZV|B Chain B, Crystal Structure Of The Set Domain Of Lsmt Bound To
Lysine And Adohcy
pdb|1OZV|C Chain C, Crystal Structure Of The Set Domain Of Lsmt Bound To
Lysine And Adohcy
pdb|1P0Y|A Chain A, Crystal Structure Of The Set Domain Of Lsmt Bound To
Melysine And Adohcy
pdb|1P0Y|B Chain B, Crystal Structure Of The Set Domain Of Lsmt Bound To
Melysine And Adohcy
pdb|1P0Y|C Chain C, Crystal Structure Of The Set Domain Of Lsmt Bound To
Melysine And Adohcy
Length = 444
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 97 GLSTEELVARNDLVLALPDRIQAIPDGTAAA 127
GL + ++RND++L +P R+ PD AA+
Sbjct: 39 GLVALKDISRNDVILQVPKRLWINPDAVAAS 69
>pdb|2VFW|A Chain A, Rv1086 Native
pdb|2VFW|B Chain B, Rv1086 Native
pdb|2VG0|A Chain A, Rv1086 Citronelly Pyrophosphate Complex
pdb|2VG0|B Chain B, Rv1086 Citronelly Pyrophosphate Complex
Length = 227
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 2 SVIDILT-RVDSICKKYDKYDVEKQRETNVSGDDAFARLYGAVEADIEAALQKAESASNE 60
++I+I+T V+ IC + + V + + G++ RL GAVE+ E A A
Sbjct: 70 ALIEIITDVVEEICAPANHWSVRTVGDLGLIGEEPARRLRGAVESTPEVASFHVNVAVGY 129
Query: 61 KNRASVV 67
R +V
Sbjct: 130 GGRREIV 136
>pdb|2VG1|A Chain A, Rv1086 E,E-Farnesyl Diphosphate Complex
pdb|2VG1|B Chain B, Rv1086 E,E-Farnesyl Diphosphate Complex
Length = 228
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 2 SVIDILT-RVDSICKKYDKYDVEKQRETNVSGDDAFARLYGAVEADIEAALQKAESASNE 60
++I+I+T V+ IC + + V + + G++ RL GAVE+ E A A
Sbjct: 71 ALIEIITDVVEEICAPANHWSVRTVGDLGLIGEEPARRLRGAVESTPEVASFHVNVAVGY 130
Query: 61 KNRASVV 67
R +V
Sbjct: 131 GGRREIV 137
>pdb|2LCH|A Chain A, Solution Nmr Structure Of A Protein With A Redesigned
Hydrophobic Core, Northeast Structural Genomics
Consortium Target Or38
pdb|3U3B|A Chain A, Crystal Structure Of Computationally Redesigned Four-Helix
Bundle
pdb|3U3B|B Chain B, Crystal Structure Of Computationally Redesigned Four-Helix
Bundle
Length = 113
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 152 DDEYFQQTEESSQFRQEYEMRKMKQDQGLDMISEGLDTLKNMAHDM-NEEVDRQVPLMDE 210
D EY+ + +R + M+++ + G +++ L T+ N+ M N E+ L+D+
Sbjct: 35 DMEYWNKI-----YRLVHTMKEITETMGFSSVAKVLHTIMNLVDKMLNSEIKITSDLIDK 89
Query: 211 IDTKVDRATADL 222
+ K+D T +L
Sbjct: 90 VKKKLDMVTREL 101
>pdb|1SFC|D Chain D, Neuronal Synaptic Fusion Complex
pdb|1SFC|H Chain H, Neuronal Synaptic Fusion Complex
pdb|1SFC|L Chain L, Neuronal Synaptic Fusion Complex
Length = 87
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 172 RKMKQDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
R+ + D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 23 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 67
>pdb|2NPS|D Chain D, Crystal Structure Of The Early Endosomal Snare Complex
Length = 82
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 31/54 (57%)
Query: 176 QDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVDRATADLKNTNVRL 229
QD+ L+++S + LKNM+ + E++ Q ++++ +++ + L N +L
Sbjct: 17 QDEQLELVSGSIGVLKNMSQRIGGELEEQAVMLEDFSHELESTQSRLDNVMKKL 70
>pdb|1KIL|D Chain D, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 66
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 172 RKMKQDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
R+ + D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 4 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 48
>pdb|3ZUR|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc0-A-Snap25-Hn-A
pdb|3ZUR|B Chain B, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc0-A-Snap25-Hn-A
Length = 960
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 177 DQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 453 DENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 492
>pdb|1N7S|D Chain D, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 66
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 172 RKMKQDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
R+ + D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 4 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 48
>pdb|3RK2|D Chain D, Truncated Snare Complex
pdb|3RK2|H Chain H, Truncated Snare Complex
pdb|3RK3|D Chain D, Truncated Snare Complex With Complexin
pdb|3RL0|D Chain D, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|H Chain H, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|L Chain L, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|P Chain P, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|T Chain T, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|X Chain X, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|BB Chain b, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|FF Chain f, Truncated Snare Complex With Complexin (P1)
Length = 65
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 172 RKMKQDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
R+ + D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 4 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 48
>pdb|1URQ|D Chain D, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 69
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 172 RKMKQDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
R+ + D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 7 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 51
>pdb|3HD7|D Chain D, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|H Chain H, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|D Chain D, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|H Chain H, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 68
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 162 SSQFRQEYEMRKMKQDQGLDMISEGLDTLKNMAHDMNEEVDRQVPLMDEIDTKVD 216
S +E EM D+ L+ +S + L++MA DM E+D Q +D I K D
Sbjct: 1 GSHMARENEM-----DENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKAD 50
>pdb|1OR7|A Chain A, Crystal Structure Of Escherichia Coli Sigmae With The
Cytoplasmic Domain Of Its Anti-Sigma Rsea
pdb|1OR7|B Chain B, Crystal Structure Of Escherichia Coli Sigmae With The
Cytoplasmic Domain Of Its Anti-Sigma Rsea
Length = 194
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 47 IEAALQKAESASNEKNRASVVALNAEIRRTKARLLEEVPKLQRLAI--KKVKGLSTEELV 104
IEA ++ A E + + L+ E+R+ R +E +P+ R+AI +++ GLS EE+
Sbjct: 104 IEAENFESGGALKEISNPENLMLSEELRQIVFRTIESLPEDLRMAITLRELDGLSYEEIA 163
Query: 105 ARND 108
A D
Sbjct: 164 AIMD 167
>pdb|3HJ9|A Chain A, Crystal Structure Of A Putative Nitroreductase
(Reut_a1228) From Ralstonia Eutropha Jmp134 At 2.00 A
Resolution
pdb|3HJ9|B Chain B, Crystal Structure Of A Putative Nitroreductase
(Reut_a1228) From Ralstonia Eutropha Jmp134 At 2.00 A
Resolution
Length = 223
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 87 LQRLAIKKVKGLSTEELVARNDLVLALPDRIQAIPDGTAAAPKQSGGW 134
L+RL + VKGL V ++ V+ LP+ PD T+ P W
Sbjct: 5 LKRLPYEPVKGLLPRPAVGTSERVITLPE-----PDRTSGXPLXGTLW 47
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
0.313 0.128 0.343
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,190,608
Number of Sequences: 62578
Number of extensions: 231483
Number of successful extensions: 630
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 615
Number of HSP's gapped (non-prelim): 30
length of query: 241
length of database: 14,973,337
effective HSP length: 96
effective length of query: 145
effective length of database: 8,965,849
effective search space: 1300048105
effective search space used: 1300048105
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)