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= 026378
(239 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OII|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nep1EMG1
BOUND TO S- Adenosylhomocysteine
pdb|3OII|B Chain B, Crystal Structure Of Saccharomyces Cerevisiae Nep1EMG1
BOUND TO S- Adenosylhomocysteine
pdb|3OIJ|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nep1EMG1
BOUND TO S- Adenosylhomocysteine And 2 Molecules Of
Cognate Rna
pdb|3OIJ|B Chain B, Crystal Structure Of Saccharomyces Cerevisiae Nep1EMG1
BOUND TO S- Adenosylhomocysteine And 2 Molecules Of
Cognate Rna
pdb|3OIN|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nep1EMG1
BOUND TO S- Adenosylhomocysteine And 1 Molecule Of
Cognate Rna
pdb|3OIN|B Chain B, Crystal Structure Of Saccharomyces Cerevisiae Nep1EMG1
BOUND TO S- Adenosylhomocysteine And 1 Molecule Of
Cognate Rna
Length = 253
Score = 151 bits (381), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 79/158 (50%), Positives = 108/158 (68%), Gaps = 14/158 (8%)
Query: 75 IPIAP-----SDQNTKRPGVIFVLEKASLEVAKV------GKSYQILNSDDHSNFLRRNN 123
+P AP D+ TKR +I VL ASLE K+ G Y +LN DDH L++
Sbjct: 25 VPQAPPVLTSKDKITKR--MIVVLAMASLETHKISSNGPGGDKYVLLNCDDHQGLLKKMG 82
Query: 124 KNPADYRPDIVHQALLSILDSRLTKAGRLQAVYVRTDKGVLFEVKPHVRLPRTYKRFAGI 183
++ ++ RPDI HQ LL++LDS + KAG+LQ VY++T +G+L EV P VR+PRT+KRF+G+
Sbjct: 83 RDISEARPDITHQCLLTLLDSPINKAGKLQ-VYIQTSRGILIEVNPTVRIPRTFKRFSGL 141
Query: 184 MLQLLQKLSITAVGKREKLLRVIKNPVTQYLPVNSRKI 221
M+QLL KLSI +V EKLL+VIKNP+T +LP RK+
Sbjct: 142 MVQLLHKLSIRSVNSEEKLLKVIKNPITDHLPTKCRKV 179
>pdb|2V3K|A Chain A, The Yeast Ribosome Synthesis Factor Emg1 Alpha Beta Knot
Fold Methyltransferase
pdb|2V3J|A Chain A, The Yeast Ribosome Synthesis Factor Emg1 Alpha Beta Knot
Fold Methyltransferase
Length = 258
Score = 148 bits (373), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 78/158 (49%), Positives = 106/158 (67%), Gaps = 14/158 (8%)
Query: 75 IPIAP-----SDQNTKRPGVIFVLEKASLEVAKV------GKSYQILNSDDHSNFLRRNN 123
+P AP D+ TKR I VL ASLE K+ G Y +LN DDH L++
Sbjct: 24 VPQAPPVLTSKDKITKR--XIVVLAXASLETHKISSNGPGGDKYVLLNCDDHQGLLKKXG 81
Query: 124 KNPADYRPDIVHQALLSILDSRLTKAGRLQAVYVRTDKGVLFEVKPHVRLPRTYKRFAGI 183
++ ++ RPDI HQ LL++LDS + KAG+LQ VY++T +G+L EV P VR+PRT+KRF+G+
Sbjct: 82 RDISEARPDITHQCLLTLLDSPINKAGKLQ-VYIQTSRGILIEVNPTVRIPRTFKRFSGL 140
Query: 184 MLQLLQKLSITAVGKREKLLRVIKNPVTQYLPVNSRKI 221
+QLL KLSI +V EKLL+VIKNP+T +LP RK+
Sbjct: 141 XVQLLHKLSIRSVNSEEKLLKVIKNPITDHLPTKCRKV 178
>pdb|3BBE|A Chain A, M. Jannaschii Nep1
pdb|3BBE|B Chain B, M. Jannaschii Nep1
pdb|3BBH|A Chain A, M. Jannaschii Nep1 Complexed With Sinefungin
pdb|3BBH|B Chain B, M. Jannaschii Nep1 Complexed With Sinefungin
Length = 205
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 77/144 (53%), Gaps = 19/144 (13%)
Query: 92 VLEKASLEVA------KVGKS----YQILNSDDHSNFLRRNNKNPADYRPDIVHQALLSI 141
+L K++LE+ K+ KS Y IL+S+ H + + RPDI+H +LL+I
Sbjct: 6 ILAKSALELIPEEIKNKIRKSRVYKYDILDSNYHYKAMEKLKDKEMRGRPDIIHISLLNI 65
Query: 142 LDSRLTKAGRLQAVYVRTDKGVLFEVKPHVRLPRTYKRFAGIMLQLLQKLSITAVGKREK 201
LDS + +L +Y+ T + ++ P RLPR Y RF G+M ++L+ G+R
