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= psy17634
(119 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
pdb|2XR1|B Chain B, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
Length = 640
Score = 46.6 bits (109), Expect = 3e-06, Method: Composition-based stats.
Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 7/105 (6%)
Query: 5 IKMTSLSGTMDESPPCYLLQVDEFKILLDCGW-----DEMFSMDFVKELKRHVHHIDAVL 59
+++T+L G + C+LL E +IL+DCG + M +V E+ ++ IDAV+
Sbjct: 184 VRVTALGGCKEVGRSCFLLSTPESRILIDCGVNVGSDENMTPYLYVPEV-FPLNQIDAVI 242
Query: 60 LSYPDVAHLGALPYMVGKCGLSCPIFATIPVYKMGQMFMYDLFQV 104
+++ + H G +P + K G P++ T P + + D V
Sbjct: 243 VTHAHLDHQGLVPLLF-KYGYEGPVYCTPPTRDLMVLLQLDYIDV 286
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
pdb|2YCB|B Chain B, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
Length = 636
Score = 43.5 bits (101), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 48/100 (48%), Gaps = 6/100 (6%)
Query: 6 KMTSLSGTMDESPPCYLLQVDEFKILLDC-----GWDEMFSMDFVKELKRHVHHIDAVLL 60
++T++ G + C LQ ++LLDC G D+ S ++ + + +DAV++
Sbjct: 181 RLTAMGGFREVGRSCLYLQTPNSRVLLDCGVNVAGGDDKNSYPYLNVPEFTLDSLDAVII 240
Query: 61 SYPDVAHLGALPYMVGKCGLSCPIFATIPVYKMGQMFMYD 100
++ + H G LPY+ G P++ T P + + D
Sbjct: 241 THAHLDHSGFLPYLY-HYGYDGPVYCTAPTRDLMTLLQLD 279
>pdb|3IEK|A Chain A, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|B Chain B, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|C Chain C, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|D Chain D, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEL|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEM|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
Length = 431
Score = 36.6 bits (83), Expect = 0.004, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG MF +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG---MFQGK--EEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLMEIVLEDALKVMDEPF 105
>pdb|3IDZ|A Chain A, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|B Chain B, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|C Chain C, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|D Chain D, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 36.6 bits (83), Expect = 0.004, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG MF +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG---MFQGK--EEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLMEIVLEDALKVMDEPF 105
>pdb|3IE1|A Chain A, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|B Chain B, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|C Chain C, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|D Chain D, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
Length = 431
Score = 36.6 bits (83), Expect = 0.004, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG MF +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG---MFQGK--EEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLMEIVLEDALKVMDEPF 105
>pdb|3IE0|A Chain A, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|B Chain B, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|C Chain C, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|D Chain D, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 36.6 bits (83), Expect = 0.004, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG MF +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG---MFQGK--EEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLMEIVLEDALKVMDEPF 105
>pdb|3IE2|A Chain A, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|B Chain B, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|C Chain C, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|D Chain D, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 36.6 bits (83), Expect = 0.004, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG MF +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG---MFQGK--EEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLMEIVLEDALKVMDEPF 105
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii
pdb|3AF6|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii Complexed With Rna-Analog
Length = 651
Score = 36.2 bits (82), Expect = 0.005, Method: Composition-based stats.
Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 10/111 (9%)
Query: 5 IKMTSLSGTMDESPPCYLLQVDEFKILLDCGWDEMFSMDFVK--------ELKRHVHH-- 54
I++T L G + L+Q DE +L+D G + D K E + +
Sbjct: 189 IRITGLGGFREVGRSALLVQTDESFVLVDFGVNVAMLNDPYKAFPHFDAPEFQYVLREGL 248
Query: 55 IDAVLLSYPDVAHLGALPYMVGKCGLSCPIFATIPVYKMGQMFMYDLFQVR 105
+DA+++++ + H G LPY+ PI+ T P + + D +++
Sbjct: 249 LDAIIITHAHLDHCGMLPYLFRYNLFDGPIYTTPPTRDLMVLLQKDFIEIQ 299
>pdb|3A4Y|A Chain A, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|B Chain B, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|C Chain C, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|D Chain D, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 36.2 bits (82), Expect = 0.005, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG MF +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG---MFQGK--EEARNHAPFGFDPKEVDAVLLTHAALDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLMEIVLEDALKVMDEPF 105
>pdb|2DKF|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
Length = 431
Score = 35.4 bits (80), Expect = 0.008, Method: Composition-based stats.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 12/95 (12%)
Query: 21 YLLQVDEFKILLDCGWDEMFSMDFVKELKRHV------HHIDAVLLSYPDVAHLGALPYM 74
+LL ++LLDCG +E + H +DAVLL++ + H+G LP +
Sbjct: 17 HLLLAGGRRVLLDCG-----XFQGKEEARNHAPFGFDPKEVDAVLLTHAHLDHVGRLPKL 71
Query: 75 VGKCGLSCPIFATIPVYKMGQMFMYDLFQVRYDTF 109
+ G P++AT + ++ + D +V + F
Sbjct: 72 F-REGYRGPVYATRATVLLXEIVLEDALKVXDEPF 105
>pdb|2I7T|A Chain A, Structure Of Human Cpsf-73
pdb|2I7V|A Chain A, Structure Of Human Cpsf-73
Length = 459
Score = 33.1 bits (74), Expect = 0.042, Method: Composition-based stats.
Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 12/92 (13%)
Query: 20 CYLLQVDEFKILLDCG-------WDEMFSMDFVKELKRHVHHIDAVLLSYPDVAHLGALP 72
C +L+ KI+LDCG D + +D + + ID +L+S+ + H GALP
Sbjct: 27 CIILEFKGRKIMLDCGIHPGLEGMDALPYIDLIDPAE-----IDLLLISHFHLDHCGALP 81
Query: 73 YMVGKCGLSCPIFATIPVYKMGQMFMYDLFQV 104
+ + K F T + + + D +V
Sbjct: 82 WFLQKTSFKGRTFMTHATKAIYRWLLSDYVKV 113
>pdb|2I7X|A Chain A, Structure Of Yeast Cpsf-100 (Ydh1p)
Length = 717
Score = 33.1 bits (74), Expect = 0.046, Method: Composition-based stats.
Identities = 23/87 (26%), Positives = 46/87 (52%), Gaps = 6/87 (6%)
Query: 22 LLQVDEFKILLDCGWD--EMFSMDFVKELKRHVHHIDAVLLSYPDVAHLGA---LPYMVG 76
+++ D +L+D GW+ ++ +K ++ + ID ++LS P + LGA L Y
Sbjct: 19 VVRFDNVTLLIDPGWNPSKVSYEQCIKYWEKVIPEIDVIILSQPTIECLGAHSLLYYNFT 78
Query: 77 KCGLS-CPIFATIPVYKMGQMFMYDLF 102
+S ++AT+PV +G++ D +
Sbjct: 79 SHFISRIQVYATLPVINLGRVSTIDSY 105
>pdb|1ZKP|A Chain A, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
pdb|1ZKP|B Chain B, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
pdb|1ZKP|C Chain C, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
pdb|1ZKP|D Chain D, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
Length = 268
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 13/93 (13%)
Query: 16 ESPPCYLLQVDEFKILLDCGWDEMFSMDFVKELKRHV--HHIDAVLLS---YPDVAHLGA 70
E+ YL + D F++L+DCG + +L++++ IDAV+LS + VA +G
Sbjct: 41 EATSGYLFEHDGFRLLVDCG------SGVLAQLQKYITPSDIDAVVLSHYHHDHVADIGV 94
Query: 71 LPYMVGKCGLSCPIFATIPVYKMGQMFMYDLFQ 103
L Y + +P+Y G F + F
Sbjct: 95 LQYARLITSATKGQLPELPIY--GHTFDENGFH 125
>pdb|4E8C|A Chain A, Crystal Structure Of Streptococcal Beta-Galactosidase In
Complex With Galactose
pdb|4E8C|B Chain B, Crystal Structure Of Streptococcal Beta-Galactosidase In
Complex With Galactose
pdb|4E8D|A Chain A, Crystal Structure Of Streptococcal Beta-Galactosidase
pdb|4E8D|B Chain B, Crystal Structure Of Streptococcal Beta-Galactosidase
Length = 595
Score = 28.9 bits (63), Expect = 0.80, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 64 DVAHLGALPYMVGKCGLSCPIFAT----IPVYKMGQMFMYDLF 102
D A+L A+ ++ +CG++CP+F + K G + DLF
Sbjct: 163 DKAYLRAIRQLMEECGVTCPLFTSDGPWRATLKAGTLIEEDLF 205
>pdb|1M2X|A Chain A, Crystal Structure Of The Metallo-beta-lactamase Blab Of
Chryseobacterium Meningosepticum In Complex With The
Inhibitor D- Captopril
pdb|1M2X|B Chain B, Crystal Structure Of The Metallo-beta-lactamase Blab Of
Chryseobacterium Meningosepticum In Complex With The
Inhibitor D- Captopril
pdb|1M2X|C Chain C, Crystal Structure Of The Metallo-beta-lactamase Blab Of
Chryseobacterium Meningosepticum In Complex With The
Inhibitor D- Captopril
pdb|1M2X|D Chain D, Crystal Structure Of The Metallo-beta-lactamase Blab Of
Chryseobacterium Meningosepticum In Complex With The
Inhibitor D- Captopril
Length = 223
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 3/76 (3%)
Query: 8 TSLSGTMDESPPCYLLQVDEFKILLDCGWDEMFSMDFVKEL-KRHVHHIDAVLLSYPDVA 66
+ +GT + YL+ D+ +++DC W E F E+ K+H + + ++
Sbjct: 18 NTFNGTKYAANAVYLV-TDKGVVVIDCPWGEDKFKSFTDEIYKKHGKKVIMNIATHSHDD 76
Query: 67 HLGALPYMVGKCGLSC 82
G L Y GK G
Sbjct: 77 RAGGLEYF-GKIGAKT 91
>pdb|1A6Z|A Chain A, Hfe (Human) Hemochromatosis Protein
pdb|1A6Z|C Chain C, Hfe (Human) Hemochromatosis Protein
pdb|1DE4|A Chain A, Hemochromatosis Protein Hfe Complexed With Transferrin
Receptor
pdb|1DE4|D Chain D, Hemochromatosis Protein Hfe Complexed With Transferrin
Receptor
pdb|1DE4|G Chain G, Hemochromatosis Protein Hfe Complexed With Transferrin
Receptor
Length = 275
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 35 GWDEMFSMDFVKELKRHVHHIDAVLLS 61
GWD MF++DF ++ H H ++ L
Sbjct: 71 GWDHMFTVDFWTIMENHNHSKESHTLQ 97
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
0.329 0.142 0.455
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,227,641
Number of Sequences: 62578
Number of extensions: 112214
Number of successful extensions: 305
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 296
Number of HSP's gapped (non-prelim): 17
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)