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= psy8679
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SQW|A Chain A, Crystal Structure Of Kd93, A Novel Protein Expressed In
The Human Pro
Length = 188
Score = 241 bits (615), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 108/155 (69%), Positives = 133/155 (85%)
Query: 61 IGSNVKLLIDRPDGTYCFREMRDRVFYVSEKILTLAENFGPDHLLALGTCFGKFTKSGKF 120
IG N++LL+DRPDGTYCFR DRV+YVSEKI+ LA N D L++LGTCFGKFTK+ KF
Sbjct: 20 IGENLQLLVDRPDGTYCFRLHNDRVYYVSEKIMKLAANISGDKLVSLGTCFGKFTKTHKF 79
Query: 121 RLHITALSYLAPYAQFKVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDV 180
RLH+TAL YLAPYA++KVW+KP AEQ FLYG+++LKSGL RITENT +YQGV+V +M D+
Sbjct: 80 RLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYSMADI 139
Query: 181 PLGFGVAAKSTAECKLADPLAIVGFNQSDIGEYIR 215
PLGFGVAAKST +C+ DP+AIV F+Q+DIGEY+R
Sbjct: 140 PLGFGVAAKSTQDCRKVDPMAIVVFHQADIGEYVR 174
>pdb|1T5Y|A Chain A, Crystal Structure Of Northeast Structural Genomics
Consortium Target Hr2118: A Human Homolog Of
Saccharomyces Cerevisiae Nip7p
Length = 190
Score = 239 bits (609), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 109/160 (68%), Positives = 133/160 (83%)
Query: 61 IGSNVKLLIDRPDGTYCFREMRDRVFYVSEKILTLAENFGPDHLLALGTCFGKFTKSGKF 120
IG N++LL+DRPDGTYCFR DRV+YVSEKI LA N D L++LGTCFGKFTK+ KF
Sbjct: 30 IGENLQLLVDRPDGTYCFRLHNDRVYYVSEKIXKLAANISGDKLVSLGTCFGKFTKTHKF 89
Query: 121 RLHITALSYLAPYAQFKVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDV 180
RLH+TAL YLAPYA++KVW+KP AEQ FLYG+++LKSGL RITENT +YQGV+V + D+
Sbjct: 90 RLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYSXADI 149
Query: 181 PLGFGVAAKSTAECKLADPLAIVGFNQSDIGEYIRCEDEL 220
PLGFGVAAKST +C+ DP AIV F+Q+DIGEY+R E+ L
Sbjct: 150 PLGFGVAAKSTQDCRKVDPXAIVVFHQADIGEYVRHEETL 189
>pdb|3MDQ|A Chain A, Crystal Structure Of An Exopolyphosphatase (Chu_0316)
From Cytophaga Hutchinsonii Atcc 33406 At 1.50 A
Resolution
Length = 315
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 23/49 (46%)
Query: 23 YCFREMRDRVFYVSEKILTLAENFGPDHLLALGTCFGNIGSNVKLLIDR 71
+ E DR +K + + H++A GT GSN ++LIDR
Sbjct: 49 FITEEAXDRALDTLKKFRVILDEHAVVHVIATGTSAVRSGSNKQVLIDR 97
>pdb|1MQ0|A Chain A, Crystal Structure Of Human Cytidine Deaminase
pdb|1MQ0|B Chain B, Crystal Structure Of Human Cytidine Deaminase
Length = 140
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 10/49 (20%)
Query: 3 QVIHNIGSNVKLLIDRPDGTYCFREMRDRVFYVSEKILTLAENFGPDHL 51
QV+ G+N + + +PDGTY +++ L +FGP+ L
Sbjct: 98 QVMREFGTNWPVYMTKPDGTYIVMTVQE----------LLPSSFGPEDL 136
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 13/70 (18%)
Query: 38 KILTLAENFGPDHLLALGTC---FGNIGSNVKLLIDRPDGTYCFREMRDRVFYVSEKILT 94
+ + +A + D + G C G+N + + +PDGTY +++
Sbjct: 77 RAIAIASDMQDDFISPCGACRQVMREFGTNWPVYMTKPDGTYIVMTVQE----------L 126
Query: 95 LAENFGPDHL 104
L +FGP+ L
Sbjct: 127 LPSSFGPEDL 136
>pdb|3K42|A Chain A, Crystal Structure Of Scd-Mpr Mutant E19qK137M PH 7.0
pdb|3K42|B Chain B, Crystal Structure Of Scd-Mpr Mutant E19qK137M PH 7.0
pdb|3K43|A Chain A, Crystal Structure Of Scd-Mpr Mutant E19qK137M PH 6.5
pdb|3K43|B Chain B, Crystal Structure Of Scd-Mpr Mutant E19qK137M PH 6.5
Length = 154
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 9 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 48
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 88 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 130
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 62 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 101
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 88 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 130
>pdb|3K41|A Chain A, Crystal Structure Of Scd-Mpr Mutant E19qK137M BOUND TO
MAN-6-P
pdb|3K41|B Chain B, Crystal Structure Of Scd-Mpr Mutant E19qK137M BOUND TO
MAN-6-P
Length = 160
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 9 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 48
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 88 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 130
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 62 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 101
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 88 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 130
>pdb|1M6P|A Chain A, Extracytoplasmic Domain Of Bovine Cation-Dependent Mannose
6-Phosphate Receptor
pdb|1M6P|B Chain B, Extracytoplasmic Domain Of Bovine Cation-Dependent Mannose
6-Phosphate Receptor
pdb|1C39|A Chain A, Structure Of Cation-dependent Mannose 6-phosphate Receptor
Bound To Pentamannosyl Phosphate
pdb|1C39|B Chain B, Structure Of Cation-dependent Mannose 6-phosphate Receptor
Bound To Pentamannosyl Phosphate
Length = 152
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 9 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 48
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 86 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 128
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 62 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 101
