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= 023646
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KR0|A Chain A, A Proteasome Protein
Length = 411
Score = 129 bits (324), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 58/114 (50%), Positives = 75/114 (65%), Gaps = 1/114 (0%)
Query: 11 AMQEILLEFRAGKMTFDGKKVVPDSRKGLVRIARGEHGLIHFQWLDRTRNVVEDDQIVFP 70
A + L+EFRAGKM+ G V PD RKGLV I + + LIHF W DRT VEDD I+FP
Sbjct: 22 ASNKYLVEFRAGKMSLKGTTVTPDKRKGLVYIQQTDDSLIHFCWKDRTSGNVEDDLIIFP 81
Query: 71 HEAVFEKVNQA-SGRVYILKFNTDDRKFFLWMQEPKAEEDSQLCNSVNYFINRP 123
+ F++V Q SGRVY+LKF ++ F WMQEPK ++D + C VN ++N P
Sbjct: 82 DDCEFKRVPQCPSGRVYVLKFKAGSKRLFFWMQEPKTDQDEEHCRKVNEYLNNP 135
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 41/101 (40%), Gaps = 12/101 (11%)
Query: 163 GEAISDVTSSSGPVKLEDLQRIFSNI----GPADITEXXXXXXXXXXXXXXXXXMPLIET 218
G S S + P++L DLQ I + + GPA + P++
Sbjct: 253 GNGASTAASPTQPIQLSDLQSILATMNVPAGPAGGQQVDLASVLTPEIMA-----PILAN 307
Query: 219 LPLEQRLAPYLPEGQWTPXXX---XXXXQSPPFRQQVDSFT 256
+++RL PYLP G+ P SP F+Q + F+
Sbjct: 308 ADVQERLLPYLPSGESLPQTADEIQNTLTSPQFQQALGMFS 348
>pdb|2R2Y|A Chain A, Crystal Structure Of The Proteasomal Rpn13 Pru-Domain
Length = 153
Score = 125 bits (314), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 57/111 (51%), Positives = 73/111 (65%), Gaps = 1/111 (0%)
Query: 14 EILLEFRAGKMTFDGKKVVPDSRKGLVRIARGEHGLIHFQWLDRTRNVVEDDQIVFPHEA 73
+ L+EFRAGKM+ G V PD RKGLV I + + LIHF W DRT VEDD I+FP +
Sbjct: 24 KYLVEFRAGKMSLKGTTVTPDKRKGLVYIQQTDDSLIHFCWKDRTSGTVEDDLIIFPDDC 83
Query: 74 VFEKVNQA-SGRVYILKFNTDDRKFFLWMQEPKAEEDSQLCNSVNYFINRP 123
F++V Q SGRVY+LKF ++ F WMQEPK ++D + C VN +N P
Sbjct: 84 EFKRVPQCPSGRVYVLKFKAGSKRLFFWMQEPKTDQDEEHCRKVNECLNNP 134
>pdb|2Z59|A Chain A, Complex Structures Of Mouse Rpn13 (22-130aa) And Ubiquitin
Length = 109
Score = 121 bits (303), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 56/107 (52%), Positives = 71/107 (66%), Gaps = 1/107 (0%)
Query: 16 LLEFRAGKMTFDGKKVVPDSRKGLVRIARGEHGLIHFQWLDRTRNVVEDDQIVFPHEAVF 75
L+EFRAGKM+ G V PD RKGLV I + + LIHF W DRT VEDD I+FP + F
Sbjct: 2 LVEFRAGKMSLKGTTVTPDKRKGLVYIQQTDDSLIHFCWKDRTSGTVEDDLIIFPDDCEF 61
Query: 76 EKVNQA-SGRVYILKFNTDDRKFFLWMQEPKAEEDSQLCNSVNYFIN 121
++V Q SGRVY+LKF ++ F WMQEPK ++D + C VN +N
Sbjct: 62 KRVPQCPSGRVYVLKFKAGSKRLFFWMQEPKTDQDEEHCRKVNECLN 108
>pdb|4B4T|X Chain X, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 156
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 51/103 (49%), Gaps = 11/103 (10%)
Query: 11 AMQEILLEFRAGKMTF--DGKKVVPDSRKGLVRIARGEH---GLIHFQWLDRTRNVVED- 64
+M +++FRAG + D + P +G + I E G F+W + V +
Sbjct: 2 SMSSTVIKFRAGVCEYNEDSRLCTPIPVQGEIEIKPNEEEELGFWDFEWRPTEKPVGREL 61
Query: 65 ---DQIVFPHEAVFEKVNQA-SGRVYILKFNTDDRKFFLWMQE 103
I+ P E ++ + + SGR++ L F++++R +F W+QE
Sbjct: 62 DPISLILIPGETMWVPIKSSKSGRIFALVFSSNER-YFFWLQE 103
>pdb|2KQZ|A Chain A, Fragment Of Proteasome Protein
Length = 155
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 27/114 (23%), Positives = 43/114 (37%), Gaps = 15/114 (13%)
Query: 167 SDVTSSSGPVKLEDLQRIFSNI----GPADITEXXXXXXXXXXXXXXXXXMPLIETLPLE 222
S S + P++L DLQ I + + GPA + P++ ++
Sbjct: 1 STAASPTQPIQLSDLQSILATMNVPAGPAGGQQVDLASVLTPEIMA-----PILANADVQ 55
Query: 223 QRLAPYLPEGQWTPXXX---XXXXQSPPFRQQVDSFTYV---RNWTPIFVTFHF 270
+RL PYLP G+ P SP F+Q + F+ P+ F
Sbjct: 56 ERLLPYLPSGESLPQTADEIQNTLTSPQFQQALGMFSAALASGQLGPLMCQFGL 109
>pdb|2L5V|A Chain A, Solution Structure Of The C-Terminal Domain Of Hrpn13
Length = 150
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 41/108 (37%), Gaps = 15/108 (13%)
Query: 173 SGPVKLEDLQRIFSNI----GPADITEXXXXXXXXXXXXXXXXXMPLIETLPLEQRLAPY 228
S P++L DLQ I + + GPA + P++ +++RL PY
Sbjct: 2 SQPIQLSDLQSILATMNVPAGPAGGQQVDLASVLTPEIMA-----PILANADVQERLLPY 56
Query: 229 LPEGQWTPXXX---XXXXQSPPFRQQVDSFTYV---RNWTPIFVTFHF 270
LP G+ P SP F+Q + F+ P+ F
Sbjct: 57 LPSGESLPQTADEIQNTLTSPQFQQALGMFSAALASGQLGPLMCQFGL 104
>pdb|4HVT|A Chain A, Structure Of A Post-Proline Cleaving Enzyme From
Rickettsia Typhi
Length = 711
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 76 EKVNQASGRV--YILKFNTDDRKFFLWMQEPKAEEDSQLCNSVNYFINRPLVFVNEEEL 132
++V+ GR+ Y+L N + + +FL ++ S L S NYFIN F N +L
Sbjct: 650 QRVHPWHGRIFEYVLAQNPNTKTYFLESKDSGHGSGSDLKESANYFINLYTFFANALKL 708
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 0.136 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,428,993
Number of Sequences: 62578
Number of extensions: 281223
Number of successful extensions: 564
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 555
Number of HSP's gapped (non-prelim): 8
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)