Sbjct: 66 LDSPINHEKKLN-IYIHTYDDKVLKINPETRLPRNYFRFLGVMEKVLK-------GERNH 117
Query: 202 LLRVIKNPVTQYL-PVNSRKIGCL 224
L+++ + + L +N++KI +
Sbjct: 118 LIKMEEKTLEDLLNEINAKKIAIM 141
>pdb|3BBD|A Chain A, M. Jannaschii Nep1 Complexed With S-Adenosyl-Homocysteine
pdb|3BBD|B Chain B, M. Jannaschii Nep1 Complexed With S-Adenosyl-Homocysteine
Length = 205
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 43/142 (30%), Positives = 73/142 (51%), Gaps = 19/142 (13%)
Query: 92 VLEKASLEVA------KVGKS----YQILNSDDHSNFLRRNNKNPADYRPDIVHQALLSI 141
+L K++LE+ K+ KS Y IL+S+ H + RPDI+H +LL+I
Sbjct: 6 ILAKSALELIPEEIKNKIRKSRVYKYDILDSNYHYKAXEKLKDKEXRGRPDIIHISLLNI 65
Query: 142 LDSRLTKAGRLQAVYVRTDKGVLFEVKPHVRLPRTYKRFAGIMLQLLQKLSITAVGKREK 201
LDS + +L +Y+ T + ++ P RLPR Y RF G+ ++L+ G+R
Sbjct: 66 LDSPINHEKKLN-IYIHTYDDKVLKINPETRLPRNYFRFLGVXEKVLK-------GERNH 117
Query: 202 LLRVIKNPVTQYL-PVNSRKIG 222
L++ + + L +N++KI
Sbjct: 118 LIKXEEKTLEDLLNEINAKKIA 139
>pdb|3O7B|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus Nep1 Bound To
S- Adenosylhomocysteine
Length = 244
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 39/66 (59%), Gaps = 4/66 (6%)
Query: 130 RPDIVHQALLSILDSRLTKAGRLQAVYVRTDKGVLFEVKPHVRLPRTYKRFAGIMLQLLQ 189
RPDIVHQ LL +LDS L R VYV T G + V RLPR Y RF G+M +L +
Sbjct: 86 RPDIVHQCLLLLLDSPL----RDFEVYVHTLNGEIIWVNRETRLPRNYNRFVGLMEKLFE 141
Query: 190 KLSITA 195
+ ITA
Sbjct: 142 ERRITA 147
>pdb|1WFG|A Chain A, Pdz Domain Of Human Rim2b
Length = 131
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 139 LSILDSRLTKAGRLQAVYVRTDKGVLFEVKPHVRLPRTYKRFAGIMLQ 186
L ++ ++T++GRL A + KG L + H+R + G +LQ
Sbjct: 52 LKVVGGKMTESGRLCAFITKVKKGSLADTVGHLRPGDEVLEWNGRLLQ 99
>pdb|2X3A|A Chain A, Asap1 Inactive Mutant E294q, An Extracellular Toxic Zinc
Metalloendopeptidase
pdb|2X3C|A Chain A, Asap1 Inactive Mutant E294q, An Extracellular Toxic Zinc
Metalloendopeptidase
Length = 343
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 107 YQILNSDDHSNFLRRNNKNPADYRPDIVHQALLSILDSRLTKAGRLQAVYVRTDKGVLFE 166
+Q+ SDD FL + P Y ++ +A + D +L KAG Q++ V+ + L++
Sbjct: 57 WQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAG--QSLTVQAEVSGLYD 114
Query: 167 V 167
+
Sbjct: 115 M 115
>pdb|2X3B|A Chain A, Asap1 Inactive Mutant E294a, An Extracellular Toxic Zinc
Metalloendopeptidase
pdb|2X3B|B Chain B, Asap1 Inactive Mutant E294a, An Extracellular Toxic Zinc
Metalloendopeptidase
Length = 343
Score = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 107 YQILNSDDHSNFLRRNNKNPADYRPDIVHQALLSILDSRLTKAGRLQAVYVRTDKGVLFE 166
+Q+ SDD FL + P Y ++ +A + D +L KAG Q++ V+ + L++
Sbjct: 57 WQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAG--QSLTVQAEVSGLYD 114
Query: 167 V 167
+
Sbjct: 115 M 115
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
0.319 0.135 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,299,428
Number of Sequences: 62578
Number of extensions: 185120
Number of successful extensions: 375
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 364
Number of HSP's gapped (non-prelim): 8
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)