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 86 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 128
>pdb|1KEO|A Chain A, Twists And Turns Of The Cd-Mpr: Ligand-Bound Versus
Ligand-Free Receptor
pdb|1KEO|B Chain B, Twists And Turns Of The Cd-Mpr: Ligand-Bound Versus
Ligand-Free Receptor
pdb|2RL7|A Chain A, Crystal Structure Cation-dependent Mannose 6-phosphate
Receptor At Ph 4.8
pdb|2RL7|B Chain B, Crystal Structure Cation-dependent Mannose 6-phosphate
Receptor At Ph 4.8
pdb|2RL7|C Chain C, Crystal Structure Cation-dependent Mannose 6-phosphate
Receptor At Ph 4.8
pdb|2RL7|D Chain D, Crystal Structure Cation-dependent Mannose 6-phosphate
Receptor At Ph 4.8
pdb|2RL8|A Chain A, Crystal Structure Cation-Dependent Mannose 6-Phosphate
Receptor At Ph 6.5 Bound To M6p
pdb|2RL8|B Chain B, Crystal Structure Cation-Dependent Mannose 6-Phosphate
Receptor At Ph 6.5 Bound To M6p
pdb|2RL9|A Chain A, Crystal Structure Cation-Dependent Mannose 6-Phosphate
Receptor At Ph 6.5 Bound To Trimannoside
pdb|2RL9|B Chain B, Crystal Structure Cation-Dependent Mannose 6-Phosphate
Receptor At Ph 6.5 Bound To Trimannoside
pdb|2RLB|A Chain A, Crystal Structure Cation-dependent Mannose 6-phosphate
Receptor At Ph 6.5 Bound To M6p In Absence Of Mn
pdb|2RLB|B Chain B, Crystal Structure Cation-dependent Mannose 6-phosphate
Receptor At Ph 6.5 Bound To M6p In Absence Of Mn
pdb|3CY4|A Chain A, Crystal Structure Cation-Dependent Mannose 6-Phosphate
Receptor At Ph 7.4
pdb|3CY4|B Chain B, Crystal Structure Cation-Dependent Mannose 6-Phosphate
Receptor At Ph 7.4
Length = 154
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 9 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 48
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 88 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 130
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 62 GSNVKLLIDRPDGTY---CFREMRDRVFYVSEKILTLAENFGP 101
GSN +LI + Y C RE R V +S TLA+NF P
Sbjct: 88 GSNWIMLIYKGGDEYDNHCGREQRRAVVMISCNRHTLADNFNP 130
>pdb|2EY4|A Chain A, Crystal Structure Of A Cbf5-Nop10-Gar1 Complex
pdb|2EY4|B Chain B, Crystal Structure Of A Cbf5-Nop10-Gar1 Complex
Length = 333
Score = 26.9 bits (58), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 137 KVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDVPLGFGVAAKSTAEC 194
KVW+K A +G ++ G+A++ + V ++ + D + G A ++ E
Sbjct: 252 KVWIKDSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEM 309
>pdb|3LWO|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRU
pdb|3LWP|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRDU
pdb|3LWQ|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
3MU
pdb|3LWR|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
4SU
pdb|3LWV|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
2'- Deoxyuridine
Length = 340
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 137 KVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDVPLGFGVAAKSTAEC 194
KVW+K A +G ++ G+A++ + V ++ + D + G A ++ E
Sbjct: 252 KVWIKDSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEM 309
>pdb|2HVY|A Chain A, Crystal Structure Of An HACA BOX RNP FROM PYROCOCCUS
FURIOSUS
pdb|3HAX|A Chain A, Crystal Structure Of A Substrate-Bound Gar1-Minus HACA RNP
FROM Pyrococcus Furiosus
pdb|3HAY|A Chain A, Crystal Structure Of A Substrate-Bound Full HACA RNP FROM
Pyrococcus Furiosus
Length = 346
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 137 KVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDVPLGFGVAAKSTAEC 194
KVW+K A +G ++ G+A++ + V ++ + D + G A ++ E
Sbjct: 252 KVWIKDSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEM 309
>pdb|3HJW|A Chain A, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
pdb|3HJY|A Chain A, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
Length = 327
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 137 KVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDVPLGFGVAAKSTAEC 194
KVW+K A +G ++ G+A++ + V ++ + D + G A ++ E
Sbjct: 245 KVWIKDSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEM 302
>pdb|3MQK|A Chain A, Cbf5-Nop10-Gar1 Complex Binding With 17mer Rna Containing
Aca Trinucleotide
Length = 328
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 137 KVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDVPLGFGVAAKSTAEC 194
KVW+K A +G ++ G+A++ + V ++ + D + G A ++ E
Sbjct: 245 KVWIKDSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEM 302
>pdb|2RFK|A Chain A, Substrate Rna Positioning In The Archaeal HACA
Ribonucleoprotein Complex
Length = 334
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 137 KVWVKPQAEQQFLYGHNILKSGLARITENTPKYQGVIVLNMNDVPLGFGVAAKSTAEC 194
KVW+K A +G ++ G+A++ + V ++ + D + G A ++ E
Sbjct: 248 KVWIKDSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEM 305
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
0.324 0.142 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,873,374
Number of Sequences: 62578
Number of extensions: 287912
Number of successful extensions: 428
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 412
Number of HSP's gapped (non-prelim): 21
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)